Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 3 of 12
Found at i:335090 original size:20 final size:20
Alignment explanation
Indices: 335065--335117 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
335055 GTCACAAGCT
*
335065 ATGTATCGATACATT-TCAGC
1 ATGTATCGATACATTGTC-CC
335085 ATGTATCGATACATTGTCCC
1 ATGTATCGATACATTGTCCC
*
335105 GTGTATCGATACA
1 ATGTATCGATACA
335118 AATAGTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGTCCC
Found at i:342558 original size:19 final size:20
Alignment explanation
Indices: 342534--342585 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
342524 TAGCCAAACT
342534 TGTATCGATACAC-AAAATA
1 TGTATCGATACACAAAAATA
342553 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC-AAAAATA
342574 TGTATCGATACA
1 TGTATCGATACA
342586 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACAAAAATA
Found at i:344818 original size:21 final size:21
Alignment explanation
Indices: 344785--344834 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
344775 TTGCAAGTTG
*
344785 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
344807 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
344828 AAATAAA
1 AAATAAA
344835 AATTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:348764 original size:13 final size:13
Alignment explanation
Indices: 348746--348784 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
348736 CATTTTTCTT
348746 TGTATCGATACAA
1 TGTATCGATACAA
*
348759 TGTATCGATACAC
1 TGTATCGATACAA
348772 TGTATCGATACAA
1 TGTATCGATACAA
348785 GGGGATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:348938 original size:20 final size:20
Alignment explanation
Indices: 348900--348939 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
348890 TTTTGTAAAA
348900 TACTTGTTTTTCACTTCAAAT
1 TACTTGTTTTTCAC-TCAAAT
348921 TACTTCGTTTTTCA-TCAAA
1 TACTT-GTTTTTCACTCAAA
348940 ACCAGCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (20 bp):
TACTTGTTTTTCACTCAAAT
Found at i:351333 original size:13 final size:13
Alignment explanation
Indices: 351315--351340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
351305 TACACAAAAT
351315 ATGTATCGATACA
1 ATGTATCGATACA
351328 ATGTATCGATACA
1 ATGTATCGATACA
351341 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:351338 original size:32 final size:33
Alignment explanation
Indices: 351297--351361 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
351287 TAGCCAAACT
*
351297 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCAATACAA
351329 TGTATCGATACACAAAAAATATGTATCAATACA
1 TGTATCGATACAC-AAAAATATGTATCAATACA
351362 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCAATACAA
Found at i:356491 original size:23 final size:23
Alignment explanation
Indices: 356438--356493 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
356428 ATGCCAAAAA
* *
356438 AAATAAAAAAACAAAAAAGAACC
1 AAATAAAAAAACAAAAAACAAAC
** *
356461 AAGGAAAAAAACCAAAAACAAAC
1 AAATAAAAAAACAAAAAACAAAC
356484 AAATAAAAAA
1 AAATAAAAAA
356494 GGGGTCCAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.79, C:0.12, G:0.05, T:0.04
Consensus pattern (23 bp):
AAATAAAAAAACAAAAAACAAAC
Found at i:357774 original size:28 final size:28
Alignment explanation
Indices: 357742--358455 Score: 697
Period size: 28 Copynumber: 25.1 Consensus size: 28
357732 CATTCAACTC
* * *
357742 TTCAAAGCCCACAGGCCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
357770 TTCAAAGCTCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
357798 TTCAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
357826 TTCAAAGCCCACAAGTTAGTAGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
357854 TTTAAAGCTCACAAATTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
357882 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
357909 CTTCAAAAGACCACAAGTCAGTGGCAT-CT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
357938 CTTCAAAAGACCACAAGTCAGTGGCAT-CT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
357967 CTTCAAAAGACCACAAGTCAGTGGCAT-CT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
*
357996 CTTCAAAAGACCACAAGTCAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
358026 TTCAAAGCCCACAAGTTAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
358054 TTCAAAGCCTACAAGTTAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
358082 TTCAAAGCCCACAAGTTAGTGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
358110 TTCAAAGCCTATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
358138 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
358166 TTCAAAGCCCACAAGTCAGTGGCA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
358193 CTTCAAAAGACCATAAATCAATGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
358223 TCCAAAGCCCATAAGTCAATGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
358251 TTCAAAGCCTACAAGTCAGTAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
358279 TTCAATGCCCACAAGTTAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
358307 TTCAAAGCCCACAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
358335 TTCAAAGCCCAAAAGTCAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* * *
358365 TTCAAAACCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
358393 TTCAAAGCTCACATAAGTCGGTGGCAACTCT
1 TTCAAAGC-C-CACAAGTCAGTGGCATC-CT
*
358424 TTCCAAAGCCCACACAAGTTAGTGGCA-CCT
1 TT-CAAAG-CC-CACAAGTCAGTGGCATCCT
358454 TT
1 TT
358456 TTTTTTAAAA
Statistics
Matches: 598, Mismatches: 71, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
27 9 0.02
28 380 0.64
29 135 0.23
30 49 0.08
31 5 0.01
32 19 0.03
33 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:359398 original size:20 final size:20
Alignment explanation
Indices: 359373--359423 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
359363 ACCAAGATGT
* *
359373 ATCGATACATTTTTTAATGG
1 ATCGATACATTTATGAATGG
* *
359393 ATCGATACATGTATGAATGT
1 ATCGATACATTTATGAATGG
359413 ATCGATACATT
1 ATCGATACATT
359424 CTTCAAAGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (20 bp):
ATCGATACATTTATGAATGG
Found at i:365519 original size:27 final size:27
Alignment explanation
Indices: 365479--367315 Score: 1083
Period size: 27 Copynumber: 67.4 Consensus size: 27
365469 TGGCATTCCT
*
365479 TTTTAAGTCCACAAGTCTGTGGAAACC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
365506 TTTCAAGTCTACAACTCCGT-GACAACC
1 TTTTAAGTCCACAACTCTGTGGA-AACC
* * *
365533 TTTTAAGTCCACAACTCTTTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
365560 TTTTAAGTCCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* *** *
365587 TTTTAAGTCTC-CAACTCCGTGGCGTCT
1 TTTTAAGTC-CACAACTCTGTGGAAACC
* * * * * *
365614 TTTTAAAGTCTATAACTCCGCGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * *
365642 TTTCAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* *
365669 TTTTAAAGTCCAC-ACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
** * *
365696 TTTTAAGTCCACAACTCCATGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
365723 TTTTAAGTCCACAACTCCGTGGTATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
365750 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* *
365778 TTTTAAGTCCACAACTCTATGG-CACC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
365804 TTTTTAAAGTCCACAACTCCGTGGCACCC
1 -TTTT-AAGTCCACAACTCTGTGGAAACC
* * ** * *
365833 TTTTAAAGTACACAATTGGGTGGTATCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * *
365861 ATTTAAGTCCATAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * * *
365888 TTTAAAGTCCACCACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* *
365915 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * *
365943 TTTTAGGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * * *
365970 TTTAAAATCTACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* ** * * *
365997 TTTTAAGTCCATAACTCCATGGCATCT
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
366024 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * *
366052 TTTTAAGTACACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * ** *
366079 TTTTAAAGTCCATAACTCCGTGTCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * *
366107 ATTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
366134 TCTTAAGTCCACAACTTTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
366161 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * *
366189 CTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
366216 CTTTAAGTCCACAAATCTGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
366243 TTTTAAGTCCGCAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
366270 TTTGAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* *
366297 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * * * *
366324 TTTAAAATCCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* ** * *
366351 TTTTAAAGTCCATAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * * *
366379 TTTTAAATCCATATCTCCGTGG-CACC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* *
366405 TTTTTAAGTCCACAACTCTGTGGCATCC
1 -TTTTAAGTCCACAACTCTGTGGAAACC
* *
366433 TTTTAAG-CCAACAACTCTGTGGCACCC
1 TTTTAAGTCC-ACAACTCTGTGGAAACC
* ** * *
366460 TTTAAAGTCCACAACTCCATGG-CACGT
1 TTTTAAGTCCACAACTCTGTGGAAAC-C
* * *
366487 TTTTAAGTCCACAACTCTGTTGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
366514 TTTTAGGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
366541 TTTTAAAGTCCACAACTCCGGGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* *
366569 TTTTAAGTCCACAACTCCGTGG-CACTC
1 TTTTAAGTCCACAACTCTGTGGAAAC-C
* ** * *
366596 TTTTAAAGTCCACCACTCCCTGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * *
366624 TTTCAAAGTCCACAACTCTGTGGCATCC
1 TTT-TAAGTCCACAACTCTGTGGAAACC
* * *
366652 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
366679 TTTTAAAGTCCGCAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* *
366707 CTTTAAGTCCACAACT-TCGTGGCACACC
1 TTTTAAGTCCACAACTCT-GTGG-AAACC
* * *
366735 -TTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
366761 TTTTAAGTCCGCAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
** * *
366788 TTCGAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* *
366815 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * * * *
366842 TTTAAAATCCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* ** * *
366869 TTTTAAAGTCCATAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * * *
366897 TTTTAAATCCATATCTCCGTGG-CACC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* *
366923 TTTTTAAGTCCACAACTCTGTGGCATCC
1 -TTTTAAGTCCACAACTCTGTGGAAACC
* *
366951 TTTTAAG-CCAACAACTCTGTGGCACCC
1 TTTTAAGTCC-ACAACTCTGTGGAAACC
* ** *
366978 TTTAAAGTCCACAACTCCATGG-CACC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
367004 TTTTTAAGTCCACAACTCTGTTGCACCC
1 -TTTTAAGTCCACAACTCTGTGGAAACC
* * *
367032 TTTTAGGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
367059 TTTTAAAGTCCACAACTCCGGGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* *
367087 TTTTAAGTCCACAACTCCGTGG-CACTC
1 TTTTAAGTCCACAACTCTGTGGAAAC-C
* * ** * *
367114 TTTTAAAGTCCACCATTCCCTGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * *
367142 TTTCAAAGTCTACAACTCTGTGGCATCC
1 TTT-TAAGTCCACAACTCTGTGGAAACC
* * *
367170 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * *
367197 TTTAAAGTCCACAACTCCGTGGTAACC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * * *
367224 TTTTAAAGTCCACCATTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCTGTGGAAACC
* * * * *
367252 TTTTAACTTCACAGCTCTGTGGTATCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
* * * *
367279 TTTTAAGCCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGAAACC
367306 TTTTAAGTCC
1 TTTTAAGTCC
367316 TCCATGGCAT
Statistics
Matches: 1487, Mismatches: 278, Indels: 90
0.80 0.15 0.05
Matches are distributed among these distances:
26 27 0.02
27 1034 0.70
28 422 0.28
29 4 0.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGAAACC
Found at i:365535 original size:55 final size:55
Alignment explanation
Indices: 365476--367534 Score: 1883
Period size: 54 Copynumber: 37.8 Consensus size: 55
365466 TAGTGGCATT
* * * * * * *
365476 CCTTTTTAAGTCCACAAGTCTGTGGAAACCTTTCAAGTCTACAACTCCGTGACAA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
** * *
365531 CC-TTTTAAGTCCACAACTCTTTGGCATCCTTTTAAGTCCACAACTCCGTAGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* ** * * * *
365584 CCCTTTTAAGTCTC-CAACTCCGTGGCGTCTTTTTAAAGTCTATAACTCCGCGGC-A
1 CCTTTTTAAGTC-CACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
* * * *
365639 CCCTTTCAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC-ACTCTGTGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
* * *
365694 CC-TTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGTAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* **
365748 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * ** * *
365802 CCTTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTACACAATTGGGTGGTAT
1 CCTTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
* * * * * *
365859 CC-ATTTAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACCACTCCGTGGCAC
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * * *
365913 CCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAGGTCCACAACTCTGTGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * * *
365968 CC-TTTAAAATCTACAACTCTGTGGCACCCTTTTAAGTCCATAACTCCATGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * *
366021 TCTTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTACACAACTCTGTGGCAC
1 CCTTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * *
366077 CCTTTTAAAGTCCATAACTCCGTGTCACCCATTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* **
366132 CC-TCTTAAGTCCACAACTTTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
** * * * *
366186 CCCCTTTAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAAATCTGTGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * *
366241 CC-TTTTAAGTCCGCAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * *
366295 CC-TTTTAAGTCCACAACTCTGTGGCACCCTTTAAAATCCACAACTCCGTAGCAC
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * * * *
366349 CCTTTTAAAGTCCATAACTCCATGGCATCCTTTTAAATCCATATCTCCGTGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * *
366403 CCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAG-CCAACAACTCTGTGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC-ACAACTCCGTGGCAA
* * * ** * *
366457 CCCTTTAAAGTCCACAACTCCATGGCACGTTTTTAAGTCCACAACTCTGTTGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * *
366511 CCCTTTTAGGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
* * * * *
366566 CCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACCACTCCCTGGCAC
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
** * * *
366622 CCTTTCAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * *
366677 CCTTTTAAAGTCCGCAACTCCGTGGCACCCCTTTAAGTCCACAACTTCGTGGCACA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-A
* * *
366733 CC--TTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCGCAACTCTGTGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* ** * * *
366785 CCCTTCGAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * * * *
366839 CCCTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCATAACTCCATGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
* * * * * *
366895 CC-TTTTAAATCCATATCTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * *
366949 CC-TTTTAAG-CCAACAACTCTGTGGCACCCTTTAAAGTCCACAACTCCATGGC-A
1 CCTTTTTAAGTCC-ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * *
367002 CCTTTTTAAGTCCACAACTCTGTTGCACCCTTTTAGGTCCACAACTCTGTGGCAC
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* *
367057 CCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCCACAACTCCGTGGC-A
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * * * * *
367111 CTCTTTTAAAGTCCACCATTCCCTGGCACCCTTTCAAAGTCTACAACTCTGTGGCAT
1 C-CTTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCAA
* *
367168 CC-TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGTAA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * * * * * *
367222 CCTTTTAAAGTCCACCATTCCGTGGCACCCTTTTAACTTCACAGCTCTGTGGTAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * *
367277 CC-TTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGT---C--CTCCATGGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
** ** ** * * * *
367326 CCGTTTCCAA-TCCACAACTCCGTCACATTCTTTTAAAGTTCACAATTCCATGG-TA
1 CC-TTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAA
* * * * * * * * *
367381 CCCTTTTAAGTCAACAAATTCATGGCACTCTTTTAAGTCCACAACTCTGTCGCAT
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
* * * * * * *
367436 CC-TTTTAAGTCCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGTAC
1 CCTTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCAA
*** * *
367491 CCTTCCAAAGTCCACAACTTCGTGGCATCCTTTTTAAG-CCACAA
1 CCTTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAA
367535 GGTAGTGGCA
Statistics
Matches: 1658, Mismatches: 299, Indels: 94
0.81 0.15 0.05
Matches are distributed among these distances:
49 10 0.01
50 19 0.01
51 9 0.01
52 3 0.00
53 18 0.01
54 745 0.45
55 741 0.45
56 110 0.07
57 3 0.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (55 bp):
CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAA
Found at i:365538 original size:54 final size:54
Alignment explanation
Indices: 365479--367534 Score: 2156
Period size: 55 Copynumber: 37.8 Consensus size: 54
365469 TGGCATTCCT
* * * * * * * *
365479 TTTTAAGTCCACAAGTCTGTGGAAACCTTTCAAGTCTACAACTCCGTGACAACC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** * *
365533 TTTTAAGTCCACAACTCTTTGGCATCCTTTTAAGTCCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** * * * *
365587 TTTTAAGTCTC-CAACTCCGTGGCGTCTTTTTAAAGTCTATAACTCCGCGGCACCC
1 TTTTAAGTC-CACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * *
365642 TTTCAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC-ACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * *
365696 TTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGTATCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** *
365750 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCT
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * ** * *
365805 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTACACAATTGGGTGGTATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * *
365861 ATTTAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACCACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * *
365915 TTTTAAAGTCCACAACTCTGTGGCATCCTTTTAGGTCCACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * * * *
365970 TTTAAAATCTACAACTCTGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCT
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
366024 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTACACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
366079 TTTTAAAGTCCATAACTCCGTGTCACCCATTTAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* **
366134 TCTTAAGTCCACAACTTTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * *
366189 CTTTAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAAATCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
366243 TTTTAAGTCCGCAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
366297 TTTTAAGTCCACAACTCTGTGGCACCCTTTAAAATCCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * * *
366351 TTTTAAAGTCCATAACTCCATGGCATCCTTTTAAATCCATATCTCCGTGGCACCT
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
366406 TTTTAAGTCCACAACTCTGTGGCATCCTTTTAAG-CCAACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC-ACAACTCCGTGGCACCC
* * ** * *
366460 TTTAAAGTCCACAACTCCATGGCACGTTTTTAAGTCCACAACTCTGTTGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
366514 TTTTAGGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * *
366569 TTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACCACTCCCTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * *
366624 TTTCAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTT-TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
366679 TTTTAAAGTCCGCAACTCCGTGGCACCCCTTTAAGTCCACAACTTCGTGGCACACC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC-CC
* * *
366735 -TTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCGCAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** * * *
366788 TTCGAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * *
366842 TTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCATAACTCCATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * * *
366897 TTTTAAATCCATATCTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
366951 TTTTAAG-CCAACAACTCTGTGGCACCCTTTAAAGTCCACAACTCCATGGCACCT
1 TTTTAAGTCC-ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
367005 TTTTAAGTCCACAACTCTGTTGCACCCTTTTAGGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
367059 TTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCCACAACTCCGTGGCACTC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * * *
367114 TTTTAAAGTCCACCATTCCCTGGCACCCTTTCAAAGTCTACAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC
* * *
367170 TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGTAACC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * * * *
367224 TTTTAAAGTCCACCATTCCGTGGCACCCTTTTAACTTCACAGCTCTGTGGTATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
367279 TTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGT---C--CTCCATGGCATCCG
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC
* ** ** * * * *
367329 TTTCCAA-TCCACAACTCCGTCACATTCTTTTAAAGTTCACAATTCCATGGTACCC
1 TTT-TAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * * * * *
367384 TTTTAAGTCAACAAATTCATGGCACTCTTTTAAGTCCACAACTCTGTCGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * *
367438 TTTTAAGTCCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCC
** * *
367493 TTCCAAAGTCCACAACTTCGTGGCATCCTTTTTAAG-CCACAA
1 TT-TTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAA
367535 GGTAGTGGCA
Statistics
Matches: 1682, Mismatches: 286, Indels: 67
0.83 0.14 0.03
Matches are distributed among these distances:
49 7 0.00
50 23 0.01
51 7 0.00
53 14 0.01
54 758 0.45
55 767 0.46
56 106 0.06
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.29
Consensus pattern (54 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:366689 original size:518 final size:518
Alignment explanation
Indices: 365479--367534 Score: 2556
Period size: 518 Copynumber: 4.0 Consensus size: 518
365469 TGGCATTCCT
* * * * * * * *
365479 TTTTAAGTCCACAAGTCTGTGGAAACC-TTTCAAGTCTACAACTCCGTGACAACCTTTTAAGTCC
1 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCC
** * * *
365543 ACAACTCTTTGGCA-TCCTTTT-AAGTCCACAACTCCGTAGCACCCTTTTAAGTCTC-CAACTCC
66 ACAACTCCGTGGCACT-CTTTTAAAGTCCACAACTCCCTGGCACCCTTTAAAGTC-CACAACTCC
* * * * * * *
365605 GTGGCGTCTTTTTAAAGTCTATAACTCCGCGGCACCCTTTCAAGTCCACAACTCCGTGGCACCCT
129 GTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCC
* * * * *
365670 TTTAAAGTCCAC-ACTCTGTGGCATCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCA
193 TTTAAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
* * * * *
365734 CAACTCCGTGGTATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATG
258 CAACTCCGTGGCA-CCCTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTG
* * * * * *** * *
365799 GCACCTTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTACACAATTGGGTGGTATCCATT
322 GCACC-CTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCATGGCATCCTTT
* * * * * * *
365864 TAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACCACTCCGTGGCACCCTTTTAAAGTCC-AC
386 TAAATCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAG-CCAAC
* * * ** * * * *
365928 AACTCTGTGGCATCCTTTTAGGTCCACAACTCTGTGGCATCC-TTTAAAATCTACAACTCTGTGG
449 AACTCTGTGGCACCCTTTAAAGTCCACAACTCCATGGCATCCTTTTTAAGTCCACAACTCTGTTG
365992 CACCC
514 CACCC
* ** * * * *
365997 TTTTAAGTCCATAACTCCATGGCATCTTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTAC
1 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCC
* * * * *
366062 ACAACTCTGTGGCACCCTTTTAAAGTCCATAACTCCGTGTCACCCATTT-AAGTCCACAACTCCG
66 ACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCCTGGCACCC-TTTAAAGTCCACAACTCCG
* **
366126 TGGCATCCTCTTAAGTCCACAACTTTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCCT
130 TGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAACTCCGTGGCACCCCT
* * *
366191 TT-AAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAAATCTGTGGCATCCTTTTAAGTCCGC
194 TTAAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCAC
*
366255 AACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGC
259 AACTCCGTGGCACCCTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGC
*
366320 ACCCTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCATAACTCCATGGCATCCTTTTAA
324 ACCCTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCATGGCATCCTTTTAA
*
366385 ATCCATATCTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGCCAACAACTC
389 ATCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGCCAACAACTC
*
366450 TGTGGCACCCTTTAAAGTCCACAACTCCATGGCA-CGTTTTTAAGTCCACAACTCTGTTGCACCC
454 TGTGGCACCCTTTAAAGTCCACAACTCCATGGCATCCTTTTTAAGTCCACAACTCTGTTGCACCC
*
366514 TTTTAGGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCC
1 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCC
* *
366579 ACAACTCCGTGGCACTCTTTTAAAGTCCACCACTCCCTGGCACCCTTTCAAAGTCCACAACTCTG
66 ACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCCTGGCACCCTTT-AAAGTCCACAACTCCG
*
366644 TGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCGCAACTCCGTGGCACCCCT
130 TGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAACTCCGTGGCACCCCT
* * *
366709 TT-AAGTCCACAACTTCGTGGCACACCTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCGC
194 TTAAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCAC
* * *
366773 AACTCTGTGGCACCCTTCGAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGC
259 AACTCCGTGGCACCCTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGC
*
366838 ACCCTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCATAACTCCATGGCATCCTTTTAA
324 ACCCTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCATGGCATCCTTTTAA
*
366903 ATCCATATCTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGCCAACAACTC
389 ATCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGCCAACAACTC
366968 TGTGGCACCCTTTAAAGTCCACAACTCCATGGCA-CCTTTTTAAGTCCACAACTCTGTTGCACCC
454 TGTGGCACCCTTTAAAGTCCACAACTCCATGGCATCCTTTTTAAGTCCACAACTCTGTTGCACCC
*
367032 TTTTAGGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCC
1 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCC
* * * *
367097 ACAACTCCGTGGCACTCTTTTAAAGTCCACCATTCCCTGGCACCCTTTCAAAGTCTACAACTCTG
66 ACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCCTGGCACCCTTT-AAAGTCCACAACTCCG
* * *
367162 TGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGTAACCTTT
130 TGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCCTT
* * * * * * * * *
367227 TAAAGTCCACCATTCCGTGGCACCCTTTTAACTTCACAGCTCTGTGGTATCCTTTTAAGCCCACA
195 TAAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACA
* * * * **
367292 ACTCCGTGGCACCCTTTTAAGT---C--CTCCATGGCATCCGTTTCCAA-TCCACAACTCCGTCA
260 ACTCCGTGGCACCCTTTGAAGTCCACAACTCCGTGGCATCC-TTT-TAAGTCCACAACTCTGTGG
* * * * * * * * * * *
367351 CATTCTTTTAAAGTTCACAATTCCATGGTACCCTTTT-AAGTCAACAAATTCATGGCA-CTCTTT
323 CA-CCCTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCATGGCATC-CTTT
* * * * *
367414 TAAGTCCACAACTCTGTCGCATCC-TTTTAAGTCCACAACT-TCGTGGCATCCTTTTTAAGCCCA
386 TAAATCCATAACTCCGTGGCA-CCTTTTTAAGTCCACAACTCT-GTGGCATCC-TTTTAAGCCAA
* * * * * *
367477 CAAGTCAGTGGTACCCTTCCAAAGTCCACAACTTCGTGGCATCCTTTTTAAG-CCACAA
448 CAACTCTGTGGCACCCTT-TAAAGTCCACAACTCCATGGCATCCTTTTTAAGTCCACAA
367535 GGTAGTGGCA
Statistics
Matches: 1370, Mismatches: 147, Indels: 44
0.88 0.09 0.03
Matches are distributed among these distances:
513 13 0.01
514 78 0.06
515 56 0.04
516 31 0.02
517 195 0.14
518 739 0.54
519 129 0.09
520 126 0.09
521 3 0.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.29
Consensus pattern (518 bp):
TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCCTGGCACCCTTTAAAGTCCACAACTCCGT
GGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCCTTT
AAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
CTCCGTGGCACCCTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCAC
CCTTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCATGGCATCCTTTTAAAT
CCATAACTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGCCAACAACTCTG
TGGCACCCTTTAAAGTCCACAACTCCATGGCATCCTTTTTAAGTCCACAACTCTGTTGCACCC
Found at i:367247 original size:82 final size:82
Alignment explanation
Indices: 365483--367523 Score: 2090
Period size: 82 Copynumber: 25.0 Consensus size: 82
365473 ATTCCTTTTT
* * * * * * * *
365483 AAGTCCACAAGTCTGTGGAAACC-TTTCAAGTCTACAACTCCGTGACAACCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
** * *
365547 CTCTTTGGCATCCTTTT
66 CTCCGTGGCACCCTTTA
* ** * * *
365564 AAGTCCACAACTCCGTAGCACCCTTTT-AAGTCTC-CAACTCCGTGGCGTCTTTTTAAAGTCTAT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTC-CACAACTCCGTGGCACCCTTTT-AAGTCCAC
* *
365627 AACTCCGCGGCACCCTTTC
64 AACTCCGTGGCACCCTTTA
* *
365646 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC-ACTCTGTGGCATCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
365710 CTCCATGGCACCCTTTT
66 CTCCGTGGCACCCTTTA
* *
365727 AAGTCCACAACTCCGTGGTATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
** *
365792 CTCTATGGCACCTTTTTA
66 CTCCGTGGCACC-CTTTA
* * ** * * * *
365810 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTACACAATTGGGTGGTATCCATTTAAGTCCATAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
365875 CTCTGTGGCACCCTTTA
66 CTCCGTGGCACCCTTTA
* * * *
365892 AAGTCCACCACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAGGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
365957 CTCTGTGGCATCCTTTA
66 CTCCGTGGCACCCTTTA
* * * * * * *
365974 AAATCTACAACTCTGTGGCACCCTTTT-AAGTCCATAACTCCATGGCATCTTTTTAAAGTCCACA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
*
366038 ACTCCGTGGCACCCTTTT
65 ACTCCGTGGCACCCTTTA
* * * * *
366056 AAGTACACAACTCTGTGGCACCCTTTTAAAGTCCATAACTCCGTGTCACCCATTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
366121 CTCCGTGGCATCCTCTT-
66 CTCCGTGGCACCCT-TTA
** *
366138 AAGTCCACAACTTTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCCTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
366203 CTCCGTGGCACCCCTTT-
66 CTCCGTGGCA-CCCTTTA
* * * * * *
366220 AAGTCCACAAATCTGTGGCATCCTTTT-AAGTCCGCAACTCTGTGGCACCCTTTGAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
366284 CTCCGTGGCATCCTTTT
66 CTCCGTGGCACCCTTTA
* * * *
366301 AAGTCCACAACTCTGTGGCACCC-TTTAAAATCCACAACTCCGTAGCACCCTTTTAAAGTCCATA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
* *
366365 ACTCCATGGCATCCTTTTA
65 ACTCCGTGGCA-CCCTTTA
* * * * *
366384 AA-TCCATATCTCCGTGGCA-CCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAG-CCAACA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC-ACA
*
366446 ACTCTGTGGCACCCTTTA
65 ACTCCGTGGCACCCTTTA
* * * * * *
366464 AAGTCCACAACTCCATGGCA-CGTTTTTAAGTCCACAACTCTGTTGCACCCTTTTAGGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
366528 CTCTGTGGCACCCTTTTA
66 CTCCGTGGCACCC-TTTA
* * *
366546 AAGTCCACAACTCCGGGGCACCCTTTT-AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
*
366610 ACTCCCTGGCACCCTTTCA
65 ACTCCGTGGCACCCTTT-A
* * *
366629 AAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCGCA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
366693 ACTCCGTGGCACCCCTTT-
65 ACTCCGTGGCA-CCCTTTA
* * *
366711 AAGTCCACAACTTCGTGGCACACC-TTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCGCA
1 AAGTCCACAACTCCGTGGCAC-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* **
366774 ACTCTGTGGCACCCTTCG
65 ACTCCGTGGCACCCTTTA
* * * * *
366792 AAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTAAAATCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
366856 CTCCGTAGCACCCTTTTA
66 CTCCGTGGCACCC-TTTA
* * * * * *
366874 AAGTCCATAACTCCATGGCATCCTTTTAAA-TCCATATCTCCGTGGCACCTTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * *
366938 CTCTGTGGCATCCTTTT
66 CTCCGTGGCACCCTTTA
* * *
366955 AAG-CCAACAACTCTGTGGCACCC-TTTAAAGTCCACAACTCCATGGCACCTTTTTAAGTCCACA
1 AAGTCC-ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* * *
367018 ACTCTGTTGCACCCTTTT
65 ACTCCGTGGCACCCTTTA
* * *
367036 AGGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGGGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
367101 CTCCGTGGCACTCTTTTA
66 CTCCGTGGCAC-CCTTTA
* * * * * * *
367119 AAGTCCACCATTCCCTGGCACCCTTTCAAAGTCTACAACTCTGTGGCATCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
367184 CTCCGTGGCACCCTTTA
66 CTCCGTGGCACCCTTTA
* * * * * * *
367201 AAGTCCACAACTCCGTGGTAACCTTTTAAAGTCCACCATTCCGTGGCACCCTTTTAACTTCACAG
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * * *
367266 CTCTGTGGTATCCTTTT
66 CTCCGTGGCACCCTTTA
* * * *
367283 AAGCCCACAACTCCGTGGCACCCTTTT-AAGT---C--CTCCATGGCATCCGTTTCCAA-TCCAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTT-TAAGTCCAC
** * *
367341 AACTCCGTCACATTCTTTTA
64 AACTCCGTGGCA-CCCTTTA
* * * * * * * * *
367361 AAGTTCACAATTCCATGGTACCCTTTT-AAGTCAACAAATTCATGGCACTCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * * *
367425 CTCTGTCGCATCCTTTT
66 CTCCGTGGCACCCTTTA
* * * * * * * **
367442 AAGTCCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGTACCCTTCCAAAGTCCACA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTT-TTAAGTCCACA
* *
367507 ACTTCGTGGCATCCTTT
65 ACTCCGTGGCACCCTTT
367524 TTAAGCCACA
Statistics
Matches: 1652, Mismatches: 263, Indels: 88
0.82 0.13 0.04
Matches are distributed among these distances:
76 8 0.00
77 16 0.01
78 34 0.02
80 33 0.02
81 484 0.29
82 765 0.46
83 306 0.19
84 6 0.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (82 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCACCCTTTA
Found at i:367404 original size:27 final size:28
Alignment explanation
Indices: 367369--367424 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
367359 TAAAGTTCAC
*
367369 AATTCCATGGTACCCTTTTAAGTCAACA
1 AATTCCATGGCACCCTTTTAAGTCAACA
* *
367397 AATT-CATGGCACTCTTTTAAGTCCACA
1 AATTCCATGGCACCCTTTTAAGTCAACA
367424 A
1 A
367425 CTCTGTCGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
