Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 10 of 208
Found at i:3187921 original size:21 final size:21
Alignment explanation
Indices: 3187894--3187937 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3187884 AATTTTTATT
* *
3187894 GTAAAAAAGAAAATTACCCATA
1 GTAAAAAA-AAAAATACCAATA
3187916 GTAAAAAAAAAAATACCAATA
1 GTAAAAAAAAAAATACCAATA
3187937 G
1 G
3187938 CAGTCCCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (21 bp):
GTAAAAAAAAAAATACCAATA
Found at i:3192898 original size:2 final size:2
Alignment explanation
Indices: 3192891--3192915 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3192881 AGCTCTTAGC
3192891 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3192916 GAACAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3196517 original size:30 final size:31
Alignment explanation
Indices: 3196483--3196553 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
3196473 TAAATTTTGT
* * *
3196483 TTAAATTTTAATTTTATGT-AATTTTATATA
1 TTAAATATTAATTTAATGTAAATTTTATAAA
* *
3196513 TTAAATATTAGTTTAATTTAAATTTTATAAA
1 TTAAATATTAATTTAATGTAAATTTTATAAA
3196544 TT--ATATTAAT
1 TTAAATATTAAT
3196554 AACCTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 7 0.21
30 15 0.44
31 12 0.35
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
TTAAATATTAATTTAATGTAAATTTTATAAA
Found at i:3197366 original size:15 final size:15
Alignment explanation
Indices: 3197346--3197376 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3197336 ATATGACTCG
3197346 AATAATTTAGATGAA
1 AATAATTTAGATGAA
3197361 AATAATTTAGATGAA
1 AATAATTTAGATGAA
3197376 A
1 A
3197377 TCAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (15 bp):
AATAATTTAGATGAA
Found at i:3197916 original size:31 final size:31
Alignment explanation
Indices: 3197874--3197961 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
3197864 TTTTTTAATG
3197874 TGTATAATTAAATCAAAATTAAAATTTTAT-
1 TGTATAATTAAATCAAAATTAAAATTTTATA
* *
3197904 T-TATAAATTTAAATCATAATCAAAATTTTATA
1 TGTAT-AA-TTAAATCAAAATTAAAATTTTATA
*
3197936 TGTATAATTATATC-AAATTAAAATTT
1 TGTATAATTAAATCAAAATTAAAATTT
3197962 ATGTATCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 3 0.06
30 13 0.27
31 27 0.55
32 3 0.06
33 3 0.06
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (31 bp):
TGTATAATTAAATCAAAATTAAAATTTTATA
Found at i:3199512 original size:7 final size:7
Alignment explanation
Indices: 3199496--3199531 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
3199486 AAATAGTCGT
3199496 TTTA-TA
1 TTTAGTA
3199502 TTTAGTA
1 TTTAGTA
3199509 TTTAGTA
1 TTTAGTA
3199516 TTTAGTA
1 TTTAGTA
3199523 TTTAGTA
1 TTTAGTA
3199530 TT
1 TT
3199532 ATGTATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTTAGTA
Found at i:3200083 original size:18 final size:18
Alignment explanation
Indices: 3200060--3200102 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3200050 TGCCAGGTGC
*
3200060 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
3200078 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
3200096 GTTTCCT
1 GTATCCT
3200103 TTTTCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:3201447 original size:23 final size:23
Alignment explanation
Indices: 3201388--3201461 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
3201378 TTTGGCCCCT
*
3201388 TAAAATTATAAAGATATAGACTA
1 TAAAAATATAAAGATATAGACTA
3201411 TAAAAA-AT-----TATAGACTA
1 TAAAAATATAAAGATATAGACTA
3201428 TAAAAATATAAAGATATAGACTA
1 TAAAAATATAAAGATATAGACTA
3201451 TAAAAAT-TAAA
1 TAAAAATATAAA
3201462 ATTTCATTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
17 15 0.34
18 2 0.05
22 6 0.14
23 21 0.48
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (23 bp):
TAAAAATATAAAGATATAGACTA
Found at i:3201454 original size:15 final size:15
Alignment explanation
Indices: 3201394--3201437 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 15
3201384 CCCTTAAAAT
*
3201394 TATAAAGATATAGAC
1 TATAAAAATATAGAC
3201409 TATAAAAAATTATAGAC
1 TAT-AAAAA-TATAGAC
3201426 TATAAAAATATA
1 TATAAAAATATA
3201438 AAGATATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 7 0.27
16 9 0.35
17 10 0.38
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.30
Consensus pattern (15 bp):
TATAAAAATATAGAC
Found at i:3201801 original size:15 final size:15
Alignment explanation
Indices: 3201781--3201818 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3201771 TACTGGGGAC
* *
3201781 AATACTAGGGTGGAT
1 AATACTAGGGTGAAG
3201796 AATACTAGGGTGAAG
1 AATACTAGGGTGAAG
3201811 AATACTAG
1 AATACTAG
3201819 TAATATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.24
Consensus pattern (15 bp):
AATACTAGGGTGAAG
Found at i:3202525 original size:97 final size:97
Alignment explanation
Indices: 3202359--3202553 Score: 273
Period size: 97 Copynumber: 2.0 Consensus size: 97
3202349 TATGCGGGTG
* ** ** * * *
3202359 ACAAGTAATGCTCGTTCCATCAATATAAATTACTTGTTCAAAAGTAGTGGTTCATGTGTTCTTTA
1 ACAAGTAATGCTCGTTCCATCAATATAAATTACCTACTCAAAAGTAGCAGCTCACGTGTTCTCTA
*
3202424 GGTATTGGTTGAATAGTACTATTAATGGAGGT
66 GGTATTGGTTGAATAGTACTATTAACGGAGGT
* *
3202456 ACAAGTGATGCTCGTTCCATCAATATAAATTGCCTACTCAAAAGTAGCAGCTCACGTGTTCTCTA
1 ACAAGTAATGCTCGTTCCATCAATATAAATTACCTACTCAAAAGTAGCAGCTCACGTGTTCTCTA
* *
3202521 GGTATTGGTTGAATAGTTCTATTAGCGGAGGT
66 GGTATTGGTTGAATAGTACTATTAACGGAGGT
3202553 A
1 A
3202554 TGTTGATGGA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (97 bp):
ACAAGTAATGCTCGTTCCATCAATATAAATTACCTACTCAAAAGTAGCAGCTCACGTGTTCTCTA
GGTATTGGTTGAATAGTACTATTAACGGAGGT
Found at i:3203223 original size:2 final size:2
Alignment explanation
Indices: 3203216--3203248 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3203206 TGTATGTATG
3203216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3203249 GTAAGCTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3206439 original size:14 final size:14
Alignment explanation
Indices: 3206420--3206455 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
3206410 TAAGTGACTA
3206420 AAACATAATATTTC
1 AAACATAATATTTC
3206434 AAACATAATATTTC
1 AAACATAATATTTC
3206448 AAACATAA
1 AAACATAA
3206456 GTAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
AAACATAATATTTC
Found at i:3207245 original size:6 final size:6
Alignment explanation
Indices: 3207234--3207268 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
3207224 ACATCTTACC
*
3207234 ACACAG ACACAG ACACAG ACACAG ACACAC ACACA
1 ACACAG ACACAG ACACAG ACACAG ACACAG ACACA
3207269 TATATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.51, C:0.37, G:0.11, T:0.00
Consensus pattern (6 bp):
ACACAG
Found at i:3207273 original size:2 final size:2
Alignment explanation
Indices: 3207268--3207311 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3207258 ACACACACAC
3207268 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
3207310 AT
1 AT
3207312 TATTTTGGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3208344 original size:30 final size:30
Alignment explanation
Indices: 3208310--3208372 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
3208300 ACTTAACAAG
3208310 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
3208340 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
3208370 CAA
1 CAA
3208373 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:3208707 original size:22 final size:22
Alignment explanation
Indices: 3208682--3208724 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3208672 TATCCAAACA
3208682 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
3208704 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
3208725 AATATGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:3211514 original size:10 final size:9
Alignment explanation
Indices: 3211490--3211549 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
3211480 CACAACCACG
3211490 ATAAAAATT
1 ATAAAAATT
3211499 ATAAAAATT
1 ATAAAAATT
3211508 ATGAAAAATT
1 AT-AAAAATT
***
3211518 A-AATTTTTT
1 ATAA-AAATT
3211527 ATAAAAATT
1 ATAAAAATT
*
3211536 GTAAAAA-T
1 ATAAAAATT
3211544 ATAAAA
1 ATAAAA
3211550 TATATAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
8 8 0.20
9 22 0.55
10 10 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:3211620 original size:21 final size:21
Alignment explanation
Indices: 3211578--3211649 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
3211568 AAAAATTTGT
* *
3211578 AAAATTTTATAAAGCTGT-AAG
1 AAAATTATA-AAAGATGTAAAG
3211599 AAAATTATATAAA-ATGTAAAG
1 AAAATTATA-AAAGATGTAAAG
**
3211620 -AAA-TATAAAATTTGTAAA-
1 AAAATTATAAAAGATGTAAAG
3211638 AAAATTATAAAA
1 AAAATTATAAAA
3211650 ATTATCGTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.07
19 13 0.30
20 13 0.30
21 15 0.34
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (21 bp):
AAAATTATAAAAGATGTAAAG
Found at i:3211626 original size:19 final size:19
Alignment explanation
Indices: 3211593--3211649 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
3211583 TTTATAAAGC
*
3211593 TGTAAGAAAATTATATAAAA
1 TGTAA-AAAAATATATAAAA
* *
3211613 TGTAAAGAAATATA-AAATT
1 TGTAAAAAAATATATAAA-A
3211632 TGTAAAAAAAT-TATAAAA
1 TGTAAAAAAATATATAAAA
3211650 ATTATCGTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 5 0.17
19 20 0.67
20 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (19 bp):
TGTAAAAAAATATATAAAA
Found at i:3211627 original size:17 final size:18
Alignment explanation
Indices: 3211605--3211649 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
3211595 TAAGAAAATT
*
3211605 ATATAAAA-TGTAAAGAA
1 ATATAAAATTGTAAAAAA
3211622 ATATAAAATTTGTAAAAAA
1 ATATAAAA-TTGTAAAAAA
3211641 ATTATAAAA
1 A-TATAAAA
3211650 ATTATCGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (18 bp):
ATATAAAATTGTAAAAAA
Found at i:3211902 original size:7 final size:7
Alignment explanation
Indices: 3211890--3211914 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3211880 AATTTTTATA
3211890 ATTAATT
1 ATTAATT
3211897 ATTAATT
1 ATTAATT
3211904 ATTAATT
1 ATTAATT
3211911 ATTA
1 ATTA
3211915 TCATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTAATT
Found at i:3216756 original size:356 final size:354
Alignment explanation
Indices: 3216099--3217008 Score: 1191
Period size: 356 Copynumber: 2.6 Consensus size: 354
3216089 TGTATTTAAG
* * * * *
3216099 GATGATTGAAGAAAAGCACAATTGATATGCAGACCGAAATAACAAGCACCACAATTATAAGAAAA
1 GATGATTGAAGCAAAGCACAATTGATGTGCAGATCGAACTAACAAGCACCACAATTATAAGCAAA
* * * * * * * * *
3216164 TCCCCGAAACTCCTTACAACACAAATGGCACCTGTTTTTGTCCCAAGGGTAAAGTGAATCTGGAA
66 TCCCTGAAACTCCTTACCACACAAATCGCAACAG--TTTGGCCC-A---TAAGGTGATTCTGGCA
** ** *
3216229 AAAGAGTGAGAGGGTGTTTGGGGTTTAAGGGATGCTGAATCTCAAGGGGC--A--GT---TCAGC
125 AAAGAGTGAGAGGGTGTTTGGGGTGGAAGGGATGCTGAATCT-GGGGGGCTAACTCTAACTCAGC
3216287 ACATTCCTTATGAAGGTTAAATGGATAAGTGCAATCTGAACAGTGGTAAAATGGACCAGATATTG
189 ACATTCCTTATGAAGGTTAAATGGATAAGTGCAATCTGAACAGTGGTAAAATGGACCAGATATTG
* **
3216352 GTTTTTGACACCAGGAGCAATCAAGCTCGACTTCCCTGTTATGATTTTGAATGAAGAACAATGGA
254 GTTTTTGACACCAGGAGCAATCAAGCTCGACTTCCCTGTTAGGATTTTGAATGAAGAACAACAGA
3216417 TGGGGGTGCAAAGAATTAGGAAAATTTGCAGCAATA
319 TGGGGGTGCAAAGAATTAGGAAAATTTGCAGCAATA
* *
3216453 GATGATTGAAGCAAAGCACAATTGATGTCCAGATCGAACTGACAAGCACCACAATTATAAGCAAA
1 GATGATTGAAGCAAAGCACAATTGATGTGCAGATCGAACTAACAAGCACCACAATTATAAGCAAA
* *
3216518 TCCCTGAAACTTCTTACCACACAAATTGCAACAGTTTGCGCCCCCATAAGGTGATTCTGGCAAAA
66 TCCCTGAAACTCCTTACCACACAAATCGCAACAGTTTG-G--CCCATAAGGTGATTCTGGCAAAA
* *
3216583 GAGTGAGAGTGTGTTTGGGGTGGAGGGGATGCTGAATCTGGGGGGCTAACTCTAACTCAGCACAT
128 GAGTGAGAGGGTGTTTGGGGTGGAAGGGATGCTGAATCTGGGGGGCTAACTCTAACTCAGCACAT
3216648 TCCTTATGAAGGTTAAATGGAT-AGTGCAATCTGAACAGTGGTAAAATGGACCAGATATTGGTTT
193 TCCTTATGAAGGTTAAATGGATAAGTGCAATCTGAACAGTGGTAAAATGGACCAGATATTGGTTT
* * *
3216712 TTGACA-CACGTAGCAATCAGGCTCGACTTCCTTGTTAGGATTTTGAATGAAGAACAACAGATGG
258 TTGACACCA-GGAGCAATCAAGCTCGACTTCCCTGTTAGGATTTTGAATGAAGAACAACAGATGG
*
3216776 GGGTGCAAAGAATTAGGAAAATTTGCAGCAATG
