Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 115 of 206
Found at i:34293371 original size:91 final size:90
Alignment explanation
Indices: 34293125--34293397 Score: 307
Period size: 91 Copynumber: 3.0 Consensus size: 90
34293115 TGTTATCATA
* * ** *
34293125 AACATGATTAAAATGGGTAAGACCATAGCTGAAAGACACTATGGCAAT-ATGATTAAAATGAGTA
1 AACATGATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATGGC-ATCATAATTAAAATGAGTA
**
34293189 AGACCATAGCTGGAAGACGCTATGGC
65 AGACCATAGCTAAAAGACGCTATGGC
* * * *
34293215 AACATGATTAAAAAGAGTAAGACCATAGTTGAAAA-ATGTTATGGCAACATGAATTAAAATGAGT
1 AACATGATTAAAATGAGTAAGACCATAGCT-AAAAGATGCTATGGCATCAT-AATTAAAATGAGT
*
34293279 AAGACCATAGCTAAAAGACGTTATGGC
64 AAGACCATAGCTAAAAGACGCTATGGC
* ** * *
34293306 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATAGCATCATAAAGAAAGTTAGTA
1 AACATG-ATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCATAATTAAAATGAGTA
* * * *
34293371 AGACCATGGTTGAAAGACGCAATGGC
65 AGACCATAGCTAAAAGACGCTATGGC
34293397 A
1 A
34293398 TCGTTTGACA
Statistics
Matches: 152, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.01
90 36 0.24
91 81 0.53
92 34 0.22
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (90 bp):
AACATGATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCATAATTAAAATGAGTAA
GACCATAGCTAAAAGACGCTATGGC
Found at i:34296911 original size:67 final size:64
Alignment explanation
Indices: 34296783--34296913 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 64
34296773 TATGCTTATA
* *
34296783 CATTATTTAAAACTTTACTTTTAAAATTAAAAAGTATTATATATATTATTTCTAAAAAATGAAAT
1 CATTATTTAAAACATTACTTTTAAAATTAAAAAGTATTATAAATATTATTTCT-AAAAATGAAAT
* * *
34296848 CATTATTTAAAACATTATTTTTTAAAAGTTAAAATGTATTAGATAAATATTATTTCT-ACAATGA
1 CATTATTTAAAACATTA-CTTTTAAAA-TTAAAAAGTATT--ATAAATATTATTTCTAAAAATGA
34296912 AA
62 AA
34296914 AATGAAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
65 16 0.28
66 8 0.14
67 19 0.33
69 14 0.25
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (64 bp):
CATTATTTAAAACATTACTTTTAAAATTAAAAAGTATTATAAATATTATTTCTAAAAATGAAAT
Found at i:34301431 original size:19 final size:19
Alignment explanation
Indices: 34301409--34301461 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
34301399 TGCAAAATGT
34301409 AAATATTAAATTAAAACAA
1 AAATATTAAATTAAAACAA
* * *
34301428 AAATATAAAAATAAAATAA
1 AAATATTAAATTAAAACAA
*
34301447 AAATGTCTAAATTAA
1 AAATAT-TAAATTAA
34301462 TAGAAATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATATTAAATTAAAACAA
Found at i:34301444 original size:25 final size:25
Alignment explanation
Indices: 34301402--34301449 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34301392 AAGAAAATGC
* * * *
34301402 AAAATGTAAATATTAAATTAAAACA
1 AAAATATAAAAATAAAATAAAAACA
34301427 AAAATATAAAAATAAAATAAAAA
1 AAAATATAAAAATAAAATAAAAA
34301450 TGTCTAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (25 bp):
AAAATATAAAAATAAAATAAAAACA
Found at i:34302793 original size:31 final size:31
Alignment explanation
Indices: 34302757--34302821 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
34302747 TAGATATATA
*
34302757 TTATTTCTAAAATATAAAAA-AATTTTAAAAT
1 TTATTTCTAAAAT-TAAAAACAATTTAAAAAT
* * *
34302788 TTATTTTTCAAATTAAAAACTATTTAAAAAT
1 TTATTTCTAAAATTAAAAACAATTTAAAAAT
34302819 TTA
1 TTA
34302822 GTTTTCATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (31 bp):
TTATTTCTAAAATTAAAAACAATTTAAAAAT
Found at i:34303234 original size:43 final size:43
Alignment explanation
Indices: 34303170--34303252 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
34303160 CCATATTTCT
** * **
34303170 AGACCGTGTACAATTTGAAATAGGGTTACACGGCCATGTCGCC
1 AGACCGTGTACAATTCAAAATAGGGTCACACAACCATGTCGCC
*
34303213 AGACCGTGTGCAATTCAAAATAGGGTCACACAACCATGTC
1 AGACCGTGTACAATTCAAAATAGGGTCACACAACCATGTC
34303253 TCTGAACATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (43 bp):
AGACCGTGTACAATTCAAAATAGGGTCACACAACCATGTCGCC
Found at i:34304349 original size:45 final size:45
Alignment explanation
Indices: 34304095--34304412 Score: 289
Period size: 45 Copynumber: 7.0 Consensus size: 45
34304085 TGTCAAAGGA
* * * * *
34304095 TGCCATAGCGTCTTTCAGCTATGGTCATAGTTC-TAATT-ATAATGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTA-CTCAT-TTTAATCATGT
* * * * * *** * *
34304140 TGCCATTGCGTCTTTCAACCATGGTCTTACTAACTTCCTTTATGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTAATCATGT
* *
34304185 TGCCATAGCATCTTTTAGCTATGGTCTTACTCATTTTAATTCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTAA-TCATGT
* * *
34304231 TGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATTCTTGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTAA-TCATGT
* * * *
34304277 TACCATAACGTCTTTCAGCTATAGTCTTACTCAATTTAATCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTAATCATGT
* * * * *
34304322 TGCCATAGCGTCTTCCAACTATGGTCTTACTCGTTTTAACCATAT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTAATCATGT
* ** *
34304367 TGCCATAGTGTCTTTCAGCTATATTCTTACCCATTTTAATCATGT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTAATCATGT
34304412 T
1 T
34304413 TACGATAACA
Statistics
Matches: 221, Mismatches: 49, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
44 2 0.01
45 137 0.62
46 82 0.37
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (45 bp):
TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTTAATCATGT
Found at i:34311034 original size:46 final size:45
Alignment explanation
Indices: 34310953--34311095 Score: 169
Period size: 45 Copynumber: 3.2 Consensus size: 45
34310943 TTAGCCATTA
* * * * *
34310953 TCTTACTTAATTTCATCATGATGCCATAGCATCTTTCAACTATAG
1 TCTTACTTATTTTAATCATGTTGCCATAACGTCTTTCAACTATAG
*
34310998 TCTTACTTATTTTAATTCATGTTGCCATAACGTCTTTCAACTGTAG
1 TCTTACTTATTTTAA-TCATGTTGCCATAACGTCTTTCAACTATAG
* * * * * *
34311044 TCTTACTTGTTTTAATCATGTTTCCATAATGTTTTTCAGCTATGG
1 TCTTACTTATTTTAATCATGTTGCCATAACGTCTTTCAACTATAG
34311089 TCTTACT
1 TCTTACT
34311096 CGTTTTACTC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 44 0.52
46 40 0.48
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (45 bp):
TCTTACTTATTTTAATCATGTTGCCATAACGTCTTTCAACTATAG
Found at i:34311100 original size:23 final size:23
Alignment explanation
Indices: 34311074--34311146 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
34311064 TTTCCATAAT
34311074 GTTTTTCAGCTATGGTCTTACTC
1 GTTTTTCAGCTATGGTCTTACTC
* *
34311097 GTTTTACTCA--TATTGTCATA-TC
1 GTTTT--TCAGCTATGGTCTTACTC
* * *
34311119 ATTTTTCAGCTTTGGTGTTACTC
1 GTTTTTCAGCTATGGTCTTACTC
34311142 GTTTT
1 GTTTT
34311147 AATCTTGTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 3 0.08
22 12 0.32
23 19 0.51
25 3 0.08
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (23 bp):
GTTTTTCAGCTATGGTCTTACTC
Found at i:34311101 original size:45 final size:45
Alignment explanation
Indices: 34310986--34311156 Score: 148
Period size: 45 Copynumber: 3.8 Consensus size: 45
34310976 CCATAGCATC
** * * *
34310986 TTTCAACTATAGTCTTACTTATTTTAATTCATGTTGCCATAACGTC
1 TTTCAACTATAGTCTTACTCGTTTTAA-TCATGTTTCCATAATGTT
* *
34311032 TTTCAACTGTAGTCTTACTTGTTTTAATCATGTTTCCATAATGTT
1 TTTCAACTATAGTCTTACTCGTTTTAATCATGTTTCCATAATGTT
* * * * *
34311077 TTTCAGCTATGGTCTTACTCGTTTTACTCATATTGT-CAT-ATCATT
1 TTTCAACTATAGTCTTACTCGTTTTAATCATGTT-TCCATAAT-GTT
* * * * *
34311122 TTTCAGCTTTGGTGTTACTCGTTTTAATCTTGTTT
1 TTTCAACTATAGTCTTACTCGTTTTAATCATGTTT
34311157 ACGATAACAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 3 0.03
45 77 0.73
46 26 0.25
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (45 bp):
TTTCAACTATAGTCTTACTCGTTTTAATCATGTTTCCATAATGTT
Found at i:34314298 original size:25 final size:25
Alignment explanation
Indices: 34314217--34314304 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
34314207 TAGGTTAATT
* * *
34314217 TTAAAATAAGTAATATGTAAAACAAC
1 TTAAAATAA-TAATCTATAAAGCAAC
*
34314243 TTAAAATAA-AATGACATATAAAGTAAC
1 TTAAAATAATAAT--C-TATAAAGCAAC
*
34314270 TTAAAATAATAATCTATAAAGCAAG
1 TTAAAATAATAATCTATAAAGCAAC
34314295 TTAAAATAAT
1 TTAAAATAAT
34314305 CATATACAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.06
25 19 0.37
26 10 0.19
27 17 0.33
28 3 0.06
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (25 bp):
TTAAAATAATAATCTATAAAGCAAC
Found at i:34318795 original size:25 final size:25
Alignment explanation
Indices: 34318714--34318801 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
34318704 TAGGTTAATT
* * *
34318714 TTAAAATAAGTAATATGTAAAACAAC
1 TTAAAATAA-TAATCTATAAAGCAAC
*
34318740 TTAAAATAA-AATGACATATAAAGTAAC
1 TTAAAATAATAAT--C-TATAAAGCAAC
*
34318767 TTAAAATAATAATCTATAAAGCAAG
1 TTAAAATAATAATCTATAAAGCAAC
34318792 TTAAAATAAT
1 TTAAAATAAT
34318802 CATATACAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.06
25 19 0.37
26 10 0.19
27 17 0.33
28 3 0.06
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (25 bp):
TTAAAATAATAATCTATAAAGCAAC
Found at i:34320367 original size:45 final size:46
Alignment explanation
Indices: 34320270--34320386 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 46
34320260 TGCCATAGCA
* *
34320270 TCTTTCAACTATGGTCTTACTTATTTTAATTCATGTTGCCACAACG
1 TCTTTCAACTATGGTCTTACTTGTTTTAATTCATGTTCCCACAACG
* * *
34320316 TCTTTCAACTATAGTCTTACTTGTTTTAA-TCATGTTCCCATAATG
1 TCTTTCAACTATGGTCTTACTTGTTTTAATTCATGTTCCCACAACG
* * *
34320361 TTTTTCAGCTATGGTCTTACTCGTTT
1 TCTTTCAACTATGGTCTTACTTGTTT
34320387 ACTCATATTG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
45 35 0.56
46 27 0.44
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (46 bp):
TCTTTCAACTATGGTCTTACTTGTTTTAATTCATGTTCCCACAACG
Found at i:34329228 original size:25 final size:25
Alignment explanation
Indices: 34329176--34329231 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
34329166 AAGCCAAACC
* *
34329176 AAGCTTTTGTGGTGAGTTATTTGTA
1 AAGCCTTTGTGGTGAGTTATTAGTA
34329201 AAGCCTTTGTGGTGAGTTATCTAG-A
1 AAGCCTTTGTGGTGAGTTAT-TAGTA
34329226 AAGCCT
1 AAGCCT
34329232 GTAAGGCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAGTTATTAGTA
Found at i:34330221 original size:16 final size:16
Alignment explanation
Indices: 34330200--34330238 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34330190 AGGGCTAGAA
34330200 TATGCCCAAGAAAGAG
1 TATGCCCAAGAAAGAG
* *
34330216 TATGCCTAAGGAAGAG
1 TATGCCCAAGAAAGAG
*
34330232 TACGCCC
1 TATGCCC
34330239 GAGAGTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (16 bp):