AATTCCATGGCACCCTTTTAAGTCAACA
Found at i:367440 original size:27 final size:27
Alignment explanation
Indices: 367382--367534 Score: 107
Period size: 27 Copynumber: 5.6 Consensus size: 27
367372 TCCATGGTAC
* * * *
367382 CCTTTTAAGTCAACAAATTCATGGCA-
1 CCTTTTAAGTCCACAACTTCGTCGCAT
367408 CTCTTTTAAGTCCACAAC-TCTGTCGCAT
1 C-CTTTTAAGTCCACAACTTC-GTCGCAT
*
367436 CCTTTTAAGTCCACAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTTCGTCGCAT
* * * * *
367463 CCTTTTTAAGCCCACAA-GTCAGTGGTAC
1 CC-TTTTAAGTCCACAACTTC-GTCGCAT
** *
367491 CCTTCCAAAGTCCACAACTTCGTGGCAT
1 CCTT-TTAAGTCCACAACTTCGTCGCAT
367519 CCTTTTTAAG-CCACAA
1 CC-TTTTAAGTCCACAA
367535 GGTAGTGGCA
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
26 3 0.03
27 52 0.51
28 42 0.42
29 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTTCGTCGCAT
Found at i:367617 original size:32 final size:32
Alignment explanation
Indices: 367559--367716 Score: 203
Period size: 32 Copynumber: 5.0 Consensus size: 32
367549 TTTTTAAGCC
* * *
367559 CACAAGTCAGTGGC-A-TCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * * *
367589 CACATGTCGTTGGTAACACATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
367621 CACAAGTCGGTGGCAACCCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
367653 CACAAGTCTGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
367685 CACAAGTCGGTGGTAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
367717 TAAGTTAGTG
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
30 10 0.09
31 1 0.01
32 101 0.90
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:367787 original size:29 final size:29
Alignment explanation
Indices: 367432--368091 Score: 541
Period size: 28 Copynumber: 22.7 Consensus size: 29
367422 CAACTCTGTC
* *
367432 GCATCCTTTT--AAGTCCACAACTTC-GTG
1 GCATCCTTTTCAAAGCCCACAA-GTCAGTG
*
367459 GCATCCTTTT-TAAGCCCACAAGTCAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
* * * * *
367487 GTA-CCCTTCCAAAGTCCACAACTTC-GTG
1 GCATCCTTTTCAAAGCCCACAA-GTCAGTG
*
367515 GCATCCTTTT-TAAG-CCACAAGGT-AGTG
1 GCATCCTTTTCAAAGCCCACAA-GTCAGTG
* *
367542 GCACCCCTTTT-TAAGCCCACAAGTCAGTG
1 GCA-TCCTTTTCAAAGCCCACAAGTCAGTG
*
367571 GCATCATTTT-AAAGCCCACACATGTC-GTTG
1 GCATCCTTTTCAAAGCCCACA-A-GTCAG-TG
* * * * *
367601 GTAACACATTTGAAAGCCCACACAAGTCGGTG
1 GCATC-CTTTTCAAAG-CC-CACAAGTCAGTG
* * * *
367633 GCAACCCATTTGAAAGCCCACACAAGTCTGTG
1 GC-ATCCTTTTCAAAG-CC-CACAAGTCAGTG
* * *
367665 GCAACCCATTTCAAAGCCCACACAAGTCGGTG
1 GC-ATCCTTTTCAAAG-CC-CACAAGTCAGTG
* * * * *
367697 GTAACCCATTTCAAAGCCCATAAGTTAGTG
1 G-CATCCTTTTCAAAGCCCACAAGTCAGTG
* * *
367727 GCAT-CTTTTCAAAGCCCATAATTCAGTA
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
* *
367755 GCATCCTTCTCAAAGCCCACAAGTCAATG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
* * *
367784 GCATCCTTCTCCAAGCCCACACAAATCAGTG
1 GCATCCTTTTCAAAG-CC-CACAAGTCAGTG
367815 GCAT-CTTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
*
367843 GCAT-CTTTTCAATGCCCACAAGTCAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
367871 GCAT-CTTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
* * *
367899 GCATCCTTCTGAAAGCCCACAAGTTAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
* *
367928 ACATCCTTCTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
* *
367957 GCATCCTTTTCATAGCCCACACAAATCAGTG
1 GCATCCTTTTCAAAG-CC-CACAAGTCAGTG
* *
367988 TCAT-CTTTTCAAAGCCCACAAATCAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
*
368016 GCATCC-TTTCAAAGCCCCCAAGTCAGTG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
* *
368044 GCATCC-TTCCAAAGCCCACAAGTCAGCG
1 GCATCCTTTTCAAAGCCCACAAGTCAGTG
368072 GCATCC-TTTCAAAGCCCACA
1 GCATCCTTTTCAAAGCCCACA
368092 CAAGTTAGTG
Statistics
Matches: 538, Mismatches: 69, Indels: 51
0.82 0.10 0.08
Matches are distributed among these distances:
27 29 0.05
28 229 0.43
29 119 0.22
30 39 0.07
31 33 0.06
32 79 0.15
33 6 0.01
34 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
GCATCCTTTTCAAAGCCCACAAGTCAGTG
Found at i:367888 original size:144 final size:146
Alignment explanation
Indices: 367554--368109 Score: 594
Period size: 144 Copynumber: 3.8 Consensus size: 146
367544 ACCCCTTTTT
* * *
367554 AAGCCCACAAGTCAGTGGCATCATTTT-AAAGCCCACACATGTC-GTTGGTAACACATT-TGAAA
1 AAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACA-A-GTCAG-TGGCATC-C-TTCTCAAA
* * * * * *
367616 GCCCACACAAGTCGGTGGCAACCCATT-TGAAAGCCCACACAAGTCTGTGGCAACCCATTTCAAA
60 G-CC-CACAAGTCAGTGGC-ATCC-TTCTCAAAGCCCACACAAGTCAGTGGC-A-TCTTTTCAAA
* * * * *
367680 GCCCACACAAGTCGGTGGTAACCCATTTCA
119 GCCCACACAAATCAGTGG-CA-TCTTTTCA
* * * * *
367710 AAGCCCATAAGTTAGTGGCATCTTTTCAAAGCCCATAATTCAGTAGCATCCTTCTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAC
* * * *
367775 AAGTCAATGGCATCCTTCTCCAAGCCCACACAAATCAGTGGCATCTTTTCAAAG-CC-CACAAGT
66 AAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAAT
367838 CAGTGGCATCTTTTCA
131 CAGTGGCATCTTTTCA
* *
367854 ATGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTGAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAC
* * *
367919 AAGTTAGTGACATCCTTCTCAAAG-CC-CACAAGTCAGTGGCATCCTTTTCATAGCCCACACAAA
66 AAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCAGTGGCAT-CTTTTCAAAGCCCACACAAA
*
367982 TCAGTGTCATCTTTTCA
130 TCAGTGGCATCTTTTCA
* * *
367999 AAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCCCAAGTCAGTGGCATCCTTC-CAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAC
* *
368063 AAGTCAGCGGCATCCTT-TCAAAGCCCACACAAGTTAGTGGCA-CTTTT
66 AAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCAGTGGCATCTTTT
368110 TTTTAAAAGC
Statistics
Matches: 346, Mismatches: 45, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
142 15 0.04
143 22 0.06
144 111 0.32
145 86 0.25
146 12 0.03
147 2 0.01
148 9 0.03
149 3 0.01
150 23 0.07
151 12 0.03
152 4 0.01
153 6 0.02
154 6 0.02
155 6 0.02
156 29 0.08
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (146 bp):
AAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAC
AAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAAT
CAGTGGCATCTTTTCA
Found at i:367941 original size:173 final size:173
Alignment explanation
Indices: 367456--368101 Score: 594
Period size: 173 Copynumber: 3.7 Consensus size: 173
367446 CCACAACTTC
* * * * * * *
367456 GTGGCATCCTTTT-TAAGCCCACAAGTCAGTGGTACCCTTCCAAAGTCCACAACTTC-GTGGCAT
1 GTGGCAT-CTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCACAA-GTCAGTGGCAT
** * ** * *
367519 CCTTTTTAAG-CCACAAGGT-AGTGGCACCCCTTTTTAAGCCCACAAGTCAGTG-GCATCATT-T
64 CCTTTCAAAGCCCACAA-GTCAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGAGCATCCTTCT
* ** * * * * * *
367580 TAAAGCCCACACATGTCGTTGGTAACACATTT-GAAAGCCCACACAAGTCG
127 CAAAGCCCACA-A-GTCAATGGCATC-C-TTTCCATAGCCCACACAAATCA
* * * * * *
367630 GTGGCAACCCATTTGAAAGCCCACACAAGTCTGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
1 GTGGC-A-TCTTTTCAAAGCCCACA-AA-TCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAG
* * * * * *
367695 TGGTAACCCATTTCAAAGCCCATAAGTTAGTGGCATCTTTTCAAAGCCCATAA-TTCAGT-AGCA
58 TGG-CATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTT-AGTGAGCA
367758 TCCTTCTCAAAGCCCACAAGTCAATGGCATCCTTCTCCA-AGCCCACACAAATCA
120 TCCTTCTCAAAGCCCACAAGTCAATGGCATCCTT-TCCATAGCCCACACAAATCA
* * * *
367812 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAATGCCCACAAGTCAGTGGCATCT
1 GTGGCATCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
*
367877 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTGAAAGCCCACAAGTTAGTGA-CATCCTTCTCAA
66 TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGAGCATCCTTCTCAA
* *
367941 AGCCCACAAGTCAGTGGCATCCTTTTCATAGCCCACACAAATCA
130 AGCCCACAAGTCAATGGCATCCTTTCCATAGCCCACACAAATCA
* *
367985 GTGTCATCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCCCAAGTCAGTGGCATCC
1 GTGGCATCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
368050 TTCCAAAGCCCACAAGTCAGCGGCATCCTTTCAAAGCCCACACAAGTTAGTG
66 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTTAGTG
368102 GCACTTTTTT
Statistics
Matches: 390, Mismatches: 57, Indels: 50
0.78 0.11 0.10
Matches are distributed among these distances:
172 35 0.09
173 155 0.40
174 32 0.08
175 7 0.02
176 16 0.04
177 3 0.01
178 13 0.03
179 5 0.01
180 21 0.05
181 6 0.02
182 29 0.07
183 13 0.03
184 32 0.08
185 23 0.06
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (173 bp):
GTGGCATCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGAGCATCCTTCTCAAA
GCCCACAAGTCAATGGCATCCTTTCCATAGCCCACACAAATCA
Found at i:368273 original size:48 final size:48
Alignment explanation
Indices: 368217--368332 Score: 205
Period size: 48 Copynumber: 2.4 Consensus size: 48
368207 ACCTTTATTG
*
368217 GCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTA
1 GCTCAATGTCGTTGGCCTTGAATCAACACATTGTCCACTTTTCCCTTA
* *
368265 GCTCAATGTCGCTGGCCTTAAATCAACACATTGTCCACTTTTCCCTTA
1 GCTCAATGTCGTTGGCCTTGAATCAACACATTGTCCACTTTTCCCTTA
368313 GCTCAATGTCGTTGGCCTTG
1 GCTCAATGTCGTTGGCCTTG
368333 CATTTGGCAC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.34
Consensus pattern (48 bp):
GCTCAATGTCGTTGGCCTTGAATCAACACATTGTCCACTTTTCCCTTA
Found at i:372336 original size:13 final size:13
Alignment explanation
Indices: 372318--372372 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
372308 CTTCCCTATT
372318 TTTTTTAAATTGA
1 TTTTTTAAATTGA
*
372331 TTTTTTTAATT-A
1 TTTTTTAAATTGA
*
372343 TTTTTT--ATTTA
1 TTTTTTAAATTGA
*
372354 TTTTTTAATTTGA
1 TTTTTTAAATTGA
372367 TTTTTT
1 TTTTTT
372373 TGATTTTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.08
11 7 0.19
12 7 0.19
13 19 0.53
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (13 bp):
TTTTTTAAATTGA
Found at i:372346 original size:11 final size:11
Alignment explanation
Indices: 372318--372363 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
372308 CTTCCCTATT
372318 TTTTTTAAATTGA
1 TTTTTT-AATT-A
372331 TTTTTTTAATTA
1 -TTTTTTAATTA
*
372343 TTTTTTATTTA
1 TTTTTTAATTA
372354 TTTTTTAATT
1 TTTTTTAATT
372364 TGATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 19 0.63
12 1 0.03
13 4 0.13
14 6 0.20
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTTTAATTA
Found at i:372378 original size:14 final size:12
Alignment explanation
Indices: 372330--372378 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 12
372320 TTTTAAATTG
*
372330 ATTTTTTTAATT
1 ATTTTTTTATTT
372342 A-TTTTTTATTT
1 ATTTTTTTATTT
*
372353 ATTTTTTAATTT
1 ATTTTTTTATTT
372365 GATTTTTTTGATTT
1 -ATTTTTTT-ATTT
372379 TTACTTAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 10 0.32
12 10 0.32
13 7 0.23
14 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:372378 original size:22 final size:22
Alignment explanation
Indices: 372326--372380 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
372316 TTTTTTTTAA
372326 ATTGATTTTTTTAATTATTTTTT
1 ATTGA-TTTTTTAATTATTTTTT
*
372349 ATTTATTTTTTAATT-TGATTTTT
1 ATTGATTTTTTAATTAT--TTTTT
372372 -TTGATTTTT
1 ATTGATTTTT
372381 ACTTAGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 1 0.04
22 18 0.64
23 9 0.32
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (22 bp):
ATTGATTTTTTAATTATTTTTT
Found at i:372999 original size:42 final size:42
Alignment explanation
Indices: 372862--373593 Score: 603
Period size: 42 Copynumber: 17.4 Consensus size: 42
372852 AAGAAATGAT
* * * *
372862 TCTCTCGGGTCAAAGTCGACAGGCAGACTGAGGGATAAGG-CAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT-AAGGAT-AGGAAAG
* *
372905 TATCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAG
* *
372948 TCT-TCAGGGTCAAAGCTGATAGGCAGACTAAGGATAGGAAAG
1 TCTCT-AGGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAG
*
372990 TCTCTAGGGTCAAAGCCGACAGGCAGACTATA-GATTAGG-TAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTA-AGGA-TAGGAAAG
** * * *
373032 TCTCTAATGTCAAAGCCGACAGGTAGACTTTA-GAT--GAGTAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGAC-TAAGGATAGGA-AAG
* * *
373073 TCTCCAGGGTCAAAGCCGATAGGCAGACTAAGGGTAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAG
* * * *
373115 T-TCCAAGGTCAAAGCTGATAGGCAGACTGAAGGA-AGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAG
* * ** *
373156 TCTCCAAGGTCAAAATCGATAGGCAGACTAAGAGA-AGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAG-GATAGGAAAG
* * * * *
373198 TCTTTAGGGTCAAAGCCAATAAGCAGACTGAGGATAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAG
* * *
373240 TCTCTAGAGTCAAAGCCGACAAGTAGACTAAAGGATAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAG
* * * * *
373283 TCTCCAGGGTCAAAGCTGACAGGTAGACTTTA-GATGAGG-TAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGAC-TAAGGAT-AGGAAAG
* * * *
373325 TCTCTAAGGTCGAAGCCGACAGGCAGATTAAAGGGTAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAG
* * *
373368 TCTCTAGGGTCAAAGCCGATAGACAGACTAAGGGA-AAGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAA-GGATAGGAAAG
* ** * * *
373410 TCTCTAGGTTCAAAGTTGATAAGCAGACTAAAGGGTAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAG
* *
373453 TCTCCAGGGTCAAAGCCGACAAGCAGACTAAAGG-TAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAG
* * * * * *
373495 TCTCTAGGGTGAAAGCCGATAGACGGACTGAGAGA-AGAAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAG-GATAGGAAAG
* * * * *
373537 TCTCCAGGGTCAAAACCGACATGTAGACTAAGGGTAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAG
*
373579 TCTCCAGGGTCAAAG
1 TCTCTAGGGTCAAAG
373594 TCAATAAGCA
Statistics
Matches: 563, Mismatches: 99, Indels: 55
0.79 0.14 0.08
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 71 0.13
42 315 0.56
43 173 0.31
44 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (42 bp):
TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAG
Found at i:373000 original size:85 final size:84
Alignment explanation
Indices: 372868--373593 Score: 616
Period size: 85 Copynumber: 8.6 Consensus size: 84
372858 TGATTCTCTC
* * * * *
372868 GGGTCAAAGTCGACAGGCAGACTGAGGGATAAGG-CAGTATCCAGGGTCAAAGCCGACAGGCAGA
1 GGGTCAAAGCCGACAGGCAGACT-AAGGAT-AGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGA
*
372932 CTGAAGGATAGGAAAGTCTTCA
64 CT-AAGGATAGGAAAGTCTCCA
* *
372954 GGGTCAAAGCTGATAGGCAGACTAAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
1 GGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
* *
373019 ATA-GATTAGG-TAGTCTCTA
66 A-AGGA-TAGGAAAGTCTCCA
** * * * * *
373038 ATGTCAAAGCCGACAGGTAGACTTTA-GAT--GAGTAGTCTCCAGGGTCAAAGCCGATAGGCAGA
1 GGGTCAAAGCCGACAGGCAGAC-TAAGGATAGGA-AAGTCTCTAGGGTCAAAGCCGACAGGCAGA
*
373100 CTAAGGGTAGGAAAGT-TCCA
64 CTAAGGATAGGAAAGTCTCCA
* * * * * ** *
373120 AGGTCAAAGCTGATAGGCAGACTGAAGGA-AGGAAAGTCTCCAAGGTCAAAATCGATAGGCAGAC
1 GGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGAC
**
373184 TAAGAGA-AGGAAAGTCTTTA
65 TAAG-GATAGGAAAGTCTCCA
* * * * * * *
373204 GGGTCAAAGCCAATAAGCAGACTGAGGATAGGAAAGTCTCTAGAGTCAAAGCCGACAAGTAGACT
1 GGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
373269 AAAGGATAGGAAAGTCTCCA
66 -AAGGATAGGAAAGTCTCCA
* * * * * *
373289 GGGTCAAAGCTGACAGGTAGACTTTA-GATGAGG-TAGTCTCTAAGGTCGAAGCCGACAGGCAGA
1 GGGTCAAAGCCGACAGGCAGAC-TAAGGAT-AGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGA
* * *
373352 TTAAAGGGTAGGAAAGTCTCTA
64 CT-AAGGATAGGAAAGTCTCCA
* * * * ** * *
373374 GGGTCAAAGCCGATAGACAGACTAAGGGA-AAGAAAGTCTCTAGGTTCAAAGTTGATAAGCAGAC
1 GGGTCAAAGCCGACAGGCAGACTAA-GGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGAC
*
373438 TAAAGGGTAGGAAAGTCTCCA
65 T-AAGGATAGGAAAGTCTCCA
* * * * *
373459 GGGTCAAAGCCGACAAGCAGACTAAAGG-TAGGAAAGTCTCTAGGGTGAAAGCCGATAGACGGAC
1 GGGTCAAAGCCGACAGGCAGACT-AAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGAC
* *
373523 TGAGAGA-AGAAAAGTCTCCA
65 TAAG-GATAGGAAAGTCTCCA
* * * * *
373543 GGGTCAAAACCGACATGTAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAG
1 GGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAGTCTCTAGGGTCAAAG
373594 TCAATAAGCA
Statistics
Matches: 516, Mismatches: 99, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
81 1 0.00
82 29 0.06
83 83 0.16
84 145 0.28
85 229 0.44
86 29 0.06
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (84 bp):
GGGTCAAAGCCGACAGGCAGACTAAGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACT
AAGGATAGGAAAGTCTCCA
Found at i:373514 original size:127 final size:126
Alignment explanation
Indices: 372862--373593 Score: 563
Period size: 127 Copynumber: 5.8 Consensus size: 126
372852 AAGAAATGAT
* * * * * ** * *
372862 TCTCTCGGGTCAAAGTCGACAGGCAGACTGAGGGATAAGGCAGTATCCAGGGTCAAAGCCGACAG
1 TCTCTAGGGTCAAAGCCGATAGACAGACTAAGGGA-AAGAAAGTCTCCAGGGTCAAAACCGACAG
* * * * *
372927 GCAGACTGAAGGATAGGAAAGTCTTCAGGGTCAAAGCTGATAGGCAGACT-AAGGATAGGAAAG
65 GCAGACT-AAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAGG-TAGGAAAG
* * * ** * ** *
372990 TCTCTAGGGTCAAAGCCGACAGGCAGACTATA--GATTAGGTAGTCTCTAATGTCAAAGCCGACA
1 TCTCTAGGGTCAAAGCCGATAGACAGACTA-AGGGA-AAGAAAGTCTCCAGGGTCAAAACCGACA
* * * * * * *
373053 GGTAGACTTTA--G-ATGAGTAGTCTCCAGGGTCAAAGCCGATAGGCAGACTAAGGGTAGGAAAG
64 GGCAGAC-TAAGGGTAGGA-AAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAGGTAGGAAAG
* * * * * * * *
373115 T-TCCAAGGTCAAAGCTGATAGGCAGACTGAA-GGAAGGAAAGTCTCCAAGGTCAAAATCGATAG
1 TCTCTAGGGTCAAAGCCGATAGACAGACT-AAGGGAAAGAAAGTCTCCAGGGTCAAAACCGACAG
* * ** * * *