322 GGGTGCAAAGAATTAGGAAAATTTGCAGCAATA
* * * * *
3216809 GATGATTGAAGCAAAGCACAATTGATGTGCAGATCGAACTTACAATCA-TAGCAAGTATAAACAA
1 GATGATTGAAGCAAAGCACAATTGATGTGCAGATCGAACTAACAAGCACCA-CAATTATAAGCAA
* * * * ** *
3216873 ATCCGTCAAAGTCCTTACCACACAAATCGCACACCG-AAGG---ATAAGGTGATTTTGGCAAAAG
65 ATCCCTGAAACTCCTTACCACACAAATCGCA-ACAGTTTGGCCCATAAGGTGATTCTGGCAAAAG
* *
3216934 ATTGAGAGGGTGTTTGGGGTGGAAGGGATGCTGAATCTGGGGGGCTAACTCTAACTCAGCACATC
129 AGTGAGAGGGTGTTTGGGGTGGAAGGGATGCTGAATCTGGGGGGCTAACTCTAACTCAGCACATT
3216999 CCTTATGAAG
194 CCTTATGAAG
3217009 ATAAAACTCA
Statistics
Matches: 493, Mismatches: 50, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
350 96 0.19
351 51 0.10
352 5 0.01
354 88 0.18
355 7 0.01
356 212 0.43
357 34 0.07
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (354 bp):
GATGATTGAAGCAAAGCACAATTGATGTGCAGATCGAACTAACAAGCACCACAATTATAAGCAAA
TCCCTGAAACTCCTTACCACACAAATCGCAACAGTTTGGCCCATAAGGTGATTCTGGCAAAAGAG
TGAGAGGGTGTTTGGGGTGGAAGGGATGCTGAATCTGGGGGGCTAACTCTAACTCAGCACATTCC
TTATGAAGGTTAAATGGATAAGTGCAATCTGAACAGTGGTAAAATGGACCAGATATTGGTTTTTG
ACACCAGGAGCAATCAAGCTCGACTTCCCTGTTAGGATTTTGAATGAAGAACAACAGATGGGGGT
GCAAAGAATTAGGAAAATTTGCAGCAATA
Found at i:3219230 original size:35 final size:35
Alignment explanation
Indices: 3219184--3219254 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
3219174 TAAGACTTCT
3219184 ATATATAGATGATATACATATATATATAGCCACAA
1 ATATATAGATGATATACATATATATATAGCCACAA
3219219 ATATATAGATGATATACATATATATATAGCCACAA
1 ATATATAGATGATATACATATATATATAGCCACAA
3219254 A
1 A
3219255 ACAAGGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.31
Consensus pattern (35 bp):
ATATATAGATGATATACATATATATATAGCCACAA
Found at i:3224951 original size:14 final size:12
Alignment explanation
Indices: 3224932--3224974 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 12
3224922 AAATATATAT
3224932 TTTTATTTTTAGAA
1 TTTTA-TTTTA-AA
3224946 TTTTATTTTAAA
1 TTTTATTTTAAA
3224958 TTTTAAATTTTAAA
1 TTTT--ATTTTAAA
3224972 TTT
1 TTT
3224975 ACTTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 16 0.59
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTTATTTTAAA
Found at i:3224960 original size:7 final size:7
Alignment explanation
Indices: 3224938--3224974 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
3224928 ATATTTTTAT
3224938 TTTTAGAA
1 TTTTA-AA
3224946 TTTT--A
1 TTTTAAA
3224951 TTTTAAA
1 TTTTAAA
3224958 TTTTAAA
1 TTTTAAA
3224965 TTTTAAA
1 TTTTAAA
3224972 TTT
1 TTT
3224975 ACTTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
7 18 0.67
8 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:3229200 original size:23 final size:23
Alignment explanation
Indices: 3229174--3229295 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
3229164 ATAAGTGCAA
3229174 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
3229197 CACTGTTATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3229220 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3229243 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
3229266 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3229289 CACTGAT
1 CACTGAT
3229296 CAATAATACT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 88 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:3229241 original size:46 final size:46
Alignment explanation
Indices: 3229174--3229293 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
3229164 ATAAGTGCAA
*
3229174 CACTGATATGTAGCCGAAGCTACCACTGTTATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCAAAGCTAC
*
3229220 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCAAAGCTAC
*
3229266 CACTGAAACGTAGCCGAAGCTACCACTG
1 CACTGAAATGTAGCCGAAGCTACCACTG
3229294 ATCAATAATA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGTTATGTAGCCAAAGCTAC
Found at i:3232870 original size:15 final size:15
Alignment explanation
Indices: 3232835--3232886 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3232825 TTAAGAATTT
*
3232835 TATTAAATTAT-ATA
1 TATTTAATTATAATA
3232849 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
3232863 TATTTAATAATAAT-
1 TATTTAATTATAATA
3232877 TATGTTAATT
1 TAT-TTAATT
3232887 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:3233334 original size:39 final size:40
Alignment explanation
Indices: 3233291--3233395 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
3233281 TTCCAGTATG
3233291 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
3233330 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
3233375 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
3233396 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:3233389 original size:45 final size:44
Alignment explanation
Indices: 3233289--3233398 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
3233279 TTTTCCAGTA
3233289 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
3233328 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
3233373 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
3233399 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:3233398 original size:16 final size:16
Alignment explanation
Indices: 3233377--3233414 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3233367 TTGATTTGCT
*
3233377 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
3233393 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
3233409 AATACA
1 ATTACA
3233415 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:3242507 original size:10 final size:10
Alignment explanation
Indices: 3242492--3242522 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3242482 CCTGCCATGA
*
3242492 TTGCTTGACT
1 TTGCTTAACT
3242502 TTGCTTAACT
1 TTGCTTAACT
3242512 TTGCTTAACT
1 TTGCTTAACT
3242522 T
1 T
3242523 ACATTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (10 bp):
TTGCTTAACT
Found at i:3245637 original size:15 final size:16
Alignment explanation
Indices: 3245603--3245635 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3245593 GAATGGAAGG
3245603 TTGAATAACTTGATTT
1 TTGAATAACTTGATTT
3245619 TTGAATAACTTGATTT
1 TTGAATAACTTGATTT
3245635 T
1 T
3245636 GATTATCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
TTGAATAACTTGATTT
Found at i:3246184 original size:31 final size:30
Alignment explanation
Indices: 3246098--3246187 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 30
3246088 TTTAAGTATT
** * *
3246098 ACATTAGATTTTTTC-AAAGTAAAGATACC
1 ACATTAGACATTTTCAAAAGTATAGGTACC
*
3246127 ACATTGGACATTTTCAAAA-TATAGGTACC
1 ACATTAGACATTTTCAAAAGTATAGGTACC
3246156 ACATTAGACATTTT-ATGAAAGTATAGGTACC
1 ACATTAGACATTTTCA--AAAGTATAGGTACC
3246187 A
1 A
3246188 AATAATACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 33 0.65
30 6 0.12
31 11 0.22
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (30 bp):
ACATTAGACATTTTCAAAAGTATAGGTACC
Found at i:3246510 original size:23 final size:23
Alignment explanation
Indices: 3246484--3246528 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3246474 TATTACAGCA
*
3246484 CTTTATTT-GATTCATTTGGTTAC
1 CTTTATTTAGA-TAATTTGGTTAC
*
3246507 CTTTTTTTAGATAATTTGGTTA
1 CTTTATTTAGATAATTTGGTTA
3246529 GAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.58
Consensus pattern (23 bp):
CTTTATTTAGATAATTTGGTTAC
Found at i:3247979 original size:24 final size:27
Alignment explanation
Indices: 3247947--3248013 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
3247937 ACTTCCACCG
3247947 CCACCACCACCA-AAA-TGCATGTGACCA
1 CCACCACCACCACAAACTGCATGTG--CA
3247974 CCACCACCACCACCAAACTGCATGTG-A
1 CCACCACCACCA-CAAACTGCATGTGCA
3248001 CCACCACCACCAC
1 CCACCACCACCAC
3248014 CTCCACCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
26 1 0.03
27 25 0.68
29 3 0.08
30 8 0.22
ACGTcount: A:0.34, C:0.48, G:0.09, T:0.09
Consensus pattern (27 bp):
CCACCACCACCACAAACTGCATGTGCA
Found at i:3247981 original size:30 final size:30
Alignment explanation
Indices: 3247941--3248014 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
3247931 GCTACCACTT
*
3247941 CCACCGCCACCACCACCAAAATGCATGTGA
1 CCACCACCACCACCACCAAAATGCATGTGA
*
3247971 CCACCACCACCACCACCAAACTGCATGTGA
1 CCACCACCACCACCACCAAAATGCATGTGA
3248001 CCACCACCACCACC
1 CCACCACCACCACC
3248015 TCCACCATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.32, C:0.50, G:0.09, T:0.08
Consensus pattern (30 bp):
CCACCACCACCACCACCAAAATGCATGTGA
Found at i:3248040 original size:120 final size:120
Alignment explanation
Indices: 3247886--3248189 Score: 455
Period size: 120 Copynumber: 2.5 Consensus size: 120
3247876 AATGCATTTG
* ** *
3247886 ACCACCACCTCTACCTTGCATTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCGCCAC
1 ACCACCACCTCTACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
* * *
3247951 CACCACCAAAATGCATGTGACCACCACCACCACCACCAAACTGCATGTGACCACC
66 CACCACCAAAACGCATGTGACCACCACCACCACCACCAAAATGCATGTAACCACC
*
3248006 ACCACCACCTCCACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
1 ACCACCACCTCTACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
* * *
3248071 CACCAGCAAAACGCATGTGACCACCACCACCGCCGCCAAAATGCATGTAACCACC
66 CACCACCAAAACGCATGTGACCACCACCACCACCACCAAAATGCATGTAACCACC
** ** **
3248126 ACCACTGCCTCTACCATATCCTTCGGCCCCACCATCAACACTACTGCTACCACTTCCACCACCA
1 ACCACCACCTCTACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCA
3248190 TCTCCACTAG
Statistics
Matches: 166, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 166 1.00
ACGTcount: A:0.29, C:0.47, G:0.08, T:0.16
Consensus pattern (120 bp):
ACCACCACCTCTACCATGCCCTTTAGCCCCACCATCAACACTACTGCTACCACTTCCACCACCAC
CACCACCAAAACGCATGTGACCACCACCACCACCACCAAAATGCATGTAACCACC
Found at i:3248095 original size:30 final size:30
Alignment explanation
Indices: 3248061--3248130 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
3248051 GCTACCACTT
*
3248061 CCACCACCACCACCAG-CAAAACGCATGTGA
1 CCACCACCACCACC-GCCAAAACGCATGTAA
* *
3248091 CCACCACCACCGCCGCCAAAATGCATGTAA
1 CCACCACCACCACCGCCAAAACGCATGTAA
3248121 CCACCACCAC
1 CCACCACCAC
3248131 TGCCTCTACC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.03
30 35 0.97
ACGTcount: A:0.34, C:0.47, G:0.11, T:0.07
Consensus pattern (30 bp):
CCACCACCACCACCGCCAAAACGCATGTAA
Found at i:3248367 original size:12 final size:12
Alignment explanation
Indices: 3248350--3248664 Score: 179
Period size: 12 Copynumber: 26.8 Consensus size: 12
3248340 CCTACTCTAA
*
3248350 CTTTAGCTTCGG
1 CTTTAGCTTCAG
3248362 CTTTAGCTTCAG
1 CTTTAGCTTCAG
* *
3248374 CTTCAGCTTTAG
1 CTTTAGCTTCAG
* ** *
3248386 CCTCGGTTTCAG
1 CTTTAGCTTCAG
* * *
3248398 CCTTAGTTTTAG
1 CTTTAGCTTCAG
*
3248410 CTTTAGCTTCAA
1 CTTTAGCTTCAG
3248422 CTTTAGCTTC-G
1 CTTTAGCTTCAG
*
3248433 ACTTCAGC--C-G
1 -CTTTAGCTTCAG
*
3248443 C---AGCTTTAG
1 CTTTAGCTTCAG
3248452 CTTTAGCTTCTA-
1 CTTTAGCTTC-AG
*
3248464 CTTTAGCTTCGG
1 CTTTAGCTTCAG
*
3248476 CTTCAGCCTT-AG
1 CTTTAG-CTTCAG
*
3248488 CTTTAGCTTCGG
1 CTTTAGCTTCAG
*
3248500 CTTCT-GCTTTAG
1 CTT-TAGCTTCAG
*
3248512 CTTTAGCTTCGG
1 CTTTAGCTTCAG
*
3248524 CTTCAGCCTT-AG
1 CTTTAG-CTTCAG
3248536 CTTTAGCTTCAG
1 CTTTAGCTTCAG
*
3248548 CTTTAGCTTCGG
1 CTTTAGCTTCAG
*
3248560 CTTCAGCCTT-AG
1 CTTTAG-CTTCAG
3248572 CTTTAGCTTCAG
1 CTTTAGCTTCAG
* *
3248584 CATTAGCTTTAG
1 CTTTAGCTTCAG
* *
3248596 CATTAGCTTCGG
1 CTTTAGCTTCAG
*
3248608 CTTTAGCTTTAG
1 CTTTAGCTTCAG
**
3248620 CTTCGGCATT-AG
1 CTTTAGC-TTCAG
*
3248632 CTTCAGCTTCAG
1 CTTTAGCTTCAG
* * **
3248644 CATTATCTTTGG
1 CTTTAGCTTCAG
3248656 CTTTAGCTT
1 CTTTAGCTT
3248665 TAACATTATC
Statistics
Matches: 233, Mismatches: 51, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
6 3 0.01
9 3 0.01
10 2 0.01
11 12 0.05
12 200 0.86
13 13 0.06
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.41
Consensus pattern (12 bp):
CTTTAGCTTCAG
Found at i:3248426 original size:42 final size:42
Alignment explanation
Indices: 3248361--3248664 Score: 295
Period size: 42 Copynumber: 7.4 Consensus size: 42
3248351 TTTAGCTTCG
* * *
3248361 GCTTTAGCTTCAGCTTCAGCTTTAGCCTCGGTTTCAGCCTTA
