Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold66
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: 4623749
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 850 characters in sequence are not A, C, G, or T
File 21 of 26
Found at i:3602754 original size:20 final size:19
Alignment explanation
Indices: 3602731--3602786 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
3602721 TTTATATAAA
3602731 TTTAAATATATTTATTTATT
1 TTTAAATATATTTATTT-TT
* *
3602751 TTT-ACTATATTTTAATTTT
1 TTTAAATATA-TTTATTTTT
3602770 TTTAATATTATATTTAT
1 TTTAA-A-TATATTTAT
3602787 GTCGTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
19 10 0.36
20 10 0.36
21 4 0.14
22 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTAAATATATTTATTTTT
Found at i:3602954 original size:25 final size:25
Alignment explanation
Indices: 3602908--3602955 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3602898 AATTATAAAG
* *
3602908 ATATTTTTTATTTTATATATTTATT
1 ATATTTTTTAATTTATAAATTTATT
3602933 ATATTATTTTAATTTA-AAATTTA
1 ATATT-TTTTAATTTATAAATTTA
3602956 AATTTATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
ATATTTTTTAATTTATAAATTTATT
Found at i:3603867 original size:21 final size:21
Alignment explanation
Indices: 3603843--3603882 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3603833 AAAATAATAA
*
3603843 AAATAAAATTATTAAATGAAT
1 AAATAAAATAATTAAATGAAT
*
3603864 AAATTAAATAATTAAATGA
1 AAATAAAATAATTAAATGA
3603883 TAACTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AAATAAAATAATTAAATGAAT
Found at i:3604615 original size:3 final size:3
Alignment explanation
Indices: 3604602--3604634 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
3604592 AAATCAATAA
*
3604602 ATG ACG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
3604635 TACCCATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:3604909 original size:2 final size:2
Alignment explanation
Indices: 3604897--3604927 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3604887 TTTCTTAGGA
*
3604897 AT AT GT 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 AT AT AT A
3604928 CAAATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3607450 original size:28 final size:27
Alignment explanation
Indices: 3607374--3607453 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
3607364 ATTATTGATT
*
3607374 AATTAAT-TAAATAATATTTTTAT-TTA
1 AATTAATATAAA-AATATTTTAATATTA
3607400 AATTTAATTATAAAAATA--TTAATATTA
1 AA-TTAA-TATAAAAATATTTTAATATTA
3607427 ATATTAATATAAAAATATTTTAATATT
1 A-ATTAATATAAAAATATTTTAATATT
3607454 TATAGAGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
26 16 0.35
27 12 0.26
28 14 0.30
29 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AATTAATATAAAAATATTTTAATATTA
Found at i:3607855 original size:2 final size:2
Alignment explanation
Indices: 3607848--3607876 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3607838 TCGTACAAAC
3607848 AT AT 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 AT AT A
3607877 CCCAACGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3608272 original size:29 final size:30
Alignment explanation
Indices: 3608247--3608307 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
3608237 AAATTTATAT
3608247 TTATATTTGACA-T-AAATAAATTTTTAATC
1 TTATATTT-ACATTCAAATAAATTTTTAATC
*
3608276 TTTTATTTACATTCAAATAAATTTTTAATC
1 TTATATTTACATTCAAATAAATTTTTAATC
3608306 TT
1 TT
3608308 TAATTCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 3 0.10
29 8 0.28
30 18 0.62
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (30 bp):
TTATATTTACATTCAAATAAATTTTTAATC
Found at i:3608324 original size:30 final size:29
Alignment explanation
Indices: 3608258--3608333 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
3608248 TATATTTGAC
*
3608258 ATAAATAAATTTTTAATCTTTTATTTACA
1 ATAAATAAATTTTTAATCTTTAATTTACA
*
3608287 TTCAAATAAATTTTTAATCTTTAATTCATA-A
1 AT-AAATAAATTTTTAATCTTTAATT--TACA
*
3608318 ATAAATAAAATTTTAA
1 ATAAATAAATTTTTAA
3608334 CATAAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 35 0.88
31 2 0.05
32 2 0.05