373178 GCAGACTAAGAGAAGGAAAGTCTTTAGGGTCAAAGCCAATAAGCAGACT-GAGGATAGGAAAG
65 GCAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAGG-TAGGAAAG
* * * * * * *
373240 TCTCTAGAGTCAAAGCCGACA-AGTAGACTAAAGGATAGGAAAGTCTCCAGGGTCAAAGCTGACA
1 TCTCTAGGGTCAAAGCCGATAGA-CAGACTAAGGGA-AAGAAAGTCTCCAGGGTCAAAACCGACA
* * * * * * * * *
373304 GGTAGACTTTA-GATGAGG-TAGTCTCTAAGGTCGAAGCCGACAGGCAGATTAAAGGGTAGGAAA
64 GGCAGAC-TAAGGGT-AGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAA-GGTAGGAAA
373367 G
126 G
* * *** * *
373368 TCTCTAGGGTCAAAGCCGATAGACAGACTAAGGGAAAGAAAGTCTCTAGGTTCAAAGTTGATAAG
1 TCTCTAGGGTCAAAGCCGATAGACAGACTAAGGGAAAGAAAGTCTCCAGGGTCAAAACCGACAGG
373433 CAGACTAAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAGGTAGGAAAG
66 CAGACT-AAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAGGTAGGAAAG
* * * * *
373495 TCTCTAGGGTGAAAGCCGATAGACGGACTGAGAG-AAGAAAAGTCTCCAGGGTCAAAACCGACAT
1 TCTCTAGGGTCAAAGCCGATAGACAGACTAAGGGAAAG-AAAGTCTCCAGGGTCAAAACCGACAG
*
373559 GTAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAG
65 GCAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAG
373594 TCAATAAGCA
Statistics
Matches: 484, Mismatches: 97, Indels: 48
0.77 0.15 0.08
Matches are distributed among these distances:
123 2 0.00
124 54 0.11
125 80 0.17
126 60 0.12
127 182 0.38
128 102 0.21
129 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (126 bp):
TCTCTAGGGTCAAAGCCGATAGACAGACTAAGGGAAAGAAAGTCTCCAGGGTCAAAACCGACAGG
CAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAAGGTAGGAAAG
Found at i:375381 original size:13 final size:13
Alignment explanation
Indices: 375363--375388 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
375353 ATATTTTTTG
375363 TGTATCGATACAT
1 TGTATCGATACAT
375376 TGTATCGATACAT
1 TGTATCGATACAT
375389 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:375399 original size:32 final size:33
Alignment explanation
Indices: 375342--375406 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
375332 TACAAGCCAA
375342 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
375376 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
375407 AGTTTAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:375400 original size:19 final size:19
Alignment explanation
Indices: 375342--375406 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
375332 TACAAGCCAA
375342 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
375363 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
375376 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
375395 TGTATCGATACA
1 TGTATCGATACA
375407 AGTTTAGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:377488 original size:21 final size:20
Alignment explanation
Indices: 377459--377501 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
377449 GACTAGTGTG
* *
377459 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
377480 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
377500 GG
1 GG
377502 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:377950 original size:13 final size:13
Alignment explanation
Indices: 377932--377969 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
377922 ATAATCCCTC
377932 TGTATCGATACAG
1 TGTATCGATACAG
*
377945 TGTATCGATACAT
1 TGTATCGATACAG
377958 TGTATCGATACA
1 TGTATCGATACA
377970 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:380070 original size:15 final size:15
Alignment explanation
Indices: 380050--380080 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
380040 ATTTCGTTTG
*
380050 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
380065 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
380080 G
1 G
380081 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:381912 original size:21 final size:21
Alignment explanation
Indices: 381883--381927 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
381873 AAATTTTTAT
*
381883 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
381903 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
381925 TTT
1 TTT
381928 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:385226 original size:13 final size:13
Alignment explanation
Indices: 385208--385233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
385198 ATATTTTTTG
385208 TGTATCGATACAT
1 TGTATCGATACAT
385221 TGTATCGATACAT
1 TGTATCGATACAT
385234 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:385244 original size:32 final size:33
Alignment explanation
Indices: 385187--385251 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
385177 TACAAGCCAA
385187 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
385221 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
385252 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:385245 original size:19 final size:19
Alignment explanation
Indices: 385187--385251 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
385177 TACAAGCCAA
385187 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
385208 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
385221 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
385240 TGTATCGATACA
1 TGTATCGATACA
385252 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:387746 original size:23 final size:23
Alignment explanation
Indices: 387716--387762 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
387706 CCAGACTAAG
387716 GCACAACATATCTTCTCTATTGA
1 GCACAACATATCTTCTCTATTGA
387739 GCACAACATATCTTCTCTATTGA
1 GCACAACATATCTTCTCTATTGA
387762 G
1 G
387763 GAGTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (23 bp):
GCACAACATATCTTCTCTATTGA
Found at i:392883 original size:22 final size:23
Alignment explanation
Indices: 392858--392902 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
392848 ATTCGTATTA
*
392858 ATTAAGCAAATATTG-ATGAATG
1 ATTAAGAAAATATTGAATGAATG
* *
392880 ATTATGAAAATGTTGAATGAATG
1 ATTAAGAAAATATTGAATGAATG
392903 CCATGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (23 bp):
ATTAAGAAAATATTGAATGAATG
Found at i:398374 original size:21 final size:21
Alignment explanation
Indices: 398349--398389 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
398339 CTGAAGGTTG
*
398349 CCGTGGGAGCTGCTGGAGCTA
1 CCGTGGAAGCTGCTGGAGCTA
*
398370 CCGTGGAAGCTGTTGGAGCT
1 CCGTGGAAGCTGCTGGAGCT
398390 GCTGGAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.41, T:0.22
Consensus pattern (21 bp):
CCGTGGAAGCTGCTGGAGCTA
Found at i:398421 original size:21 final size:22
Alignment explanation
Indices: 398378--398423 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
398368 TACCGTGGAA
* *
398378 GCTGTTGGAGCTGCTGGAAGTT
1 GCTGTGGGAACTGCTGGAAGTT
*
398400 GCTGTGGGAACTG-TGGGAGTT
1 GCTGTGGGAACTGCTGGAAGTT
398421 GCT
1 GCT
398424 CGAGATTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.13, C:0.13, G:0.43, T:0.30
Consensus pattern (22 bp):
GCTGTGGGAACTGCTGGAAGTT
Found at i:398516 original size:31 final size:31
Alignment explanation
Indices: 398479--398564 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
398469 TGCTAGAGGC
* * * *
398479 TACTGTGGAAGCTGTTGAAGTTGTTGGAAGT
1 TACTGTGGGAGCTGTGGAAGCTGCTGGAAGT
*
398510 TGCTGTGGGAGCTGTGGAAGCTGCTGGAAGT
1 TACTGTGGGAGCTGTGGAAGCTGCTGGAAGT
* *
398541 TATTGTGGGAGCTGT-GAGGCTGCT
1 TACTGTGGGAGCTGTGGAAGCTGCT
398565 TGTGGTTGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 8 0.17
31 39 0.83
ACGTcount: A:0.17, C:0.10, G:0.41, T:0.31
Consensus pattern (31 bp):
TACTGTGGGAGCTGTGGAAGCTGCTGGAAGT
Found at i:401387 original size:20 final size:20
Alignment explanation
Indices: 401362--401413 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
401352 ACATAAGTTT
*
401362 TGTATCGATATATAATTCAA
1 TGTATCGATACATAATTCAA
*
401382 TGTATCGATACATTATTCAA
1 TGTATCGATACATAATTCAA
*
401402 TGTATCAATACA
1 TGTATCGATACA
401414 CGCAGGCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATAATTCAA
Found at i:405234 original size:20 final size:19
Alignment explanation
Indices: 405209--405283 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
405199 AAAAATGCCT
* *
405209 AAATGTATCGATATATTGTA
1 AAATGTATCGATACAATG-A
405229 AAATGTATCGATACAATGA
1 AAATGTATCGATACAATGA
*
405248 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATACAATG-A
405269 AAATGTATCGATACA
1 AAATGTATCGATACA
405284 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (19 bp):
AAATGTATCGATACAATGA
Found at i:405340 original size:13 final size:13
Alignment explanation
Indices: 405322--405347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
405312 ACAAAGATCG
405322 ATGTATCGATACA
1 ATGTATCGATACA
405335 ATGTATCGATACA
1 ATGTATCGATACA
405348 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:406690 original size:31 final size:31
Alignment explanation
Indices: 406649--406746 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
406639 GCTGGTTGCT
*
406649 GAGCTACTAGAGGCTGCTATGGGAGCTGTTG
1 GAGCTACTAGAGGTTGCTATGGGAGCTGTTG
* *
406680 GAGCTGCTAGAGGTTGCTGTGGGAGCTGTTG
1 GAGCTACTAGAGGTTGCTATGGGAGCTGTTG
* * * *
406711 GAGCTACTAAAGGTTACTATAGGAGTTGTTG
1 GAGCTACTAGAGGTTGCTATGGGAGCTGTTG
*
406742 AAGCT
1 GAGCT
406747 GTTGTTAGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.21, C:0.13, G:0.37, T:0.29
Consensus pattern (31 bp):
GAGCTACTAGAGGTTGCTATGGGAGCTGTTG
Found at i:406885 original size:31 final size:31
Alignment explanation
Indices: 406849--406924 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
406839 TACTGAGCTA
*
406849 CTGTGGGAGCTGCTGGAGCTGTTGAAAGTTG
1 CTGTGGGAGCTGCTGGAGCTGCTGAAAGTTG
** *
406880 CTGTGGGAGCAACTGGAGCTGCTGGAAGTTG
1 CTGTGGGAGCTGCTGGAGCTGCTGAAAGTTG
406911 CTGTGGGAGCTGCT
1 CTGTGGGAGCTGCT
406925 AGTGGCTACT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.26
Consensus pattern (31 bp):
CTGTGGGAGCTGCTGGAGCTGCTGAAAGTTG
Found at i:407195 original size:17 final size:18
Alignment explanation
Indices: 407162--407198 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
407152 TTTCAACTTG
407162 TTGCTTTGTTATTCCACT
1 TTGCTTTGTTATTCCACT
*
407180 TTGCTTTG-TCTTCCACT
1 TTGCTTTGTTATTCCACT
407197 TT
1 TT
407199 CTTCATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.08, C:0.24, G:0.11, T:0.57
Consensus pattern (18 bp):
TTGCTTTGTTATTCCACT
Found at i:407229 original size:45 final size:45
Alignment explanation
Indices: 407159--407372 Score: 295
Period size: 45 Copynumber: 4.8 Consensus size: 45
407149 TTTTTTCAAC
* *
407159 TTGTTGCTTTGTTATTCCACT-TTGCTTTGTCTTCCACTTTCTTCA
1 TTGTTGCTTTGCTGTTCCA-TGTTGCTTTGTCTTCCACTTTCTTCA
* *
407204 TTGTTTCTTTGTTGTTCCATGTTGCTTTGTCTTCCACTTTCTTCA
1 TTGTTGCTTTGCTGTTCCATGTTGCTTTGTCTTCCACTTTCTTCA
* * ** * *
407249 TTATTGCTTTACTGTTCCACATTGCTTTGTCTCCCACTTTCTTTA
1 TTGTTGCTTTGCTGTTCCATGTTGCTTTGTCTTCCACTTTCTTCA
* *
407294 TTGTTGCTTTGCTATTCCACGTTGCTTTGTCTTCCACTTTCTTCA
1 TTGTTGCTTTGCTGTTCCATGTTGCTTTGTCTTCCACTTTCTTCA
*
407339 ATGTTGCTTTGCTGTTCCATGTTGCTTTGTCTTC
1 TTGTTGCTTTGCTGTTCCATGTTGCTTTGTCTTC
407373 ATCATTGCTA
Statistics
Matches: 149, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 1 0.01
45 148 0.99
ACGTcount: A:0.09, C:0.24, G:0.13, T:0.54
Consensus pattern (45 bp):
TTGTTGCTTTGCTGTTCCATGTTGCTTTGTCTTCCACTTTCTTCA
Found at i:407865 original size:16 final size:17
Alignment explanation
Indices: 407833--407868 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
407823 ATTTTTGATT
407833 TTTTAAAAATATTTTTA
1 TTTTAAAAATATTTTTA
*
407850 TTTTAATAAT-TTTTTA
1 TTTTAAAAATATTTTTA
407866 TTT
1 TTT
407869 CTACTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTAAAAATATTTTTA
Found at i:408441 original size:42 final size:42
Alignment explanation
Indices: 408387--408926 Score: 264
Period size: 42 Copynumber: 12.8 Consensus size: 42
408377 AAAGGTGAAA
* *
408387 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
1 AAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * * *
408429 AAAGTCTTCAAGGTTAAAACCGATAGGCAGAATAAAGGTAGG
1 AAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * *
408471 AAAGTCTCCAGGGTCAAAGTCAACAAGCAGACTGAAGGAGAAGG
1 AAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTG-AGG-GTAGG
* * **
408515 -AAGTCTCCAGGGTCGAAGCCGACA-GCAGACTTGCA-GGTGAAA
1 AAAGTCTTCAGGGTCAAAGCCGACAGGCAGAC-TG-AGGGT-AGG
* * * * * **
408557 AAAGTCTCCAAGGTCAAAGCCGA-TGGCGGATTGAAAGTAGGG
1 AAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTA-GG
* * * * *
408599 AAA-TCTCCACGGTCAAAGTCGACAGGCAGACTAAGGGTAAG
1 AAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * ** *
408640 AAAGTCTTTAGGGTCCAAA-CTGATTGGCAGACTTTAAGAGG--GG
1 AAAGTCTTCAGGGT-CAAAGCCGACAGGCAGAC--TGAG-GGTAGG
* * * *
408683 -CAGTC-TCTAGGGTCAAAGCCAACAAGCAGACTGAGGTTAGG
1 AAAGTCTTC-AGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * **
408724 AAAAT-TTCTAGGGTCAAAACCGATAGGCAGACTTTAGGATAAA
1 AAAGTCTTC-AGGGTCAAAGCCGACAGGCAGAC-TGAGGGTAGG
* * * *
408767 AGAAGTCTTCAAGGTCAAAGCCGATAGGCAGACTTTA-GATGAGG
1 A-AAGTCTTCAGGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * *
408811 -AAGTCTTCAGGGTCAAAGTCGACAGGCGGACTGAGGGTAAG
1 AAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * *
408852 AAAGTC-TCTAAGGTTAAAGTCGATAGGCAGATTGAGGGTAAG
1 AAAGTCTTC-AGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* *
408894 AAAGTC-TCTAGGGTCAAAGGCGACAAGCAGACT
1 AAAGTCTTC-AGGGTCAAAGCCGACAGGCAGACT
408927 TTAGATGAGC
Statistics
Matches: 378, Mismatches: 93, Indels: 54
0.72 0.18 0.10
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 37 0.10
42 230 0.61
43 65 0.17
44 37 0.10
45 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (42 bp):
AAAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
Found at i:408519 original size:43 final size:43
Alignment explanation
Indices: 408471--408577 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
408461 TAAAGGTAGG
* *
408471 AAAGTCTCCAGGGTCAAAGTCAACAAGCAGAC-TGAAGGAGAAG
1 AAAGTCTCCAGGGTCAAAGCCAAC-AGCAGACTTGAAGGAGAAA
* * * * *
408514 GAAGTCTCCAGGGTCGAAGCCGACAGCAGACTTGCAGGTGAAA
1 AAAGTCTCCAGGGTCAAAGCCAACAGCAGACTTGAAGGAGAAA
*
408557 AAAGTCTCCAAGGTCAAAGCC
1 AAAGTCTCCAGGGTCAAAGCC
408578 GATGGCGGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 7 0.13
43 46 0.87
ACGTcount: A:0.36, C:0.22, G:0.28, T:0.13
Consensus pattern (43 bp):
AAAGTCTCCAGGGTCAAAGCCAACAGCAGACTTGAAGGAGAAA
Found at i:408607 original size:127 final size:126
Alignment explanation
Indices: 408388--408634 Score: 297
Period size: 127 Copynumber: 2.0 Consensus size: 126
408378 AAGGTGAAAA
** * *
408388 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTTCAAGGTTAAAACCGAT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCCAAGGTCAAAACCGAT
*
408453 AGGCAGAATAAAGGTAGGAAAGTCTCCAGGGTCAAAGTCAACAAGCAGACTGAAGGAGAAGG
66 AGGCAGAATAAAGGTAGGAAAGTCTCCACGGTCAAAGTCAACAAGCAGACT-AAGGAGAAGG
* * *
408515 AAGTCTCCAGGGTCGAAGCCGACA-GCAGACTTGCA-GGTGAAAAAAGTCTCCAAGGTCAAAGCC
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TG-AGGGT-AAAAAAGTCTCCAAGGTCAAAACC
* * * *
408578 GAT-GGCGGATTGAAA-GTAGGGAAA-TCTCCACGGTCAAAGTCGACAGGCAGACTAAGG
63 GATAGGCAGAAT-AAAGGTA-GGAAAGTCTCCACGGTCAAAGTCAACAAGCAGACTAAGG
408635 GTAAGAAAGT
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
126 10 0.10
127 62 0.60
128 31 0.30
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (126 bp):
AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAAAAAAGTCTCCAAGGTCAAAACCGAT
AGGCAGAATAAAGGTAGGAAAGTCTCCACGGTCAAAGTCAACAAGCAGACTAAGGAGAAGG
Found at i:408673 original size:127 final size:128
Alignment explanation
Indices: 408378--408659 Score: 285
Period size: 127 Copynumber: 2.2 Consensus size: 128
408368 GGAAGACAAA
* * * ** *
408378 AAGGTGAAAAAAGTCTCCAAGGT-CAAAGCCGACAGGCAGAC-TG-AGG-GTAGGAAAGTCTTCA
1 AAGGAGAAGAAAGTCTCCAGGGTCCAAA-CCGACA-GCAGACTTGCAGGTG-AAAAAAGTCTCCA
* *
408439 AGGTTAAAACCGATAGGCAGAATAAAGGTAGGAAAGTCTCCAGGGTCAAAGTCAACAAGCAGACT
63 AGGTCAAAACCGATAGGCAGAATAAAGGTAGGAAAGTCTCCACGGTCAAAGTCAACAAGCAGACT
408504 G
128 G
* * *
408505 AAGGAGAAGGAAGTCTCCAGGGTCGAAGCCGACAGCAGACTTGCAGGTGAAAAAAGTCTCCAAGG
1 AAGGAGAAGAAAGTCTCCAGGGTCCAAACCGACAGCAGACTTGCAGGTGAAAAAAGTCTCCAAGG
* * * * *
408570 TCAAAGCCGAT-GGCGGATTGAAA-GTAGGGAAA-TCTCCACGGTCAAAGTCGACAGGCAGACT-
66 TCAAAACCGATAGGCAGAAT-AAAGGTA-GGAAAGTCTCCACGGTCAAAGTCAACAAGCAGACTG
**
408631 AAGG-GTAAGAAAGTCTTTAGGGTCCAAAC
1 AAGGAG-AAGAAAGTCTCCAGGGTCCAAAC
408660 TGATTGGCAG
Statistics
Matches: 127, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
125 1 0.01
126 28 0.22
127 62 0.49
128 35 0.28
129 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.15
Consensus pattern (128 bp):
AAGGAGAAGAAAGTCTCCAGGGTCCAAACCGACAGCAGACTTGCAGGTGAAAAAAGTCTCCAAGG
TCAAAACCGATAGGCAGAATAAAGGTAGGAAAGTCTCCACGGTCAAAGTCAACAAGCAGACTG
Found at i:408782 original size:211 final size:211
Alignment explanation
Indices: 408391--408926 Score: 525
Period size: 211 Copynumber: 2.5 Consensus size: 211
408381 GTGAAAAAAG
* * *
408391 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTTCAAGGTTAAAACCGATAGG
1 TCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAAGAAAGTCTTCAAGGTCAAAACCGATAGG
* *
408456 CAGAATAAAGGTAGGAAAGTCTCCAGGGTCAAAGTCAACAAGCAGACTGAAGGAGAAGGAAGTCT
66 CAGAATAAAGG-AGGAAAGTCTCCAGGGTCAAAGCCAACAAGCAGACTGAAGGAGAAGGAAATCT
* * *
408521 CCAGGGTCGAAGCCGACAGCAGACTTGCAGGTGAAAAAAGTCTCCAAGGTCAAAGCCGAT-GGCG