1 GCTTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTA
* * * **
3248403 GTTTTAGCTTTAGCTTCAACTTTAGCTTCGACTTCAGCCGCA
1 GCTTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTA
3248445 GCTTTAGCTTTAGCTTCTA-CTTTAGCTTCGGCTTCAGCCTTA
1 GCTTTAGCTTTAGCTTC-AGCTTTAGCTTCGGCTTCAGCCTTA
** * ** *
3248487 GCTTTAGCTTCGGCTTCTGCTTTAGCTTTAGCTTC-GGCTTCA
1 GCTTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTT-A
*
3248529 GCCTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTA
1 GCTTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTA
* *
3248571 GCTTTAGCTTCAGCATT-AGCTTTAGCATT-AGCTTC-G-----
1 GCTTTAGCTTTAGC-TTCAGCTTTAGC-TTCGGCTTCAGCCTTA
* * * *
3248607 GCTTTAGCTTTAGCTTCGGCATTAGCTTCAGCTTCAGCATTA
1 GCTTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTA
* *
3248649 TCTTTGGCTTTAGCTT
1 GCTTTAGCTTTAGCTT
3248665 TAACATTATC
Statistics
Matches: 215, Mismatches: 33, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
35 4 0.02
36 26 0.12
37 1 0.00
41 5 0.02
42 170 0.79
43 9 0.04
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (42 bp):
GCTTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTA
Found at i:3248620 original size:48 final size:48
Alignment explanation
Indices: 3248364--3248666 Score: 231
Period size: 48 Copynumber: 6.4 Consensus size: 48
3248354 AGCTTCGGCT
* * * * * *
3248364 TTAGCTTCAGCTTCAGCTTTAGCCTCGGTTTCAGCCTTAGTTTTAGCT
1 TTAGCTTCGGCTTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCA
* * ** *
3248412 TTAGCTT---C---AACTTTAGCTTCGACTTCAGCCGCAGCTTTAGCT
1 TTAGCTTCGGCTTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCA
3248454 TTAGCTT---C--TA-CTTTAGCTTCGGCTTCAGCCTTAGCTTTAGC-
1 TTAGCTTCGGCTTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCA
* *
3248495 TTCGGCTTCTGCTTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCA
1 TT-AGCTTCGGCTTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAG---CA
* * ** *
3248547 GCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCATTAGCTTTAGCA
1 ---TTAGCTTCGGCTTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCA
*
3248598 TTAGCTTCGGCTTTAGCTTTAGCTTCGGCATT-AG-CTTCAGCTTCAGCA
1 TTAGCTTCGGCTTTAGCTTTAGCTTCGGC-TTCAGCCTT-AGCTTTAGCA
* *
3248646 TTATCTTTGGCTTTAGCTTTA
1 TTAGCTTCGGCTTTAGCTTTA
3248667 ACATTATCTT
Statistics
Matches: 212, Mismatches: 26, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.01
42 67 0.32
43 1 0.00
45 2 0.01
47 4 0.02
48 92 0.43
49 2 0.01
51 3 0.01
54 37 0.17
55 2 0.01
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (48 bp):
TTAGCTTCGGCTTTAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCA
Found at i:3248623 original size:60 final size:60
Alignment explanation
Indices: 3248350--3248664 Score: 258
Period size: 60 Copynumber: 5.2 Consensus size: 60
3248340 CCTACTCTAA
* * * * ** * * *
3248350 CTTTAGCTTCGGCTTTAGCTTCAGCTTCAGCTTTAGCCTCGGTTTCAGCCTTAGTTTTAG
1 CTTTAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAGCTTTAGCTTCAGCATTAGCTTTAG
* * ** * *
3248410 CTTTAGCTTCAACTTTAGC-TTCGACTTCAGCCGCAGCTTTAGCTTTAGCTTCTA-CTTTAG
1 CTTTAGCTTCAGCTTTAGCTTTAG-CTTCAGCCTTAGCTTTAGCTTCAGCAT-TAGCTTTAG
** * * * *
3248470 CTTCGGCTTCAGCCTTAGCTTTAGCTTCGGCTTCTGCTTTAGCTTTAGCTTCGGC-TTCAGCCTT
1 CTTTAGCTTCAGCTTTAGCTTTAGCTTCAG---C--C-TTAGCTTTAGCTTCAGCATT-AGCTTT
3248534 AG
59 AG
**
3248536 CTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCATTAGCTTTAG
1 CTTTAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAGCTTTAGCTTCAGCATTAGCTTTAG
* * * * * * *
3248596 CATTAGCTTCGGCTTTAGCTTTAGCTTCGGCATTAGCTTCAGCTTCAGCATTATCTTTGG
1 CTTTAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAGCTTTAGCTTCAGCATTAGCTTTAG
3248656 CTTTAGCTT
1 CTTTAGCTT
3248665 TAACATTATC
Statistics
Matches: 200, Mismatches: 43, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
59 2 0.01
60 142 0.71
61 8 0.04
63 2 0.01
64 1 0.00
65 3 0.01
66 42 0.21
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.41
Consensus pattern (60 bp):
CTTTAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAGCTTTAGCTTCAGCATTAGCTTTAG
Found at i:3248634 original size:84 final size:83
Alignment explanation
Indices: 3248355--3248641 Score: 337
Period size: 84 Copynumber: 3.4 Consensus size: 83
3248345 TCTAACTTTA
* * * * *
3248355 GCTTCGGCTTTAGCTTCAGCTTCAGCTTTAGCCTCGGTTTCAGCCTTAGTTTTAGCTTTAGCTTC
1 GCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCTTC
* * *
3248420 AACTTTAGCTTCGACTTCA
66 AGCTTTAGCTTAG-CTTCG
** * *
3248439 GCCGCAGCTTTAGCTTTAGCTTCTA-CTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCGGCTT
1 GCTTCAGCTTTAGCTTCAGCTTC-AGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCTT
*
3248503 CTGCTTTAGCTTTAGCTTCG
65 CAGCTTTAGC-TTAGCTTCG
* *
3248523 GCTTCAGCCTTAGCTTTAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCATT
1 GCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGC-TT
3248588 -AGCTTTAGCATTAGCTTCG
65 CAGCTTTAGC-TTAGCTTCG
* * *
3248607 GCTTTAGCTTTAGCTTCGGCATT-AGCTTCAGCTTC
1 GCTTCAGCTTTAGCTTCAGC-TTCAGCTTTAGCTTC
3248642 AGCATTATCT
Statistics
Matches: 174, Mismatches: 24, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 165 0.95
85 8 0.05
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (83 bp):
GCTTCAGCTTTAGCTTCAGCTTCAGCTTTAGCTTCGGCTTCAGCCTTAGCTTTAGCTTCAGCTTC
AGCTTTAGCTTAGCTTCG
Found at i:3248648 original size:18 final size:18
Alignment explanation
Indices: 3248354--3248644 Score: 194
Period size: 18 Copynumber: 16.5 Consensus size: 18
3248344 CTCTAACTTT
*
3248354 AGCTTCGGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTC
*
3248372 AGCTTCAGCTTTAGCCTC
1 AGCTTCAGCTTTAGCTTC
* * *
3248390 GGTTTCAGCCTTAG-TT-
1 AGCTTCAGCTTTAGCTTC
3248406 ---TT-AGCTTTAGCTTC
1 AGCTTCAGCTTTAGCTTC
* * *
3248420 AACTTTAGC-TTCGACTTC
1 AGCTTCAGCTTTAG-CTTC
** *
3248438 AGCCGCAGCTTTAGCTTT
1 AGCTTCAGCTTTAGCTTC
3248456 AGCTTCTA-CTTTAGCTTC
1 AGCTTC-AGCTTTAGCTTC
* * *
3248474 GGCTTCAGCCTTAGCTTT
1 AGCTTCAGCTTTAGCTTC
* *
3248492 AGCTTCGGCTTCT-GCTTT
1 AGCTTCAGCTT-TAGCTTC
* **
3248510 AGCTTTAGCTTCGGCTTC
1 AGCTTCAGCTTTAGCTTC
3248528 AGCCTT-AGCTTTAGCTTC
1 AG-CTTCAGCTTTAGCTTC
* **
3248546 AGCTTTAGCTTCGGCTTC
1 AGCTTCAGCTTTAGCTTC
3248564 AGCCTT-AGCTTTAGCTTC
1 AG-CTTCAGCTTTAGCTTC
3248582 AGCATT-AGCTTTAGCATT-
1 AGC-TTCAGCTTTAGC-TTC
* *
3248600 AGCTTCGGCTTTAGCTTT
1 AGCTTCAGCTTTAGCTTC
* *
3248618 AGCTTCGGCATTAGCTTC
1 AGCTTCAGCTTTAGCTTC
3248636 AGCTTCAGC
1 AGCTTCAGC
3248645 ATTATCTTTG
Statistics
Matches: 217, Mismatches: 37, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
12 7 0.03
13 4 0.02
17 15 0.07
18 178 0.82
19 13 0.06
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.39
Consensus pattern (18 bp):
AGCTTCAGCTTTAGCTTC
Found at i:3249842 original size:444 final size:448
Alignment explanation
Indices: 3249013--3250103 Score: 1423
Period size: 444 Copynumber: 2.4 Consensus size: 448
3249003 CCACCGCCTG
* * * * *
3249013 CACCTCCTTGTCCTCCTA-TTCTACCTTCAAACCCGTTTTTAGCTTCATCCTTACTAGT-GAAAC
1 CACCTCCTTGCCCTCCTACTT-TACCTTCAAACCCATCTTTAGCTTCACCCTTACTAGTAG-CAC
* ** * *
3249076 TAGCTTTTCCATCACTGCCTTTTTCACCGGTACGAGTACCACTTGCATCAGA-ACTACCACTGCC
64 TAGTTTTTCCATCACTATCTTTTTCACCGCTATGAGTACCACTTGCATCA-ATACTACCACTGCC
* * *
3249140 AACACCTCCACTTTGCCCTCCTACCTTACCAGCCACACTAGTGCTACCACTTCCACCACTGTTTC
128 AACACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCCACCACTATTTC
* ***
3249205 CACCAACCTCTCCTTGTCTTCCTACTTTACCTTCAAAACCTGTTTTAGCCTCACTCTTACTAGTA
193 CACCAACCTCTCCTTGTCCTCCTACTTTACCTTCAAAACCAACTTTAGCCTCACTCTTACTAGTA
* * *
3249270 TCACTAGATTTGTTATCACTACTCTTTGCTCGGTTAAGATCACTACTTGTACTAGTTGCACCACT
258 TCACTAGATTTGTTATCACTACTCTTTGCTCGGCTAAGATCACCACTTGCACTAGTTGCACCACT
* * **
3249335 ACCAACACTTTCGGCTAGACCTCCAGCCCCTCCACCAACATTAGTGCCACTACTTTTACCACTAT
323 ACCAACACCTTCGGCTAGACCTCCAGCCCCTCCACCAACATTAGTGCCACCACTTCCACCACTAT
* * * *
3249400 TTCCACCAAAGCCTGCACTTATTCCGCCTTTAACCCCAAACTTAAAACCA-CCATC-G-A-
388 TTCCACCAAAGCCTGCACTCATTCCGCCTCTAAACCCAAACTTAAAACCACCCACCAGTAC
* *
3249457 CACCTCCTTGCCCTCCTACTTTATCTTTAAACCCATCTTTAGCTTCACCCTTACTAGTAGCACTA
1 CACCTCCTTGCCCTCCTACTTTACCTTCAAACCCATCTTTAGCTTCACCCTTACTAGTAGCACTA
* * *
3249522 GTTTTTCCATCATTATCTTTTTCATCGTTATGAGTACCACTTGCATCAATACTACCACTGCCAAC
66 GTTTTTCCATCACTATCTTTTTCACCGCTATGAGTACCACTTGCATCAATACTACCACTGCCAAC
* *
3249587 ACCTCCACCTTGCCCTCCTACATTACTAGCAACACTAGTGCTACCACTTCCACCACTATTTCCAC
131 ACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCCACCACTATTTCCAC
* * * *
3249652 CAACCTTTCCTTGTCCTCTTACTTTACCTTCAAAACCAACTTTAGCCTCGCTCTTACTAGTGTCA
196 CAACCTCTCCTTGTCCTCCTACTTTACCTTCAAAACCAACTTTAGCCTCACTCTTACTAGTATCA
* *
3249717 CTAGCTTT-TTCATCACTACTCTTTGCT-GCGCTAAGAGT-ACCACTTGCACTAGTTGCAGCACT
261 CTAGATTTGTT-ATCACTACTCTTTGCTCG-GCTAAGA-TCACCACTTGCACTAGTTGCACCACT
* * **
3249779 ACCAACACCTTCGGC-ATGGCTTGTAGCCCCTCCACCAACATTAGTGCCACCACTTCCACCACTA
323 ACCAACACCTTCGGCTA-GACCTCCAGCCCCTCCACCAACATTAGTGCCACCACTTCCACCACTA
* **
3249843 TTTCTACCAAAGCCTGTTCTCATTCCGCCTCTAAACCCAAACTTAAAACCACCCCCACCAGTTAT
387 TTTCCACCAAAGCCTGCACTCATTCCGCCTCTAAACCCAAACTTAAAACCA--CCCACCAG---T
3249908 AC
447 AC
*
3249910 CACGACTACCACTTTCGTGCCCTCCTACTTTACCTTCAGACCCATCTTTAGCTTCACCCTTACTA
1 CAC--CT--C-C--T--TGCCCTCCTACTTTACCTTCAAACCCATCTTTAGCTTCACCCTTACTA
* *
3249975 GTAGCACTAATTTTTCCATCACTATCTTTTTCACCGCTATGAGTGCCACTTGCATCAATACTACC
57 GTAGCACTAGTTTTTCCATCACTATCTTTTTCACCGCTATGAGTACCACTTGCATCAATACTACC
* *
3250040 ACTACCAA-ATCCTCCACCTTGCCCTCCTACCTTACCAGTAACACTAGTGCTACCACTTCCACCA
122 ACTGCCAACA-CCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCCACCA
3250104 ACCTCTCCTT
Statistics
Matches: 562, Mismatches: 59, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
443 5 0.01
444 375 0.67
445 4 0.01
447 4 0.01
448 1 0.00
452 1 0.00
453 3 0.01
455 2 0.00
457 1 0.00
458 1 0.00
460 1 0.00
461 1 0.00
462 163 0.29
ACGTcount: A:0.24, C:0.36, G:0.09, T:0.31
Consensus pattern (448 bp):
CACCTCCTTGCCCTCCTACTTTACCTTCAAACCCATCTTTAGCTTCACCCTTACTAGTAGCACTA
GTTTTTCCATCACTATCTTTTTCACCGCTATGAGTACCACTTGCATCAATACTACCACTGCCAAC
ACCTCCACCTTGCCCTCCTACCTTACCAGCAACACTAGTGCTACCACTTCCACCACTATTTCCAC
CAACCTCTCCTTGTCCTCCTACTTTACCTTCAAAACCAACTTTAGCCTCACTCTTACTAGTATCA
CTAGATTTGTTATCACTACTCTTTGCTCGGCTAAGATCACCACTTGCACTAGTTGCACCACTACC
AACACCTTCGGCTAGACCTCCAGCCCCTCCACCAACATTAGTGCCACCACTTCCACCACTATTTC
CACCAAAGCCTGCACTCATTCCGCCTCTAAACCCAAACTTAAAACCACCCACCAGTAC
Found at i:3250505 original size:18 final size:18
Alignment explanation
Indices: 3250482--3250546 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
3250472 ACCACCACTG
3250482 CCACCACCACCTGCACCT
1 CCACCACCACCTGCACCT
*
3250500 CCACCACCA-CTACCACCGT
1 CCACCACCACCT-GCACC-T
**
3250519 -CACTGCCACCTGCACCT
1 CCACCACCACCTGCACCT
3250536 CCACCACCACC
1 CCACCACCACC
3250547 ACTGCCGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
17 3 0.08
18 31 0.84
19 3 0.08
ACGTcount: A:0.23, C:0.60, G:0.06, T:0.11
Consensus pattern (18 bp):
CCACCACCACCTGCACCT
Found at i:3253281 original size:16 final size:16
Alignment explanation
Indices: 3253244--3253285 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3253234 AATATACTTC
*
3253244 TTTTTT-TTTCCCTTT
1 TTTTTTCTTTTCCTTT
* *
3253259 ATATTTCTTTTCCTTT
1 TTTTTTCTTTTCCTTT
3253275 TTTTTTCTTTT
1 TTTTTTCTTTT
3253286 TGATAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCTTTTCCTTT
Found at i:3253902 original size:3 final size:3
Alignment explanation
Indices: 3253894--3253952 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
3253884 AAAAGGTGAC
* ** * * *
3253894 GGT GGT GGT GGT GGT GGT GGT GGA GGT GCA GGT GGC AGT GGT GGT AGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
*
3253942 AGT GGT GGT GG
1 GGT GGT GGT GG
3253953 AGGTACAGGT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.08, C:0.03, G:0.61, T:0.27
Consensus pattern (3 bp):
GGT
Found at i:3255132 original size:18 final size:18
Alignment explanation
Indices: 3255113--3255433 Score: 195