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAAATAAATTTTTAATCTTTAATTTACA
Found at i:3610081 original size:2 final size:2
Alignment explanation
Indices: 3610074--3610108 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3610064 AATAGCAGAT
3610074 TA 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 TA T
3610109 TGGAGTTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3611763 original size:2 final size:2
Alignment explanation
Indices: 3611756--3611788 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3611746 CAATTATAAA
3611756 AT AT AT AT 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 AT AT AT AT A
3611789 GTTAAAGATC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3612386 original size:59 final size:58
Alignment explanation
Indices: 3612293--3612416 Score: 187
Period size: 59 Copynumber: 2.1 Consensus size: 58
3612283 CATGTGAACT
* *
3612293 ATTTT-AAATAATTATCATAATCATACATTTAATTATTTTAGATTTGATTTAATTTAA
1 ATTTTAAAATAATTATCATAATCATACATTTAATTAATTTAAATTTGATTTAATTTAA
* *
3612350 ATTTTAAAATAATTATTATGAATTATACATTTAATTAATTTAAATTTGATTTAATTTAA
1 ATTTTAAAATAATTATCAT-AATCATACATTTAATTAATTTAAATTTGATTTAATTTAA
*
3612409 ATTCTAAA
1 ATTTTAAA
3612417 TACTTTATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 5 0.08
58 12 0.20
59 43 0.72
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (58 bp):
ATTTTAAAATAATTATCATAATCATACATTTAATTAATTTAAATTTGATTTAATTTAA
Found at i:3614074 original size:79 final size:79
Alignment explanation
Indices: 3613981--3614249 Score: 328
Period size: 79 Copynumber: 3.4 Consensus size: 79
3613971 TATTTTGGAG
* *
3613981 ATAAAACCCGGGGTTAGAGTATCCCATCAGAAATAACGGGGTTGGAGTATTCCCGATTGTGAAAA
1 ATAAAA-CCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATTCCCGATTGTGAAAA
*
3614046 ATTGATGTTTTGAAA
65 ATCGATGTTTTGAAA
* * * * *
3614061 ATAAAACCGGGGTTGGATTATCCCCTC-GAAATTAATGGGGTCGGAGTATCCCCGATTGAGAAAA
1 ATAAAACCGGGGTTGGAGTATCCCCTCAGAAA-TAACGGGGTTGGAGTATTCCCGATTGTGAAAA
3614125 ATCGATGTTTTGAAA
65 ATCGATGTTTTGAAA
* * * * * *
3614140 ATAAAACCAGGATTTGAGTATCCCCTAAGAAATAACGGGGTTAGAGTA-TCCTCGATTGTAAAAA
1 ATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATTCC-CGATTGTGAAAA
* *
3614204 ATCGATATTTTGAAG
65 ATCGATGTTTTGAAA
* *
3614219 ATAAAACCGAGGTTGGAGTATCCTCTC-GAAA
1 ATAAAACCGGGGTTGGAGTATCCCCTCAGAAA
3614250 ATAAAAACAT
Statistics
Matches: 159, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
78 10 0.06
79 139 0.87
80 10 0.06
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (79 bp):
ATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATTCCCGATTGTGAAAAA
TCGATGTTTTGAAA
Found at i:3622201 original size:20 final size:20
Alignment explanation
Indices: 3622176--3622216 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3622166 TTGCATTTTG
* *
3622176 TTTATTAAGTTTATTTTATT
1 TTTATTAAGTTCATTTAATT
3622196 TTTATTAAGTTCATTTAATT
1 TTTATTAAGTTCATTTAATT
3622216 T
1 T
3622217 ATTTGTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTATTAAGTTCATTTAATT
Found at i:3624967 original size:12 final size:12
Alignment explanation
Indices: 3624950--3624984 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
3624940 TGAAAACCGA
*
3624950 TGAAGAAGCTGG
1 TGAAGAAGATGG
3624962 TGAAGAAGATGG
1 TGAAGAAGATGG
3624974 TGAAGAAGATG
1 TGAAGAAGATG
3624985 AAAACCGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.03, G:0.40, T:0.17
Consensus pattern (12 bp):
TGAAGAAGATGG
Found at i:3633455 original size:21 final size:21
Alignment explanation
Indices: 3633431--3633492 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
3633421 AATTTTTTAG
3633431 TTTTGA-CAAAGGGGGAGAAAT
1 TTTTGATCAAA-GGGGAGAAAT
*
3633452 TTTTGATTAAAGGGGAGAAAT
1 TTTTGATCAAAGGGGAGAAAT
* * *
3633473 TCTTTAATTAAAGGAGAGAA
1 T-TTTGATCAAAGGGGAGAA
3633493 GAATGAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.29
Consensus pattern (21 bp):
TTTTGATCAAAGGGGAGAAAT
Found at i:3633465 original size:22 final size:23
Alignment explanation
Indices: 3633438--3633486 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
3633428 TAGTTTTGAC
*
3633438 AAAGGGGGAGAAATT-TTTGATT