130 CCAGGGTCAAAACCGACAGCAGACTTGCAGGTGAAAAAAGTCTCCAAGGTCAAAGCCGATAGGCA
408585 GA-TTGAAA-GTAGGGAAA
195 GACTTGAAATG-A-GGAAA
* * * * * * *
408602 TCTCCACGGTCAAAGTCGACAGGCAGACTAAGGGTAAGAAAGTCTTTAGGGTCCAAACTGATTGG
1 TCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAAGAAAGTCTTCAAGGTCAAAACCGATAGG
* * * **
408667 CAGACTTTAAGAGG-GG-CAGTCTCTAGGGTCAAAGCCAACAAGCAGACTG-AGG-TTAGGAAAA
66 CAGA--ATAA-AGGAGGAAAGTCTCCAGGGTCAAAGCCAACAAGCAGACTGAAGGAGAAGG-AAA
* * * * *
408728 TTTCTAGGGTCAAAACCGATAGGCAGACTT-TAGGAT-AAAAGAAGTCTTCAAGGTCAAAGCCGA
127 TCTCCAGGGTCAAAACCGACA-GCAGACTTGCAGG-TGAAAA-AAGTCTCCAAGGTCAAAGCCGA
* * *
408791 TAGGCAGACTTTAGATGAGGAAG
189 TAGGCAGACTTGAAATGAGGAAA
* * * * **
408814 TCTTCAGGGTCAAAGTCGACAGGCGGACTGAGGGTAAGAAAGTC-TCTAAGGTTAAAGTCGATAG
1 TCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAAGAAAGTCTTC-AAGGTCAAAACCGATAG
* * * * * * *
408878 GCAGATTGAGGGTAAGAAAGTCTCTAGGGTCAAAGGCGACAAGCAGACT
65 GCAGAATAAAGG-AGGAAAGTCTCCAGGGTCAAAGCCAACAAGCAGACT
408927 TTAGATGAGC
Statistics
Matches: 265, Mismatches: 46, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
209 5 0.02
210 31 0.12
211 122 0.46
212 95 0.36
213 8 0.03
214 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (211 bp):
TCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAAGAAAGTCTTCAAGGTCAAAACCGATAGG
CAGAATAAAGGAGGAAAGTCTCCAGGGTCAAAGCCAACAAGCAGACTGAAGGAGAAGGAAATCTC
CAGGGTCAAAACCGACAGCAGACTTGCAGGTGAAAAAAGTCTCCAAGGTCAAAGCCGATAGGCAG
ACTTGAAATGAGGAAA
Found at i:408816 original size:128 final size:126
Alignment explanation
Indices: 408665--408935 Score: 287
Period size: 128 Copynumber: 2.1 Consensus size: 126
408655 CAAACTGATT
* * * *
408665 GGCAGACTTTAAGA-GGGGCAGTC-TCTAGGGTCAAAGCCAACAAGCAGACTGAGGTTAGGAAAA
1 GGCAGACTTT-AGATGAGGAAGTCTTC-AGGGTCAAAGCCAACAAGCAGACTGAGGGTAAGAAAA
* * * *
408728 TTTCTAGGGTCAAAACCGATAGGCAGACTTTAGGATAAAAGAAGTCT-TCAAGGTCAAAGCCGAT
64 TCTCTAAGGTCAAAACCGATAGGCAGA-TTGAGGATAAAA-AAGTCTCT-AAGGTCAAAGCCGAC
408792 A
126 A
* * * * *
408793 GGCAGACTTTAGATGAGGAAGTCTTCAGGGTCAAAGTCGACAGGCGGACTGAGGGTAAGAAAGTC
1 GGCAGACTTTAGATGAGGAAGTCTTCAGGGTCAAAGCCAACAAGCAGACTGAGGGTAAGAAAATC
* ** * * * *
408858 TCTAAGGTTAAAGTCGATAGGCAGATTGAGGGTAAGAAAGTCTCTAGGGTCAAAGGCGACA
66 TCTAAGGTCAAAACCGATAGGCAGATTGAGGATAAAAAAGTCTCTAAGGTCAAAGCCGACA
*
408919 AGCAGACTTTAGATGAG
1 GGCAGACTTTAGATGAG
408936 CCAGTATCCA
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
126 35 0.29
127 13 0.11
128 69 0.58
129 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (126 bp):
GGCAGACTTTAGATGAGGAAGTCTTCAGGGTCAAAGCCAACAAGCAGACTGAGGGTAAGAAAATC
TCTAAGGTCAAAACCGATAGGCAGATTGAGGATAAAAAAGTCTCTAAGGTCAAAGCCGACA
Found at i:409103 original size:43 final size:42
Alignment explanation
Indices: 408996--409172 Score: 196
Period size: 43 Copynumber: 4.1 Consensus size: 42
408986 CTCCATAGGA
* *
408996 AGACTTTAGATGAGAGGCAGTCTTTAAGGTCAAAGCCGATAGGC
1 AGACTTTAGAT--GAGGCAGTCTCTAAGGTCAAAGCCGACAGGC
* * * * *
409040 AAAC-TGAG-GGTAGGAAAGTCTCCTAGGGTCAAAGCCGACAGGC
1 AGACTTTAGATG-AGG-CAGTCT-CTAAGGTCAAAGCCGACAGGC
* *
409083 AGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCTGACAGGGC
1 AGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGACA-GGC
*
409126 AGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCTGACAGGC
1 AGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGC
409168 AGACT
1 AGACT
409173 AAGGGTAGGA
Statistics
Matches: 112, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 28 0.25
43 70 0.62
44 9 0.08
45 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (42 bp):
AGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGC
Found at i:411183 original size:13 final size:13
Alignment explanation
Indices: 411165--411190 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
411155 CATTATTCAA
411165 TGTATCGATACAT
1 TGTATCGATACAT
411178 TGTATCGATACAT
1 TGTATCGATACAT
411191 GGATCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:415292 original size:1 final size:1
Alignment explanation
Indices: 415281--415361 Score: 81
Period size: 1 Copynumber: 81.0 Consensus size: 1
415271 ACACACAAAC
* * * * * * *
415281 AAAAAACAAAAAACAAAAAAAAAAACAAAACAAAAAAAACAAAACAAAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
415346 CAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAA
415362 GAGAGAGTGC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:415294 original size:14 final size:13
Alignment explanation
Indices: 415277--415359 Score: 107
Period size: 14 Copynumber: 6.2 Consensus size: 13
415267 GTAAACACAC
415277 AAACAAAAAACAAA
1 AAACAAAAAA-AAA
415291 AAAC-AAAAAAAA
1 AAACAAAAAAAAA
415303 AAACAAAACAAAAA
1 AAACAAAA-AAAAA
415317 AAACAAAACAAAAA
1 AAACAAAA-AAAAA
*
415331 AAA-AAAAAAACA
1 AAACAAAAAAAAA
415343 AAACAAAACAAAAA
1 AAACAAAA-AAAAA
415357 AAA
1 AAA
415360 AAGAGAGAGT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
12 14 0.22
13 16 0.25
14 33 0.52
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:415306 original size:26 final size:26
Alignment explanation
Indices: 415277--415358 Score: 123
Period size: 26 Copynumber: 3.1 Consensus size: 26
415267 GTAAACACAC
415277 AAACAAAAAACAAAAAACAAAA-AAAA
1 AAACAAAAAA-AAAAAACAAAACAAAA
415303 AAACAAAACAAAAAAAACAAAACAAAA
1 AAACAAAA-AAAAAAAACAAAACAAAA
415330 AAA-AAAAAAAACAAAACAAAACAAAA
1 AAACAAAAAAAA-AAAACAAAACAAAA
415356 AAA
1 AAA
415359 AAAGAGAGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
25 4 0.08
26 40 0.75
27 9 0.17
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (26 bp):
AAACAAAAAAAAAAAACAAAACAAAA
Found at i:415315 original size:31 final size:30
Alignment explanation
Indices: 415277--415361 Score: 117
Period size: 31 Copynumber: 2.9 Consensus size: 30
415267 GTAAACACAC
415277 AAACAAAAAACAAAAAACAAAAAAAAAAACA
1 AAACAAAAAACAAAAAACAAAAAAAAAAA-A
415308 AAACAAAAAA-AACAAAACAAAAAAAAAAAA
1 AAACAAAAAACAA-AAAACAAAAAAAAAAAA
415338 AAAC--AAAAC--AAAACAAAAAAAAAA
1 AAACAAAAAACAAAAAACAAAAAAAAAA
415362 GAGAGAGTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
26 15 0.29
28 4 0.08
30 7 0.13
31 26 0.50
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (30 bp):
AAACAAAAAACAAAAAACAAAAAAAAAAAA
Found at i:415321 original size:40 final size:40
Alignment explanation
Indices: 415277--415359 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
415267 GTAAACACAC
415277 AAACAAAA-AACAAAAAACAAAAAAA-AAAACAAAACAAAAA
1 AAACAAAACAA-AAAAAA-AAAAAAACAAAACAAAACAAAAA
415317 AAACAAAACAAAAAAAAAAAAAAACAAAACAAAACAAAAA
1 AAACAAAACAAAAAAAAAAAAAAACAAAACAAAACAAAAA
415357 AAA
1 AAA
415360 AAGAGAGAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
39 7 0.17
40 32 0.78
41 2 0.05
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (40 bp):
AAACAAAACAAAAAAAAAAAAAAACAAAACAAAACAAAAA
Found at i:416723 original size:32 final size:32
Alignment explanation
Indices: 416640--417615 Score: 756
Period size: 30 Copynumber: 31.1 Consensus size: 32
416630 CAAATCTCTT
* *
416640 TTCAAAGTCCACAACTCAGTGGCAT-CTATT-
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* *
416670 TTCTAAGTCCACGTCTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* *
416702 TTCAAAGTCCACAACTAAGTGGCATCTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
*
416735 -T--AAGTCCATGACTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* * *
416764 TTCCAAGTCCATGACTCAGTGGCATCTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* * *
416796 TTCTAAGTCCACGACACAGTGGCATCTTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
* * *
416829 TTCAAAGTCCACAACTCATTGGCATTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* *
416861 TTCCAAGTCCACGACTCAGTGGCATCTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* * * * *
416893 TTCCAAGTCTATGACACAGTGGCATCTTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
* * *
416926 TTCAAAGTCCACAACTCATTGGCAT-CTCTT-
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* *
416956 TGCAAAGTCCACAACTCAGTGGCATCTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
* *
416989 -T--AAGTCCACGACACAGTGGCATCTTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
* * *
417019 TTCAAAGTCCACAACTTAGTGGCATCATTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* **
417051 TTCCAAGTCCACGACTCAGTGGCATATTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* * *
417083 TTCCAAGTCCACGACACAGTGGCATCTTTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC--CTTTTC
*
417117 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
*
417150 -T--AAGTCCACGACTCAGTGGCATCCTTTTT
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* *
417179 TTCCAAGTCCACAACTCAGTGGCAT--TTCTT-
1 TTCAAAGTCCACGACTCAGTGGCATCCTT-TTC
* * ** *
417209 TCCCATTTCCACAACTCAGTGGCAT-CTCTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCT-TTTC
* *
417241 --CCAAGTCCACAACTCAGTGGCAT-CTCTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCT-TTTC
*
417271 -CCAAAGTCCACGACTCAGTGGCATCTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
*
417303 --CAAAGTCCACGACTCAGCGGCATCTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
*
417334 -T--AAGTCCACGACTCAGTGGCAT-CATTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* *
417362 TTCAAAGTCCATGACTCAGTGGCATCTTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
* * * *
417395 TTCAAAAATCCATGACTTAGTAGCAT-CTTTTC
1 TTC-AAAGTCCACGACTCAGTGGCATCCTTTTC
* * *
417427 --CAAAAGTCCATGACTCCGTGGCA-CTTTTTCC
1 TTC-AAAGTCCACGACTCAGTGGCATCCTTTT-C
** * * *
417458 TTTTAGGTCCACAACTCCA-TGGCATTCTTTTTCC
1 TTCAAAGTCCACGACT-CAGTGGCA-TCCTTTT-C
** *
417492 TTTTAAGTCCACAACTCAGTGGCAT-CTCTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCT-TTTC
** * *
417524 --CCTAGTCCACAACTCAATGGCAT-CTCTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCT-TTTC
* *
417554 -CCAAAGTCCATGACTCAGTGGCATCTCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATC-CTTTTC
* *
417586 -T--AAGTCCACGACTCCGTGGCA-CTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
417614 TT
1 TT
417616 TTTAAGCCCA
Statistics
Matches: 795, Mismatches: 105, Indels: 93
0.80 0.11 0.09
Matches are distributed among these distances:
28 10 0.01
29 14 0.02
30 252 0.32
31 103 0.13
32 239 0.30
33 101 0.13
34 76 0.10
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.34
Consensus pattern (32 bp):
TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
Found at i:416737 original size:62 final size:62
Alignment explanation
Indices: 416640--417614 Score: 744
Period size: 62 Copynumber: 15.5 Consensus size: 62
416630 CAAATCTCTT
* *
416640 TTCAAAGTCCACAACTCAGTGGCATCTATTTTCTAAGTCCACGTCTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTC
* *
416702 TTCAAAGTCCACAACTAAGTGGCATCTCTTTTCTAAGTCCATGACTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTC
* ** * * *
416764 TTCCAAGTCCATGACTCAGTGGCATCTTTTTCTTCTAAGTCCACGACACAGTGGCATCTTTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATC-TCTT-TTCTAAGTCCACGACTCAGTGGCATC-CTTTTC
* *
416829 TTCAAAGTCCACAACTCATTGGCAT-TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTC-T--AAGTCCACGACTCAGTGGCATCCTTTTC
* * ** * * * * *
416893 TTCCAAGTCTATGACACAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCATTGGCAT-CTCTT-
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTC-T--AAGTCCACGACTCAGTGGCATCCTTTTC
* * *
416956 TGCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACACAGTGGCATCTTTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATC-CTTTTC
* * * **
417019 TTCAAAGTCCACAACTTAGTGGCATCATTTTCTTCCAAGTCCACGACTCAGTGGCATATTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATC-TCTT-TTCTAAGTCCACGACTCAGTGGCATCCTTTTC
* * * * *
417083 TTCCAAGTCCACGACACAGTGGCATCTTTTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTT
1 TTCAAAGTCCACAACTCAGTGGCATC-TCTTTTC-T--AAGTCCACGACTCAGTGGCATC-CTTT
417148 TC
61 TC
* * * *
417150 -T--AAGTCCACGACTCAGTGGCATCCTTTTTTTCCAAGTCCACAACTCAGTGGCAT--TTCTT-
1 TTCAAAGTCCACAACTCAGTGGCAT-C-TCTTTTCTAAGTCCACGACTCAGTGGCATCCTT-TTC
* * ** * * *
417209 TCCCATTTCCACAACTCAGTGGCATCTCTTTCCCAAGTCCACAACTCAGTGGCAT-CTCTTTC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCT-TTTC
* * * *
417271 -CCAAAGTCCACGACTCAGTGGCATCTCTTTTCCAAAGTCCACGACTCAGCGGCATCTCTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTT-CTAAGTCCACGACTCAGTGGCATC-CTTTTC
* * * *
417334 -T--AAGTCCACGACTCAGTGGCATCAT-TTCTTCAAAGTCCATGACTCAGTGGCATCTTTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATC-TCTT-TTCTAAGTCCACGACTCAGTGGCATC-CTTTTC
* ** * * * * * * *
417395 TTCAAAAATCCATGACTTAGTAGCATCT-TTTCCAAAAGTCCATGACTCCGTGGCA-CTTTTTCC
1 TTC-AAAGTCCACAACTCAGTGGCATCTCTTTTC-TAAGTCCACGACTCAGTGGCATCCTTTT-C
** * *
417458 TTTTAGGTCCACAACTCCA-TGGCAT-TCTTTTTCCTTTTAAGTCCACAACTCAGTGGCAT-CTC
1 TTCAAAGTCCACAACT-CAGTGGCATCTC-TTTT-C---TAAGTCCACGACTCAGTGGCATCCT-
417520 TTTC
59 TTTC
** * * * *
417524 --CCTAGTCCACAACTCAATGGCATCTCTTTCCCAAAGTCCATGACTCAGTGGCATCTCTTTTC
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTT-TCTAAGTCCACGACTCAGTGGCATC-CTTTTC
* *
417586 -T--AAGTCCACGACTCCGTGGCA-CT-TTTTCT
1 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCT
417615 TTTTAAGCCC
Statistics
Matches: 752, Mismatches: 112, Indels: 102
0.78 0.12 0.11
Matches are distributed among these distances:
58 1 0.00
59 5 0.01
60 49 0.07
61 118 0.16
62 173 0.23
63 78 0.10
64 153 0.20
65 127 0.17
66 40 0.05
67 8 0.01
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.34
Consensus pattern (62 bp):
TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTC
Found at i:417421 original size:34 final size:33
Alignment explanation
Indices: 416684--417425 Score: 222
Period size: 32 Copynumber: 23.5 Consensus size: 33
416674 AAGTCCACGT
* * * **
416684 CTCAGTGGCATC-CTTTTCTTCAAAGTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * *
416716 CTAAGTGGCATCTCTTTTC-T--AAGTCCATGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * *
416746 CTCAGTGGCATC-CTTTTCTTCCAAGTCCATGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * *
416778 CTCAGTGGCATC-TTTTTCTTCTAAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * **
416810 CACAGTGGCATCTTTTTTCTTCAAAGTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * * * *
416843 CTCATTGGCAT-TCTTTTCTTCCAAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * *
416875 CTCAGTGGCATC-TTTTTCTTCCAAGTCTATGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * **
416907 CACAGTGGCATCTTTTTTCTTCAAAGTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * * * **
416940 CTCATTGGCATC--TCTT-TGCAAAGTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * *
416970 CTCAGTGGCATCTCTTTTC-T--AAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * **
417000 CACAGTGGCATCTTTTTTCTTCAAAGTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * * * *
417033 CTTAGTGGCATC-ATTTTCTTCCAAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * * *
417065 CTCAGTGGCAT-ATTTTTCTTCCAAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * **
417097 CACAGTGGCATCTTTTTTTCTTCAAAGTCCACAA
1 CTCAGTAGCATC-TTTTTTCTTCAAAATCCATGA
* * * *
417131 CTCAGTGGCATCTCTTTTC-T--AAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * * **
417161 CTCAGTGGCATCCTTTTT-TTCCAAGTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * ** **
417193 CTCAGTGGCAT-TTCTTTC--CCATTTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * * **
417223 CTCAGTGGCATC-TCTTTC--CCAAGTCCACAA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * * *
417253 CTCAGTGGCATC-TCTTTC-CCAAAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * * *
417284 CTCAGTGGCATCTCTTTTC--CAAAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
** * * *
417315 CTCAGCGGCATCTCTTTTC-T--AAGTCCACGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
* * *
417345 CTCAGTGGCATC--ATTTCTTCAAAGTCCATGA
1 CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
*
417376 CTCAGTGGCATCTTTTTTCTTCAAAAATCCATGA
1 CTCAGTAGCATCTTTTTTCTTC-AAAATCCATGA
*
417410 CTTAGTAGCATCTTTT
1 CTCAGTAGCATCTTTT
417426 CCAAAAGTCC
Statistics
Matches: 610, Mismatches: 70, Indels: 58
0.83 0.09 0.08
Matches are distributed among these distances:
28 4 0.01
29 7 0.01
30 172 0.28
31 81 0.13
32 202 0.33
33 91 0.15
34 53 0.09
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (33 bp):
CTCAGTAGCATCTTTTTTCTTCAAAATCCATGA
Found at i:417488 original size:34 final size:33
Alignment explanation
Indices: 417430--417767 Score: 222
Period size: 34 Copynumber: 10.8 Consensus size: 33
417420 TCTTTTCCAA
** *
417430 AAGTCCATGACTCCGTGGCA-CTTTTTCCTTTT
1 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
*
417462 AGGTCCACAACTCCATGGCATTCTTTTTCCTTTT
1 AAGTCCACAACTCCATGGCA-TCTTTTTCCTTTT
* *
417496 AAGTCCACAACT-CAGTGGCATCTCTTTCC--CT
1 AAGTCCACAACTCCA-TGGCATCTTTTTCCTTTT
* * **
417527 -AGTCCACAACTCAATGGCATCTCTTTCC--CA
1 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
**
417557 AAGTCCATGACT-CAGTGGCATCTCTTTT-C---T
1 AAGTCCACAACTCCA-TGGCATCT-TTTTCCTTTT
* * *
417587 AAGTCCACGACTCCGTGGCA-CTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
* * *
417619 AAGCCCATAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCATGGCA-TCTTTTTCCTTTT
*
417653 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
* *
417680 AAGTCAACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
*
417707 AAGTCCACAACTCCATGGCCCTCTTTTTCCTTTT