Period size: 18 Copynumber: 18.5 Consensus size: 18
3255103 GATGAAGTTA
* * *
3255113 AAGCTGAAGCCGAAGCTA
1 AAGCTAAAGCTGAAGCTG
* *
3255131 AAGCTAAGGCTGAAGCCG
1 AAGCTAAAGCTGAAGCTG
* *
3255149 AAGCTAAAGTTAAAGCTG
1 AAGCTAAAGCTGAAGCTG
*
3255167 AAGCTAAAGCTAAAGCTG
1 AAGCTAAAGCTGAAGCTG
* *
3255185 AAACTAAATCT-AAGGCTG
1 AAGCTAAAGCTGAA-GCTG
*
3255203 AAGC-----C-GAAGCTA
1 AAGCTAAAGCTGAAGCTG
* * *
3255215 AATCTAAGGCTGAAGCCG
1 AAGCTAAAGCTGAAGCTG
* *
3255233 AAGCTAAAGTTGAGGCTG
1 AAGCTAAAGCTGAAGCTG
*
3255251 AAGATAAAGCT-AAGGCTG
1 AAGCTAAAGCTGAA-GCTG
* * * *
3255269 AAACCAAAGCTAAAGCCG
1 AAGCTAAAGCTGAAGCTG
* *
3255287 AAGCTGAAGCTAAAGC--
1 AAGCTAAAGCTGAAGCTG
* *
3255303 -AG---AAGCAGAAGCTA
1 AAGCTAAAGCTGAAGCTG
*
3255317 AAGCTAAAGCTGAAGCCG
1 AAGCTAAAGCTGAAGCTG
**
3255335 AAGCTAAAGCTGGTGCTG
1 AAGCTAAAGCTGAAGCTG
*
3255353 AAGCTAAAGCTAAAGCTG
1 AAGCTAAAGCTGAAGCTG
*
3255371 AAGCTGAAGCTGAAGCTG
1 AAGCTAAAGCTGAAGCTG
** *
3255389 AAGGAAAAGCTGAAGCTA
1 AAGCTAAAGCTGAAGCTG
* *
3255407 AAGCAAAAGGT-AATGCTG
1 AAGCTAAAGCTGAA-GCTG
3255425 AAGCTAAAG
1 AAGCTAAAG
3255434 TTGGAATAGG
Statistics
Matches: 233, Mismatches: 53, Indels: 34
0.73 0.17 0.11
Matches are distributed among these distances:
12 14 0.06
13 3 0.01
15 4 0.02
17 6 0.03
18 204 0.88
19 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (18 bp):
AAGCTAAAGCTGAAGCTG
Found at i:3255147 original size:24 final size:24
Alignment explanation
Indices: 3255111--3255428 Score: 166
Period size: 24 Copynumber: 13.5 Consensus size: 24
3255101 ATGATGAAGT
3255111 TAAAGCTGAAGCCGAAGCTAAAGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
* *
3255135 TAAGGCTGAAGCCGAAGCTAAAGT
1 TAAAGCTGAAGCCGAAGCTAAAGC
3255159 TAAAGCT------GAAGCTAAAGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
* ** * *
3255177 TAAAGCTGAAACTAAATCTAAGGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
* * ** * *
3255201 TGAAGCCGAAGCTAAATCTAAGGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
* * ** * * *
3255225 TGAAGCCGAAGCTAAAGTTGAGGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
* * * *
3255249 TGAAGATAAAG-CTAAGGCTGAAA-C
1 TAAAGCTGAAGCCGAA-GCT-AAAGC
* * *
3255273 CAAAGCTAAAGCCGAAGCTGAAGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
* *
3255297 TAAAGCAGAAGCAGAAGCTAAAGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
3255321 TAAAGCTGAAGCCGAAGCTAAAGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
*** **
3255345 TGGTGCTGAAGCTAAAGCTAAAGC
1 TAAAGCTGAAGCCGAAGCTAAAGC
* * * *
3255369 TGAAGCTGAAGCTGAAGCTGAAGG
1 TAAAGCTGAAGCCGAAGCTAAAGC
* ** * *
3255393 AAAAGCTGAAGCTAAAGCAAAAGG
1 TAAAGCTGAAGCCGAAGCTAAAGC
*
3255417 TAATGCTGAAGC
1 TAAAGCTGAAGC
3255429 TAAAGTTGGA
Statistics
Matches: 234, Mismatches: 50, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
18 17 0.07
23 4 0.02
24 209 0.89
25 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (24 bp):
TAAAGCTGAAGCCGAAGCTAAAGC
Found at i:3255170 original size:42 final size:42
Alignment explanation
Indices: 3255106--3255410 Score: 255
Period size: 42 Copynumber: 7.4 Consensus size: 42
3255096 TAGTAATGAT
* * *
3255106 GAAGTTAAAGCTGAAGCCGAAGCTAAAGCTAAGGCTGAAGCC
1 GAAGCTAAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
* * * *
3255148 GAAGCTAAAGTTAAAGCTGAAGCTAAAGCTAAAGCTGAAACT
1 GAAGCTAAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
* * * * * *
3255190 AAATCTAAGGCTGAAGCCGAAGCTAAATCTAAGGCTGAAGCC
1 GAAGCTAAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
* * * * *
3255232 GAAGCTAAAGTTGAGGCTGAAGATAAAGCTAAGGCTGAAACC
1 GAAGCTAAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
* ** *
3255274 AAAGCTAAAGCCGAAGCTGAAGCTAAAGC--A----GAAGCA
1 GAAGCTAAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
** * ** *
3255310 GAAGCTAAAGCTAAAGCTGAAGCCGAAGCTAAAGCTGGTGCT
1 GAAGCTAAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
* **
3255352 GAAGCTAAAGCTAAAGCTGAAGCTGAAGCTGAA-GCTGAAGGA
1 GAAGCTAAAGCTAAAGCTGAAGCTAAAGCT-AAGGCTGAAGCC
* *
3255394 AAAGCTGAAGCTAAAGC
1 GAAGCTAAAGCTAAAGC
3255411 AAAAGGTAAT
Statistics
Matches: 208, Mismatches: 48, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
36 28 0.13
38 1 0.00
40 1 0.00
42 176 0.85
43 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (42 bp):
GAAGCTAAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
Found at i:3255718 original size:30 final size:31
Alignment explanation
Indices: 3255645--3255719 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
3255635 AAGGGCATGG
*
3255645 TGGTGGTGGTGGTAGTCACATGCATTTTGGC
1 TGGTGGTGGTGGTGGTCACATGCATTTTGGC
* *
3255676 -GGCGGTGGTGGTGGTCACATGCGTTTT-GC
1 TGGTGGTGGTGGTGGTCACATGCATTTTGGC
3255705 TGGTGGTGGTGGTGG
1 TGGTGGTGGTGGTGG
3255720 AAGTGGTAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.08, C:0.12, G:0.47, T:0.33
Consensus pattern (31 bp):
TGGTGGTGGTGGTGGTCACATGCATTTTGGC
Found at i:3255795 original size:3 final size:3
Alignment explanation
Indices: 3255789--3255815 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3255779 ATATGCAGTT
3255789 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
3255816 AAGTGGTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:3255800 original size:117 final size:117
Alignment explanation
Indices: 3255594--3255807 Score: 356
Period size: 117 Copynumber: 1.8 Consensus size: 117
3255584 CTAGTGGAGA
* * *
3255594 TGGTGGTGGAAGTGGTAGTAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTGGTGGTGGTGGTA
1 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGACATGGTGGAGGTGGTGGTA
*
3255659 GTCACATGCATTTTGGCGGCGGTGGTGGTGGTCACATGCGTTTTGCTGGTGG
66 GTCACATGCAGTTTGGCGGCGGTGGTGGTGGTCACATGCGTTTTGCTGGTGG
*
3255711 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGACATGGTGGAGGTGGTGGTG
1 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGACATGGTGGAGGTGGTGGTA
* * *
3255776 GTCATATGCAGTTTGGTGGTGGTGGTGGTGGT
66 GTCACATGCAGTTTGGCGGCGGTGGTGGTGGT
3255808 GGTGGTGGAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 89 1.00
ACGTcount: A:0.14, C:0.07, G:0.48, T:0.30
Consensus pattern (117 bp):
TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGACATGGTGGAGGTGGTGGTA
GTCACATGCAGTTTGGCGGCGGTGGTGGTGGTCACATGCGTTTTGCTGGTGG
Found at i:3255895 original size:96 final size:93
Alignment explanation
Indices: 3255679--3255896 Score: 286
Period size: 96 Copynumber: 2.3 Consensus size: 93
3255669 TTTTGGCGGC
* * *
3255679 GGTGGTGGTGGTCACATGCGTTTTGC------TGGTGGTGGTGGTGGAAGTGGTAGCAGTAGTGT
1 GGTGGTGGTGGTCACATGCATTTTGCTGGTGGTGGTGGTGGTGGTGGAAGTGGTAGCAATAATGT
3255738 TGATGGTGGGGCTAAAGGACATGGTGGA
66 TGATGGTGGGGCTAAAGGACATGGTGGA
* *
3255766 GGTGGTGGTGGTCATATGCAGTTTGGTGGTGGTGGTGGTGGTGGTGGTGGAAGTGGTAGCAATAA
1 GGTGGTGGTGGTCACATGCA-TTT--TGCTGGTGGTGGTGGTGGTGGTGGAAGTGGTAGCAATAA
*
3255831 TGTTGATGGTGGGGCTAAAGGGCATGGTGGA
63 TGTTGATGGTGGGGCTAAAGGACATGGTGGA
3255862 GGTGGTGGTGGTGGTCACATGCATTTTGCTGGTGG
1 ---GGTGGTGGTGGTCACATGCATTTTGCTGGTGG
3255897 CGGCGGTTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
87 18 0.16
88 3 0.03
90 2 0.02
96 66 0.59
98 3 0.03
99 19 0.17
ACGTcount: A:0.15, C:0.07, G:0.48, T:0.30
Consensus pattern (93 bp):
GGTGGTGGTGGTCACATGCATTTTGCTGGTGGTGGTGGTGGTGGTGGAAGTGGTAGCAATAATGT
TGATGGTGGGGCTAAAGGACATGGTGGA
Found at i:3258973 original size:13 final size:13
Alignment explanation
Indices: 3258955--3258979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3258945 TTCTTCATTG
3258955 TTTTTGAAAAGTA
1 TTTTTGAAAAGTA
3258968 TTTTTGAAAAGT
1 TTTTTGAAAAGT
3258980 GCCGTGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTTGAAAAGTA
Found at i:3259016 original size:26 final size:26
Alignment explanation
Indices: 3258956--3259018 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
3258946 TCTTCATTGT
*
3258956 TTTTGAAAAGTATTTTTGAAAAGTGC
1 TTTTGAAAAGTACTTTTGAAAAGTGC
** *
3258982 -CGTGAAAAAGTACTTTTGAGAAGTGC
1 TTTTG-AAAAGTACTTTTGAAAAGTGC
3259008 TTTTGAAAAGT
1 TTTTGAAAAGT
3259019 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
25 2 0.07
26 25 0.86
27 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (26 bp):
TTTTGAAAAGTACTTTTGAAAAGTGC
Found at i:3260205 original size:24 final size:24
Alignment explanation
Indices: 3260124--3260224 Score: 102
Period size: 24 Copynumber: 4.3 Consensus size: 24
3260114 TACATTTTCG
* * *
3260124 TTTTAAAATTAATAATATGCTATTA
1 TTTTAAACTT-ATCATATACTATTA
*
3260149 TTTTAAA-TTATCAT-TAATATTA
1 TTTTAAACTTATCATATACTATTA
*
3260171 -TTTAAATTTATCATATACTA-TA
1 TTTTAAACTTATCATATACTATTA
*
3260193 GTTTTAAACTTATCATATATTATTA
1 -TTTTAAACTTATCATATACTATTA
3260218 TTTTAAA
1 TTTTAAA
3260225 ATCATTATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
21 6 0.09
22 15 0.23
23 8 0.12
24 27 0.42
25 9 0.14
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTTAAACTTATCATATACTATTA
Found at i:3264325 original size:27 final size:27
Alignment explanation
Indices: 3264295--3264353 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
3264285 GCTGTAAGTG
3264295 AAACGGGGCGCATTGGAGTTCTAGTTT
1 AAACGGGGCGCATTGGAGTTCTAGTTT
*
3264322 AAACGGGGTGCATTGGAGTTCTAGTTT
1 AAACGGGGCGCATTGGAGTTCTAGTTT
3264349 AAACG
1 AAACG
3264354 TAACGTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (27 bp):
AAACGGGGCGCATTGGAGTTCTAGTTT
Found at i:3264524 original size:2 final size:2
Alignment explanation
Indices: 3264517--3264547 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3264507 TTATGAAATT
3264517 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3264548 TTCTTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3267657 original size:12 final size:12
Alignment explanation
Indices: 3267640--3267695 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
3267630 TATTTCGGCT
3267640 TTTGCTTCTGCC
1 TTTGCTTCTGCC
* *
3267652 TTTGCTTCAGCT
1 TTTGCTTCTGCC
* *
3267664 TTTCCTTCGGCC
1 TTTGCTTCTGCC
*
3267676 TTTGCTT-TGGCT
1 TTTGCTTCT-GCC
3267688 TTTGCTTC
1 TTTGCTTC
3267696 GTTGTTTGCT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.02, C:0.29, G:0.18, T:0.52
Consensus pattern (12 bp):
TTTGCTTCTGCC
Found at i:3267664 original size:24 final size:24
Alignment explanation
Indices: 3267637--3267760 Score: 88
Period size: 24 Copynumber: 5.2 Consensus size: 24
3267627 TCCTATTTCG
*
3267637 GCTTTTGCTTCTGCCTTTGCTTCA
1 GCTTTTGCTTCGGCCTTTGCTTCA
* **
3267661 GCTTTTCCTTCGGCCTTTGCTTTG
1 GCTTTTGCTTCGGCCTTTGCTTCA
***
3267685 GCTTTTGCTTCGTTGTTTGCTTC-
1 GCTTTTGCTTCGGCCTTTGCTTCA
* * * *
3267708 GGTTTCAGCTTCGGCTTTTGCTTCG
1 GCTTT-TGCTTCGGCCTTTGCTTCA
*** * *
3267733 GCTTCAACTTCGGCTTTTGCTTCG
1 GCTTTTGCTTCGGCCTTTGCTTCA
3267757 GCTT
1 GCTT
3267761 CAGCTTTGGC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
23 4 0.05
24 74 0.91
25 3 0.04
ACGTcount: A:0.03, C:0.27, G:0.22, T:0.48
Consensus pattern (24 bp):
GCTTTTGCTTCGGCCTTTGCTTCA
Found at i:3267718 original size:12 final size:12
Alignment explanation
Indices: 3267703--3267784 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
3267693 TTCGTTGTTT
*
3267703 GCTTCGGTTTCA
1 GCTTCGGCTTCA
**
3267715 GCTTCGGCTTTT
1 GCTTCGGCTTCA
3267727 GCTTCGGCTTCA
1 GCTTCGGCTTCA
* **
3267739 ACTTCGGCTTTT
1 GCTTCGGCTTCA
3267751 GCTTCGGCTTCA
1 GCTTCGGCTTCA
*
3267763 GCTTTGGCTTCA
1 GCTTCGGCTTCA
*
3267775 GCTTCAGCTT
1 GCTTCGGCTT
3267785 TAGCATTTCC
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 56 1.00
ACGTcount: A:0.07, C:0.28, G:0.23, T:0.41
Consensus pattern (12 bp):
GCTTCGGCTTCA
Found at i:3267736 original size:6 final size:6
Alignment explanation
Indices: 3267703--3267784 Score: 56
Period size: 6 Copynumber: 13.7 Consensus size: 6
3267693 TTCGTTGTTT
* * ** * * **
3267703 GCTTCG GTTTCA GCTTCG GCTTTT GCTTCG GCTTCA ACTTCG GCTTTT
1 GCTTCG GCTTCG GCTTCG GCTTCG GCTTCG GCTTCG GCTTCG GCTTCG
* * * *
3267751 GCTTCG GCTTCA GCTTTG GCTTCA GCTTCA GCTT
1 GCTTCG GCTTCG GCTTCG GCTTCG GCTTCG GCTT
3267785 TAGCATTTCC
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.07, C:0.28, G:0.23, T:0.41
Consensus pattern (6 bp):