TATGCCCAAGAAAGAG
Found at i:34331611 original size:3 final size:3
Alignment explanation
Indices: 34331605--34331666 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
34331595 GTTATCTTTG
*
34331605 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA -TA TTAA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* *
34331650 GTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TT
34331667 CTAATACATA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 39 0.80
4 6 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:34331635 original size:24 final size:27
Alignment explanation
Indices: 34331606--34331660 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
34331596 TTATCTTTGT
34331606 TATTATATTATATATTACTATTATTATTA
1 TATTA-ATTAT-TATTACTATTATTATTA
*
34331635 TATTAATTATTATTAGTATTATTATT
1 TATTAATTATTATTACTATTATTATT
34331661 TTTATTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.60
28 5 0.20
29 5 0.20
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
TATTAATTATTATTACTATTATTATTA
Found at i:34337226 original size:15 final size:16
Alignment explanation
Indices: 34337181--34337227 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 16
34337171 TGAAAAGATG
*
34337181 AAAATGAAAAATGAAAA
1 AAAATGAAAAATG-GAA
34337198 AAAATGAAAAATGGAA
1 AAAATGAAAAATGGAA
34337214 AAAAT-AAAAATGGA
1 AAAATGAAAAATGGA
34337228 GAGGCTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 9 0.31
16 7 0.24
17 13 0.45
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (16 bp):
AAAATGAAAAATGGAA
Found at i:34338636 original size:88 final size:88
Alignment explanation
Indices: 34338482--34338809 Score: 505
Period size: 88 Copynumber: 3.7 Consensus size: 88
34338472 CGGAGCAGAC
* * * * *
34338482 TGAAAATGGCAGATCTTGCCTTCCTGTACTGAGAGCGAAGCAGATCGAAGATATCAGCTTTGTCT
1 TGAAAATGACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTATCT
34338547 CCCTGGGCAGTAGTGGAGTAGGT
66 CCCTGGGCAGTAGTGGAGTAGGT
*
34338570 TGAAAATGACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATCGAAGATACCAGCCTTATCT
1 TGAAAATGACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTATCT
34338635 CCCTGGGCAGTAGTGGAGTAGGT
66 CCCTGGGCAGTAGTGGAGTAGGT
* * * *
34338658 GGAAAATAACAGATCTTGCCTTCCTGTACTGACAGCGAGGCAGATCGAAGATACCAGCCTTGTCT
1 TGAAAATGACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTATCT
*
34338723 CCCTGGGCAGTAGTGGACTAGGT
66 CCCTGGGCAGTAGTGGAGTAGGT
* * * *
34338746 TGAAAAT-AGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGTCTTATC
1 TGAAAATGA-CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTATC
34338810 GCCTTGACAT
Statistics
Matches: 220, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
87 1 0.00
88 219 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (88 bp):
TGAAAATGACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTATCT
CCCTGGGCAGTAGTGGAGTAGGT
Found at i:34339306 original size:267 final size:266
Alignment explanation
Indices: 34338831--34339658 Score: 1343
Period size: 267 Copynumber: 3.1 Consensus size: 266
34338821 GCAATGGAAT
* *
34338831 AGATTGAAGCCACAACGGCGGATCTTATTTTCCTAGCGTCGCAGTGGAGCAGATTGAAGCCACGA
1 AGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTCGCAGTGGAGTAGATTGAAGCCACGA
* * *
34338896 CAGCGGGTCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAATGGATTGAAGCTGTG
66 TAGCGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
* *
34338961 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGTCGCAACGGTGGATCTTAC
131 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGTGGATCTTAC
*
34339026 TTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGCAGATTTGGTTTCCCCGACATTGCA
196 TT-CCTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCA
34339091 ATTAAAA
260 ATTAAAA
* *
34339098 AGATTGAAGCCACAACGGCAGATCTTATTTTCCTGGCGTCGCAGTGGAGTAGATTGAAGCCGCGA
1 AGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTCGCAGTGGAGTAGATTGAAGCCACGA
* * *
34339163 TGGCGGATCTTATCTCCCAGGTGTTAAGGCTTGGATTAGATGAAGTGGAGTGGATTGAAGCTGTG
66 TAGCGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
34339228 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGTGGATCTTAC
131 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGTGGATCTTAC
*
34339293 TTCCGTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGCAGATCTGGTTTCCCCAACATTGCA
196 TTCC-TGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCA
34339358 ATTAAAA
260 ATTAAAA
* * *
34339365 AGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGAGTCGCAGCGGAATAGATTGAAGCCACGA
1 AGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTCGCAGTGGAGTAGATTGAAGCCACGA
* ** * *
34339430 TTGCAAATCTTATCTCCCTGGCGTTAAGGCTTTGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
66 TAGCGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
* *
34339495 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACAGAGGATCTTAC
131 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGTGGATCTTAC
* * * *
34339560 TTTCCTGGTGGTGTAGTGGAACAGATTGAAG-TCACGACGGCGGATCTGGTTTCCCTGACATTGC
196 -TTCCTGGCGGTGTAGTGGAACAGATTAAAGCT-ACGACGGCAGATCTGGTTTCCCCGACATTGC
* *
34339624 GATTTAAA
259 AATTAAAA
34339632 AGATTGAAGCCACAACGGCGGATCTTA
1 AGATTGAAGCCACAACGGCGGATCTTA
34339659 CTTCCCTAGC
Statistics
Matches: 523, Mismatches: 35, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
266 3 0.01
267 516 0.99
268 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (266 bp):
AGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTCGCAGTGGAGTAGATTGAAGCCACGA
TAGCGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGTGGATCTTAC
TTCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAA
TTAAAA
Found at i:34339647 original size:100 final size:100
Alignment explanation
Indices: 34339529--34339768 Score: 322
Period size: 100 Copynumber: 2.4 Consensus size: 100
34339519 ATTACAGTGG
* * * * ** *
34339529 AAAAGATTGAAGCCACAACAGAGGATCTTACTTTCCTGGTGGTGTAGTGGAACAGATTGAAG-T-
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCAGTGTAATGGAACAGATTGAAGCTG
* * * *
34339592 CACGACGGCGGATCTGGTTTCCCTGACATTGCGATTT
66 CA--ACGGCGGATCTGGTTCCCCCGACATTGCAATTA
34339629 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCAGTGTAATGGAACAGATTGAAGCTG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCAGTGTAATGGAACAGATTGAAGCTG
* *
34339694 CAACGGTGGATCTGGTTCCCCCGTCATTGCAATTA
66 CAACGGCGGATCTGGTTCCCCCGACATTGCAATTA
*
34339729 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGC
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGC
34339769 GGTGCAGTGG
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
100 121 0.98
101 1 0.01
102 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCAGTGTAATGGAACAGATTGAAGCTG
CAACGGCGGATCTGGTTCCCCCGACATTGCAATTA
Found at i:34339664 original size:50 final size:50
Alignment explanation
Indices: 34339582--34339763 Score: 161
Period size: 50 Copynumber: 3.6 Consensus size: 50
34339572 GTAGTGGAAC
* * *** * *
34339582 AGATTGAAGTCACGACGGCGGATCTGGTTTCCCTGACATTGCGATTTAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACATTGCAATTAAAA
* * ** *
34339632 AGATTGAAGCCACAACGGCGGATCTTACTTCCCT-AGCAGTGTAATGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CATTGCAATTAAAA
** * ** * *
34339682 AGATTGAAGCTGCAACGGTGGATC-TGGTTCCCCCGTCATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTT-CCCTGACATTGCAATTAAAA
34339732 AGATTGAAGCCACAACGGCGGATCTTACTTCC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCC
34339764 TTAGCGGTGC
Statistics
Matches: 100, Mismatches: 28, Indels: 8
0.74 0.21 0.06
Matches are distributed among these distances:
49 4 0.04
50 93 0.93
51 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACATTGCAATTAAAA
Found at i:34340458 original size:6 final size:6
Alignment explanation
Indices: 34340449--34340474 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34340439 TTTTTTCTCC
34340449 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
34340475 GTTCTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:34340724 original size:17 final size:17
Alignment explanation
Indices: 34340702--34340736 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
34340692 TATGGGTTAT
34340702 TTATGCTTTTAATCCTC
1 TTATGCTTTTAATCCTC
34340719 TTATGCTTTTAATCCTC
1 TTATGCTTTTAATCCTC
34340736 T
1 T
34340737 CATGTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (17 bp):
TTATGCTTTTAATCCTC
Found at i:34341038 original size:3 final size:3
Alignment explanation
Indices: 34341032--34341084 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
34341022 GTTATCTTTG
*
34341032 TTA TTA -TA TTA TATA TTA CTA TTA TTA -TA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
34341077 TTA TTA TT
1 TTA TTA TT
34341085 CTTCTAATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 34 0.77
4 6 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:34341058 original size:21 final size:21
Alignment explanation
Indices: 34341032--34341080 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
34341022 GTTATCTTTG
34341032 TTATTATATT-ATATATTACTA
1 TTATTATATTAAT-TATTACTA
*
34341053 TTATTATATTAATTATTATTA
1 TTATTATATTAATTATTACTA
34341074 TTATTAT
1 TTATTAT
34341081 TATTCTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATATTAATTATTACTA
Found at i:34349107 original size:12 final size:12
Alignment explanation
Indices: 34349092--34349123 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
34349082 AAAATTTACC
34349092 TTTATTTTTAAT
1 TTTATTTTTAAT
34349104 TTTATTTTTAAT
1 TTTATTTTTAAT
*
34349116 TATATTTT
1 TTTATTTT
34349124 ATTTTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTATTTTTAAT
Found at i:34354724 original size:16 final size:16
Alignment explanation
Indices: 34354687--34354736 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
34354677 AGTCTATTCA
*
34354687 TGTTGTGTTATATTAT-
1 TGTTGTGTT-TATTTTC
*
34354703 TATTGTGTTTATTTTC
1 TGTTGTGTTTATTTTC
*
34354719 TGTTGTGATTATTTTC
1 TGTTGTGTTTATTTTC
34354735 TG
1 TG
34354737 CAAGGCATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.14, C:0.04, G:0.18, T:0.64
Consensus pattern (16 bp):
TGTTGTGTTTATTTTC
Found at i:34361159 original size:22 final size:22
Alignment explanation
Indices: 34361109--34361161 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
34361099 CTGTATTATG
* *
34361109 TATAAT-TTTGATTAAATTGAA