1 AAGTCCACAACTCCATGG-CATCTTTTTCCTTTT
* *
417741 AAGTCCACAACTTCGTGGCACTCTTTT
1 AAGTCCACAACTCCATGGCA-TCTTTT
417768 AAGCCTACAA
Statistics
Matches: 254, Mismatches: 30, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
27 48 0.19
28 5 0.02
29 3 0.01
30 43 0.17
31 21 0.08
32 38 0.15
33 11 0.04
34 85 0.33
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (33 bp):
AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
Found at i:417567 original size:157 final size:155
Alignment explanation
Indices: 416633--417672 Score: 656
Period size: 157 Copynumber: 6.6 Consensus size: 155
416623 AATTCTCCAA
* * * **
416633 ATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTATTTT-C---TAAGTCCACGTCT-CAGTGGC
1 ATCTCTTTCCAAAGTCCACGACTCCGTGGCA-CT-TTTTCCTTTTAAGTCCACAACTCCA-TGGC
* ** * ** **
416693 ATCCTTTT-CTTCAAAGTCCACAACTAAGTGGCATCTCTTTTCTAAGTCCATGACTCAGTGGCAT
63 ATCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCTC-TTTCCCAGTCCACAACTCAGTGGCAT
416757 C-CTTTTCTTCC-AAGTCCATGACTCAGTGGC
127 CTC-TTTC--CCAAAGTCCATGACTCAGTGGC
* * * * * **
416787 ATCTTTTTCTTCTAAGTCCACGACACAGTGGCATCTTTTTTCTTCAAAGTCCACAACT-CATTGG
1 ATCTCTTTC--CAAAGTCCACGACTCCGTGGCA-CTTTTTCCTTTTAAGTCCACAACTCCA-TGG
** * * * ** *
416851 CAT-TCTTTT-CTTCCAAGTCCACGACTCAGTGGCATCTTTTTCTTCCAAGTCTATGACACAGTG
62 CATCT-TTTTCCTTTTAAGTCCACAACTCAGTGGCATCTCTTTC--CC-AGTCCACAACTCAGTG
* * ** *
416914 GCATCTTTTTTCTTCAAAGTCCACAACTCATTGGC
123 GCATC-TCTTTC-CCAAAGTCCATGACTCAGTGGC
* * * * *
416949 ATCTCTTTGCAAAGTCCACAACTCAGTGGCATCTCTTTT-C---TAAGTCCACGAC-ACAGTGGC
1 ATCTCTTTCCAAAGTCCACGACTCCGTGGCA-CT-TTTTCCTTTTAAGTCCACAACTCCA-TGGC
* ** * *
417009 ATCTTTTTTCTTCAAAGTCCACAACTTAGTGGCATCAT-TTTCTTCCAAGTCCACGACTCAGTGG
63 ATCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATC-TCTTTC--CC-AGTCCACAACTCAGTGG
* * * *
417073 CATATTTTTCTTCC-AAGTCCACGACACAGTGGC
124 CATCTCTTTC--CCAAAGTCCATGACTCAGTGGC
* * * *
417106 ATCTTTTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTTTT-C---TAAGTCCACGACT-CAG
1 ATC--TCTTTC--CAAAGTCCACGACTCCGTGGCA-CT-TTTTCCTTTTAAGTCCACAACTCCA-
** * *
417166 TGGCATCCTTTTT--TTCCAAGTCCACAACTCAGTGGCATTTCTTTCCCATTTCCACAACTCAGT
59 TGGCAT-CTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCTCTTTCCCA-GTCCACAACTCAGT
**
417229 GGCATCTCTTTCCC-AAGTCCACAACTCAGTGGC
122 GGCATCTCTTTCCCAAAGTCCATGACTCAGTGGC
* * * *
417262 ATCTCTTTCCCAAAGTCCACGACTCAGTGGCATCTCTTTTCC---AAAGTCCACGACT-CAGCGG
1 ATCTCTTT-CCAAAGTCCACGACTCCGTGGCA-CT-TTTTCCTTTTAAGTCCACAACTCCA-TGG
* * ** **
417323 CATCTCTTTT-C---TAAGTCCACGACTCAGTGGCATCATTTCTTCAAAGTCCATGACTCAGTGG
62 CATCT-TTTTCCTTTTAAGTCCACAACTCAGTGGCATC-TCT-TTCCCAGTCCACAACTCAGTGG
* * * * *
417384 CATCTTTTTTCTTCAAAAATCCATGACTTAGTAGC
124 CATC-TCTTTC--CCAAAGTCCATGACTCAGTGGC
* *
417419 ATCT-TTTCCAAAAGTCCATGACTCCGTGGCACTTTTTCCTTTTAGGTCCACAACTCCATGGCAT
1 ATCTCTTTCC-AAAGTCCACGACTCCGTGGCACTTTTTCCTTTTAAGTCCACAACTCCATGGCA-
*
417483 TCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCTCTTTCCCTAGTCCACAACTCAATGGCATC
64 TCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCTCTTTCCC-AGTCCACAACTCAGTGGCATC
417548 TCTTTCCCAAAGTCCATGACTCAGTGGC
128 TCTTTCCCAAAGTCCATGACTCAGTGGC
* * * * * *
417576 ATCTCTTTTCTAAGTCCACGACTCCGTGGCACTTTTTCTTTTTAAGCCCATAACTCCGTGGCACT
1 ATCTCTTTCCAAAGTCCACGACTCCGTGGCACTTTTTCCTTTTAAGTCCACAACTCCATGGCA-T
*
417641 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
65 CTTTTTCCTTTTAAGTCCACAACTCAGTGGCA
417673 CCCTTTTAAG
Statistics
Matches: 736, Mismatches: 101, Indels: 95
0.79 0.11 0.10
Matches are distributed among these distances:
152 20 0.03
153 50 0.07
154 51 0.07
155 9 0.01
156 68 0.09
157 184 0.25
158 91 0.12
159 61 0.08
160 70 0.10
161 99 0.13
162 33 0.04
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (155 bp):
ATCTCTTTCCAAAGTCCACGACTCCGTGGCACTTTTTCCTTTTAAGTCCACAACTCCATGGCATC
TTTTTCCTTTTAAGTCCACAACTCAGTGGCATCTCTTTCCCAGTCCACAACTCAGTGGCATCTCT
TTCCCAAAGTCCATGACTCAGTGGC
Found at i:417633 original size:32 final size:32
Alignment explanation
Indices: 417586--417922 Score: 161
Period size: 34 Copynumber: 10.7 Consensus size: 32
417576 ATCTCTTTTC
* * *
417586 TAAGTCCACGACTCCGTGGCACTTTTTCTTTT
1 TAAGCCCACAACTCCGTGGCACTTTTTCCTTT
*
417618 TAAGCCCATAACTCCGTGGCACTCTTTTTCCTTT
1 TAAGCCCACAACTCCGTGGCA--CTTTTTCCTTT
*
417652 TAAGTCCACAACTCCGTGGCAC-----CCTTT
1 TAAGCCCACAACTCCGTGGCACTTTTTCCTTT
* *
417679 TAAGTCAACAACTCCGTGGCAC-----CCTTT
1 TAAGCCCACAACTCCGTGGCACTTTTTCCTTT
* * *
417706 TAAGTCCACAACTCCATGGCCCTCTTTTTCCTTT
1 TAAGCCCACAACTCCGTGG--CACTTTTTCCTTT
* *
417740 TAAGTCCACAACTTCGTGGCAC----T-CTTT
1 TAAGCCCACAACTCCGTGGCACTTTTTCCTTT
* * *
417767 TAAGCCTACAACTCCGTGCCACTCCTTTTCCATT
1 TAAGCCCACAACTCCGTGGCACT--TTTTCCTTT
* * * * *
417801 TAAGCCCACACCTCCTTAGCATCCCTTTTTTC-TG
1 TAAGCCCACAACTCCGTGGCA---CTTTTTCCTTT
* * * * *
417835 TAAGTCAACAACTCTGTGCCACCTGTTT-CTTT
1 TAAGCCCACAACTCCGTGGCA-CTTTTTCCTTT
* *
417867 TCAAAGCCCATAACTCCGTGGCATCTTTAT-CTTT
1 T--AAGCCCACAACTCCGTGGCA-CTTTTTCCTTT
* * *
417901 TAAGTCCAAAACTCTGTGGCAC
1 TAAGCCCACAACTCCGTGGCAC
417923 CCCCTTCTAA
Statistics
Matches: 238, Mismatches: 45, Indels: 45
0.73 0.14 0.14
Matches are distributed among these distances:
27 70 0.29
28 1 0.00
29 2 0.01
31 2 0.01
32 46 0.19
33 1 0.00
34 109 0.46
35 5 0.02
37 2 0.01
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (32 bp):
TAAGCCCACAACTCCGTGGCACTTTTTCCTTT
Found at i:417643 original size:61 final size:61
Alignment explanation
Indices: 417464--417922 Score: 237
Period size: 61 Copynumber: 7.3 Consensus size: 61
417454 TTCCTTTTAG
* * * *
417464 GTCCACAACTCCATGGCATTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCTCTTTCCCT-A
1 GTCCACAACTCCGTGGCA--CTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-CTCTTT-TCTAA
** * ** * ** *
417528 GTCCACAACTCAATGGCATCTCTTTCC--CAAAGTCCATGACTCAGTGGCATCTCTTTTCTAA
1 GTCCACAACTCCGTGGCA-CTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-CTCTTTTCTAA
* * *
417589 GTCCACGACTCCGTGGCACTTTTTCTTTTTAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTA
1 GTCCACAACTCCGTGGCACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC-TTTT-C---TA
417654 A
61 A
* * *
417655 GTCCACAACTCCGTGGCAC-----CCTTTTAAGTCAACAACTCCGTGGCAC-CCTTT-TAA
1 GTCCACAACTCCGTGGCACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCTAA
* * * *
417709 GTCCACAACTCCATGGCCCTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACTC-TTT-TAA
1 GTCCACAACTCCGTGG--CACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCTAA
* * * * * *
417770 G-CCTACAACTCCGTGCCACTCCTTTTCCATTTAAGCCCACACCTCCTTAGCATCCCTTTTTTCT
1 GTCC-ACAACTCCGTGGCACT--TTTTCCTTTTAAGCCCACAACTCCGTGGCA---CTCTTTTC-
417834 GTAA
59 -TAA
* * * * *
417838 GTCAACAACTCTGTGCCACCTGTTT-CTTTTCAAAGCCCATAACTCCGTGGCA-TCTTTATCTTT
1 GTCCACAACTCCGTGGCA-CTTTTTCCTTTT--AAGCCCACAACTCCGTGGCACTCTTT-TC---
417901 TAA
59 TAA
* *
417904 GTCCAAAACTCTGTGGCAC
1 GTCCACAACTCCGTGGCAC
417923 CCCCTTCTAA
Statistics
Matches: 313, Mismatches: 50, Indels: 63
0.73 0.12 0.15
Matches are distributed among these distances:
54 18 0.06
56 2 0.01
59 6 0.02
60 11 0.04
61 133 0.42
62 22 0.07
63 9 0.03
64 23 0.07
65 6 0.02
66 44 0.14
67 3 0.01
68 33 0.11
69 3 0.01
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (61 bp):
GTCCACAACTCCGTGGCACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCTAA
Found at i:417647 original size:191 final size:190
Alignment explanation
Indices: 416633--417672 Score: 836
Period size: 191 Copynumber: 5.5 Consensus size: 190
416623 AATTCTCCAA
* * **
416633 ATCTCTTTTC--AAAGTCCACAACTCAGTGGCATCTATT-TTCTAAGTCCACGTCTCAGTGGCAT
1 ATCTCTTTTCTTAAAGTCCACAACTCAGTGGCAT-TTTTCTTCCAAGTCCACAACTCAGTGGCAT
* * * **
416695 CCTTTT-CTTCAAAGTCCACAACT-AAGTGGCATCTCTTTT-C-T--AAGTCCATGACTCAGTGG
65 CTTTTTCCTTCTAAGTCCACAACTCCAGTGGCATCT-TTTTCCTTCAAAGTCCACAACTCAGTGG
* ** * * * *
416754 CATC-CTTTTCTTCCAAGTCCATGACTCAGTGGCATCTTTTTCTTCTAAGTCCACGACACAGTGG
129 CATCTC-TTTC--CTAAGTCCACAACTCAGTGGCATCTCTTTC-CCAAAGTCCACGACTCAGTGG
416818 C
190 C
* * *
416819 ATCTTTTTTCTTCAAAGTCCACAACTCATTGGCATTCTTTTCTTCCAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTT-AAAGTCCACAACTCAGTGGCA-T-TTTTCTTCCAAGTCCACAACTCAGTGGC
* * ** * * *
416884 ATCTTTTT-CTTCCAAGTCTATGAC-ACAGTGGCATCTTTTTTCTTCAAAGTCCACAACTCATTG
63 ATCTTTTTCCTTCTAAGTCCACAACTCCAGTGGCATCTTTTTCCTTCAAAGTCCACAACTCAGTG
* * * * *
416947 GCATCTCTTTGCAAAGTCCACAACTCAGTGGCATCTCTTT-TCTAAGTCCACGACACAGTGGC
128 GCATCTCTTTCCTAAGTCCACAACTCAGTGGCATCTCTTTCCCAAAGTCCACGACTCAGTGGC
* * *
417009 ATCTTTTTTCTTCAAAGTCCACAACTTAGTGGCATCATTTTCTTCCAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTT-AAAGTCCACAACTCAGTGGCAT--TTTTCTTCCAAGTCCACAACTCAGTGGC
* * * * *
417074 ATATTTTT-CTTCCAAGTCCACGAC-ACAGTGGCATCTTTTTTTCTTCAAAGTCCACAACTCAGT
63 ATCTTTTTCCTTCTAAGTCCACAACTCCAGTGGCATC-TTTTTCCTTCAAAGTCCACAACTCAGT
* * * * *
417137 GGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTTTTCC-AAGTCCACAACTCAGTGG
127 GGCATCTCTTTCCTAAGTCCACAACTCAGTGGCAT-C-TCTTTCCCAAAGTCCACGACTCAGTGG
417201 C
190 C
* ** **
417202 ATTTC-TTTC-CCATTTCCACAACTCAGTGGCATCTCTTTC--CCAAGTCCACAACTCAGTGGCA
1 ATCTCTTTTCTTAAAGTCCACAACTCAGTGGCAT-T-TTTCTTCCAAGTCCACAACTCAGTGGCA
* * * * *
417263 TCTCTTTCC--CAAAGTCCACGACT-CAGTGGCATCTCTTTT-C--CAAAGTCCACGACTCAGCG
64 TCTTTTTCCTTCTAAGTCCACAACTCCAGTGGCATCT-TTTTCCTTCAAAGTCCACAACTCAGTG
* * * * *
417322 GCATCTCTTTTCTAAGTCCACGACTCAGTGGCATC-ATTTCTTCAAAGTCCATGACTCAGTGGC
128 GCATCTCTTTCCTAAGTCCACAACTCAGTGGCATCTCTTTC-CCAAAGTCCACGACTCAGTGGC
* * ** * * * ** *
417385 ATCTTTTTTCTTCAAAAATCCATGACTTAGTAGCATCTTTTC--CAAAAGTCCATGACTCCGTGG
1 ATCTCTTTTCTT--AAAGTCCACAACTCAGTGGCAT-TTTTCTTC-CAAGTCCACAACTCAGTGG
* * **
417448 CA-CTTTTTCCTTTTAGGTCCACAACTCCA-TGGCATTCTTTTTCCTTTTAAGTCCACAACTCAG
62 CATCTTTTTCCTTCTAAGTCCACAACTCCAGTGGCA-TCTTTTTCCTTCAAAGTCCACAACTCAG
* *
417511 TGGCATCTCTTTCCCT-AGTCCACAACTCAATGGCATCTCTTTCCCAAAGTCCATGACTCAGTGG
126 TGGCATCTCTTT-CCTAAGTCCACAACTCAGTGGCATCTCTTTCCCAAAGTCCACGACTCAGTGG
417575 C
190 C
* * ** * * *
417576 ATCTCTTTTC-T-AAGTCCACGACTCCGTGGCACTTTTTCTTTTTAAGCCCATAACTCCGTGGCA
1 ATCTCTTTTCTTAAAGTCCACAACTCAGTGGCA-TTTTTC-TTCCAAGTCCACAACTCAGTGGCA
*
417639 CTCTTTTTCCTTTTAAGTCCACAACTCC-GTGGCA
64 -TCTTTTTCCTTCTAAGTCCACAACTCCAGTGGCA
417673 CCCTTTTAAG
Statistics
Matches: 720, Mismatches: 91, Indels: 81
0.81 0.10 0.09
Matches are distributed among these distances:
181 3 0.00
182 1 0.00
183 21 0.03
184 55 0.08
186 23 0.03
187 80 0.11
188 46 0.06
189 47 0.07
190 146 0.20
191 213 0.30
192 37 0.05
193 24 0.03
194 23 0.03
195 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (190 bp):
ATCTCTTTTCTTAAAGTCCACAACTCAGTGGCATTTTTCTTCCAAGTCCACAACTCAGTGGCATC
TTTTTCCTTCTAAGTCCACAACTCCAGTGGCATCTTTTTCCTTCAAAGTCCACAACTCAGTGGCA
TCTCTTTCCTAAGTCCACAACTCAGTGGCATCTCTTTCCCAAAGTCCACGACTCAGTGGC
Found at i:417677 original size:27 final size:27
Alignment explanation
Indices: 417647--417795 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 27
417637 CACTCTTTTT
417647 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
417674 CCTTTTAAGTCAACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
417701 CCTTTTAAGTCCACAACTCCATGGCCCTC
1 CCTTTTAAGTCCACAACTCCGTGG--CAC
*
417730 TTTTTCCTTTTAAGTCCACAACTTCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
417762 TCTTTTAAG-CCTACAACTCCGTGCCAC
1 CCTTTTAAGTCC-ACAACTCCGTGGCAC
417789 TCCTTTT
1 -CCTTTT
417796 CCATTTAAGC
Statistics
Matches: 102, Mismatches: 11, Indels: 17
0.78 0.08 0.13
Matches are distributed among these distances:
26 2 0.02
27 69 0.68
28 5 0.05
29 2 0.02
32 2 0.02
34 22 0.22
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:417740 original size:88 final size:89
Alignment explanation
Indices: 417615--417795 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 89
417605 CACTTTTTCT
* *
417615 TTTTAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
417680 AAGTCAACAACTCCGTGGCAC-CC
66 AAGCCAACAACTCCGTGCCACTCC
* * * *
417703 TTTTAAGTCCACAACTCCATGGCCCTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACTCTTTT
1 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
*
417768 AAGCCTACAACTCCGTGCCACTCC
66 AAGCCAACAACTCCGTGCCACTCC
417792 TTTT
1 TTTT
417796 CCATTTAAGC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 77 0.93
89 6 0.07
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (89 bp):
TTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
AAGCCAACAACTCCGTGCCACTCC
Found at i:417952 original size:32 final size:30
Alignment explanation
Indices: 417916--417995 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 30
417906 CCAAAACTCT
*
417916 GTGGCACCCCCTTCTAAAGCCCATACAAGTCG
1 GTGGCA-CCCCTTCTAAAG-CCACACAAGTCG
**
417948 GTGGCAACCATTCTCTAAAGCCACACAAGTCG
1 GTGGC-ACCCCT-TCTAAAGCCACACAAGTCG
*
417980 GTGGCAACCCTTCTAA
1 GTGGCACCCCTTCTAA
417996 GACCAATGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
30 5 0.12
31 3 0.08
32 24 0.60
33 8 0.20
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.20
Consensus pattern (30 bp):
GTGGCACCCCTTCTAAAGCCACACAAGTCG
Found at i:417966 original size:33 final size:32
Alignment explanation
Indices: 417928--417993 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
417918 GGCACCCCCT
*
417928 TCTAAAGCCCATACAAGTCGGTGGCAACCATTC
1 TCTAAAG-CCACACAAGTCGGTGGCAACCATTC
*
417961 TCTAAAGCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCACACAAGTCGGTGGCAACCATTC
417993 T
1 T
417994 AAGACCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 24 0.77
33 7 0.23
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (32 bp):
TCTAAAGCCACACAAGTCGGTGGCAACCATTC
Found at i:418155 original size:49 final size:49
Alignment explanation
Indices: 418045--418588 Score: 533
Period size: 49 Copynumber: 11.3 Consensus size: 49
418035 GTCCAATATT
*
418045 GCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTCAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT-AAGACCAATGTC
*
418095 GCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* * * *
418144 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCTAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* ** *
418187 GCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTT
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* * * *
418236 GCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
** *
418279 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTGAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* * * * *
418328 GCTGGCCTTAAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* * *
418377 GCTAGCCTTGAATCGGCATATTGGCACCTTTATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* * ** *
418426 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTGATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* * * * *
418475 GTTGGCCTTGAATCAACATATTGGCATCTTTAACAATC-CTAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CCTT--C-ATCTTTAAGACCAATGTC
* ** * * * * *
418527 ACTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
* *
418574 GTTGGCCATGAATCA
1 GCTGGCCTTGAATCA
418589 ACACATTGTC
Statistics
Matches: 405, Mismatches: 72, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
43 74 0.18
45 1 0.00
46 2 0.00
47 21 0.05
49 235 0.58
50 39 0.10
52 30 0.07
53 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC
Found at i:418406 original size:98 final size:97
Alignment explanation
Indices: 418045--418552 Score: 631
Period size: 92 Copynumber: 5.3 Consensus size: 97
418035 GTCCAATATT
* * * *
418045 GCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTCAAGACCAATGTCGCTGGCCTTGAATCA
1 GCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTT-AAGTCCAATATCGCTGGCCTTGAATCA
* *
418110 GCATATTGGCACCATCATCTTTAAGACCAATGTC
64 GCATATTGGCACCTTTATCTTTAAGACCAATGTC
* *
418144 GCTGGCCTTGAATCAGCACATTGG-----CACCTTTAAGTCTAATATCGCTAGCCTTGAATCAGC
1 GCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* *
418204 ATATTGGCACCTTTGTCTTTAAGACCAATGTT
66 ATATTGGCACCTTTATCTTTAAGACCAATGTC
*
418236 GCTAGCCTTGAATCAGCACATTGG-----CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 GCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* *
418296 ATATTGGCACCTTTGTCTTGAAGACCAATGTC
66 ATATTGGCACCTTTATCTTTAAGACCAATGTC
* * *
418328 GCTGGCCTTAAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATCGCTAGCCTTGAATCGG
1 GCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
418393 CATATTGGCACCTTTATCTTTAAGACCAATGTC
65 CATATTGGCACCTTTATCTTTAAGACCAATGTC
* ** * *
418426 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTGATATCGTTGGCCTTGAATCAA
1 GCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * *
418491 CATATTGGCATCTTTAACAATCCTAAGCCCAATGTC
65 CATATTGGCACCTTTATC--T-TTAAGACCAATGTC
* **
418527 ACTGGCCTTGTCTCAGCACATTGGCA
1 GCTGGCCTTGAATCAGCACATTGGCA
418553 TTCTTCTTCA
Statistics
Matches: 364, Mismatches: 36, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
92 162 0.45
93 6 0.02
98 137 0.38
99 23 0.06
100 1 0.00
101 35 0.10
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (97 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
ATATTGGCACCTTTATCTTTAAGACCAATGTC
Found at i:419401 original size:19 final size:18
Alignment explanation
Indices: 419373--419429 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