GCTTCG
Found at i:3267761 original size:24 final size:24
Alignment explanation
Indices: 3267668--3267772 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 24
3267658 TCAGCTTTTC
* * **
3267668 CTTCGGCCTTTGCTTTGGCTTTTG
1 CTTCGGCTTTTGCTTCGGCTTCAG
* *
3267692 CTTC-GTTGTTTGCTTCGGTTTCAG
1 CTTCGGCT-TTTGCTTCGGCTTCAG
*
3267716 CTTCGGCTTTTGCTTCGGCTTCAA
1 CTTCGGCTTTTGCTTCGGCTTCAG
3267740 CTTCGGCTTTTGCTTCGGCTTCAG
1 CTTCGGCTTTTGCTTCGGCTTCAG
*
3267764 CTTTGGCTT
1 CTTCGGCTT
3267773 CAGCTTCAGC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.01
24 65 0.96
25 2 0.03
ACGTcount: A:0.04, C:0.26, G:0.24, T:0.47
Consensus pattern (24 bp):
CTTCGGCTTTTGCTTCGGCTTCAG
Found at i:3267915 original size:12 final size:12
Alignment explanation
Indices: 3267855--3268003 Score: 81
Period size: 12 Copynumber: 12.4 Consensus size: 12
3267845 CTCCTATTTT
*
3267855 AGCTTTTGCTTT
1 AGCTTTTGCTTC
*
3267867 AGCCTTTGCTTC
1 AGCTTTTGCTTC
*
3267879 -GGTGTTTGCTTC
1 AGCT-TTTGCTTC
* *
3267891 GGCCTTTGCTTC
1 AGCTTTTGCTTC
3267903 AGCTTTTGCTTC
1 AGCTTTTGCTTC
**
3267915 AGCTTCAGCTTC
1 AGCTTTTGCTTC
**
3267927 AGCTTCAGCCTTTC
1 AGCTTTTG-C-TTC
** * *
3267941 --CTTCAGTTTT
1 AGCTTTTGCTTC
*
3267951 AGCTTTAGCTTC
1 AGCTTTTGCTTC
*
3267963 AGCTTTGGCTTC
1 AGCTTTTGCTTC
*
3267975 A-CTTTTAGCCTC
1 AGCTTTT-GCTTC
*
3267987 AGCTTTAGCTTC
1 AGCTTTTGCTTC
3267999 AGCTT
1 AGCTT
3268004 CAGCTTTAGC
Statistics
Matches: 109, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
10 2 0.02
11 5 0.05
12 93 0.85
13 6 0.06
14 3 0.03
ACGTcount: A:0.11, C:0.27, G:0.18, T:0.44
Consensus pattern (12 bp):
AGCTTTTGCTTC
Found at i:3267919 original size:6 final size:6
Alignment explanation
Indices: 3267898--3268149 Score: 132
Period size: 6 Copynumber: 42.0 Consensus size: 6
3267888 TTCGGCCTTT
**
3267898 GCTTCA GCTTTT GCTTCA GCTTCA GCTTCA GCTTCA GCCTTTC- -CTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA G-C-TTCA GCTTCA
* * * ** * * *
3267946 GTTTTA GCTTTA GCTTCA GCTTTG GCTTCA -CTTTTA GCCTCA GCTTTA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GC-TTCA GCTTCA GCTTCA
* * * * * * *
3267994 GCTTCA GCTTCA GCTTTA GCTTCT TCTTTA GATTTA GCTTTA GCTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
* * * * * * * *
3268042 GATTCA GCTTTA GCTTCA TCTTTA ACTTTA GCTTGA GCTTCA TCTTCA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
* * * * * * * * * *
3268090 GCTTTA ACTTCA TCTTTA GCTTTA GCTTGA GGTTGA GTTTCA GCTTTA
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA
*
3268138 GCTTTA GCTTCA
1 GCTTCA GCTTCA
3268150 TCTTTACCAC
Statistics
Matches: 187, Mismatches: 53, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
4 3 0.02
5 2 0.01
6 177 0.95
7 2 0.01
8 3 0.02
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (6 bp):
GCTTCA
Found at i:3267919 original size:18 final size:18
Alignment explanation
Indices: 3267910--3268149 Score: 151
Period size: 18 Copynumber: 13.0 Consensus size: 18
3267900 TTCAGCTTTT
*
3267910 GCTTCAGCTTCAGCTTCA
1 GCTTCAGCTTTAGCTTCA
*
3267928 GCTTCAGCCTTT-CCTTCA
1 GCTTCAG-CTTTAGCTTCA
* *
3267946 GTTTTAGCTTTAGCTTCA
1 GCTTCAGCTTTAGCTTCA
** * *
3267964 GCTTTGGCTTCA-CTTTTA
1 GCTTCAGCTTTAGC-TTCA
*
3267982 GCCTCAGCTTTAGCTTCA
1 GCTTCAGCTTTAGCTTCA
3268000 GCTTCAGCTTTAGCTTCTTCTTTA
1 GCTTCAGCTTTAG---CTTC---A
* *
3268024 GATTTAGCTTTAGCTTCA
1 GCTTCAGCTTTAGCTTCA
*
3268042 GATTCAGCTTTAGCTTCA
1 GCTTCAGCTTTAGCTTCA
* * * *
3268060 TCTTTAACTTTAGCTTGA
1 GCTTCAGCTTTAGCTTCA
* * *
3268078 GCTTCATCTTCAGCTTTA
1 GCTTCAGCTTTAGCTTCA
* * *
3268096 ACTTCATCTTTAGCTTTA
1 GCTTCAGCTTTAGCTTCA
* * * *
3268114 GCTTGAGGTTGAGTTTCA
1 GCTTCAGCTTTAGCTTCA
*
3268132 GCTTTAGCTTTAGCTTCA
1 GCTTCAGCTTTAGCTTCA
3268150 TCTTTACCAC
Statistics
Matches: 171, Mismatches: 41, Indels: 20
0.74 0.18 0.09
Matches are distributed among these distances:
17 5 0.03
18 142 0.83
19 4 0.02
21 8 0.05
24 12 0.07
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (18 bp):
GCTTCAGCTTTAGCTTCA
Found at i:3267932 original size:30 final size:30
Alignment explanation
Indices: 3267898--3268155 Score: 199
Period size: 30 Copynumber: 8.8 Consensus size: 30
3267888 TTCGGCCTTT
* *
3267898 GCTTCAGCTTTTGCTTCAGCTTCAGCTTCA
1 GCTTCAGCTTTAGCTTCAGCTTTAGCTTCA
* * *
3267928 GCTTCAGCCTTT-CCTTCAGTTTTAGCTTTA
1 GCTTCAG-CTTTAGCTTCAGCTTTAGCTTCA
* *
3267958 GCTTCAGCTTTGGCTTCA-CTTTTAGCCTCA
1 GCTTCAGCTTTAGCTTCAGC-TTTAGCTTCA
* *
3267988 GCTTTAGCTTCAGCTTCAGCTTTAGCTT--
1 GCTTCAGCTTTAGCTTCAGCTTTAGCTTCA
* *
3268016 -CTT---CTTTAGATTTAGCTTTAGCTTCA
1 GCTTCAGCTTTAGCTTCAGCTTTAGCTTCA
* * * *
3268042 GATTCAGCTTTAGCTTCATCTTTAACTTTA
1 GCTTCAGCTTTAGCTTCAGCTTTAGCTTCA
* * * *
3268072 GCTTGAGCTTCATCTTCAGCTTTAACTTCA
1 GCTTCAGCTTTAGCTTCAGCTTTAGCTTCA
* * * * * *
3268102 TCTTTAGCTTTAGCTTGAGGTTGAGTTTCA
1 GCTTCAGCTTTAGCTTCAGCTTTAGCTTCA
* *
3268132 GCTTTAGCTTTAGCTTCATCTTTA
1 GCTTCAGCTTTAGCTTCAGCTTTA
3268156 CCACTTGCAT
Statistics
Matches: 177, Mismatches: 41, Indels: 20
0.74 0.17 0.08
Matches are distributed among these distances:
24 18 0.10
27 5 0.03
29 4 0.02
30 145 0.82
31 5 0.03
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.45
Consensus pattern (30 bp):
GCTTCAGCTTTAGCTTCAGCTTTAGCTTCA
Found at i:3268155 original size:42 final size:42
Alignment explanation
Indices: 3267910--3268141 Score: 243
Period size: 42 Copynumber: 5.5 Consensus size: 42
3267900 TTCAGCTTTT
* * * * * *
3267910 GCTTCAGCTTCAGCTTCAGCTTCAGCCTTT-CCTTCAGTTTTA
1 GCTTCAGCTTCAGCTTTAGCTTCA-TCTTTAGCTTTAGCTTGA
* * * * *
3267952 GCTTTAGCTTCAGCTTTGGCTTCA-CTTTTAGCCTCAGCTTTA
1 GCTTCAGCTTCAGCTTTAGCTTCATC-TTTAGCTTTAGCTTGA
* * *
3267994 GCTTCAGCTTCAGCTTTAGCTTCTTCTTTAGATTTAGCTTTA
1 GCTTCAGCTTCAGCTTTAGCTTCATCTTTAGCTTTAGCTTGA
* *
3268036 GCTTCAGATTCAGCTTTAGCTTCATCTTTAACTTTAGCTTGA
1 GCTTCAGCTTCAGCTTTAGCTTCATCTTTAGCTTTAGCTTGA
* *
3268078 GCTTCATCTTCAGCTTTAACTTCATCTTTAGCTTTAGCTTGA
1 GCTTCAGCTTCAGCTTTAGCTTCATCTTTAGCTTTAGCTTGA
* * *
3268120 GGTTGAGTTTCAGCTTTAGCTT
1 GCTTCAGCTTCAGCTTTAGCTT
3268142 TAGCTTCATC
Statistics
Matches: 161, Mismatches: 26, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 156 0.97
43 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.44
Consensus pattern (42 bp):
GCTTCAGCTTCAGCTTTAGCTTCATCTTTAGCTTTAGCTTGA
Found at i:3268412 original size:156 final size:156
Alignment explanation
Indices: 3268128--3268515 Score: 677
Period size: 156 Copynumber: 2.5 Consensus size: 156
3268118 GAGGTTGAGT
3268128 TTCAGCTTTAGCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCTCCAC
1 TTCAGCTTTAGCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCTCCAC
*
3268193 CTTGTCCTTTTACCCCACCGGAATCATTAGAGCTGTCACTTCCACCACTATTTCCATCGACCTTT
66 CTTGTCCTTTTACCCCACCAGAATCATTAGAGCTGTCACTTCCACCACTATTTCCATCGACCTTT
*
3268258 CCCTGTCCTCCAAAATTTCCTTCAGC
131 CCCTGTCCTCCAAAATTTCCTCCAGC
* *
3268284 TTCAGCTTTACCTTTAACTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCTCCAC
1 TTCAGCTTTAGCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCTCCAC
*
3268349 CTTGTCCTTTTACCCCACCAGAATCATTAGAGCTGTCACTTCCACCACTATTTTCATCGACCTTT
66 CTTGTCCTTTTACCCCACCAGAATCATTAGAGCTGTCACTTCCACCACTATTTCCATCGACCTTT
*
3268414 CCCTGTCCTCCAAAATTTCCTCCATC
131 CCCTGTCCTCCAAAATTTCCTCCAGC
* * * * *
3268440 TTTAGCTTTAGCTTTAGTTTCATCTTTACCACTTGCATCTATATTACCACTACCATCTCCTCCAT
1 TTCAGCTTTAGCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCTCCAC
3268505 CTTGTCCTTTT
66 CTTGTCCTTTT
3268516 TCTCTACCAC
Statistics
Matches: 219, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
156 219 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.38
Consensus pattern (156 bp):
TTCAGCTTTAGCTTTAGCTTCATCTTTACCACTTGCATTTGTATTACCACTACCATCTCCTCCAC
CTTGTCCTTTTACCCCACCAGAATCATTAGAGCTGTCACTTCCACCACTATTTCCATCGACCTTT
CCCTGTCCTCCAAAATTTCCTCCAGC
Found at i:3268529 original size:54 final size:54
Alignment explanation
Indices: 3268466--3268623 Score: 253
Period size: 54 Copynumber: 2.9 Consensus size: 54
3268456 GTTTCATCTT
*
3268466 TACCACTTGCATCTATATTACCACTACCATCTCCTCCATCTTGTCCTTTTTCTC
1 TACCACTTGCATCTATATTACCACTACCATCTCCTCCACCTTGTCCTTTTTCTC
* *
3268520 TACCACTTGCATCTATATTACCACTACCATCTCCTCTACCTTGTCCTTTTTCTT
1 TACCACTTGCATCTATATTACCACTACCATCTCCTCCACCTTGTCCTTTTTCTC
* * * *
3268574 TACCACTGGCATTTATATTACCCCTACCATCTCCTCCACCTTGTCGTTTT
1 TACCACTTGCATCTATATTACCACTACCATCTCCTCCACCTTGTCCTTTT
3268624 ACCCCACCAG
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.18, C:0.36, G:0.05, T:0.41
Consensus pattern (54 bp):
TACCACTTGCATCTATATTACCACTACCATCTCCTCCACCTTGTCCTTTTTCTC
Found at i:3278227 original size:43 final size:43
Alignment explanation
Indices: 3277842--3278213 Score: 496
Period size: 43 Copynumber: 8.7 Consensus size: 43
3277832 TTTTAGAAAT
** * *
3277842 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTATACC-AC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTT-TTCCTAC
* ** *
3277885 AAACGCCACTAAAGACCATGACCTTTAGTTGCGCTTATACC-AC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTT-TTCCTAC
*
3277928 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
* * *
3277971 AAACGTCGCTAAATACCATGACCTTTAGCAGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
* * *
3278014 AAACGTCGCTAAATACCATGACCTTTAGCAGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
* * *
3278057 AAACGCCGCTAAAGACCATGACCTTTAGGGGCGCTTATCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
* *
3278100 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
* **
3278143 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
*
3278186 AAACGCCGCTAAAGACCATGACTTTTAG
1 AAACGCCGCTAAAGACCATGACCTTTAG
3278214 TGGCATTTTT
Statistics
Matches: 300, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 3 0.01
43 297 0.99
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
Found at i:3278446 original size:19 final size:19
Alignment explanation
Indices: 3278422--3278459 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
3278412 TACAAAAATG
3278422 TTAAAAGTT-AAAATGATAA
1 TTAAAA-TTCAAAATGATAA
3278441 TTAAAATTCAAAATGATAA
1 TTAAAATTCAAAATGATAA
3278460 AAATATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
TTAAAATTCAAAATGATAA
Found at i:3278630 original size:66 final size:66
Alignment explanation
Indices: 3278560--3278707 Score: 176
Period size: 66 Copynumber: 2.2 Consensus size: 66
3278550 ACGCTGCTCT
* * *
3278560 GCTTCTCTCGCTG-TCGCATCTGCTTTAAGCTGCAAG-TGGAGTTCTTCATA-CTTTCGTTGAAC
1 GCTTCTCTCGCTGCT-GCATCTGCTTTAAACTG-AAGCTAGAGTTCTTCATATCTTT-GTTCAAC
3278622 CTCA
63 CTCA
* * * *
3278626 GCTTCTCTCGCTGCTGCATCTGCTTTAAATTGTAGCTAGAGTTCTTCATATCTTTTTTCAATCTC
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAACTGAAGCTAGAGTTCTTCATATCTTTGTTCAACCTC
3278691 A
66 A
*
3278692 GCTTCTCTCGATGCTG
1 GCTTCTCTCGCTGCTG
3278708 TCTCCGCTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
65 2 0.03
66 64 0.90
67 5 0.07
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCTGCATCTGCTTTAAACTGAAGCTAGAGTTCTTCATATCTTTGTTCAACCTC
A
Found at i:3278717 original size:66 final size:66
Alignment explanation
Indices: 3278598--3278724 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
3278588 GCTGCAAGTG
* * *
3278598 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAATTGTAGCT
1 GAGTTCTTCATACTTTCGTTCAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTGTAGCT
3278663 A
66 A
* * *
3278664 GAGTTCTTCATATCTTT-TTTCAATCTCAGCTTCTCTCGATGCTGTC-TCCGCTTTAAGTTGT
1 GAGTTCTTCATA-CTTTCGTTCAACCTCAGCTTCTCTCGATGCTG-CATCCGCTTTAAATTGT
3278725 GTAATTTGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 48 0.91
67 5 0.09
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (66 bp):
GAGTTCTTCATACTTTCGTTCAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTGTAGCT
A
Found at i:3284228 original size:25 final size:25
Alignment explanation
Indices: 3284194--3284275 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
3284184 TGATATATAT
*
3284194 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