1 TATAATATGTGATTAAATTCAA
*
34361130 TGTAATATGTGATTAAA-TCAA
1 TATAATATGTGATTAAATTCAA
34361151 TATATATATGT
1 TATA-ATATGT
34361162 TAGTATGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (22 bp):
TATAATATGTGATTAAATTCAA
Found at i:34365766 original size:26 final size:26
Alignment explanation
Indices: 34365688--34365756 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
34365678 CGTTCCGACC
34365688 CACAGCTCGTGTGAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
*
34365714 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
*
34365740 CACATCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
34365757 TACTCTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:34378721 original size:25 final size:25
Alignment explanation
Indices: 34378687--34378759 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 25
34378677 ATAGGCTTCC
*
34378687 CAGATGACTCGCC-CTAAAGTCTTTA
1 CAGATGACTCGCCAC-AAAGGCTTTA
*
34378712 CAGATGACTCACCACAAAGGCTTTA
1 CAGATGACTCGCCACAAAGGCTTTA
*
34378737 CAGATGACTCGCCACAAGGGCTT
1 CAGATGACTCGCCACAAAGGCTT
34378760 CCCAAATGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 42 0.98
26 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (25 bp):
CAGATGACTCGCCACAAAGGCTTTA
Found at i:34378768 original size:25 final size:25
Alignment explanation
Indices: 34378679--34378760 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
34378669 TTCACCTTAT
*
34378679 AGGCTTCCCAGATGACTCGCC-CTAA
1 AGGCTTCACAGATGACTCGCCAC-AA
* * *
34378704 AGTCTTTACAGATGACTCACCACAA
1 AGGCTTCACAGATGACTCGCCACAA
*
34378729 AGGCTTTACAGATGACTCGCCACAA
1 AGGCTTCACAGATGACTCGCCACAA
*
34378754 GGGCTTC
1 AGGCTTC
34378761 CCAAATGATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (25 bp):
AGGCTTCACAGATGACTCGCCACAA
Found at i:34378776 original size:25 final size:25
Alignment explanation
Indices: 34378679--34378776 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 25
34378669 TTCACCTTAT
* * *
34378679 AGGCTTCCCAGATGACTCGCC-CTAA
1 AGGCTTCACAAATGACTCACCAC-AA
* * *
34378704 AGTCTTTACAGATGACTCACCACAA
1 AGGCTTCACAAATGACTCACCACAA
* * *
34378729 AGGCTTTACAGATGACTCGCCACAA
1 AGGCTTCACAAATGACTCACCACAA
* * *
34378754 GGGCTTCCCAAATGATTCACCAC
1 AGGCTTCACAAATGACTCACCAC
34378777 TAGATGTCTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 59 0.98
26 1 0.02
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (25 bp):
AGGCTTCACAAATGACTCACCACAA
Found at i:34378822 original size:25 final size:25
Alignment explanation
Indices: 34378788--34378849 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
34378778 AGATGTCTTG
* *
34378788 CCATAAAGGCTTTATATATGACTCA
1 CCATAAAGGCTTTACAGATGACTCA
*
34378813 CCATAAAGGCTTTACAGATGACTCT
1 CCATAAAGGCTTTACAGATGACTCA
*
34378838 CCACAAAGGCTT
1 CCATAAAGGCTT
34378850 CCTAGATGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (25 bp):
CCATAAAGGCTTTACAGATGACTCA
Found at i:34378866 original size:25 final size:25
Alignment explanation
Indices: 34378775--34378869 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
34378765 ATGATTCACC
* *
34378775 ACTAGATGTCTTGCCATAAAGGCTTT
1 ACTAGATGACTTGCCACAAAGGC-TT
* ** *
34378801 A-TATATGACTCACCATAAAGGCTTT
1 ACTAGATGACTTGCCACAAAGGC-TT
34378826 AC-AGATGACTCT-CCACAAAGGCTT
1 ACTAGATGACT-TGCCACAAAGGCTT
* *
34378850 CCTAGATGTCTTGCCACAAA
1 ACTAGATGACTTGCCACAAA
34378870 ATCTTCCCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
24 4 0.07
25 51 0.91
26 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (25 bp):
ACTAGATGACTTGCCACAAAGGCTT
Found at i:34379919 original size:20 final size:23
Alignment explanation
Indices: 34379894--34379936 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
34379884 AATTTTAAAC
34379894 AATTTTT-ATTTT-GAAA-AATA
1 AATTTTTCATTTTAGAAATAATA
34379914 AATTTTTCATTTTAGAAATAATA
1 AATTTTTCATTTTAGAAATAATA
34379937 TATATCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 4 0.20
23 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (23 bp):
AATTTTTCATTTTAGAAATAATA
Found at i:34379959 original size:33 final size:31
Alignment explanation
Indices: 34379916--34380034 Score: 91
Period size: 33 Copynumber: 3.6 Consensus size: 31
34379906 GAAAAATAAA
*
34379916 TTTTTCATTTTAGAAATAATATATATCTAATAC
1 TTTTTAATTTTAGAAATAATA-ATAT-TAATAC
* *
34379949 TTTTTAATTTTA-AAA-AATGAATTTTTAAATAAT
1 TTTTTAATTTTAGAAATAAT-AA-TATT-AAT-AC
*
34379982 TTTTTCATTTTTTAGAAATAATACATA-TAATAC
1 TTTTT-A-ATTTTAGAAATAATA-ATATTAATAC
*
34380015 TTTTTAATTTTAAAAATAAT
1 TTTTTAATTTTAGAAATAAT
34380035 GTTTTAAAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
31 17 0.25
32 10 0.14
33 23 0.33
34 4 0.06
35 6 0.09
36 5 0.07
37 4 0.06
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTTTAATTTTAGAAATAATAATATTAATAC
Found at i:34379990 original size:66 final size:64
Alignment explanation
Indices: 34379909--34380042 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 64
34379899 TTATTTTGAA
*
34379909 AAATAAATTTTTCA-TTTTAGAAATAATATATATCTAATACTTTTTAATTTTAAAAAATGAAT-T
1 AAATAAATTTTTCATTTTTAGAAATAATACATA--TAATACTTTTTAATTTT-AAAAAT-AATGT
34379972 TTT
62 TTT
*
34379975 AAATAATTTTTTCATTTTTTAGAAATAATACATATAATACTTTTTAATTTTAAAAATAATGTTTT
1 AAATAAATTTTTCA-TTTTTAGAAATAATACATATAATACTTTTTAATTTTAAAAATAATGTTTT
34380040 AAA
1 AAA
34380043 ACTTGTAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
64 3 0.05
65 13 0.21
66 30 0.48
68 17 0.27
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (64 bp):
AAATAAATTTTTCATTTTTAGAAATAATACATATAATACTTTTTAATTTTAAAAATAATGTTTT
Found at i:34380665 original size:20 final size:19
Alignment explanation
Indices: 34380640--34380691 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
34380630 AATAATGAAT
34380640 CTGTTCACCAAGAGATAAAA
1 CTGTTCA-CAAGAGATAAAA
*
34380660 CTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATAAAA
*
34380677 CTGCTCATCAAGAGA
1 CTGTTCA-CAAGAGA
34380692 CGGGACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 13 0.48
18 2 0.07
19 2 0.07
20 10 0.37
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (19 bp):
CTGTTCACAAGAGATAAAA
Found at i:34381112 original size:15 final size:15
Alignment explanation
Indices: 34381090--34381127 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
34381080 AAATACTAAT
*
34381090 AATAATAACAATAA-
1 AATAATAAAAATAAC
34381104 AAGTAATAAAAATAAC
1 AA-TAATAAAAATAAC
34381120 AATAATAA
1 AATAATAA
34381128 TACTAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.81
16 2 0.10
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAATAAAAATAAC
Found at i:34390069 original size:20 final size:20
Alignment explanation
Indices: 34390041--34390089 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
34390031 GAATGTTATA
*
34390041 AATTGGCATTAAAAATGATT
1 AATTTGCATTAAAAATGATT
*
34390061 AATTTGCATTAAAAATGGTT
1 AATTTGCATTAAAAATGATT
34390081 AATTTGCAT
1 AATTTGCAT
34390090 GTTTTGTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (20 bp):
AATTTGCATTAAAAATGATT
Found at i:34391747 original size:3 final size:3
Alignment explanation
Indices: 34391739--34391802 Score: 94
Period size: 3 Copynumber: 21.3 Consensus size: 3
34391729 TTCAGTAATT
*
34391739 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
34391788 TCA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
34391803 ATAATAGCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.93
4 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:34391817 original size:2 final size:2
Alignment explanation
Indices: 34391812--34391845 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
34391802 TATAATAGCT
* *
34391812 TA TA TA TA TA TA TA TA TA TA TA TA CA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34391846 CATTTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34392482 original size:109 final size:109
Alignment explanation
Indices: 34392317--34392616 Score: 439
Period size: 109 Copynumber: 2.8 Consensus size: 109
34392307 ATATTCAGCA
* * *
34392317 TTTGGAAATACGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAA
1 TTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
* *
34392382 CTAAGTATCCTTTTAAAATTTTCAAAATAAGGCAATGTTTTACG
66 CCAAATATCCTTTTAAAATTTTCAAAATAAGGCAATGTTTTACG
* *
34392426 TTTGGTAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCTAATAG
1 TTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
** *
34392491 CCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTTACG
66 CCAAATATCCTTTTAAAATTTTCAAAATAAGGCAATGTTTTACG
* * *
34392535 TTTGGAAATTTGAGG-AACGTGCCCCAATGTGCT-GGTTTCGA--TTTCTCGTTTAACCAAATAG
1 TTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
*
34392596 CCAAATATCCTCTT-AAATTTT
66 CCAAATATCCTTTTAAAATTTT
34392617 AATCCATGTC
Statistics
Matches: 172, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
104 6 0.03
105 29 0.17
107 8 0.05
108 17 0.10
109 112 0.65
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
CCAAATATCCTTTTAAAATTTTCAAAATAAGGCAATGTTTTACG
Found at i:34394120 original size:25 final size:25
Alignment explanation
Indices: 34394084--34394143 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
34394074 TTGTACATGC
*
34394084 ATGCTCATACGAGCTATGAATCGGT
1 ATGCTCATACGAGCTATAAATCGGT
*
34394109 ATGCTC-TCACGAGCTGTAAATCGGT
1 ATGCTCAT-ACGAGCTATAAATCGGT
*
34394134 AAGCTCATAC
1 ATGCTCATAC
34394144 AAGTTGAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
ATGCTCATACGAGCTATAAATCGGT
Found at i:34394201 original size:49 final size:49
Alignment explanation
Indices: 34394086--34394227 Score: 187
Period size: 49 Copynumber: 2.9 Consensus size: 49
34394076 GTACATGCAT
* * *
34394086 GCTCATACGAGCT-ATGAATCGGTATGCTCTCACGAGCTGTAAATCGGTAA
1 GCTCATACGAGCTGA-GAATCAGTATGCTCTCACGAGCTG-CAATCAGTAA
* * * *
34394136 GCTCATACAAGTTGAGAATTAGTATGCTCTCACAAGCTGCAATCAGTAA
1 GCTCATACGAGCTGAGAATCAGTATGCTCTCACGAGCTGCAATCAGTAA
*
34394185 GCTCATACGAGCTGAGAATCAGTAAGCTCTCACGAGCTGCAAT
1 GCTCATACGAGCTGAGAATCAGTATGCTCTCACGAGCTGCAAT
34394228 TGGTAATCCC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 46 0.58
50 32 0.41
51 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (49 bp):
GCTCATACGAGCTGAGAATCAGTATGCTCTCACGAGCTGCAATCAGTAA
Found at i:34394209 original size:25 final size:25
Alignment explanation
Indices: 34394092--34394223 Score: 112
Period size: 25 Copynumber: 5.3 Consensus size: 25