419363 AAATAGTAAC
*
419373 TGTATAGATACATAAGTGT
1 TGTATCGATACATAAGT-T
419392 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
419405 TGTATCGATACATAAGTAT
1 TGTATCGATACATAAGT-T
419424 TGTATC
1 TGTATC
419430 AATATAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
13 11 0.35
15 2 0.06
17 2 0.06
19 16 0.52
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:419410 original size:13 final size:13
Alignment explanation
Indices: 419392--419416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
419382 ACATAAGTGT
419392 TGTATCGATACAA
1 TGTATCGATACAA
419405 TGTATCGATACA
1 TGTATCGATACA
419417 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:419415 original size:32 final size:32
Alignment explanation
Indices: 419373--419448 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 32
419363 AAATAGTAAC
* * *
419373 TGTATAGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCAATACAA
*
419405 TGTATCGATACATAAGTATTGTATCAATATAA
1 TGTATCGATACATAAGTATTGTATCAATACAA
*
419437 TGTATCGCTACA
1 TGTATCGATACA
419449 AAGCTACTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCAATACAA
Found at i:419505 original size:13 final size:13
Alignment explanation
Indices: 419487--419512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
419477 GATTATTCAA
419487 TGTATCGATACAT
1 TGTATCGATACAT
419500 TGTATCGATACAT
1 TGTATCGATACAT
419513 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:420465 original size:20 final size:20
Alignment explanation
Indices: 420428--420465 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
420418 TAAGCCTTGA
* *
420428 TCATGCATTTTTACTATGCT
1 TCATGCATTTATAATATGCT
420448 TCATGCATTTATAATATG
1 TCATGCATTTATAATATG
420466 TCCAGCACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (20 bp):
TCATGCATTTATAATATGCT
Found at i:426766 original size:13 final size:13
Alignment explanation
Indices: 426748--426773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
426738 TACACAAAGT
426748 ATGTATCGATACA
1 ATGTATCGATACA
426761 ATGTATCGATACA
1 ATGTATCGATACA
426774 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:427270 original size:34 final size:35
Alignment explanation
Indices: 427207--427273 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
427197 CTAAGTGATT
427207 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
427243 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
427274 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:431821 original size:13 final size:13
Alignment explanation
Indices: 431803--431828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
431793 TACACAAAGT
431803 ATGTATCGATACA
1 ATGTATCGATACA
431816 ATGTATCGATACA
1 ATGTATCGATACA
431829 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:431826 original size:32 final size:33
Alignment explanation
Indices: 431785--431848 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
431775 TAGCCAAACT
**
431785 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
431817 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
431849 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:432325 original size:34 final size:35
Alignment explanation
Indices: 432262--432328 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
432252 CTAAGTGATT
432262 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
432298 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
432329 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:440253 original size:3 final size:3
Alignment explanation
Indices: 440245--440276 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
440235 TTATCCCCTT
440245 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
440277 TTGTTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:441332 original size:31 final size:31
Alignment explanation
Indices: 441297--441365 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
441287 GATAGTTGCT
441297 AAGCTGTTAGAGGC-TGCTGTGGGAGCTACTA
1 AAGCTGTTAGA-GCTTGCTGTGGGAGCTACTA
** * * *
441328 AAGCTACTGGAGCTTGCTGTGGGAGCTGCTG
1 AAGCTGTTAGAGCTTGCTGTGGGAGCTACTA
441359 AAGCTGT
1 AAGCTGT
441366 CGTTAGCTGC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.26
Consensus pattern (31 bp):
AAGCTGTTAGAGCTTGCTGTGGGAGCTACTA
Found at i:441476 original size:40 final size:40
Alignment explanation
Indices: 441389--441477 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
441379 TACTGCTGCA
* *
441389 GGAGCTGCTCGTGGTTGCTGAGCTGTTGGAAGCTGCTATG
1 GGAGCTGCTCGTGGTTGCTGAGCTGCTAGAAGCTGCTATG
* * *
441429 GGGGCTGCTCGTGGTTGCTGAGCTGCTAGAGGCTG-TCGTG
1 GGAGCTGCTCGTGGTTGCTGAGCTGCTAGAAGCTGCT-ATG
441469 GGAGCTGCT
1 GGAGCTGCT
441478 GGAGCTGCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.10, C:0.19, G:0.43, T:0.28
Consensus pattern (40 bp):
GGAGCTGCTCGTGGTTGCTGAGCTGCTAGAAGCTGCTATG
Found at i:441486 original size:31 final size:30
Alignment explanation
Indices: 441444--441539 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
441434 TGCTCGTGGT
*
441444 TGCTGAGCTGCTAGAGGCTG-TCGTGGGAGC
1 TGCTGAGCTGCTAGAAGCTGCT-GTGGGAGC
* *
441474 TGCTGGAGCTGCTGGAAGTTGCTGTGGGAGC
1 TGCT-GAGCTGCTAGAAGCTGCTGTGGGAGC
* * *
441505 TGCTAGAGCTG-TTGAAAGTTACTGTGGGAGC
1 TGCT-GAGCTGCTAG-AAGCTGCTGTGGGAGC
441536 TGCT
1 TGCT
441540 AGAGGCTACT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 6 0.11
31 50 0.88
32 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.41, T:0.27
Consensus pattern (30 bp):
TGCTGAGCTGCTAGAAGCTGCTGTGGGAGC
Found at i:441540 original size:31 final size:31
Alignment explanation
Indices: 441466--441543 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
441456 AGAGGCTGTC
* * *
441466 GTGGGAGCTGCTGGAGCTGCTGGAAGTTGCT
1 GTGGGAGCTGCTAGAGCTGCTGAAAGTTACT
*
441497 GTGGGAGCTGCTAGAGCTGTTGAAAGTTACT
1 GTGGGAGCTGCTAGAGCTGCTGAAAGTTACT
441528 GTGGGAGCTGCTAGAG
1 GTGGGAGCTGCTAGAG
441544 GCTACTACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.18, C:0.14, G:0.42, T:0.26
Consensus pattern (31 bp):
GTGGGAGCTGCTAGAGCTGCTGAAAGTTACT
Found at i:441810 original size:17 final size:18
Alignment explanation
Indices: 441777--441817 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
441767 TTTCAACTTG
441777 TTGCTTTGTTATTCCACT
1 TTGCTTTGTTATTCCACT
*
441795 TTGCTTTG-TCTTCCACT
1 TTGCTTTGTTATTCCACT
441812 TT-CTTT
1 TTGCTTT
441818 ATTGTTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 8 0.36
ACGTcount: A:0.07, C:0.24, G:0.10, T:0.59
Consensus pattern (18 bp):
TTGCTTTGTTATTCCACT
Found at i:441844 original size:45 final size:45
Alignment explanation
Indices: 441795--441895 Score: 184
Period size: 45 Copynumber: 2.2 Consensus size: 45
441785 TTATTCCACT
*
441795 TTGCTTTGTCTTCCACTTTCTTTATTGTTGCTTTGCTGCTCCATG
1 TTGCTTTGTCTTCCACTTTCTTCATTGTTGCTTTGCTGCTCCATG
*
441840 TTGCTTTGTCTTCCACTTTCTTCATTGTTGCTTTGCTGTTCCATG
1 TTGCTTTGTCTTCCACTTTCTTCATTGTTGCTTTGCTGCTCCATG
441885 TTGCTTTGTCT
1 TTGCTTTGTCT
441896 CCATGATTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.06, C:0.24, G:0.16, T:0.54
Consensus pattern (45 bp):
TTGCTTTGTCTTCCACTTTCTTCATTGTTGCTTTGCTGCTCCATG
Found at i:445443 original size:20 final size:20
Alignment explanation
Indices: 445397--445436 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
445387 GTAAAAAGAC
445397 AGAATGTATCAATACATTGA
1 AGAATGTATCAATACATTGA
*
445417 AGAATGTATCGATACATTGA
1 AGAATGTATCAATACATTGA
445437 TACATGTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:446481 original size:56 final size:56
Alignment explanation
Indices: 446392--447555 Score: 745
Period size: 56 Copynumber: 20.9 Consensus size: 56
446382 TTACCATTGG
* *
446392 CTTGTGGGCTTTGACAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTGA-AAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
*
446449 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * **
446505 CTTCTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGA
* * * * *
446563 CTCGTGGGATTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAGGATGCTACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * *
446619 CTTGTGGGCTTTGAAAAGAGTTTCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * * * **
446677 CTTGTAGGACCTTGAAAAGAGTTGACACCGACTCGTGTGGGCTTTGAAAAGAGTTGCCACCAA
1 CTTGT-GGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTG-AAAG-GATGCCACTGA
* * *
446740 CTCGTGTGAGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGG-TGTCACTGA
1 CT--TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGA
* * *
446799 CTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATACCACT-A
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * *
446854 GCTTGTGGGC-TTGCAAAAGATGACACTAACTTGTGGGCTTTGAAAAGGA-GCCACTGA
1 -CTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGA
* *
446911 CTTGTGGGCTTGGAAAGGGTGCCACTGACTTGTGGGCTTGGAAA--A-G-----G-
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * *
446958 --TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTGGAAAAGG-TGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGA
* * * * * * * * *
447012 GTTGTGGACTTTAAAAGGGTGCCAC-GAAGTTGTGGAC-CTAAAAGGGTGCCACAGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * * * * * *
447067 GTTATGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * * *
447121 ATTGTGGGC-TTAAAATGGGTGCCACGGAGTTGT-GGATTT-AAAGGGTGCCA-TGGA
1 CTTGTGGGCTTTGAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT-GA
* * * * * * * *
447175 GTTGTGGGCCTTAAAAGGATGCCACGGAGTTGTGGGC-TT-AAAAGAGTGCCACGGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGA
* * * * * * * * * **
447230 GTTGTGGAC-TTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGCTGCCACAAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* ** * * * * * *
447285 TTTGTGGATTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * * * * * *
447340 GTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * * * *
447395 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGATGCCACGGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * ** * * * *
447450 GTTGTGGGC-TTAAAAGGATGCCACAGAGATGTGGAC-TTAAAAGGGTGCCACGGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * * * * * *
447504 GTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCA
447556 TGGAGTTGTG
Statistics
Matches: 944, Mismatches: 115, Indels: 97
0.82 0.10 0.08
Matches are distributed among these distances:
45 36 0.04
46 3 0.00
48 2 0.00
53 5 0.01
54 200 0.21
55 177 0.19
56 302 0.32
57 43 0.05
58 84 0.09
59 30 0.03
60 4 0.00
61 22 0.02
62 4 0.00
63 19 0.02
64 10 0.01
65 3 0.00
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (56 bp):
CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
Found at i:446959 original size:28 final size:28
Alignment explanation
Indices: 446313--446959 Score: 608
Period size: 28 Copynumber: 22.3 Consensus size: 28
446303 TTTTTTTTAA
* *
446313 AAAAGGTGCCACTAACTTGTATAGGCTTTG
1 AAAAGGTGCCACTGACTTG--TGGGCTTTG
*
446343 AAAAGAGTTGCCA-TCGACTCGTATGGGCTTTG
1 AAAAG-G-TGCCACT-GACT--TGTGGGCTTTG
* * *
446375 AAAAGAGTTACCATTGGCTTGTGGGCTTTG
1 AAAAG-G-TGCCACTGACTTGTGGGCTTTG
* *
446405 ACAAGAGTGCCATTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
446434 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
446462 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
446490 AAAGGGTGCCACTGACTTCTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
446518 -AAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
** * *
446546 AAAAGAGTTGCCACCAACTCGTGGGATTTG
1 AAAAG-G-TGCCACTGACTTGTGGGCTTTG
* *
446576 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
446604 -AAAGGATGCTACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
446632 AAAAGAGTTTCCACTGACTCGTGGGCTTTG
1 AAAAG-G-TGCCACTGACTTGTGGGCTTTG
* *
446662 -AAAGGATGCCACTGACTTGTAGGACCTTG
1 AAAAGG-TGCCACTGACTTGT-GGGCTTTG
* *
446691 AAAAGAGTTGACACCGACTCGTGTGGGCTTTG
1 AAAAG-G-TGCCACTGACT--TGTGGGCTTTG
** *
446723 AAAAGAGTTGCCACCAACTCGTGTGAGCTTTG
1 AAAAG-G-TGCCACTGACT--TGTGGGCTTTG
446755 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
446784 AAATGGTGTCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
446812 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
446840 AAAAGATACCACT-AGCTTGTGGGC-TTG
1 AAAAGGTGCCACTGA-CTTGTGGGCTTTG
* * *
446867 CAAAAGATGACACTAACTTGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
446896 AAAAGGAGCCACTGACTTGTGGGCTTGG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
446924 AAAGGGTGCCACTGACTTGTGGGCTTGG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
446952 AAAAGGTG
1 AAAAGGTG
446960 TGGGCTTTGA
Statistics
Matches: 525, Mismatches: 67, Indels: 52
0.82 0.10 0.08
Matches are distributed among these distances:
27 16 0.03
28 279 0.53
29 64 0.12
30 67 0.13
31 21 0.04
32 73 0.14
33 4 0.01
34 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:446963 original size:17 final size:17
Alignment explanation
Indices: 446941--446976 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
446931 GCCACTGACT
446941 TGTGGGCTTGGAAAAGG
1 TGTGGGCTTGGAAAAGG
*
446958 TGTGGGCTTTGAAAAGG
1 TGTGGGCTTGGAAAAGG
446975 TG
1 TG
446977 CCACTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.44, T:0.28
Consensus pattern (17 bp):
TGTGGGCTTGGAAAAGG
Found at i:446977 original size:45 final size:45
Alignment explanation
Indices: 446913--447004 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
446903 GCCACTGACT
* *
446913 TGTGGGCTTGGAAAGGGTGCCACTGACTTGTGGGCTTGGAAAAGG
1 TGTGGGCTTGGAAAAGGTGCCACTAACTTGTGGGCTTGGAAAAGG
*
446958 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTGGAAAAGG
1 TGTGGGCTTGGAAAAGGTGCCACTAACTTGTGGGCTTGGAAAAGG
447003 TG
1 TG
447005 CCACTGAGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.22, C:0.13, G:0.39, T:0.26
Consensus pattern (45 bp):
TGTGGGCTTGGAAAAGGTGCCACTAACTTGTGGGCTTGGAAAAGG
Found at i:447053 original size:27 final size:27
Alignment explanation
Indices: 446997--447654 Score: 897
Period size: 27 Copynumber: 24.1 Consensus size: 27
446987 GTGGGCTTGG
*
446997 AAAA-GGTGCCACTGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
447024 AAAAGGGTGCCACGAAGTTGTGGACCT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
447051 AAAAGGGTGCCACAGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
447078 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
447105 TAAAGGGTGCCACGGAATTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
447132 AAAATGGGTGCCACGGAGTTGTGGA-TT
1 AAAA-GGGTGCCACGGAGTTGTGGACTT
* * *
447159 TAAAGGGTGCCATGGAGTTGTGGGCCTT
1 AAAAGGGTGCCACGGAGTTGT-GGACTT
* *
447187 AAAAGGATGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
447214 AAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
447241 AAAAGAGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* ** * *
447269 AAAAGGCTGCCACAAATTTGTGGATTTT
1 AAAAGGGTGCCACGGAGTTGTGGA-CTT
447297 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
447324 AAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
447351 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
447379 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
447407 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
447434 TAAAGGATGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
447461 AAAAGGATGCCACAGAGATGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
447488 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
447516 AAAAGGATGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
447544 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
447571 AAAAGGATACCACGGAGTTGTGGACTC
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
447598 AAAAGGTTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
447625 AAAAGGTTGCCACGGAGTTGTGGATTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
447652 AAA
1 AAA
447655 CAGGAATGCC
Statistics
Matches: 562, Mismatches: 61, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
26 16 0.03
27 340 0.60
28 206 0.37
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:447364 original size:137 final size:136
Alignment explanation
Indices: 446997--447654 Score: 946
Period size: 137 Copynumber: 4.8 Consensus size: 136
446987 GTGGGCTTGG
* * * *
446997 AAAA-GGTGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGAAGTTGTGGACCTAAAAGGGTGC
1 AAAAGGGTGCCACGGAGTTGTGGA-TTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGC
* * *
447061 CACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAATTGT
65 CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
*
447126 GGGC-TT
130 GGACTTT
* *
447132 AAAATGGGTGCCACGGAGTTGTGGATTT-AAAGGGTGCCATGGAGTTGTGGGCCTTAAAAGGATG
1 AAAA-GGGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGT-GGACTTAAAAGGATG
* * * *
447196 CCACGGAGTTGTGGGCTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTG
64 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTG
447261 TGGACTTT
129 TGGACTTT
* ** *
447269 AAAAGGCTGCCACAAATTTGTGGATTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGC
1 AAAAGGGTGCCACGGAGTTGTGGA-TTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGC
447334 CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTG
65 CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTG
447399 TGGACTTT
129 TGGACTTT
* *