3284219 TTATGTATTATA-TAAGTTATTTAAG
1 TTATGTATTA-AGTAAGTTATGTAAG
* *
3284244 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
3284269 TTATGTA
1 TTATGTA
3284276 AGTGTTGTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 49 0.98
26 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:3284269 original size:34 final size:34
Alignment explanation
Indices: 3284219--3284616 Score: 223
Period size: 34 Copynumber: 12.4 Consensus size: 34
3284209 ATTATGTAAG
* *
3284219 TTATGT-A-TTATATAAGTTATTTAAGT-TATGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGT-TGTA
*
3284251 TTATGTAAGCTATGTAAGTTATGTAAGTGTTGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
* *
3284285 TCATGTAAGTTATATAAGTTATGT-AG-GCTATGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTG-T-TGTA
* * *
3284319 TTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
*
3284353 TTATGTAAGTTATGT-A-TTATATAAGT-TT-TA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
**
3284383 --A-GTAAAATATGTAAG-T-TGT-A----T-T-
1 TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
* * * * *
3284405 TTGTGAAAGTTATATAAGTTATGTAGGT-TATGCA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGT-TGTA
* * *
3284439 TTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
*
3284473 TTATGTAAGTTATGT-A-TTATGTAAGAT-ATGTAA
1 TTATGTAAGTTATGTAAGTTATGTAAG-TGTTGT-A
* ** * * *
3284506 GT-TGTATTTTATGTAAGTTCTGTATTA-TGTATATG
1 TTATGTAAGTTATGTAAGTTATGTA--AGTGT-TGTA
* * *
3284541 TTATGTAAGTTGTGT-AG-AATGTAAGTGGTGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
3284573 TTATGTAAGTTATGTAAGTTATGTAA--G-T-TA
1 TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
3284603 TTATGTAAGTTATG
1 TTATGTAAGTTATG
3284617 CAATCTTATA
Statistics
Matches: 280, Mismatches: 52, Indels: 70
0.70 0.13 0.17
Matches are distributed among these distances:
23 2 0.01
25 10 0.04
26 2 0.01
27 14 0.05
28 3 0.01
30 18 0.06
31 3 0.01
32 55 0.20
33 14 0.05
34 138 0.49
35 8 0.03
36 13 0.05
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTGTTGTA
Found at i:3284502 original size:25 final size:24
Alignment explanation
Indices: 3284474--3284603 Score: 78
Period size: 25 Copynumber: 5.5 Consensus size: 24
3284464 AGTGTTGTAT
3284474 TATGTAAGTTATGTATTATGTAAG
1 TATGTAAGTTATGTATTATGTAAG
* * *
3284498 ATATGTAAGTTGTATTTTATGTAAG
1 -TATGTAAGTTATGTATTATGTAAG
*
3284523 TTCTGT-A-TTATGTA-TATGT---
1 -TATGTAAGTTATGTATTATGTAAG
* **
3284542 TATGTAAGTTGTGTAGAATGTAAG
1 TATGTAAGTTATGTATTATGTAAG
*
3284566 TGGTGT-A-TTATGTAAGTTATGTAAG
1 T-ATGTAAGTTATGT-A-TTATGTAAG
3284591 TTATGTAAGTTAT
1 -TATGTAAGTTAT
3284604 TATGTAAGTT
Statistics
Matches: 77, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
18 4 0.05
19 1 0.01
20 6 0.08
21 4 0.05
22 5 0.06
23 9 0.12
24 4 0.05
25 38 0.49
26 2 0.03
27 4 0.05
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (24 bp):
TATGTAAGTTATGTATTATGTAAG
Found at i:3284608 original size:12 final size:12
Alignment explanation
Indices: 3284591--3284838 Score: 69
Period size: 12 Copynumber: 23.1 Consensus size: 12
3284581 GTTATGTAAG
3284591 TTATGTAAGTTA
1 TTATGTAAGTTA
3284603 TTATGTAAG---
1 TTATGTAAGTTA
* *
3284612 TTATGCAATCTTA
1 TTATGTAA-GTTA
*
3284625 -TATATAAGTTA
1 TTATGTAAGTTA
*
3284636 TGTA-GTATGTTA
1 T-TATGTAAGTTA
3284648 TTA--T--GT-A
1 TTATGTAAGTTA
*
3284655 TTATGTAATTTA
1 TTATGTAAGTTA
*
3284667 TTATGTTA-TTA
1 TTATGTAAGTTA
*
3284678 -TATATAAG---
1 TTATGTAAGTTA
3284686 TTATGTAAGTTA
1 TTATGTAAGTTA
3284698 TTATGTAAG---
1 TTATGTAAGTTA
*
3284707 TTATGCAAGCTTA
1 TTATGTAAG-TTA
*
3284720 -TATATAAGTTA
1 TTATGTAAGTTA
3284731 TGTAT-T-A--TA
1 T-TATGTAAGTTA
*
3284740 TTAT-TATG-TA
1 TTATGTAAGTTA
*
3284750 TTATGTAATTTA
1 TTATGTAAGTTA
**
3284762 TTATGT-TCTTA
1 TTATGTAAGTTA
*
3284773 -TATATAAG---
1 TTATGTAAGTTA
3284781 TTATGTAAGTTA
1 TTATGTAAGTTA
3284793 TTATGTAAG---
1 TTATGTAAGTTA
*
3284802 TTATGCAAGCTTA
1 TTATGTAAG-TTA
*
3284815 -TATATAAGTTA
1 TTATGTAAGTTA
3284826 TTATGTAAGTTA
1 TTATGTAAGTTA
3284838 T
1 T
3284839 GAGTTTATAA
Statistics
Matches: 172, Mismatches: 28, Indels: 72
0.63 0.10 0.26
Matches are distributed among these distances:
7 4 0.02
8 6 0.03
9 41 0.24
10 16 0.09
11 21 0.12
12 79 0.46
13 5 0.03
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.50
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:3284693 original size:31 final size:32
Alignment explanation
Indices: 3284654--3284798 Score: 115
Period size: 31 Copynumber: 4.6 Consensus size: 32
3284644 GTTATTATGT
*
3284654 ATTATGTAATTTATTATGTTATTATATATAAG
1 ATTATGTAAGTTATTATGTTATTATATATAAG
* * **
3284686 -TTATGTAAGTTATTATGTAAGT-TATGCAAG
1 ATTATGTAAGTTATTATGTTATTATATATAAG
* *
3284716 CTTATATATAAGTTATGTAT-TATATTAT-TAT--G
1 -AT-TATGTAAGTTAT-TATGT-TATTATATATAAG
* *
3284748 TATTATGTAATTTATTATGTTCTTATATATAAG
1 -ATTATGTAAGTTATTATGTTATTATATATAAG
3284781 -TTATGTAAGTTATTATGT
1 ATTATGTAAGTTATTATGT
3284799 AAGTTATGCA
Statistics
Matches: 87, Mismatches: 16, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
30 14 0.16
31 50 0.57
32 3 0.03
33 13 0.15
34 6 0.07
35 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (32 bp):
ATTATGTAAGTTATTATGTTATTATATATAAG
Found at i:3284696 original size:95 final size:95
Alignment explanation
Indices: 3284587--3284826 Score: 444
Period size: 95 Copynumber: 2.5 Consensus size: 95
3284577 GTAAGTTATG
* *
3284587 TAAGTTATGTAAGTTATTATGTAAGTTATGCAATCTTATATATAAGTTATGTAGTATGTTATTAT
1 TAAGTTATGTAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTAGTATATTATTAT
3284652 GTATTATGTAATTTATTATGTTATTATATA
66 GTATTATGTAATTTATTATGTTATTATATA
*
3284682 TAAGTTATGTAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTATTATATTATTAT
1 TAAGTTATGTAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTAGTATATTATTAT
*
3284747 GTATTATGTAATTTATTATGTTCTTATATA
66 GTATTATGTAATTTATTATGTTATTATATA
3284777 TAAGTTATGTAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTAT
1 TAAGTTATGTAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTAT
3284827 TATGTAAGTT
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 141 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (95 bp):
TAAGTTATGTAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTAGTATATTATTAT
GTATTATGTAATTTATTATGTTATTATATA
Found at i:3284711 original size:9 final size:9
Alignment explanation
Indices: 3284205--3284698 Score: 224
Period size: 9 Copynumber: 58.0 Consensus size: 9
3284195 TATGTATTAA
*
3284205 GTAAATTAT
1 GTAAGTTAT
3284214 GTAAGTTAT
1 GTAAGTTAT
3284223 GT-A-TTAT
1 GTAAGTTAT
*
3284230 ATAAGTTAT
1 GTAAGTTAT
*
3284239 TTAAGTTAT
1 GTAAGTTAT
3284248 GT-A-TTAT
1 GTAAGTTAT
*
3284255 GTAAGCTAT
1 GTAAGTTAT
3284264 GTAAGTTAT
1 GTAAGTTAT
3284273 GTAAGTGT-T
1 GTAAGT-TAT
*
3284282 GT-A-TCAT
1 GTAAGTTAT
3284289 GTAAGTTAT
1 GTAAGTTAT
*
3284298 ATAAGTTAT
1 GTAAGTTAT
* *
3284307 GTAGGCTAT
1 GTAAGTTAT
3284316 GT-A-TTAT
1 GTAAGTTAT
*
3284323 GCAAGTTAT
1 GTAAGTTAT
* *
3284332 TTAAGTTGT
1 GTAAGTTAT
3284341 GTAAGTGT-T
1 GTAAGT-TAT
3284350 GT-A-TTAT
1 GTAAGTTAT
3284357 GTAAGTTAT
1 GTAAGTTAT
3284366 GT-A-TTAT
1 GTAAGTTAT
* *
3284373 ATAAGTTTTAA
1 GTAAG--TTAT
**
3284384 GTAAAATAT
1 GTAAGTTAT
3284393 GTAAG-T-T
1 GTAAGTTAT
** *
3284400 GTATTTTGT
1 GTAAGTTAT
*
3284409 GAAAGTTAT
1 GTAAGTTAT
*
3284418 ATAAGTTAT
1 GTAAGTTAT
*
3284427 GTAGGTTAT
1 GTAAGTTAT
*
3284436 G-CA-TTAT
1 GTAAGTTAT
*
3284443 GCAAGTTAT
1 GTAAGTTAT
* *
3284452 TTAAGTTGT
1 GTAAGTTAT
3284461 GTAAGTGT-T
1 GTAAGT-TAT
3284470 GT-A-TTAT
1 GTAAGTTAT
3284477 GTAAGTTAT
1 GTAAGTTAT
3284486 GT-A-TTAT
1 GTAAGTTAT
*
3284493 GTAAGATAT
1 GTAAGTTAT
3284502 GTAAG-T-T
1 GTAAGTTAT
**
3284509 GTATTTTAT
1 GTAAGTTAT
*
3284518 GTAAGTTCT
1 GTAAGTTAT
3284527 GT-A-TTAT
1 GTAAGTTAT
3284534 GTATATGTTAT
1 GTA-A-GTTAT
*
3284545 GTAAGTTGT
1 GTAAGTTAT
*
3284554 GT-AG-AAT
1 GTAAGTTAT
**
3284561 GTAAGTGGT
1 GTAAGTTAT
3284570 GT-A-TTAT
1 GTAAGTTAT
3284577 GTAAGTTAT
1 GTAAGTTAT
3284586 GTAAGTTAT
1 GTAAGTTAT
3284595 GTAAGTTATTAT
1 GTAAG---TTAT
3284607 GTAAGTTAT
1 GTAAGTTAT
* *
3284616 GCAATCTTATAT
1 GTAA--GT-TAT
*
3284628 ATAAGTTAT
1 GTAAGTTAT
3284637 GT-AG-TAT
1 GTAAGTTAT
*
3284644 GTTA-TTAT
1 GTAAGTTAT
3284652 GT-A-TTAT
1 GTAAGTTAT
*
3284659 GTAATTTAT
1 GTAAGTTAT
*
3284668 -TATGTTAT
1 GTAAGTTAT
3284676 -T-A--TAT
1 GTAAGTTAT
*
3284681 ATAAGTTAT
1 GTAAGTTAT
3284690 GTAAGTTAT
1 GTAAGTTAT
3284699 TATGTAAGTT
Statistics
Matches: 366, Mismatches: 67, Indels: 104
0.68 0.12 0.19
Matches are distributed among these distances:
5 3 0.01
6 3 0.01
7 76 0.21
8 43 0.12
9 208 0.57
10 5 0.01
11 14 0.04
12 14 0.04
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:3284989 original size:14 final size:15
Alignment explanation
Indices: 3284959--3284991 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3284949 TTTGGTTATG
3284959 TATATTAAAACAATA
1 TATATTAAAACAATA
*
3284974 TATATTATAA-AATA
1 TATATTAAAACAATA
3284988 TATA
1 TATA
3284992 AGTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
TATATTAAAACAATA
Found at i:3285112 original size:45 final size:44
Alignment explanation
Indices: 3285040--3285191 Score: 161
Period size: 45 Copynumber: 3.4 Consensus size: 44
3285030 ATTAATACTA
* *
3285040 ATAAATTTTATTATTAATAAATTTAGAACACTTATTTAGAAAACTT
1 ATAAA-TTTAATACTAATAAATTTAGAA-ACTTATTTAGAAAACTT
3285086 ATAAATTTAATACTAATAAATTTAGAAAACTTATTTAGAAAACTT
1 ATAAATTTAATACTAATAAATTTAG-AAACTTATTTAGAAAACTT
* *
3285131 ATATAGATATTAAAAC-AAT-AA-TTA-TAA-TTATTTAGAAAACTT
1 ATA-A-AT-TTAATACTAATAAATTTAGAAACTTATTTAGAAAACTT
* *
3285173 ATAAATTTTATAGTAATAA
1 ATAAATTTAATACTAATAA
3285192 GTTTTAAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
39 4 0.04
40 5 0.05
41 2 0.02
42 18 0.19
43 2 0.02
45 41 0.44
46 10 0.11
47 5 0.05
48 6 0.06
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (44 bp):
ATAAATTTAATACTAATAAATTTAGAAACTTATTTAGAAAACTT
Found at i:3285123 original size:13 final size:13
Alignment explanation
Indices: 3285105--3285137 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
3285095 ATACTAATAA
3285105 ATTTAGAAAACTT
1 ATTTAGAAAACTT
3285118 ATTTAGAAAACTT
1 ATTTAGAAAACTT
*
3285131 ATATAGA
1 ATTTAGA
3285138 TATTAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:3285438 original size:21 final size:22
Alignment explanation
Indices: 3285412--3285454 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3285402 TCCAAAATTT
3285412 ATTGCG-TTTTTGGCACGAATG
1 ATTGCGTTTTTTGGCACGAATG
*
3285433 ATTGCGTTTTTTTGCACGAATG
1 ATTGCGTTTTTTGGCACGAATG
3285455 TAGCAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.42
Consensus pattern (22 bp):
ATTGCGTTTTTTGGCACGAATG
Found at i:3285681 original size:22 final size:21
Alignment explanation
Indices: 3285656--3285707 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3285646 ATGAATCAGA
*
3285656 TTACAAACCATAAATCGAAAGT
1 TTACAAACCAGAAATC-AAAGT
* *
3285678 TTACAAACC-GAATTCATAGT
1 TTACAAACCAGAAATCAAAGT
3285698 TTACAAACCA
1 TTACAAACCA
3285708 CAAAATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 13 0.50
21 4 0.15
22 9 0.35
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (21 bp):
TTACAAACCAGAAATCAAAGT
Found at i:3287199 original size:15 final size:16
Alignment explanation
Indices: 3287179--3287213 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
3287169 TTCAAATTTA
3287179 TAAATACTATCAAT-T
1 TAAATACTATCAATAT
3287194 TAAATACTATCAATAT
1 TAAATACTATCAATAT
3287210 TAAA
1 TAAA
3287214 ATTTATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATACTATCAATAT
Found at i:3291027 original size:41 final size:41
Alignment explanation
Indices: 3290968--3291048 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
3290958 ACATATTCAT
* *
3290968 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCAC
1 CGGCACTTAGCCTCCTAGGCTTATAACCTGATTCAAATCAC
* * *
3291009 CGGCACTTAGCCTCCTAGGTTTATAACCTGGTTCAGATCA
1 CGGCACTTAGCCTCCTAGGCTTATAACCTGATTCAAATCA
3291049 GCCTGCTAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CGGCACTTAGCCTCCTAGGCTTATAACCTGATTCAAATCAC