34394082 GCATGCTCAT
* *
34394092 ACGAGCT-ATGAATCGGTATGCTCTC
1 ACGAGCTGA-GAATCAGTAAGCTCTC
*
34394117 ACGAGCTGTA-AATCGGTAAGCTCAT-
1 ACGAGCTG-AGAATCAGTAAGCTC-TC
* * * *
34394142 ACAAGTTGAGAATTAGTATGCTCTC
1 ACGAGCTGAGAATCAGTAAGCTCTC
* *
34394167 ACAAGCTG-CAATCAGTAAGCTCAT-
1 ACGAGCTGAGAATCAGTAAGCTC-TC
34394191 ACGAGCTGAGAATCAGTAAGCTCTC
1 ACGAGCTGAGAATCAGTAAGCTCTC
34394216 ACGAGCTG
1 ACGAGCTG
34394224 CAATTGGTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
24 21 0.24
25 64 0.74
26 1 0.01
27 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
ACGAGCTGAGAATCAGTAAGCTCTC
Found at i:34398023 original size:61 final size:61
Alignment explanation
Indices: 34397908--34398023 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
34397898 ATGTGAGTAA
* * * * ** * *
34397908 TAGTGGTGGAATGTGTTATATGTGGAACCATTTGTGGTTGTTCTTTGTTTCATGTAAGCCT
1 TAGTGGTGAAATATGTCATATGTGGAACCATTTGTGGTTATTCCCTATTACATGTAAGCCT
34397969 TAGTGGTGAAATATGTCATATGTGGAAGCC-TTTGTGGTTATTCCCTATTACATGT
1 TAGTGGTGAAATATGTCATATGTGGAA-CCATTTGTGGTTATTCCCTATTACATGT
34398024 GAACCTTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 44 0.96
62 2 0.04
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (61 bp):
TAGTGGTGAAATATGTCATATGTGGAACCATTTGTGGTTATTCCCTATTACATGTAAGCCT
Found at i:34398041 original size:61 final size:61
Alignment explanation
Indices: 34397925--34398041 Score: 132
Period size: 61 Copynumber: 1.9 Consensus size: 61
34397915 GGAATGTGTT
* ** * * *
34397925 ATATGTGGAACCATTTGTGGTTGTTCTTTGTTTCATGTAAGCCTTAGTGGTGAAATATGTC
1 ATATGTGGAACCATTTGTGGTTATTCCCTATTACATGTAAGCCTTAGTGGAGAAATATGTC
34397986 ATATGTGGAAGCC-TTTGTGGTTATTCCCTATTACATGTGAA-CCTTTA-TGGAGAAAT
1 ATATGTGGAA-CCATTTGTGGTTATTCCCTATTACATGT-AAGCC-TTAGTGGAGAAAT
34398042 CATTAAGGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
61 40 0.85
62 7 0.15
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (61 bp):
ATATGTGGAACCATTTGTGGTTATTCCCTATTACATGTAAGCCTTAGTGGAGAAATATGTC
Found at i:34398133 original size:30 final size:30
Alignment explanation
Indices: 34398092--34398167 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
34398082 TATCTAGACC
* * *
34398092 CCTTTGGGGCTATCTAATGATGTGTGGATG
1 CCTTTGTGGCTATCTAATGATGTATGGATA
* *
34398122 CTTTTGTGGCTATCTAATGGTGTATGGATA
1 CCTTTGTGGCTATCTAATGATGTATGGATA
*
34398152 CCTCTGTGGCTATCTA
1 CCTTTGTGGCTATCTA
34398168 TGTAAAGTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.39
Consensus pattern (30 bp):
CCTTTGTGGCTATCTAATGATGTATGGATA
Found at i:34401867 original size:60 final size:61
Alignment explanation
Indices: 34401775--34401923 Score: 205
Period size: 61 Copynumber: 2.5 Consensus size: 61
34401765 TGGCTAAATC
* * *
34401775 TGTTATATAT-G-AGCCATTGTGGTTGTTCTCTGTTTCATGTGAGCC-TAGTAGCAGAATG
1 TGTTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAGAATA
* * *
34401833 TGTTATATATGGAAGCCTTTGTGGTTGTTTTCTGTTTCATGCGAGCCTTAGTGGCGGAATA
1 TGTTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAGAATA
* *
34401894 TGTTATATGTGGAAGCCTTTGTGGCTGTTC
1 TGTTATATATGGAAGCCTTTGTGGTTGTTC
34401924 CCTATTACAT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
58 10 0.13
59 1 0.01
60 31 0.39
61 37 0.47
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (61 bp):
TGTTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAGAATA
Found at i:34402860 original size:26 final size:26
Alignment explanation
Indices: 34402801--34402860 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
34402791 TTTTCTTTTC
** *
34402801 TTTTTCTTTTCATTTTTAGTTTAGGT
1 TTTTTCTTTTCATTTTTAGAGTAGAT
*
34402827 TTTCTCTTTT-ATTTTTAGAGTAGAT
1 TTTTTCTTTTCATTTTTAGAGTAGAT
34402852 TTTATTCTT
1 TTT-TTCTT
34402861 GTAGTTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (26 bp):
TTTTTCTTTTCATTTTTAGAGTAGAT
Found at i:34404526 original size:19 final size:19
Alignment explanation
Indices: 34404502--34404539 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34404492 TTATCATACT
34404502 TTTATTTTTAAGAATTTAA
1 TTTATTTTTAAGAATTTAA
34404521 TTTATTTTTAAGAATTTAA
1 TTTATTTTTAAGAATTTAA
34404540 CTCCTCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTATTTTTAAGAATTTAA
Found at i:34407889 original size:2 final size:2
Alignment explanation
Indices: 34407882--34407938 Score: 89
Period size: 2 Copynumber: 28.5 Consensus size: 2
34407872 GAACCGTGTA
34407882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
34407924 AT GAT GT AT A- AT AT A
1 AT -AT AT AT AT AT AT A
34407939 AAAAAAACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 48 0.94
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34411311 original size:20 final size:20
Alignment explanation
Indices: 34411256--34411311 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
34411246 AGGAAAATTT
34411256 TATTTTT-A-TTAATTTAGA
1 TATTTTTAATTTAATTTAGA
* *
34411274 TATTTTTTATTTTTATTTCA-A
1 TA-TTTTTAATTTAATTT-AGA
34411295 TATTTTTAATTTAATTT
1 TATTTTTAATTTAATTT
34411312 TTACATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 13 0.43
21 9 0.30
22 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTTTAATTTAATTTAGA
Found at i:34419213 original size:12 final size:12
Alignment explanation
Indices: 34419196--34419225 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34419186 AGGGTTGCAT
34419196 ACACGGCTTGGC
1 ACACGGCTTGGC
34419208 ACACGGCTTGGC
1 ACACGGCTTGGC
*
34419220 AGACGG
1 ACACGG
34419226 GCGTGAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.30, G:0.37, T:0.13
Consensus pattern (12 bp):
ACACGGCTTGGC
Found at i:34421347 original size:14 final size:15
Alignment explanation
Indices: 34421328--34421356 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34421318 AATTTAACCC
34421328 AAAATTAT-ATTTTT
1 AAAATTATAATTTTT
34421342 AAAATTATAATTTTT
1 AAAATTATAATTTTT
34421357 CCCCTATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAAATTATAATTTTT
Found at i:34434296 original size:37 final size:36
Alignment explanation
Indices: 34434255--34434352 Score: 96
Period size: 37 Copynumber: 2.7 Consensus size: 36
34434245 TAATAATATT
34434255 TTAATACTTTAATATTAAATTTAATTTAATACTTATC
1 TTAATACTTTAATATT-AATTTAATTTAATACTTATC
* *
34434292 TTAATAGTATT-TTATTAATTTAATATTAAAGTTA-TTATC
1 TTAATACT-TTAATATTAATTTAAT-TT-AA--TACTTATC
34434331 TTAATA-TTTAAT-TTAATTTAAT
1 TTAATACTTTAATATTAATTTAAT
34434353 ATTTATCTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
36 8 0.15
37 25 0.48
38 6 0.12
39 11 0.21
40 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (36 bp):
TTAATACTTTAATATTAATTTAATTTAATACTTATC
Found at i:34434328 original size:20 final size:19
Alignment explanation
Indices: 34434303--34434355 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
34434293 TAATAGTATT
34434303 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
*
34434322 GTTATT-ATCTTAATATTTAA
1 -TTATTAAT-TTAATATTAAA
34434342 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
34434356 TATCTTGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.33
18 3 0.10
19 2 0.07
20 15 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:34438314 original size:26 final size:26
Alignment explanation
Indices: 34438278--34438329 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
34438268 ATTGCCAGAA
*
34438278 GGTTTTGATC-TTCAAATAAAATAGTT
1 GGTTTTGATCTTTC-AAGAAAATAGTT
34438304 GGTTTTGATCTTTCAAGAAAATAGTT
1 GGTTTTGATCTTTCAAGAAAATAGTT
34438330 TTTCTCTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (26 bp):
GGTTTTGATCTTTCAAGAAAATAGTT
Found at i:34445474 original size:51 final size:50
Alignment explanation
Indices: 34445398--34445516 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
34445388 CGGTGGCCTG
*
34445398 CACATAGTACCAC-CTTTGTTGCCAAAGCTACCTTCATCACAAAGTGGCATT
1 CACATAGTACCACAC-TTGTTGCCAAAACTACC-TCATCACAAAGTGGCATT
* * * * *
34445449 CACATAATACCACACTTG-TGACCAAAACTATCTCCTCTCAAAGTGGCCTT
1 CACATAGTACCACACTTGTTG-CCAAAACTACCTCATCACAAAGTGGCATT
34445499 CACATAGTACCACACTTG
1 CACATAGTACCACACTTG
34445517 AGCCACTAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 34 0.58
51 24 0.41
52 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (50 bp):
CACATAGTACCACACTTGTTGCCAAAACTACCTCATCACAAAGTGGCATT
Found at i:34450341 original size:50 final size:50
Alignment explanation
Indices: 34450230--34450355 Score: 168
Period size: 50 Copynumber: 2.5 Consensus size: 50
34450220 GGATATCCGA
*
34450230 TGGCCTGCACATAGTACCAC-CTTTGTTGCCAAAGCTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACAC-TTGTTGCCAAAGCTA-CTTCTTCACAAAG
* *
34450281 TGGCCTTCACATGGTACCACACTTG-TGACCAAAGCTA-TGTCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTTG-CCAAAGCTACT-TCTTCACAAAG
34450331 TGGCCTTCACATAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
34450356 AGCCACTAGT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
49 1 0.01
50 36 0.53
51 30 0.44
52 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (50 bp):
TGGCCTTCACATAGTACCACACTTGTTGCCAAAGCTACTTCTTCACAAAG
Found at i:34455263 original size:41 final size:41
Alignment explanation
Indices: 34455195--34455436 Score: 376
Period size: 41 Copynumber: 5.9 Consensus size: 41
34455185 TGAGTTTTGG
* *
34455195 GGGCATTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * * *
34455236 GAGCCTTTAGCTGCATTTTTGAGAAAGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
34455277 GGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
34455318 GGGCCTTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
34455359 GGGCCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
34455400 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
34455437 AATAATAAAA
Statistics
Matches: 181, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 181 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:34456078 original size:14 final size:14
Alignment explanation
Indices: 34456059--34456092 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
34456049 GTTTATGGGT
34456059 TTAGGGGTTAA-ACG
1 TTAGGGGTTAAGA-G
34456073 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
34456087 TTAGGG
1 TTAGGG
34456093 ATTTAGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.26, C:0.03, G:0.41, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:34456583 original size:289 final size:288
Alignment explanation
Indices: 34456045--34456591 Score: 915