447407 AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGATGCCACGGAGTTGTGGGCTTAAAAGGATGC
1 AAAAGGGTGCCACGGAGTTGTGGA-TTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGC
* *
447471 CACAGAGATGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
65 CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTG
447536 TGGACTTT
129 TGGACTTT
* * * * * *
447544 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGATACCACGGAGTTGTGGACTCAAAAGGTTGCC
1 AAAAGGGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCC
* * *
447609 ACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGATTTAAA
66 ACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA
447655 CAGGAATGCC
Statistics
Matches: 472, Mismatches: 43, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
135 22 0.05
136 100 0.21
137 279 0.59
138 71 0.15
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (136 bp):
AAAAGGGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCC
ACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
GACTTT
Found at i:447680 original size:110 final size:109
Alignment explanation
Indices: 446997--447666 Score: 881
Period size: 110 Copynumber: 6.1 Consensus size: 109
446987 GTGGGCTTGG
* * * *
446997 AAAAGG-TGCCACTGAGTTGTGGACTTTAAAAGGGTGCCACGAAGTTGTGGACCTAAAAGGGTGC
1 AAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGC
* *
447061 CACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
65 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
* * * * *
447106 -AAAGGGTGCCACGGAATTGTGGGCTTAAAATGGGTGCCACGGAGTTGTGGA-TTTAAAGGGTGC
1 AAAAGGATGCCACGGAGTTGTGGACTTAAAA-GGATGCCACGGAGTTGTGGACTTAAAAGGGTGC
* * * *
447169 CATGGAGTTGTGGGCCTTAAAAGGATGCCACGGAGTTGTGGGC-TT
65 CACGGAGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
*
447214 AAAA-GAGTGCCACGGAGTTGTGGACTTAAAA-GAGTGCCACGGAGTTGTGGACTTTAAAAGGCT
1 AAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGT
** * *
447277 GCCACAAATTTGTGGATTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
63 GCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTT
* *
447324 AAAAGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGC
1 AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGC
447389 CACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT
65 CACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTT
* * *
447435 -AAAGGATGCCACGGAGTTGTGGGCTTAAAAGGATGCCACAGAGATGTGGACTTAAAAGGGTGCC
1 AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
447499 ACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTT
66 ACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTT
* * * * *
447544 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGATACCACGGAGTTGTGGACTCAAAAGGTTGCC
1 AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
447609 ACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGA-TTT
66 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
447652 AAACAGGAATGCCAC
1 AAA-AGG-ATGCCAC
447667 TAAATCGTGG
Statistics
Matches: 495, Mismatches: 50, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
107 1 0.00
108 55 0.11
109 174 0.35
110 260 0.53
111 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (109 bp):
AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCC
ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
Found at i:448653 original size:20 final size:20
Alignment explanation
Indices: 448624--448662 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
448614 TTTGGAGGCT
*
448624 CTTAAGATTTCCCCATGTTG
1 CTTAAAATTTCCCCATGTTG
*
448644 CTTAAAATTTCCCCTTGTT
1 CTTAAAATTTCCCCATGTT
448663 TAAGTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.44
Consensus pattern (20 bp):
CTTAAAATTTCCCCATGTTG
Found at i:458945 original size:30 final size:30
Alignment explanation
Indices: 458909--458968 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
458899 CTTAATAAAA
*
458909 CTCCCCCTCAAGAAGATATCTCTCTCTTTT
1 CTCCCCCTCAAGAAGATATCTCTCCCTTTT
* *
458939 CTCCCCCTTAAGAAGATATCTTTCCCTTTT
1 CTCCCCCTCAAGAAGATATCTCTCCCTTTT
458969 TCAAATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.38
Consensus pattern (30 bp):
CTCCCCCTCAAGAAGATATCTCTCCCTTTT
Found at i:461556 original size:13 final size:13
Alignment explanation
Indices: 461538--461565 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
461528 CATTATTTAA
461538 TGTATCGATACAT
1 TGTATCGATACAT
461551 TGTATCGATACAT
1 TGTATCGATACAT
461564 TG
1 TG
461566 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:461562 original size:33 final size:33
Alignment explanation
Indices: 461520--461583 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
461510 CAAGGAAATA
461520 TATCGATACATT-AT-TTAATGTATCGATACATTG
1 TATCGATACATTGATCTT--TGTATCGATACATTG
461553 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCTTTGTATCGATACAT
461584 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 25 0.86
34 2 0.07
35 2 0.07
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (33 bp):
TATCGATACATTGATCTTTGTATCGATACATTG
Found at i:465075 original size:50 final size:50
Alignment explanation
Indices: 464967--465076 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
464957 TTCATTATAT
* *
464967 CGATACATTCTGGGTTTTACCCAAATGTATCGATACATCCACTATTGCAT
1 CGATACATTCTGGGTTTTACCCAAATGTATCGATACATCCACTAATGCAG
* * ** *
465017 CGACACATTCTGGGTTTTACCCAGATGTATCGATACAT-TTCTCAATGTAG
1 CGATACATTCTGGGTTTTACCCAAATGTATCGATACATCCACT-AATGCAG
465067 CGATACATTC
1 CGATACATTC
465077 AGGCATTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 2 0.04
50 49 0.96
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (50 bp):
CGATACATTCTGGGTTTTACCCAAATGTATCGATACATCCACTAATGCAG
Found at i:467656 original size:84 final size:84
Alignment explanation
Indices: 467548--467703 Score: 242
Period size: 84 Copynumber: 1.9 Consensus size: 84
467538 AGGAACTCTC
* * *
467548 ACCCTGTTATTTTTAAGGGAATACTCTAACCCTAATTTTATTTTCAAAAC-CCAGATTTTTCACA
1 ACCCTGTTATTTTCAAGGCAATACTCTAACCCTAATTTTATTTTCAAAACACCA-AATTTTCACA
467612 ATCGGGGAGGGGATACTCCA
65 ATCGGGGAGGGGATACTCCA
* **
467632 ACCCTGTTATTTTCGAGGCAATACTCTAACCCTGGTTTTATTTTCAAAACACCAAATTTTCACAA
1 ACCCTGTTATTTTCAAGGCAATACTCTAACCCTAATTTTATTTTCAAAACACCAAATTTTCACAA
467697 TCGGGGA
66 TCGGGGA
467704 TACTCCAACC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
84 62 0.95
85 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (84 bp):
ACCCTGTTATTTTCAAGGCAATACTCTAACCCTAATTTTATTTTCAAAACACCAAATTTTCACAA
TCGGGGAGGGGATACTCCA
Found at i:467751 original size:79 final size:79
Alignment explanation
Indices: 467583--468179 Score: 458
Period size: 79 Copynumber: 7.5 Consensus size: 79
467573 CTAACCCTAA
* **
467583 TTTTATTTTCAAAAC-CCAGATTTTTCACAATCGGGGAGGGGATACTCCAACCCTGTTATTT-TC
1 TTTTATTTTCAAAACATC-GATTTTTCACAATC-----GGGGATACTCCAACCCCATTATTTCT-
** *
467646 GAGGCAATACTCTAACC-CTGG
59 GAGGGGATACTCCAACCTC-GG
* * * **
467667 TTTTATTTTCAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGATGA
1 TTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
*
467732 TATTCCAACCTCGG
66 TACTCCAACCTCGG
* * * * * *
467746 TTTTATTTTCAAAACATCAATTTTTTACAATCGAGGATACTCCAACCCCGTTATTTATGAGAGGA
1 TTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
* **
467811 TACTCCAACCCCAA
66 TACTCCAACCTCGG
* * *
467825 TTTTA-TTTCTAAAACA-CTGATTTTTCATAATCGGGGATACTCCAATCTCATTATTTCTGAGGG
1 TTTTATTTTC-AAAACATC-GATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGG
* * * *
467888 GATACTCCAGCTTTAGC
64 GATACTCCAAC-CTCGG
** * * * * ** *
467905 TTTTATTTTTGAAACACCGATTGTTCACAATCAGGGG-TACTCTAACTCTGTTATTT-TCAAGGG
1 TTTTATTTTCAAAACATCGATTTTTCACAATC-GGGGATACTCCAACCCCATTATTTCT-GAGGG
* *
467968 GATA-TGCCGACCTTGG
64 GATACT-CCAACCTCGG
* * * * *
467984 TTTT-TTTTCCAAAACATCAATTTTCCATAATCGGGGATCCTCCAACCCCATTATTTTTGAGGGG
1 TTTTATTTT-CAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGG
*
468048 ATACTCCAACCTTGG
65 ATACTCCAACCTCGG
* * * ** *
468063 TTTTATTTCCAAAGCATCGATTTTTCATAATTAGGAATACTCCAACCCCATTATTTCCT-AGGGG
1 TTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTT-CTGAGGGG
* * * *
468127 ATATTCTAACCCCAGC
65 ATACTCCAACCTC-GG
* *
468143 TTTTATTTCCAAAACATCGATTTTTCACCATCGGGGA
1 TTTTATTTTCAAAACATCGATTTTTCACAATCGGGGA
468180 ATGTACTCCA
Statistics
Matches: 410, Mismatches: 85, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
78 13 0.03
79 274 0.67
80 86 0.21
81 8 0.02
84 27 0.07
85 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
TTTTATTTTCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGA
TACTCCAACCTCGG
Found at i:467839 original size:158 final size:157
Alignment explanation
Indices: 467622--468179 Score: 519
Period size: 158 Copynumber: 3.5 Consensus size: 157
467612 ATCGGGGAGG
* ** * ** * *
467622 GGATACTCCAACCCTGTTATTTTCGAGGCAATACTCTAACCCTGGTTTTATTTTCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCGA
** * *
467687 ATTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGATGATATTCCAACCTCGGTTTTAT
66 ATTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTAGGTTTTAT
* *
467752 TTTCAAAACATCAATTTTTTACAATCGA
131 TTTCAAAACATCGATTTTTCACAATC-A
* * * *
467780 GGATACTCCAACCCCGTTATTTAT-GAGAGGATACTCCAACCCCAATTTTATTTCTAAAACACTG
1 GGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCG
* * * * * * *
467844 ATTTTTCATAATCGGGGATACTCCAATCTCATTATTTCTGAGGGGATACTCCAGCTTTAGCTTTT
65 AATTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAAC-CTAGGTTTT
** * *
467909 ATTTTTGAAACACCGATTGTTCACAATCA
129 ATTTTCAAAACATCGATTTTTCACAATCA
* * * * * * *** * *
467938 GGGGTACTCTAACTCTGTTATTTTCAAGGGGATA-TGCCGACCTTGGTTTTTTTTCCAAAACATC
1 -GGATACTCCAACCCCGTTATTTTCGAGGGGATACT-CCAACCCCAGTTTTATTTCCAAAACACC
* * * *
468002 -AATTTTCCATAATCGGGGATCCTCCAACCCCATTATTTTTGAGGGGATACTCCAACCTTGGTTT
64 GAATTTT-CACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTAGGTTT
* * * *
468066 TATTTCCAAAGCATCGATTTTTCATAATTA
128 TATTTTCAAAACATCGATTTTTCACAATCA
* * * * * *
468096 GGAATACTCCAACCCCATTATTTCCTAGGGGATATTCTAACCCCAGCTTTTATTTCCAAAACATC
1 GG-ATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAG-TTTTATTTCCAAAACACC
* *
468161 GATTTTTCACCATCGGGGA
64 GAATTTTCACAATCGGGGA
468180 ATGTACTCCA
Statistics
Matches: 313, Mismatches: 77, Indels: 19
0.77 0.19 0.05
Matches are distributed among these distances:
157 2 0.01
158 161 0.51
159 145 0.46
160 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (157 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCGA
ATTTTCACAATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTAGGTTTTAT
TTTCAAAACATCGATTTTTCACAATCA
Found at i:470211 original size:4 final size:4
Alignment explanation
Indices: 470204--470233 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
470194 AGGTGCTTAC
470204 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
470234 TGTTTTGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:479543 original size:10 final size:9
Alignment explanation
Indices: 479499--479545 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
479489 CCTTTTTCTC
*
479499 AAAAAAAAC
1 AAAAAAAAG
*
479508 AAAAAACA-
1 AAAAAAAAG
479516 AAAAAAAAG
1 AAAAAAAAG
479525 AAAAAAAAG
1 AAAAAAAAG
479534 AAAAGAAAAG
1 AAAA-AAAAG
479544 AA
1 AA
479546 CCTGCTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 7 0.21
9 20 0.59
10 7 0.21
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:480596 original size:39 final size:37
Alignment explanation
Indices: 480548--480665 Score: 137
Period size: 39 Copynumber: 3.0 Consensus size: 37
480538 AGTTGGTGGC
*
480548 ACCTTTCAGTCCTCAAAAAGCAGGATGCCTTTTCCTTTT
1 ACCTTTCAGTCCTCAAAGAGCAGGA--CCTTTTCCTTTT
*
480587 ACCTTTCAGTCCTTAAAGAGCAGGACACTTTCTCCTTTT
1 ACCTTTCAGTCCTCAAAGAGCAGGAC-CTTT-TCCTTTT
* * *
480626 ACCTTTTAGTCCTCAAAGAGTAGGACACCTTCTCCTTTT
1 ACCTTTCAGTCCTCAAAGAGCAGG--ACCTTTTCCTTTT
480665 A
1 A
480666 AAGCTCACAC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
37 1 0.01
38 4 0.06
39 59 0.86
40 3 0.04
41 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (37 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACCTTTTCCTTTT
Found at i:480692 original size:61 final size:61
Alignment explanation
Indices: 480626--481065 Score: 522
Period size: 61 Copynumber: 7.1 Consensus size: 61
480616 TTCTCCTTTT
* * *
480626 ACCTTTTAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCTCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
480687 ACCTTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCAAAGCCCATACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * ** *
480748 ACCTTTCAGTCCTCAAAAAATAGGATGCCTTCTTCTTTTAAAGCCTGCACAAGTTGGTGGT
1 ACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
480809 ACCTTTCAGTCCTCAAAAAGTAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * * *
480870 ACATTTCAGTCCTCAAATAGTAGGACGCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
480931 ACTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAAGCCTACACAAGCTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGC
* *
480993 A-CATTCTAGTCCTCAAAGAGTAGGATGCCTTTCTCCTTTTACATTTTAAAGCCCACACAAGTTG
1 ACCTTTC-AGTCCTCAAAGAGTAGGACGCC-TTCT-C-----C-TTTTAAAGCCCACACAAGTTG
481057 GTGGC
57 GTGGC
481062 ACCT
1 ACCT
481066 ATTTACTACA
Statistics
Matches: 324, Mismatches: 44, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
61 251 0.77
62 41 0.13
63 4 0.01
64 1 0.00
69 22 0.07
70 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
ACCTTTCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:480724 original size:139 final size:139
Alignment explanation
Indices: 480474--480724 Score: 396
Period size: 139 Copynumber: 1.8 Consensus size: 139
480464 AGGTATCTAA
* * *
480474 ACTTTCTCCTTTTACCTTTCAATCCTTAAAGAGCAGGACGCCTTTTCCTCTTAAAGCCCACACAA
1 ACTTTCTCCTTTTACCTTTCAATCCTCAAAGAGCAGGACACCTTCTCCTCTTAAAGCCCACACAA
*
480539 GTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGATGCCTTTTCCTTTTACCTTTCAGTCCTTAAA
66 GTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTACCTTTCAGTCCTTAAA
480604 GAGCAGGAC
131 GAGCAGGAC
* * * * *
480613 ACTTTCTCCTTTTACCTTTTAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCTCACACAA
1 ACTTTCTCCTTTTACCTTTCAATCCTCAAAGAGCAGGACACCTTCTCCTCTTAAAGCCCACACAA
*
480678 GTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-CTTTCTCCTTT
66 GTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGACGCCTTT-TCCTTT
480725 CAAAGCCCAT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
138 4 0.04
139 97 0.96
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (139 bp):
ACTTTCTCCTTTTACCTTTCAATCCTCAAAGAGCAGGACACCTTCTCCTCTTAAAGCCCACACAA
GTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTACCTTTCAGTCCTTAAA
GAGCAGGAC
Found at i:480940 original size:183 final size:184
Alignment explanation
Indices: 480625--481063 Score: 585
Period size: 183 Copynumber: 2.3 Consensus size: 184
480615 TTTCTCCTTT
* ** * * * *
480625 TACCTTTTAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACC
1 TACCTTTCAGTCCTCAAAGAGTAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACA
*
480690 TTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCAAAGCCCATACAAGTTGGTGGCACCTTTC
66 TTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
480755 AGTCCTCAAAAAATAGGATGCCTTCTTCTTTT-AAAGCCTGCACAAGTTGGTGG
131 AGTCCTCAAAAAACAGGACGCCTTCTCCTTTTAAAAGCCTACACAAGCTGGTGG
*
480808 TACCTTTCAGTCCTCAAAAAGTAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACA
1 TACCTTTCAGTCCTCAAAGAGTAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACA
* * * *
480873 TTTCAGTCCTCAAATAGTAGGACGCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
66 TTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
480938 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAAGCCTACACAAGCTGGTGG
131 AGTCCTCAAAAAACAGGACGCCTTCTCCTTTTAAAAGCCTACACAAGCTGGTGG
* *
480992 CA-CATTCTAGTCCTCAAAGAGTAGGATGCCTTTCTCCTTTTACATTTTAAAGCCCACACAAGTT
1 TACCTTTC-AGTCCTCAAAGAGTAGGATG-CTTTCTCC-TTT-C-----AAAGCCCACACAAGTT
481056 GGTGGCAC
57 GGTGGCAC
481064 CTATTTACTA
Statistics
Matches: 223, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
183 148 0.66
184 39 0.17
185 8 0.04
186 3 0.01
187 1 0.00
192 24 0.11
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (184 bp):
TACCTTTCAGTCCTCAAAGAGTAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACA
TTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
AGTCCTCAAAAAACAGGACGCCTTCTCCTTTTAAAAGCCTACACAAGCTGGTGG
Found at i:481504 original size:50 final size:50
Alignment explanation
Indices: 481426--481536 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 50
481416 TCATAATTTG
* *
481426 TATCGATACATCCTTCAATGTATCGATACATTCTGGGTTTTACTTAGATA
1 TATCGATACATCCTTCAATGTATCGATACATTCTGGGTTTGACCTAGATA
* * *
481476 TATCGATACATCCTTCATTGTATTGATACATTCTGGGTTTGACCTAGATG
1 TATCGATACATCCTTCAATGTATCGATACATTCTGGGTTTGACCTAGATA
481526 TATCGATACAT
1 TATCGATACAT
481537 TCAGGCATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (50 bp):
TATCGATACATCCTTCAATGTATCGATACATTCTGGGTTTGACCTAGATA
Found at i:483506 original size:13 final size:13
Alignment explanation
Indices: 483488--483513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
483478 TACAGCAAGT
483488 ATGTATCGATACA
1 ATGTATCGATACA
483501 ATGTATCGATACA
1 ATGTATCGATACA
483514 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Done.