Found at i:3291058 original size:31 final size:31
Alignment explanation
Indices: 3291017--3291079 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
3291007 ACCGGCACTT
* **
3291017 AGCCTCCTAGGTTTATAACCTGGTTCAGATC
1 AGCCTCCTAGGTTGATAACCTGACTCAGATC
*
3291048 AGCCTGCTAGGTTGATAACCTGACTCAGATC
1 AGCCTCCTAGGTTGATAACCTGACTCAGATC
3291079 A
1 A
3291080 CCGGCACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (31 bp):
AGCCTCCTAGGTTGATAACCTGACTCAGATC
Found at i:3292819 original size:14 final size:15
Alignment explanation
Indices: 3292800--3292828 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3292790 ACACGAAATT
3292800 TTCACACA-AATAAA
1 TTCACACATAATAAA
3292814 TTCACACATAATAAA
1 TTCACACATAATAAA
3292829 CACATAAAAT
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:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:3295074 original size:25 final size:25
Alignment explanation
Indices: 3295040--3295090 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
3295030 TGGCAAAATA
* *
3295040 TATAGTGCAGGTATACCGCCAGAAT
1 TATAGTGCAGATAAACCGCCAGAAT
*
3295065 TATAGTGCAGATAAACTGCCAGAAT
1 TATAGTGCAGATAAACCGCCAGAAT
3295090 T
1 T
3295091 GGACTTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (25 bp):
TATAGTGCAGATAAACCGCCAGAAT
Found at i:3296936 original size:9 final size:9
Alignment explanation
Indices: 3296907--3296946 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
3296897 GTAGGGATTC
3296907 AATTCGGTT
1 AATTCGGTT
*
3296916 AATTTAGG-T
1 AA-TTCGGTT
3296925 AATTCGGTT
1 AATTCGGTT
3296934 AATTCGGTT
1 AATTCGGTT
3296943 AATT
1 AATT
3296947 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 4 0.15
9 19 0.70
10 4 0.15
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:3300675 original size:23 final size:23
Alignment explanation
Indices: 3300630--3300675 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3300620 CAATAATCGG
*
3300630 TAAAATAATATGTTTTCACTTAT
1 TAAAATAATATGTTTTCAATTAT
*
3300653 TAAAATCAT-TGTTTTCAAATTAT
1 TAAAATAATATGTTTTC-AATTAT
3300676 CAACTCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (23 bp):
TAAAATAATATGTTTTCAATTAT
Found at i:3302023 original size:14 final size:14
Alignment explanation
Indices: 3301996--3302041 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
3301986 TCGTTTATAC
3301996 TTAAA-TTAATTTAA
1 TTAAACTTAA-TTAA
3302010 TTAAACTTAATTAA
1 TTAAACTTAATTAA
*
3302024 TT-TACTTTAATTAA
1 TTAAAC-TTAATTAA
3302038 TTAA
1 TTAA
3302042 TCCATAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.07
14 21 0.78
15 4 0.15
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAACTTAATTAA
Found at i:3302253 original size:28 final size:27
Alignment explanation
Indices: 3302220--3302310 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 27
3302210 CCTTAGGTCT
3302220 TAATTCATCACAATTGCAATTAAATTAC
1 TAATTCATCACAATT-CAATTAAATTAC
* *
3302248 TAATTCAAATTC-CAATTC-ATCTATA-CAC
1 TAATTC--A-TCACAATTCAAT-TAAATTAC
*
3302276 TAATTAATCACAATTACAATTAAATTAC
1 TAATTCATCACAATT-CAATTAAATTAC
3302304 TAATTCA
1 TAATTCA
3302311 AATTCCAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
25 2 0.04
26 6 0.12
27 4 0.08
28 25 0.51
29 4 0.08
30 6 0.12
31 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (27 bp):
TAATTCATCACAATTCAATTAAATTAC
Found at i:3302258 original size:24 final size:24
Alignment explanation
Indices: 3302231--3302320 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
3302221 AATTCATCAC
*
3302231 AATTGCAATTAAATTACTAATTCA
1 AATTCCAATTAAATTACTAATTCA
* *
3302255 AATTCCAATTCATCTATACACTAATTAATCA
1 AATTCCAATT-A--AAT-TACTAA-T--TCA
*
3302286 CAATTACAATTAAATTACTAATTCA
1 -AATTCCAATTAAATTACTAATTCA
3302311 AATTCCAATT
1 AATTCCAATT
3302321 CATCTATACA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
24 18 0.35
25 4 0.08
27 3 0.06
28 10 0.20
29 3 0.06
31 4 0.08
32 9 0.18
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (24 bp):
AATTCCAATTAAATTACTAATTCA
Found at i:3302286 original size:56 final size:56
Alignment explanation
Indices: 3302220--3302334 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 56
3302210 CCTTAGGTCT
* *
3302220 TAATTCATCACAATTGCAATTAAATTACTAATTCAAATTCCAATTCATCTATACAC
1 TAATTAATCACAATTACAATTAAATTACTAATTCAAATTCCAATTCATCTATACAC
3302276 TAATTAATCACAATTACAATTAAATTACTAATTCAAATTCCAATTCATCTATACAC
1 TAATTAATCACAATTACAATTAAATTACTAATTCAAATTCCAATTCATCTATACAC
3302332 TAA
1 TAA
3302335 CTCTGAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.36
Consensus pattern (56 bp):
TAATTAATCACAATTACAATTAAATTACTAATTCAAATTCCAATTCATCTATACAC
Found at i:3302333 original size:28 final size:28
Alignment explanation
Indices: 3302246--3302334 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
3302236 CAATTAAATT
3302246 ACTAATTCAAATTCCAATTCATCTATAC
1 ACTAATTCAAATTCCAATTCATCTATAC
* *
3302274 ACTAATT--AA-TCACAATTACAAT-TAAATT
1 ACTAATTCAAATTC-CAATT-C-ATCTATA-C
3302302 ACTAATTCAAATTCCAATTCATCTATAC
1 ACTAATTCAAATTCCAATTCATCTATAC
3302330 ACTAA
1 ACTAA
3302335 CTCTGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
25 2 0.04
26 7 0.14
27 4 0.08
28 23 0.47
29 4 0.08
30 7 0.14
31 2 0.04
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (28 bp):
ACTAATTCAAATTCCAATTCATCTATAC
Found at i:3304111 original size:24 final size:24
Alignment explanation
Indices: 3304062--3304111 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
3304052 CTCGTCCTAA
*
3304062 ACCAAAATGAAACTTACCACTTCC
1 ACCAAAATGAAACTTACCACTACC
* * *
3304086 ACCAAAATGCAAGTTACCGCTACC
1 ACCAAAATGAAACTTACCACTACC
3304110 AC
1 AC
3304112 TTCCACCACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.34, G:0.08, T:0.18
Consensus pattern (24 bp):
ACCAAAATGAAACTTACCACTACC
Found at i:3304179 original size:66 final size:66
Alignment explanation
Indices: 3304103--3304317 Score: 326
Period size: 66 Copynumber: 3.3 Consensus size: 66
3304093 TGCAAGTTAC
3304103 CGCTACCACTTCCACCACCTTTTCCACTAAACCCTCCTTCCCCTCTTGCTCCACCAGCAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACTAAACCCTCCTTCCCCTCTTGCTCCACCAGCAACATTA
3304168 G
66 G
* *
3304169 CGGTACCACTTCCACCACCTTTTCCACTAAACCCTCCTTCCCCTCCTGCTCCACCAGCAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACTAAACCCTCCTTCCCCTCTTGCTCCACCAGCAACATTA
3304234 G
66 G
* ** * *
3304235 CGCTACCACTTCCACCACCTTTTCCA-TCAAACCCACCTTGTCCTCTTACTCCACCTA-TAACAT
1 CGCTACCACTTCCACCACCTTTTCCACT-AAACCCTCCTTCCCCTCTTGCTCCACC-AGCAACAT
3304298 TAG
64 TAG
*
3304301 TGCTACCACTTCCACCA
1 CGCTACCACTTCCACCA
3304318 AACCCTCCTT
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
65 1 0.01
66 135 0.99
67 1 0.01
ACGTcount: A:0.22, C:0.46, G:0.06, T:0.26
Consensus pattern (66 bp):
CGCTACCACTTCCACCACCTTTTCCACTAAACCCTCCTTCCCCTCTTGCTCCACCAGCAACATTA
G
Found at i:3304343 original size:120 final size:127
Alignment explanation
Indices: 3304103--3305084 Score: 764
Period size: 132 Copynumber: 7.3 Consensus size: 127
3304093 TGCAAGTTAC
* * * *
3304103 CGCTACCACTTCCACCACCTTTTCCACTAAACCCTCCTTCCCCTCTTGCTCCACCAGCAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCTTACTCCACCAGCAAAATTA
* * *
3304168 GCGGTACCACTTCCACCACCTTTTCCACTAAACCCTCCTTCCCCTCCTGCTCCACCAGCAACATT
66 -CGCT--CACTT-CACCACC-TTTCCACCAAACCCTCCTTCCCCTCCTACTCCACCAGCAACATT
3304233 AG
126 AG
* * * * *
3304235 CGCTACCACTTCCACCACCTTTTCCATCAAACCCACCTTGTCCTCTTACTCCACCTA-TAACATT
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCTTACTCCACC-AGCAAAATT
* * ** *
3304299 A-G-T-GC-T-ACCA-C-TTCCACCAAACCCTCCTTTCCCTTTTATTCCACCAGCAACATTAG
65 ACGCTCACTTCACCACCTTTCCACCAAACCCTCCTTCCCCTCCTACTCCACCAGCAACATTAG
* * * *
3304355 CACTGCTACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCTTACTCCACCAGCAAAATTA
* * *
3304420 GCGCTACCACTTGCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCAACTCCACCAACAACATT
66 -CGCT--CACTT-CACCACC-TTTCCACCAAACCCTCCTTCCCCTCCTACTCCACCAGCAACATT
3304485 AG
126 AG
*
3304487 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCT-TCTACTCCACCAGCAACATT
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCT-TACTCCACCAGCAAAATT
* *** *
3304551 AGCACTATCACTTGCGCTACCAGTTCCACCACCTTTTCCTTTAAACCCTCCTTGCCCTCCTACTC
65 A-CGC--TCAC-T----T--CA---CCA---CC-TTTCCACCAAACCCTCCTTCCCCTCCTACTC
3304616 CACCAGCAACATTAGCACTATCACTTG
113 CACCAG---CA--A-CA-T-T-A---G
* *** * *
3304643 CGCTACCAGTTCCACCACCTTTTCCTTTAAACCCTCCTTGCCCTAC-AAATCCACCAGCAAAATT
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCT-CTTACTCCACCAGCAAAATT
* * * * * *
3304707 AGTGCTACTAGTTCCACCACCTTTTCCACCAAACTCTCCTTTCCCT-CTAAATCCACCATCAACA
65 A-CGCT-C-ACTT-CACCACC-TTTCCACCAAACCCTCCTTCCCCTCCT-ACTCCACCAGCAACA
3304771 TTAG
124 TTAG
* * *
3304775 CACTACCACTTCCACTTCCACCACCTTTCCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCA
1 CGCT---A---CCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCTTACTCCACCAGCA
* * *
3304840 ACATTAGGGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGC
60 AAATTA-CGCT--CACTT-CACCACC-TTTCCACCAAACCCTCCTTCCCCTCCTACTCCACCAGC
3304905 AACATTAG
120 AACATTAG
* * * * * *
3304913 CGCTACCACTTCCATCACCTTTTCCAACAAACCCTCCTTGTCCTCCTACTCCACCAACAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCTTACTCCACCAGCAAAATTA
* ** * *
3304978 GCACTACCACTTCCACCACCTTTTCCTTCAAACCCTCCTTGCCCTCCTACTCCACCAGCAATATT
66 -CGCT--CACTT-CACCACC-TTTCCACCAAACCCTCCTTCCCCTCCTACTCCACCAGCAACATT
3305043 A-
126 AG
3305044 CTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTG
1 C-GCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTG
3305085 TCCTTCTATA
Statistics
Matches: 706, Mismatches: 88, Indels: 112
0.78 0.10 0.12
Matches are distributed among these distances:
119 1 0.00
120 93 0.13
122 2 0.00
123 5 0.01
125 1 0.00
126 2 0.00
127 1 0.00
129 5 0.01
130 2 0.00
131 1 0.00
132 317 0.45
133 2 0.00
134 1 0.00
135 3 0.00
136 1 0.00
137 3 0.00
138 112 0.16
139 4 0.01
141 5 0.01
143 2 0.00
144 65 0.09
147 5 0.01
149 1 0.00
150 5 0.01
151 2 0.00
152 1 0.00
153 1 0.00
154 1 0.00
155 2 0.00
156 60 0.08
ACGTcount: A:0.24, C:0.45, G:0.06, T:0.26
Consensus pattern (127 bp):
CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCTTACTCCACCAGCAAAATTA
CGCTCACTTCACCACCTTTCCACCAAACCCTCCTTCCCCTCCTACTCCACCAGCAACATTAG
Found at i:3304380 original size:66 final size:66
Alignment explanation
Indices: 3304310--3305084 Score: 870
Period size: 66 Copynumber: 11.3 Consensus size: 66
3304300 GTGCTACCAC
* ** * * * *
3304310 TTCCACCAAACCCTCCTTTCCCTTTTATTCCACCAGCAACATTAGCACTGCTACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
3304375 T
66 T
* *
3304376 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTAGCGCTACCACTTGCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
3304441 T
66 T
* *
3304442 TTCCACCAAACCCTCCTTGCCCTCCAACTCCACCAACAACATTAGCGCTACCACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
3304507 T
66 T
*
3304508 TTCCACCAAACCCTCCTTGCCCTTCTACTCCACCAGCAACATTAGCACTATCACTTGCGCTACCA
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAG---CA--A-CA-T-T-A---GCGCTACCA
*
3304573 GTTCCACCACCTT
54 CTTCCACCACCTT
***
3304586 TTCCTTTAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCACTATCACTTGCGCTACCA
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAG---CA--A-CA-T-T-A---GCGCTACCA
*
3304651 GTTCCACCACCTT
54 CTTCCACCACCTT
*** * * * * * * *
3304664 TTCCTTTAAACCCTCCTTGCCCTACAAATCCACCAGCAAAATTAGTGCTACTAGTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
3304729 T
66 T
* * * * *
3304730 TTCCACCAAACTCTCCTTTCCCT-CTAAATCCACCATCAACATTAGCACTACCACTTCCACTTCC
1 TTCCACCAAACCCTCCTTGCCCTCCT-ACTCCACCAGCAACATTAGCGCT---A---CCACTTCC
3304794 ACCACCTT
59 ACCACCTT
* *
3304802 TCCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGGGCTACCACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
3304867 T
66 T
*
3304868 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCATCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
3304933 T
66 T
* * * *