Period size: 289 Copynumber: 1.9 Consensus size: 288
34456035 AGGCTGAGAA
* * *
34456045 AGGGGTTTATGGGTTTAGGGGTTAAACGTTAGGGGTTAAGAGTTAGGGATTTAGGGGTCGAGTTA
1 AGGGGTTTAGGGGTTTAGGGGTTAAACGTTAGGGGTTAAAAGTTAGGGATTTAGGGGCCGAGTTA
34456110 GGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAA
66 GGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAA
*
34456175 AAGAGATAATAATAAATTTGTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAG
131 AAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTTATTTAAGATTTAAG
* *
34456240 GCTGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGGTTTAGAGATTATGGATTAGGGTT
196 GCTGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAATATGGATTTAGAGATTATGGATTAGGGTT
34456305 ATGATTTAGGGGTTGGGATTTAAGGTTT
261 ATGATTTAGGGGTTGGGATTTAAGGTTT
*
34456333 AGGGG-TTAGGGGTTTAGGGGTTAAACGTGTTAGGGGTTAAAAGTTAGGGATTTAGGGGCCGGGT
1 AGGGGTTTAGGGGTTTAGGGGTTAAAC--GTTAGGGGTTAAAAGTTAGGGATTTAGGGGCCGAGT
*
34456397 TAGGGTTTT-GG-GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATT
64 TAGGATTTTGGGCGTTTAGATTAA-T-TTTTTTAATTTATATTTTAAATATGTTCTTATATAATT
*
34456460 GTAAAATAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGA-TTAGTTTAAGAT
127 GTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTTA-TTTAAGAT
*
34456524 TTAAGG-TCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAATATGGATTTAGGGATTATGGATT
191 TTAAGGCT-GGTTTAGGAGTTCATATTTTAAGGTTTAGGGAATATGGATTTAGAGATTATGGATT
34456588 AGGG
255 AGGG
34456592 ATTTAAAGTT
Statistics
Matches: 243, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
287 31 0.13
288 12 0.05
289 200 0.82
ACGTcount: A:0.27, C:0.02, G:0.28, T:0.42
Consensus pattern (288 bp):
AGGGGTTTAGGGGTTTAGGGGTTAAACGTTAGGGGTTAAAAGTTAGGGATTTAGGGGCCGAGTTA
GGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAA
AAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTTATTTAAGATTTAAG
GCTGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAATATGGATTTAGAGATTATGGATTAGGGTT
ATGATTTAGGGGTTGGGATTTAAGGTTT
Found at i:34456591 original size:14 final size:15
Alignment explanation
Indices: 34456556--34456594 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
34456546 TATTTTAAGG
*
34456556 TTTAGGGAATATGGA
1 TTTAGGGATTATGGA
34456571 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
34456586 -TTAGGGATT
1 TTTAGGGATT
34456595 TAAAGTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:34456608 original size:22 final size:22
Alignment explanation
Indices: 34456549--34456609 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
34456539 GAGTTCATAT
* *
34456549 TTTAAGGTTTAGGGAATATGGA
1 TTTAAGGTTTAGGGATTAGGGA
* * *
34456571 TTTAGGGATTATGGATTAGGGA
1 TTTAAGGTTTAGGGATTAGGGA
*
34456593 TTTAAAGTTTAGGGATT
1 TTTAAGGTTTAGGGATT
34456610 CAGGAGTCGG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.31, T:0.39
Consensus pattern (22 bp):
TTTAAGGTTTAGGGATTAGGGA
Found at i:34461107 original size:43 final size:43
Alignment explanation
Indices: 34460836--34461107 Score: 345
Period size: 43 Copynumber: 6.3 Consensus size: 43
34460826 GAACCGTACT
* * *
34460836 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAATATCATGTTC
1 TTTAGCGGCGTTTTTGGGT-AAAGCGCCGCTAAAGATCATGTTC
* *
34460879 TTTAAG-GGCGTTTTTTGGTAAAGTGCCGCTAAAGATCATGTTC
1 TTT-AGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGATCATGTTC
* * *
34460922 TTTAGCGGCGTTTGTGTGTAAAGCGCCGCTAAAGATCATGTTA
1 TTTAGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGATCATGTTC
*
34460965 TTTAGCGGCGATTTTT--GTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCG-TTTTTGGGTAAAGCGCCGCTAAAGATCATGTTC
* * *
34461007 TTTAGCGGTGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGATCATGTTC
* * * *
34461050 TTTAGCGGCATTTTTGGGTAAAGCGCCACTAAAGAACATGATC
1 TTTAGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGATCATGTTC
34461093 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
34461108 TCACATAAAT
Statistics
Matches: 201, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
41 4 0.02
42 35 0.17
43 154 0.77
44 8 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGATCATGTTC
Found at i:34461108 original size:128 final size:129
Alignment explanation
Indices: 34460836--34461107 Score: 370
Period size: 128 Copynumber: 2.1 Consensus size: 129
34460826 GAACCGTACT
* * * *
34460836 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAATATCATGTTCTTTAAGGGCGTTTTTTGGTAAA
1 TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAAGGGCGTTTGTGGGTAAA
* * * * * *
34460901 GTGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGTGTAAAGCGCCGCTAAAGATCATGTTA
66 GCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGGTAAAGCGCCACTAAAGAACATGATA
* *
34460965 TTTAGCGGCGATTTTTG-T-AAAGCGCCGCTAAAGGTCATGTTCTTT-AGCGGTGTTTGTGGGTA
1 TTTAGCGGCG-TTTTTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAAG-GGCGTTTGTGGGTA
* *
34461027 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTTTGGGTAAAGCGCCACTAAAGAACATGAT
64 AAGCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGGTAAAGCGCCACTAAAGAACATGAT
*
34461092 C
129 A
34461093 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
34461108 TCACATAAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
127 7 0.06
128 103 0.82
129 11 0.09
130 5 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (129 bp):
TTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAAGGGCGTTTGTGGGTAAA
GCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGGTAAAGCGCCACTAAAGAACATGATA
Found at i:34466110 original size:21 final size:20
Alignment explanation
Indices: 34466084--34466122 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34466074 TTATATTTTC
34466084 AATTGCCATTTATTTTATTCT
1 AATTGCCA-TTATTTTATTCT
*
34466105 AATTGCTATTATTTTATT
1 AATTGCCATTATTTTATT
34466123 TTGTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (20 bp):
AATTGCCATTATTTTATTCT
Found at i:34471111 original size:3 final size:3
Alignment explanation
Indices: 34471105--34471166 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
34471095 CATATGTTAA
34471105 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34471153 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
34471167 AAGTCATCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34471499 original size:24 final size:24
Alignment explanation
Indices: 34471467--34471513 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
34471457 AAAACAAAAG
34471467 CTAAGGTGAGTAATTACTAAATAA
1 CTAAGGTGAGTAATTACTAAATAA
34471491 CTAAGGTGAGTAATTACTAAATA
1 CTAAGGTGAGTAATTACTAAATA
34471514 TTTATCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (24 bp):
CTAAGGTGAGTAATTACTAAATAA
Found at i:34473654 original size:92 final size:93
Alignment explanation
Indices: 34473542--34473723 Score: 303
Period size: 92 Copynumber: 2.0 Consensus size: 93
34473532 TATGATACAT
*
34473542 TAGGTCAAATTATTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGAATAATGTGAT
1 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGAATAATGTGAT
*
34473607 TAAATTGTTTTAG-TATATAAATATCAC
66 TAAATTGTTTCAGATATATAAATATCAC
* * *
34473634 TAGGTCAAATTAGTAATAATATCGAAAGAAATTTATTACCTTGCATAACCTAGGATTAATGTGAT
1 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGAATAATGTGAT
*
34473699 TAAATTGTTTCAGATATATATATAT
66 TAAATTGTTTCAGATATATAAATAT
34473724 ATATATCACT
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 73 0.88
93 10 0.12
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (93 bp):
TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGAATAATGTGAT
TAAATTGTTTCAGATATATAAATATCAC
Found at i:34476558 original size:21 final size:21
Alignment explanation
Indices: 34476532--34476578 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
34476522 TGCAATTGAG
34476532 GCACACGCCCGTATGCAAGAA
1 GCACACGCCCGTATGCAAGAA
* * *
34476553 GCACACGCCTGTGTGGAAGAA
1 GCACACGCCCGTATGCAAGAA
34476574 GCACA
1 GCACA
34476579 TAACCATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.28, T:0.11
Consensus pattern (21 bp):
GCACACGCCCGTATGCAAGAA
Found at i:34476757 original size:21 final size:21
Alignment explanation
Indices: 34476703--34476759 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
34476693 GTGGAAAACT
* *
34476703 CACACGCCCGTGTGGCTAAGG
1 CACATGCCCGTGTGGCCAAGG
* * * *
34476724 GACATGACAGTGTGTCCAAGG
1 CACATGCCCGTGTGGCCAAGG
34476745 CACATGCCCGTGTGG
1 CACATGCCCGTGTGG
34476760 AAATTTACAA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (21 bp):
CACATGCCCGTGTGGCCAAGG
Found at i:34484308 original size:55 final size:59
Alignment explanation
Indices: 34484226--34484373 Score: 150
Period size: 62 Copynumber: 2.5 Consensus size: 59
34484216 CTAAAATTCA
*
34484226 AAAATCTAATTTAAAA-TCTAA-AGTTGAAAATCC-T-AA-AT-TCTAAG-AAATCTAAATC
1 AAAATTTAATTTAAAACT-TAATA-TTGAAAATCCTTAAATATATCTAAGAAAATC-AAATC
34484281 AAAATTTAATTTAAAACTTAATATTGAAAA-CCTTAAAATATAAGATCTAAGAAAATCAAATC
1 AAAATTTAATTTAAAACTTAATATTGAAAATCCTT-AAATAT---ATCTAAGAAAATCAAATC
* *
34484343 AAAATTTAATTTAAAACCTAATATTTAAAAT
1 AAAATTTAATTTAAAACTTAATATTGAAAAT
34484374 GCAATACATA
Statistics
Matches: 78, Mismatches: 3, Indels: 16
0.80 0.03 0.16
Matches are distributed among these distances:
54 2 0.03
55 26 0.33
56 2 0.03
57 2 0.03
58 2 0.03
62 39 0.50
63 5 0.06
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.32
Consensus pattern (59 bp):
AAAATTTAATTTAAAACTTAATATTGAAAATCCTTAAATATATCTAAGAAAATCAAATC
Found at i:34486754 original size:21 final size:23
Alignment explanation
Indices: 34486708--34486756 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
34486698 TAAGTTTTGT
34486708 AAGAAAAAGTAAAAAAGACAATGA
1 AAGAAAAAG-AAAAAAGACAATGA
34486732 AAGAAAAA-AAAAATAGA-AA-GA
1 AAGAAAAAGAAAAA-AGACAATGA
34486753 AAGA
1 AAGA
34486757 GGATAGGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 3 0.12
24 8 0.33
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (23 bp):
AAGAAAAAGAAAAAAGACAATGA
Found at i:34488183 original size:5 final size:5
Alignment explanation
Indices: 34488166--34488215 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
34488156 GTCCATGCCC
* *
34488166 AAAAT AAATT AAAAT -AAAT AAAAT ATAATT AATAA- AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AA-AAT AAAAT AAAAT AAAAT
34488216 GGGTTACCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 6 0.16
5 26 0.70
6 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
AAAAT
Found at i:34488193 original size:21 final size:22
Alignment explanation
Indices: 34488169--34488215 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
34488159 CATGCCCAAA
*
34488169 ATAAATTAA-AATAAATAAAAT
1 ATAAATTAATAAAAAATAAAAT
34488190 AT-AATTAATAAAAAATAAAAT
1 ATAAATTAATAAAAAATAAAAT
34488211 A-AAAT
1 ATAAAT
34488216 GGGTTACCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
ATAAATTAATAAAAAATAAAAT
Found at i:34489207 original size:16 final size:16
Alignment explanation
Indices: 34489182--34489226 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
34489172 ATTTAGTTAA
*
34489182 TTTCTCTTGAGTATAT
1 TTTCTCTTGAATATAT
*
34489198 TTTCTTTTGAATATAT
1 TTTCTCTTGAATATAT
34489214 TTT-TCTTGAATAT
1 TTTCTCTTGAATAT
34489227 GATCATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (16 bp):
TTTCTCTTGAATATAT
Found at i:34489224 original size:15 final size:15
Alignment explanation
Indices: 34489181--34489226 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
34489171 AATTTAGTTA
* *
34489181 ATTTCTCTTGAGTAT
1 ATTTTTCTTGAATAT
*
34489196 ATTTTCTTTTGAATAT
1 ATTTT-TCTTGAATAT
34489212 ATTTTTCTTGAATAT
1 ATTTTTCTTGAATAT
34489227 GATCATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (15 bp):
ATTTTTCTTGAATAT
Found at i:34493167 original size:13 final size:13
Alignment explanation
Indices: 34493149--34493263 Score: 124
Period size: 13 Copynumber: 9.5 Consensus size: 13
34493139 CTAATTTTTT
34493149 CTAAATATTATCA
1 CTAAATATTATCA
34493162 CTAAATAATT-T--
1 CTAAAT-ATTATCA
34493173 -TAAATATTATCA
1 CTAAATATTATCA
34493185 CTAAATATTATCA
1 CTAAATATTATCA
*
34493198 CTAAATA--AT-T
1 CTAAATATTATCA
*
34493208 CTAAATGTTATCA
1 CTAAATATTATCA
34493221 CTAAATATTATCA
1 CTAAATATTATCA
*
34493234 CTAAATA--AT-T
1 CTAAATATTATCA
34493244 CTAAATATTATCA
1 CTAAATATTATCA
34493257 CTAAATA
1 CTAAATA
34493264 ATTCAAAATT
Statistics
Matches: 85, Mismatches: 6, Indels: 22
0.75 0.05 0.19
Matches are distributed among these distances:
9 3 0.04
10 19 0.22
11 4 0.05
12 4 0.05
13 52 0.61
14 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:34493172 original size:36 final size:35
Alignment explanation
Indices: 34493132--34493243 Score: 115
Period size: 36 Copynumber: 3.1 Consensus size: 35
34493122 TTAGTGCTAA
**
34493132 AATTTAGCTAATTTTTTCTAAATATTATCACTAAAT
1 AATTTA-CTAATTTTCACTAAATATTATCACTAAAT
34493168 AATTT--TAAATATTATCACTAAATATTATCACTAAAT
1 AATTTACT-AAT-TT-TCACTAAATATTATCACTAAAT
34493204 AA-TT-CTAAATGTTATCACTAAATATTATCACTAAAT
1 AATTTACT-AAT-TT-TCACTAAATATTATCACTAAAT
34493240 AATT
1 AATT
34493244 CTAAATATTA
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
33 1 0.01
34 3 0.04
35 4 0.06
36 59 0.87
37 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (35 bp):
AATTTACTAATTTTCACTAAATATTATCACTAAAT
Found at i:34493244 original size:36 final size:36
Alignment explanation
Indices: 34493149--34493263 Score: 212
Period size: 36 Copynumber: 3.2 Consensus size: 36
34493139 CTAATTTTTT
*
34493149 CTAAATATTATCACTAAATAATTTTAAATATTATCA
1 CTAAATATTATCACTAAATAATTCTAAATATTATCA
*
34493185 CTAAATATTATCACTAAATAATTCTAAATGTTATCA
1 CTAAATATTATCACTAAATAATTCTAAATATTATCA
34493221 CTAAATATTATCACTAAATAATTCTAAATATTATCA
1 CTAAATATTATCACTAAATAATTCTAAATATTATCA
34493257 CTAAATA
1 CTAAATA
34493264 ATTCAAAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 76 1.00
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (36 bp):
CTAAATATTATCACTAAATAATTCTAAATATTATCA
Found at i:34493267 original size:23 final size:23
Alignment explanation
Indices: 34493147--34493272 Score: 123
Period size: 23 Copynumber: 5.3 Consensus size: 23
34493137 AGCTAATTTT
34493147 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
*
34493170 TTTTAAATATTATCACTAAATATTA
1 TTCTAAATATTATCACTAAATA--A
* * *
34493195 TCACTAAATA--AT-TCTAAATGTTA
1 T-TCTAAATATTATCACTAAA--TAA
*
34493218 TCACTAAATATTATCACTAAATAA
1 T-TCTAAATATTATCACTAAATAA
34493242 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
*
34493265 TTCAAAAT
1 TTCTAAAT
34493273 TTAAAAATCA
Statistics
Matches: 86, Mismatches: 9, Indels: 16
0.77 0.08 0.14
Matches are distributed among these distances:
23 65 0.76
24 5 0.06
25 5 0.06
26 11 0.13
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.40
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:34494785 original size:10 final size:11
Alignment explanation
Indices: 34494756--34494787 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
34494746 AACTAGAATT
34494756 TAAAATAAA-A
1 TAAAATAAATA
34494766 TAAAATAAATA
1 TAAAATAAATA
34494777 -AAAATAAATA
1 TAAAATAAATA
34494787 T
1 T
34494788 GGGTTGCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 19 0.95
11 1 0.05
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAATAAATA
Found at i:34501129 original size:13 final size:13
Alignment explanation
Indices: 34501105--34501138 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34501095 CAAAAAGGTT
*
34501105 GAAAGTAAAAAAAG
1 GAAAG-AAAAAAAA
34501119 GAAAGAAAAAAAA
1 GAAAGAAAAAAAA
34501132 GAAAGAA
1 GAAAGAA
34501139 TTTATTAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (13 bp):
GAAAGAAAAAAAA
Found at i:34501267 original size:23 final size:23
Alignment explanation
Indices: 34501237--34501287 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
34501227 TAGATTTTTC
**
34501237 CTAAATATTATCTTTAAATAATT
1 CTAAATATTATCACTAAATAATT
34501260 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
34501283 -TAAAT
1 CTAAAT
34501288 TTTAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:34505548 original size:9 final size:8
Alignment explanation
Indices: 34505525--34505549 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34505515 TAATTAATTT
34505525 TTTAAAAA
1 TTTAAAAA
34505533 TTTAAAAA
1 TTTAAAAA
34505541 TTTAAAAA
1 TTTAAAAA
34505549 T
1 T
34505550 ATATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTTAAAAA
Found at i:34508683 original size:11 final size:11
Alignment explanation
Indices: 34508669--34508693 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34508659 AAATTTTAAA
34508669 AAAAGTATTTT
1 AAAAGTATTTT
34508680 AAAAGTATTTT
1 AAAAGTATTTT
34508691 AAA
1 AAA
34508694 GTTAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:34508691 original size:52 final size:52
Alignment explanation
Indices: 34508593--34508693 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 52
34508583 AAAAATTTAT
* *
34508593 TTTAAAAATTAAATAAAAATTAAAAAAGTATTTTAAGAATTTTTTTAAAAAA
1 TTTAAAAATTAAATAAAAATTAAAAAAGTATTTTAAGAAGTATTTTAAAAAA
*
34508645 TTTAAAAATTAAA-AAAATTTTAAAAAAAGTATTTTAA-AAGTATTTTAAA
1 TTTAAAAATTAAATAAAA-ATT-AAAAAAGTATTTTAAGAAGTATTTTAAA
34508694 GTTAAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 4 0.09
52 25 0.57
53 15 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (52 bp):
TTTAAAAATTAAATAAAAATTAAAAAAGTATTTTAAGAAGTATTTTAAAAAA
Found at i:34508713 original size:53 final size:54
Alignment explanation
Indices: 34508614--34508718 Score: 119
Period size: 53 Copynumber: 2.0 Consensus size: 54
34508604 AATAAAAATT
* * * *
34508614 AAAAAAGTATTTTAAGAATTTTTTTAAAAAATTTAAAAATTAAAAAA-ATTTTA
1 AAAAAAGTATTTTAAGAAGTATTTTAAAAAATATAAAAAATAAAAAATATTTTA
34508667 AAAAAAGTATTTTAA-AAGTATTTTAAAGTTAAA-ATAAAAAAT-AAAAATATTT
1 AAAAAAGTATTTTAAGAAGTATTTTAAA---AAATATAAAAAATAAAAAATATTT
34508719 ATTATTCGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
52 10 0.23
53 20 0.45
54 11 0.25
55 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (54 bp):
AAAAAAGTATTTTAAGAAGTATTTTAAAAAATATAAAAAATAAAAAATATTTTA
Found at i:34517541 original size:17 final size:17
Alignment explanation
Indices: 34517519--34517552 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34517509 GATGATCGAG
*
34517519 TTAATAAATATTATTTA
1 TTAATAAATAATATTTA
34517536 TTAATAAATAATATTTA
1 TTAATAAATAATATTTA
34517553 CAAGGTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATAAATAATATTTA
Found at i:34522778 original size:100 final size:101
Alignment explanation
Indices: 34522604--34522819 Score: 308
Period size: 100 Copynumber: 2.1 Consensus size: 101
34522594 CAATTATTCA
* * *
34522604 AACGTAAGATCATGGTTGGATCATGGCAGTGTTTATATGTAAGACCATAGCTAGGTTATGACATT
1 AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGTTATGACATT
* * * *
34522669 ATGATGATAATACCATAA-TTGGTTATGGCACTATG
66 ATGATGATAAGACCATAACTAGGTTATGACACTACG
* * *
34522704 GACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGTTATGACATT
* *
34522769 CTGATGATAAGACCATAACTAGGTTATTACACTACG
66 ATGATGATAAGACCATAACTAGGTTATGACACTACG
*
34522805 AATGTAAGACCATGG
1 AACGTAAGACCATGG
34522820 CAGCGCCATG
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 75 0.74
101 26 0.26
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTAGGTTATGACATT
ATGATGATAAGACCATAACTAGGTTATGACACTACG
Found at i:34529502 original size:17 final size:17
Alignment explanation
Indices: 34529476--34529508 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34529466 TTTTACTTCC
34529476 AAAAAATAAAATAAATT
1 AAAAAATAAAATAAATT
*
34529493 AAAAATTAAAATAAAT
1 AAAAAATAAAATAAAT
34529509 AACTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATAAAATAAATT
Found at i:34530137 original size:33 final size:32
Alignment explanation
Indices: 34530064--34530141 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
34530054 CAGTGTTTAT
* *
34530064 ATGTAAGACCATAGCTGGGCTATGACATTCTG
1 ATGTAAGACCATAACTGGGCTATGACATACTG
* *
34530096 ATGATAAGACCATAACTGGGTTATGGCACTAC-G
1 ATG-TAAGACCATAACTGGGCTATGACA-TACTG
34530129 AATGTAAGACCAT
1 -ATGTAAGACCAT
34530142 GGCAGGGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 3 0.08
33 31 0.79
34 5 0.13
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATGACATACTG
Found at i:34530155 original size:101 final size:101
Alignment explanation
Indices: 34529927--34530186 Score: 335
Period size: 101 Copynumber: 2.6 Consensus size: 101
34529917 CAATTATTCA
* * * *
34529927 AACGTCAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGTTAGGCTATGGCATT
1 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATT
* *
34529992 ATGATGATAAAACCATAACTTGGTTATGGCACTATG
66 ATGATGATAAAACCATAACTGGGTTATGGCACTACG
* * *
34530028 GACGTAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATT
1 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATT
* *
34530093 CTGATGATAAGACCATAACTGGGTTATGGCACTACG
66 ATGATGATAAAACCATAACTGGGTTATGGCACTACG
* ** * * * * *
34530129 AATGTAAGACCATGGCAGGGCCATGGCAATG--CATATGTAATACCATAGTTGGACTATG
1 AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATG
34530187 GCACAAAGGA
Statistics
Matches: 137, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
99 23 0.17
101 114 0.83
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATT
ATGATGATAAAACCATAACTGGGTTATGGCACTACG
Found at i:34536303 original size:20 final size:20
Alignment explanation
Indices: 34536278--34536319 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
34536268 TATAATTTTT
34536278 ATTTTAGAAAATAGAAAAAC
1 ATTTTAGAAAATAGAAAAAC
34536298 ATTTTAGAAAATAGAAAAAC
1 ATTTTAGAAAATAGAAAAAC
34536318 AT
1 AT
34536320 GTATTGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.26
Consensus pattern (20 bp):
ATTTTAGAAAATAGAAAAAC
Found at i:34540628 original size:11 final size:11
Alignment explanation
Indices: 34540596--34540638 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
34540586 TTAACTCCCT
34540596 TTTTTTAAATAA
1 TTTTTTAAAT-A
**
34540608 TTTTAAAAATA
1 TTTTTTAAATA
*
34540619 TTTTTTAAATT
1 TTTTTTAAATA
34540630 TTTTTTAAA
1 TTTTTTAAA
34540639 CCGTAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:34541164 original size:30 final size:29
Alignment explanation
Indices: 34541130--34541255 Score: 119
Period size: 30 Copynumber: 4.2 Consensus size: 29
34541120 AAAAACAAAA
* *
34541130 AAAATTACATTTTAACCCCTCAACTTTTTT
1 AAAATTACATTTTGACCCCT-AACTTTCTT
* *
34541160 AAAATTACATTTTCACCCCTACACTTTCCT
1 AAAATTACATTTTGACCCCTA-ACTTTCTT
* *
34541190 AAAATTACATTTTGGCCCATCAAC-TTCTT
1 AAAATTACATTTTGACCCCT-AACTTTCTT
* * * *
34541219 GAAATTATATTTTGACCCCTAAATTTTCTC
1 AAAATTACATTTTGACCCCT-AACTTTCTT
34541249 AAAATTA
1 AAAATTA
34541256 TGCTTGGCCC
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
29 23 0.29
30 54 0.69
31 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCTAACTTTCTT
Found at i:34541253 original size:59 final size:60
Alignment explanation
Indices: 34541130--34541255 Score: 148
Period size: 59 Copynumber: 2.1 Consensus size: 60
34541120 AAAAACAAAA
* * *
34541130 AAAATTACATTTTAACCCCTCAACTTTTTTAAAATTACATTTTCACCCCTACACTTTCCT
1 AAAATTACATTTTAACCCATCAACTTTCTTAAAATTACATTTTCACCCCTAAACTTTCCT
** * * * *
34541190 AAAATTACATTTTGGCCCATCAAC-TTCTTGAAATTATATTTTGACCCCTAAA-TTTTCT
1 AAAATTACATTTTAACCCATCAACTTTCTTAAAATTACATTTTCACCCCTAAACTTTCCT
34541248 CAAAATTA
1 -AAAATTA
34541256 TGCTTGGCCC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
58 5 0.09
59 30 0.54
60 21 0.38
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (60 bp):
AAAATTACATTTTAACCCATCAACTTTCTTAAAATTACATTTTCACCCCTAAACTTTCCT
Found at i:34541782 original size:4 final size:4
Alignment explanation
Indices: 34541769--34541852 Score: 79
Period size: 4 Copynumber: 21.5 Consensus size: 4
34541759 ACGGAGAAGG
*
34541769 AAGA AA-A AAGA AAG- AAGA AAGA AAGA AAGA AA-A AAGA AAGA AGAAA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA
* *
34541815 AAGA AAGA AAAA AAGA GAA-A AA-A AGGA AAGAA AAGA AA
1 AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAG-A AAGA AA
34541853 TAAAAAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
3 13 0.19
4 45 0.67
5 9 0.13
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:34541824 original size:32 final size:33
Alignment explanation
Indices: 34541769--34541860 Score: 109
Period size: 32 Copynumber: 2.8 Consensus size: 33
34541759 ACGGAGAAGG
* *
34541769 AAGAAAAAAGAAAGAAGAAAGAAAGAAAGA-AAA
1 AAGAAAGAAGAAA-AAGAAAGAAAAAAAGAGAAA
34541802 AAGAAAGAAGAAAAAGAAAGAAAAAAAGAGAAA
1 AAGAAAGAAGAAAAAGAAAGAAAAAAAGAGAAA
* *
34541835 AA-AAGGAA-AGAAAAGAAATAAAAAAA
1 AAGAAAGAAGA-AAAAGAAAGAAAAAAA
34541861 TAAATTAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
31 1 0.02
32 35 0.66
33 17 0.32
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (33 bp):
AAGAAAGAAGAAAAAGAAAGAAAAAAAGAGAAA
Found at i:34541825 original size:23 final size:22
Alignment explanation
Indices: 34541772--34541860 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 22
34541762 GAGAAGGAAG
34541772 AAAAAAGAAAGAAGAAAGAAAGA
1 AAAAAAGAAAGAA-AAAGAAAGA
*
34541795 AAGAAA-AAAG--AAAG-AAG-
1 AAAAAAGAAAGAAAAAGAAAGA
34541812 -AAAAAGAAAGAAAAA-AAGAGA
1 AAAAAAGAAAGAAAAAGAA-AGA
*
34541833 AAAAAAGGAAAG-AAAAGAAATA
1 AAAAAA-GAAAGAAAAAGAAAGA
34541855 AAAAAA
1 AAAAAA
34541861 TAAATTAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 3 0.06
19 8 0.15
20 2 0.04
22 21 0.39
23 12 0.22
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (22 bp):
AAAAAAGAAAGAAAAAGAAAGA
Found at i:34541845 original size:40 final size:40
Alignment explanation
Indices: 34541763--34541847 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
34541753 TGCTGAACGG
* *
34541763 AGAAGGAAGAAAAAAGAAAGAAGAAAGAAAGAAAGAAAAA
1 AGAAAGAAGAAAAAAGAAAGAAGAAAGAAAGAAAAAAAAA
34541803 AGAAAGAAG-AAAAAGAAAGAA-AAA-AAGAGAAAAAAAGGAA
1 AGAAAGAAGAAAAAAGAAAGAAGAAAGAA-AGAAAAAAA--AA
34541843 AGAAA
1 AGAAA
34541848 AGAAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
37 2 0.05
38 11 0.28
39 12 0.30
40 15 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (40 bp):
AGAAAGAAGAAAAAAGAAAGAAGAAAGAAAGAAAAAAAAA
Found at i:34541848 original size:11 final size:11
Alignment explanation
Indices: 34541769--34541848 Score: 76
Period size: 11 Copynumber: 7.0 Consensus size: 11
34541759 ACGGAGAAGG
34541769 AAGAAA-AAAGA
1 AAGAAAGAAA-A
34541780 AAG-AAGAAAGA
1 AAGAAAGAAA-A
34541791 AAGAAAGAAAA
1 AAGAAAGAAAA
34541802 AAGAAAGAAGAAA
1 AAGAAAG-A-AAA
34541815 AAGAAAGAAAAA
1 AAGAAAG-AAAA
34541827 AAGAGAA-AAAA
1 AAGA-AAGAAAA
*
34541838 AGGAAAGAAAA
1 AAGAAAGAAAA
34541849 GAAATAAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
10 4 0.06
11 30 0.48
12 14 0.23
13 14 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:34541859 original size:11 final size:10
Alignment explanation
Indices: 34541769--34541859 Score: 65
Period size: 11 Copynumber: 8.2 Consensus size: 10
34541759 ACGGAGAAGG
34541769 AAGAAAAAAGA
1 AAGAAAAAA-A
*
34541780 AAGAAGAAAGA
1 AAGAA-AAAAA
34541791 AAGAAAGAAAA
1 AAGAAA-AAAA
34541802 AAGAAAGAAGAAA
1 AAG-AA-AA-AAA
34541815 AAGAAAGAAAAA
1 AAG-AA-AAAAA
*
34541827 AAGAGAAAAA
1 AAGAAAAAAA
* *
34541837 AAGGAAAGAA
1 AAGAAAAAAA
34541847 AAGAAATAAAA
1 AAGAAA-AAAA
34541858 AA
1 AA
34541860 ATAAATTAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
10 18 0.27
11 23 0.35
12 12 0.18
13 13 0.20
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:34542211 original size:19 final size:19
Alignment explanation
Indices: 34542172--34542213 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34542162 NNNNNNNNNN
*
34542172 AAAAAAAAAGGAAAGAGAG
1 AAAAAAAAAGGAAAGAAAG
34542191 AAAAAAAAAGGGAAA-AAAG
1 AAAAAAAAA-GGAAAGAAAG
34542210 AAAA
1 AAAA
34542214 GGGCCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGGAAAGAAAG
Found at i:34542215 original size:14 final size:14
Alignment explanation
Indices: 34542175--34542216 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
34542165 NNNNNNNAAA
* *
34542175 AAAAAAGGAAAGAG
1 AAAAAAGAAAAGGG
34542189 AGAAAAA-AAAAGGG
1 A-AAAAAGAAAAGGG
34542203 AAAAAAGAAAAGGG
1 AAAAAAGAAAAGGG
34542217 CCAACAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 5 0.21
14 14 0.58
15 5 0.21
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGGG
Found at i:34542328 original size:15 final size:16
Alignment explanation
Indices: 34542308--34542337 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34542298 TTAATTAGCA
34542308 TTTTTTTTA-AAATAG
1 TTTTTTTTAGAAATAG
34542323 TTTTTTTTAGAAATA
1 TTTTTTTTAGAAATA
34542338 TTAGTATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
TTTTTTTTAGAAATAG
Found at i:34542761 original size:16 final size:16
Alignment explanation
Indices: 34542742--34542846 Score: 102
Period size: 16 Copynumber: 6.2 Consensus size: 16
34542732 GTTTTCAAAA
34542742 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
34542758 AAAATTCTCATGTTTC
1 AAAATTCTCGTGTTTT
* *
34542774 AAAATTGTTGTGTTTT
1 AAAATTCTCGTGTTTT
*
34542790 CAAAAATTTTCGTGTTTTT
1 --AAAATTCTCGTG-TTTT
* *
34542809 AAGAATTTTCGTGTCTCT
1 AA-AATTCTCGTGT-TTT
34542827 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
34542843 AAAA
1 AAAA
34542847 ATATTTTCGT
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
16 32 0.44
17 13 0.18
18 24 0.33
19 4 0.05
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:34542761 original size:18 final size:17
Alignment explanation
Indices: 34542741--34542848 Score: 96
Period size: 18 Copynumber: 6.4 Consensus size: 17
34542731 TGTTTTCAAA
34542741 AAAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTTT
*
34542758 -AAAATTCTCATG-TTT
1 AAAAATTCTCGTGTTTT
* * *
34542773 CAAAATTGTTGTGTTTT
1 AAAAATTCTCGTGTTTT
*
34542790 CAAAAATTTTCGTGTTTTT
1 -AAAAATTCTCGTG-TTTT
* * *
34542809 AAGAATTTTCGTGTCTCT
1 AAAAATTCTCGTGT-TTT
34542827 -AAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTTT
34542843 AAAAAT
1 AAAAAT
34542849 ATTTTCGTGT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.04
16 22 0.30
17 20 0.27
18 24 0.33
19 4 0.05
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTT
Found at i:34543385 original size:77 final size:77
Alignment explanation
Indices: 34543302--34544527 Score: 1106
Period size: 78 Copynumber: 15.8 Consensus size: 77
34543292 TGTGTGCCTA
* * * * * *
34543302 AGGCTCAACTCACC-CATAGCAATATGAGTTGATTTTTTTTAACAAC-GGAATTAAAAAATACTT
1 AGGCTCAACTCACCTC-TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCT
34543365 CAGCGTACGACCCG
65 CAGCGTA-GACCCG
34543379 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
* * *
34543444 ATCTTA-ACCTG
66 AGCGTAGACCCG
* * *
34543455 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTTTGAAAAGCAGAAATTG-GAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
34543518 AGCGT-GACCCG
66 AGCGTAGACCCG
34543529 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAAACAGAAATTGAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAAACAGAAATTGAAAAATA
34543594 CCTCAG-G-ATGACCCG
62 CCTCAGCGTA-GACCCG
* *
34543609 AGGCTCAACTCATCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
*
34543674 AACGT-GTACCCG
66 AGCGTAG-ACCCG
*
34543686 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