3304934 TTCCAACAAACCCTCCTTGTCCTCCTACTCCACCAACAACATTAGCACTACCACTTCCACCACCT
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
3304999 T
66 T
** *
3305000 TTCCTTCAAACCCTCCTTGCCCTCCTACTCCACCAGCAATATTA-CTGCTACCACTTCCACCACC
1 TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGC-GCTACCACTTCCACCACC
3305064 TT
65 TT
3305066 TTCCACCAAACCCTCCTTG
1 TTCCACCAAACCCTCCTTG
3305085 TCCTTCTATA
Statistics
Matches: 626, Mismatches: 62, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
65 2 0.00
66 424 0.68
69 5 0.01
70 1 0.00
71 2 0.00
72 56 0.09
73 4 0.01
74 1 0.00
75 3 0.00
78 128 0.20
ACGTcount: A:0.24, C:0.45, G:0.06, T:0.26
Consensus pattern (66 bp):
TTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACCACCT
T
Found at i:3305145 original size:90 final size:90
Alignment explanation
Indices: 3305029--3305304 Score: 417
Period size: 90 Copynumber: 3.1 Consensus size: 90
3305019 CCCTCCTACT
* * *
3305029 CCACCAGCAATATTACTGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGTCCTTCTAT
1 CCACCAGCAATATTACTGCTACCACTTCCACTACCTTTTCCACCAAACTCTCCTTGTCCTCCTAT
*
3305094 ATTACCTCCAAATCCAATACTTTTA
66 ATTACCTCCAAATCCAACACTTTTA
* * *
3305119 TCACTAGCAATATTACTGCTACCACTTCCACTACCTTTTCCACCAAATTCTCCTTGTCCTCCTAT
1 CCACCAGCAATATTACTGCTACCACTTCCACTACCTTTTCCACCAAACTCTCCTTGTCCTCCTAT
3305184 ATTACCTCCAAATCCAACACTTTTA
66 ATTACCTCCAAATCCAACACTTTTA
** * *
3305209 CCACCAGCAATATTACCACTACCAATTCCACTACCTTTTCCACCAAACTCTACTTGTCCTCCTAT
1 CCACCAGCAATATTACTGCTACCACTTCCACTACCTTTTCCACCAAACTCTCCTTGTCCTCCTAT
* * * *
3305274 TTTTCCTCCAACTCCAACACCTTTA
66 ATTACCTCCAAATCCAACACTTTTA
3305299 CCACCA
1 CCACCA
3305305 CCTTCTACTA
Statistics
Matches: 168, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 168 1.00
ACGTcount: A:0.27, C:0.39, G:0.03, T:0.32
Consensus pattern (90 bp):
CCACCAGCAATATTACTGCTACCACTTCCACTACCTTTTCCACCAAACTCTCCTTGTCCTCCTAT
ATTACCTCCAAATCCAACACTTTTA
Found at i:3305360 original size:18 final size:18
Alignment explanation
Indices: 3305337--3305372 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3305327 GTACGGCTCT
3305337 TTTTAAAGCAGAAGCACC
1 TTTTAAAGCAGAAGCACC
*
3305355 TTTTAAAGCAGCAGCACC
1 TTTTAAAGCAGAAGCACC
3305373 AGTAGCAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (18 bp):
TTTTAAAGCAGAAGCACC
Found at i:3311596 original size:66 final size:67
Alignment explanation
Indices: 3311481--3311606 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 67
3311471 ACTAGTGCTA
* * * * * *
3311481 CTTTCTCCGCCAAATCCTCCTTTCCCTTCTATTCCACCAGCAACATTAGCGCTACCACTTCCACC
1 CTTTCTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTAGCGCTACCACTTCCACC
3311546 AC
66 AC
3311548 CTTT-TCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTAGCGCTACCACTT
1 CTTTCTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTAGCGCTACCACTT
3311607 GCACTACCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
66 49 0.92
67 4 0.08
ACGTcount: A:0.22, C:0.44, G:0.06, T:0.27
Consensus pattern (67 bp):
CTTTCTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTAGCGCTACCACTTCCACC
AC
Found at i:3311639 original size:90 final size:90
Alignment explanation
Indices: 3311530--3311693 Score: 301
Period size: 90 Copynumber: 1.8 Consensus size: 90
3311520 GCAACATTAG
3311530 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTA
3311595 GCGCTACCACTTGCACTACCACTTA
66 GCGCTACCACTTGCACTACCACTTA
* **
3311620 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCATCAACCTTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTA
3311685 GCGCTACCA
66 GCGCTACCA
3311694 GTTCCACCAC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.23, C:0.48, G:0.06, T:0.23
Consensus pattern (90 bp):
CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTA
GCGCTACCACTTGCACTACCACTTA
Found at i:3311686 original size:156 final size:157
Alignment explanation
Indices: 3311481--3311762 Score: 422
Period size: 156 Copynumber: 1.8 Consensus size: 157
3311471 ACTAGTGCTA
* * * * *
3311481 CTTTCTCCGCCAAATCCTCCTTTCCCTTCTATTCCACCAGCAACATTAGCGCTACCACTTCCACC
1 CTTTCTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACC
* * *
3311546 ACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAAAATTAGCGCTACCACTTGCAC
66 ACCTTTTCCACCAAACCCTCCTTGCCCTCCTAATCCACCAACAAAATTAGCACTACCACTTGCAC
3311611 TACCACTTACGCTACCACTTCCACCAC
131 TACCACTTACGCTACCACTTCCACCAC
* * *
3311638 CTTT-TCCACCAAACCCTCCTTGCCCTCCTACTCCACCATCAACCTTAGCGCTACCAGTTCCACC
1 CTTTCTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACC
* * * *
3311702 ACCTTTTCCACCAAACTCTCCTTTCCCTCCTAATTCACCAACAACATTAGCACTACCACTT
66 ACCTTTTCCACCAAACCCTCCTTGCCCTCCTAATCCACCAACAAAATTAGCACTACCACTT
3311763 CCACCACCTT
Statistics
Matches: 110, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
156 106 0.96
157 4 0.04
ACGTcount: A:0.23, C:0.45, G:0.05, T:0.26
Consensus pattern (157 bp):
CTTTCTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTAGCGCTACCACTTCCACC
ACCTTTTCCACCAAACCCTCCTTGCCCTCCTAATCCACCAACAAAATTAGCACTACCACTTGCAC
TACCACTTACGCTACCACTTCCACCAC
Found at i:3311701 original size:66 final size:66
Alignment explanation
Indices: 3311620--3312326 Score: 976
Period size: 66 Copynumber: 10.7 Consensus size: 66
3311610 CTACCACTTA
* *
3311620 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCATCAACCTTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
3311685 G
66 G
* * * * * *
3311686 CGCTACCAGTTCCACCACCTTTTCCACCAAACTCTCCTTTCCCTCCTAATTCACCAACAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
3311751 G
66 G
* *
3311752 CACTACCACTTCCACCACCTTTTCCACCTAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
3311817 G
66 G
* * * *
3311818 TGCTACCACTTCCACCACCGTTTCCACCAAACCCTCATTGCCCTCCTACTCTACCAGCAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
3311883 G
66 G
* * * * * *
3311884 CACTACCACTTCCACCACCTTTTCCACCAAAACCC-CATTGCCCTCCTGCTCCATCAACAACAGT
1 CGCTACCACTTCCACCACCTTTTCCACC-AAACCCTCCTTGCCCTCCTACTCCACCAGCAACATT
3311948 AG
65 AG
* *
3311950 CACTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTTCTACTCCACCAGCAACATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
3312015 G
66 G
* * * * *
3312016 CGTTACTACTTCCACCACCTTTTCTACCAAACCC-CCTTGTCCTCCTACTCCACCAGCAAAATTA
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
3312080 G
66 G
* * *
3312081 CACTACCACTTCCACCA-CTGTTTCCTCCAAACCCTCCCTGCCCTCCTACTCCACCAGCAACATT
1 CGCTACCACTTCCACCACCT-TTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATT
3312145 AG
65 AG
* * * *
3312147 CGTTACTACTTCCACCACCTTTTCCACCAAACCC-CCATTGTCCTCCTACTCCACCAGCAAAATT
1 CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCC-TTGCCCTCCTACTCCACCAGCAACATT
3312211 AG
65 AG
* * *
3312213 CACTACCACTTCCACCA-CTGTTTCCTCCAAACCCTCATTGCCCTCCTACTCCACCAGCAACATT
1 CGCTACCACTTCCACCACCT-TTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATT
3312277 -G
65 AG
* *
3312278 CCGCTACCACTTCCACCACCTTTTCCACCAAACCCTCATTGTCCTCCTA
1 -CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTA
3312327 TATTACCTCC
Statistics
Matches: 564, Mismatches: 67, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
64 2 0.00
65 65 0.12
66 486 0.86
67 11 0.02
ACGTcount: A:0.24, C:0.46, G:0.06, T:0.25
Consensus pattern (66 bp):
CGCTACCACTTCCACCACCTTTTCCACCAAACCCTCCTTGCCCTCCTACTCCACCAGCAACATTA
G
Found at i:3313019 original size:18 final size:18
Alignment explanation
Indices: 3312982--3313020 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3312972 ATAGCAACTT
* *
3312982 TTTCCATTAAAAACATGA
1 TTTCCATTAAAAAAACGA
3313000 TTTCCATTAAAAAAACGA
1 TTTCCATTAAAAAAACGA
3313018 TTT
1 TTT
3313021 TTTTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (18 bp):
TTTCCATTAAAAAAACGA
Found at i:3313618 original size:2 final size:2
Alignment explanation
Indices: 3313611--3313654 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3313601 ATAAAATTGA
3313611 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
3313653 AT
1 AT
3313655 TACAAGGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3317363 original size:47 final size:46
Alignment explanation
Indices: 3317301--3317394 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 46
3317291 AAATTAAAGA
3317301 ATAAATTATTTTTTTAATTTCATTATCTTTACTATTAAAAACTGAT
1 ATAAATTATTTTTTTAATTTCATTATCTTTACTATTAAAAACTGAT
3317347 ATAAATTATTTTTTTTAATTTCATTATCTTTACTATTAAAAACTGAT
1 ATAAATTA-TTTTTTTAATTTCATTATCTTTACTATTAAAAACTGAT
3317394 A
1 A
3317395 GAACTAACGA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 8 0.17
47 39 0.83
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (46 bp):
ATAAATTATTTTTTTAATTTCATTATCTTTACTATTAAAAACTGAT
Found at i:3321067 original size:146 final size:146
Alignment explanation
Indices: 3320803--3321097 Score: 425
Period size: 146 Copynumber: 2.0 Consensus size: 146
3320793 GGGTCCAAAT
* * * *
3320803 ATGCTATCAACCCCAAGACTGCTTTTGCCTATTTAAACACAATTCAATCATTCAACATTAGAATA
1 ATGCTATCAACCCCAAGACTGCTGTTGCCTAATTAAACACAATTCAATCATTCAACATTACAACA
** * *
3320868 CTTGATTTCGACTTAAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTCCACAC
66 CTCAATTTCGACTTAAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTACAAAC
*
3320933 TAACAAATTCAAACAA
131 CAACAAATTCAAACAA
**
3320949 ATGCTATCAACCCCAAGACTGCTGTT-CC-AATTAAA-ACAATTTTCAATCATTCAGTATTACAA
1 ATGCTATCAACCCCAAGACTGCTGTTGCCTAATTAAACACAA--TTCAATCATTCAACATTACAA
* *
3321011 CACTCAATTTCTACTTAAAAATCCAGCAACAATACAAGCACATAAGTAGATTATTCATCCCTACA
64 CACTCAATTTCGACTT-AAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTACA
3321076 AACCAACAAATTCAAACAA
128 AACCAACAAATTCAAACAA
3321095 ATG
1 ATG
3321098 AGAATAATAA
Statistics
Matches: 133, Mismatches: 13, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
143 4 0.03
144 6 0.05
145 32 0.24
146 91 0.68
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.26
Consensus pattern (146 bp):
ATGCTATCAACCCCAAGACTGCTGTTGCCTAATTAAACACAATTCAATCATTCAACATTACAACA
CTCAATTTCGACTTAAAATCCAGCAACAATACAAGCACAGAAGTAGATTATTCATCCCTACAAAC
CAACAAATTCAAACAA
Found at i:3326034 original size:22 final size:21
Alignment explanation
Indices: 3326001--3326049 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
3325991 TCATATATAC
*
3326001 ATTTT-TAGTTTTA-TATTTAT
1 ATTTTATAGTTTTACAATTT-T
3326021 ATTTTATAGTTTTTACAATTTT
1 ATTTTATAG-TTTTACAATTTT
3326043 ATTTTAT
1 ATTTTAT
3326050 TTAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 13 0.52
23 4 0.16
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTTTATAGTTTTACAATTTT
Found at i:3327271 original size:17 final size:16
Alignment explanation
Indices: 3327249--3327314 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
3327239 TAAATTTAGA
*
3327249 AATTTTATTCAGTTTTT
1 AATTTT-TTCAATTTTT
*
3327266 AATTTTAAAT-AATTTTT
1 AATTTT--TTCAATTTTT
*
3327283 AAGTTTTTCAA-TTTT
1 AATTTTTTCAATTTTT
3327298 AATTTTTTCAATTTTT
1 AATTTTTTCAATTTTT
3327314 A
1 A
3327315 TGATTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
15 15 0.37
16 7 0.17
17 17 0.41
18 2 0.05
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (16 bp):
AATTTTTTCAATTTTT
Found at i:3327295 original size:16 final size:16
Alignment explanation
Indices: 3327276--3327314 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
3327266 AATTTTAAAT
3327276 AATTTTTAAGTTTTTC
1 AATTTTTAAGTTTTTC
*
3327292 AA-TTTTAATTTTTTC
1 AATTTTTAAGTTTTTC
3327307 AATTTTTA
1 AATTTTTA
3327315 TGATTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (16 bp):
AATTTTTAAGTTTTTC
Found at i:3327321 original size:16 final size:16
Alignment explanation
Indices: 3327276--3327322 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
3327266 AATTTTAAAT
*
3327276 AATTTTTAAGTTTTTC
1 AATTTTTATGTTTTTC
*
3327292 AATTTTAAT-TTTTTC
1 AATTTTTATGTTTTTC
3327307 AATTTTTATGATTTTT
1 AATTTTTATG-TTTTT
3327323 GGACTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 14 0.54
16 7 0.27
17 5 0.19
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (16 bp):
AATTTTTATGTTTTTC
Done.