34543751 AGCGT-GTACCCG
66 AGCGTAG-ACCCG
* * *
34543763 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAAACAAAAATTGTAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAAACAGAAATTGAAAAATA
*
34543828 CTTCAG-G-ATGACCCG
62 CCTCAGCGTA-GACCCG
* *** * * *
34543843 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAAAACGGACA-TGTAAAAGAAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAA-ATA--
*
34543907 CCTC-GTCCT-GACCCG
62 CCTCAG-CGTAGACCCG
* * * * *
34543922 AGGCTCAACTCACCTCT-GTATTATGAGTTGA--TTATCGAAAAAC-GAAGATTTGAGAGATATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAA-A-TTGA-A-AAATA
* *
34543983 CCTCGGCAT-GACCCG
62 CCTCAGCGTAGACCCG
* * ** *
34543998 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTAAAAAAAAAGACATAAATT-AAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT---TGAAAA-ACAGAAATTGAAAAATA
*
34544061 CCTCAACGT-GACCCG
62 CCTCAGCGTAGACCCG
* * **** *
34544076 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAAAAAGACATAAATT-AAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT---TTTGAAAA-ACAGAAATTGAAAAATA
*
34544139 CCTCAACGT-GACCCG
62 CCTCAGCGTAGACCCG
* * *
34544154 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT-GAA-AAATAC
* **
34544218 CTC-GACAT-GGTCCG
63 CTCAG-CGTAGACCCG
* * *
34544232 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACATAAATTTAAAAGAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT-GAA-AAATAC
* * **
34544297 CTCGGCAT-GGTCCG
63 CTCAGCGTAGACCCG
* *
34544311 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAGAAACAGAAATTTAAAAGAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT-GAA-AAATAC
34544375 CTC-G-GTATGTGACCCG
63 CTCAGCGTA---GACCCG
* **
34544391 AGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAAAAACAGAAATTGAGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGA-AAAATACCT
* *
34544455 CGGCATGT-GCCCCG
65 CAGC--GTAGACCCG
* * *
34544469 AGGCTCAACTCACCTC-CAGCATTATGAGTTGA--TTTTTAAAAAACAAAAATTGAAAAATA
1 AGGCTCAACTCACCTCTC-GCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATA
34544528 TTTCTTCAGA
Statistics
Matches: 999, Mismatches: 90, Indels: 121
0.83 0.07 0.10
Matches are distributed among these distances:
74 54 0.05
75 29 0.03
76 146 0.15
77 178 0.18
78 272 0.27
79 140 0.14
80 135 0.14
81 38 0.04
82 5 0.01
83 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
AGCGTAGACCCG
Found at i:34543802 original size:157 final size:153
Alignment explanation
Indices: 34543302--34544527 Score: 1162
Period size: 157 Copynumber: 7.9 Consensus size: 153
34543292 TGTGTGCCTA
* * * * * *
34543302 AGGCTCAACTCACC-CATAGCAATATGAGTTGATTTTTTTTAACAAC-GGAATTAAAAAATACTT
1 AGGCTCAACTCACCTC-TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCT
34543365 CAGCGTACGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
65 CAGCGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
* *
34543430 TTGAAAAATACCTCATC-T-TAACCTG
128 TTGAAAAATACCTCAGCGTGT-ACCCG
* * *
34543455 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTTTGAAAAGCAGAAATTG-GAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
34543518 AGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAAACAGAA
66 AGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAAACAGAA
34543583 ATTGAAAAATACCTCAG-GATG-ACCCG
127 ATTGAAAAATACCTCAGCG-TGTACCCG
* *
34543609 AGGCTCAACTCATCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
* *
34543674 AACGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATT
66 AGCGTG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT
34543739 GAAAAATACCTCAGCGTGTACCCG
130 GAAAAATACCTCAGCGTGTACCCG
* * *
34543763 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAAACAAAAATTGTAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAAACAGAAATTGAAAAATA
* * *** *
34543828 CTTCAG-GATGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAAAACGGA
62 CCTCAGCG-TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
* * *
34543892 CA-TGTAAAAGAAACTCCTC-GTCCTG-ACCCG
126 AATTG-AAAA-ATA--CCTCAG-CGTGTACCCG
* * * * *
34543922 AGGCTCAACTCACCTCT-GTATTATGAGTTGA--TTATCGAAAAAC-GAAGATTTGAGAGATATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAA-A-TTGA-A-AAATA
* * * * **
34543983 CCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTAAAAAAAAAGAC
62 CCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT---TGAAAA-AC
* *
34544047 ATAAATT-AAAAATACCTCAACGTG-ACCCG
123 AGAAATTGAAAAATACCTCAGCGTGTACCCG
* * **** *
34544076 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAAAAAGACATAAATT-AAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT---TTTGAAAA-ACAGAAATTGAAAAATA
* * *
34544139 CCTCAACGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTTGAAAAACAGAA
62 CCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
* *
34544203 ATTTAAAAGAAATACCTC-GACATGGT--CCG
127 A-TT-GAA-AAATACCTCAG-CGT-GTACCCG
* * *
34544232 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAACATAAATTTAAAAGAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA-TT-GAA-AAATAC
* * ** *
34544297 CTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAGAAACAGAAA
63 CTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
* * **
34544361 TTTAAAAGAAATACCTCGGTATGTGACCCG
128 -TT-GAA-AAATACCTCAGCGTGT-ACCCG
* **
34544391 AGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAAAAACAGAAATTGAGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGA-AAAATACCT
* * * * *
34544455 CGGCATGTGCCCCGAGGCTCAACTCACCTC-CAGCATTATGAGTTGA--TTTTTAAAAAACAAAA
65 CAGC--GTGACCCGAGGCTCAACTCACCTCTC-GCAATATGAGTTGATTTTTTTGAAAAACAGAA
34544517 ATTGAAAAATA
127 ATTGAAAAATA
34544528 TTTCTTCAGA
Statistics
Matches: 914, Mismatches: 96, Indels: 125
0.81 0.08 0.11
Matches are distributed among these distances:
150 38 0.04
151 2 0.00
152 39 0.04
153 86 0.09
154 175 0.19
155 56 0.06
156 123 0.13
157 206 0.23
158 113 0.12
159 64 0.07
160 10 0.01
161 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (153 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
AGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
AAAAATACCTCAGCGTGTACCCG
Found at i:34545399 original size:28 final size:27
Alignment explanation
Indices: 34545379--34545479 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 27
34545369 TTCATCTTGA
*
34545379 TTTTTTATTTTTTGTTGTTTCTTTCTG
1 TTTTTTATTTTTTGTTGTTTCTCTCTG
*
34545406 TTTTTTATTTTTTGTT-TCTT-T-TTTG
1 TTTTTTATTTTTTGTTGT-TTCTCTCTG
* * * *
34545431 TTTTTTGTTTTTT-TTGTTTTTTTTTG
1 TTTTTTATTTTTTGTTGTTTCTCTCTG
* *
34545457 TTTTTTTTTGTTTTTTTGTTTCT
1 TTTTTTATT-TTTTGTTGTTTCT
34545480 TTTTTGTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.06
25 17 0.27
26 14 0.22
27 22 0.34
28 7 0.11
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.84
Consensus pattern (27 bp):
TTTTTTATTTTTTGTTGTTTCTCTCTG
Found at i:34545409 original size:20 final size:20
Alignment explanation
Indices: 34545386--34545511 Score: 89
Period size: 20 Copynumber: 6.3 Consensus size: 20
34545376 TGATTTTTTA
34545386 TTTTTTGTTGTTTCTTTCTG
1 TTTTTTGTTGTTTCTTTCTG
* * * *
34545406 TTTTTTATTTTTTGTTTCTTT
1 TTTTTTGTTGTTTCTTTC-TG
* *
34545427 TTTGTTTTTTGTTT-TTTTTG
1 TTT-TTTGTTGTTTCTTTCTG
* * *
34545447 TTTTTTTTTGTTTTTTTTTG
1 TTTTTTGTTGTTTCTTTCTG
*
34545467 -TTTTT-TTGTTTCTTTTTTG
1 TTTTTTGTTGTTTC-TTTCTG
*
34545486 TTTTTTTGTT-TTTTTTTCTG
1 -TTTTTTGTTGTTTCTTTCTG
34545506 TTTTTT
1 TTTTTT
34545512 AGGCATAACA
Statistics
Matches: 88, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.07
19 27 0.31
20 30 0.34
21 15 0.17
22 10 0.11
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.85
Consensus pattern (20 bp):
TTTTTTGTTGTTTCTTTCTG
Found at i:34545409 original size:27 final size:26
Alignment explanation
Indices: 34545379--34545512 Score: 145
Period size: 25 Copynumber: 5.3 Consensus size: 26
34545369 TTCATCTTGA
*
34545379 TTTTTTATTTTTTGTTGTTTCTTTCTG
1 TTTTTTATTTTTTGTT-TTTTTTTCTG
*
34545406 TTTTTTATTTTTTGTTTCTTTTT-TG
1 TTTTTTATTTTTTGTTTTTTTTTCTG
* *
34545431 TTTTTTGTTTTTT-TTGTTTTTTTTTG
1 TTTTTTATTTTTTGTT-TTTTTTTCTG
* *
34545457 TTTTTT-TTTGTT-TTTTTGTTTCT-
1 TTTTTTATTTTTTGTTTTTTTTTCTG
34545480 TTTTTGT-TTTTTTGTTTTTTTTTCTG
1 TTTTT-TATTTTTTGTTTTTTTTTCTG
34545506 TTTTTTA
1 TTTTTTA
34545513 GGCATAACAT
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
23 5 0.05
24 15 0.16
25 38 0.41
26 18 0.20
27 16 0.17
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.84
Consensus pattern (26 bp):
TTTTTTATTTTTTGTTTTTTTTTCTG
Found at i:34545428 original size:19 final size:17
Alignment explanation
Indices: 34545406--34545502 Score: 122
Period size: 18 Copynumber: 5.4 Consensus size: 17
34545396 TTTCTTTCTG
*
34545406 TTTTTTATTTTTTGTTT
1 TTTTTTTTTTTTTGTTT
*
34545423 CTTTTTTGTTTTTTGTTTT
1 -TTTTTTTTTTTTTG-TTT
34545442 TTTTGTTTTTTTTTGTTT
1 TTTT-TTTTTTTTTGTTT
34545460 TTTTTTGTTTTTTTGTTT
1 TTTTTT-TTTTTTTGTTT
34545478 CTTTTTTGTTTTTTTGTTT
1 -TTTTTT-TTTTTTTGTTT
34545497 TTTTTT
1 TTTTTT
34545503 CTGTTTTTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
17 2 0.03
18 41 0.56
19 30 0.41
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTTGTTT
Found at i:34545509 original size:19 final size:18
Alignment explanation
Indices: 34545381--34545511 Score: 138
Period size: 19 Copynumber: 6.9 Consensus size: 18
34545371 CATCTTGATT
* *
34545381 TTTTATTTTTTGTTGTTTC
1 TTTT-TTTTTTGTTTTTTG
*
34545400 TTTCTGTTTTTTATTTTTTG
1 TTT-T-TTTTTTGTTTTTTG
*
34545420 TTTCTTTTTTGTTTTTTG
1 TTTTTTTTTTGTTTTTTG
*
34545438 TTTTTTTTGTTTTTTTTTG
1 TTTTTTTT-TTGTTTTTTG
34545457 -TTTTTTTTTGTTTTTTTG
1 TTTTTTTTTTG-TTTTTTG
*
34545475 TTTCTTTTTTGTTTTTTTG
1 TTTTTTTTTTG-TTTTTTG
34545494 TTTTTTTTTCTGTTTTTT
1 TTTTTTTTT-TGTTTTTT
34545512 AGGCATAACA
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.02
18 34 0.35
19 43 0.45
20 17 0.18
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTTTG
Found at i:34545511 original size:1 final size:1
Alignment explanation
Indices: 34545406--34545502 Score: 86
Period size: 1 Copynumber: 97.0 Consensus size: 1
34545396 TTTCTTTCTG
* * * * * * * *
34545406 TTTTTTATTTTTTGTTTCTTTTTTGTTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
34545471 TTTGTTTCTTTTTTGTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34545503 CTGTTTTTTA
Statistics
Matches: 72, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Done.