1 AAAGGGGGAGAAATTCTTTAATT
3633460 AAA-GGGGAGAAATTCTTTAATT
1 AAAGGGGGAGAAATTCTTTAATT
3633482 AAAGG
1 AAAGG
3633487 AGAGAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.29
Consensus pattern (23 bp):
AAAGGGGGAGAAATTCTTTAATT
Found at i:3633491 original size:22 final size:21
Alignment explanation
Indices: 3633445--3633492 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
3633435 GACAAAGGGG
* *
3633445 GAGAAATTTTTGATTAAAGGG
1 GAGAAATTTTTAATTAAAGGA
3633466 GAGAAATTCTTTAATTAAAGGA
1 GAGAAATT-TTTAATTAAAGGA
3633488 GAGAA
1 GAGAA
3633493 GAATGAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.29
Consensus pattern (21 bp):
GAGAAATTTTTAATTAAAGGA
Found at i:3634041 original size:20 final size:20
Alignment explanation
Indices: 3634018--3634084 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
3634008 CACACCCAAA
3634018 TGTATCGATACATTATGTTT
1 TGTATCGATACATTATGTTT
3634038 TGTATCGATAC---A----T
1 TGTATCGATACATTATGTTT
*
3634051 TGTATTGATACATTATGTTT
1 TGTATCGATACATTATGTTT
3634071 TGTATCGATACATT
1 TGTATCGATACATT
3634085 GTATCAATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.29
16 1 0.03
17 1 0.03
20 25 0.66
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTATGTTT
Found at i:3634055 original size:13 final size:13
Alignment explanation
Indices: 3634037--3634096 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
3634027 ACATTATGTT
3634037 TTGTATCGATACA
1 TTGTATCGATACA
*
3634050 TTGTATTGATACA
1 TTGTATCGATACA
*
3634063 -T-TAT-G-T--T
1 TTGTATCGATACA
3634070 TTGTATCGATACA
1 TTGTATCGATACA
*
3634083 TTGTATCAATACA
1 TTGTATCGATACA
3634096 T
1 T
3634097 GTTCATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
8 1 0.03
9 4 0.11
10 2 0.05
11 4 0.11
12 1 0.03
13 25 0.68
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3634061 original size:33 final size:33
Alignment explanation
Indices: 3634018--3634096 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
3634008 CACACCCAAA
3634018 TGTATCGATACATTATGTTTTGTATCGATACAT
1 TGTATCGATACATTATGTTTTGTATCGATACAT
*
3634051 TGTATTGATACATTATGTTTTGTATCGATACAT
1 TGTATCGATACATTATGTTTTGTATCGATACAT
*
3634084 TGTATCAATACAT
1 TGTATCGATACAT
3634097 GTTCATTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATTATGTTTTGTATCGATACAT
Found at i:3634126 original size:20 final size:19
Alignment explanation
Indices: 3634080--3634136 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
3634070 TTGTATCGAT
* *
3634080 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
*
3634099 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
3634118 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
3634137 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:3636515 original size:18 final size:19
Alignment explanation
Indices: 3636477--3636518 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
3636467 TACAATAAAC
*
3636477 TTATTTAAAATTAAATTAT
1 TTATTTAAAATTAAATAAT
*
3636496 TTATTTAAATTTAAA-AAT
1 TTATTTAAAATTAAATAAT
3636514 TTATT
1 TTATT
3636519 CGATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTTAAAATTAAATAAT
Found at i:3637425 original size:26 final size:25
Alignment explanation
Indices: 3637383--3637432 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
3637373 ATATGAAAAT
*
3637383 ATTAAAATTAAATATAATATATAAC
1 ATTAAAATTAAAAATAATATATAAC
3637408 ATTAAAATTACAAAATAATATATAA
1 ATTAAAATTA-AAAATAATATATAA
3637433 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTAAAATTAAAAATAATATATAAC
Found at i:3643572 original size:20 final size:20
Alignment explanation
Indices: 3643544--3643583 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3643534 TAGATATAAC
*
3643544 AAGTCAATATATTAATACAT
1 AAGTCAATATATCAATACAT
*
3643564 AAGTGAATATATCAATACAT
1 AAGTCAATATATCAATACAT
3643584 GCTAGCAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
AAGTCAATATATCAATACAT
Found at i:3645765 original size:26 final size:26
Alignment explanation
Indices: 3645686--3645781 Score: 95
Period size: 26 Copynumber: 3.6 Consensus size: 26
3645676 TTGAAAAACG
* *
3645686 GGGTTGGAGTATCCCATCGGAGGAAT
1 GGGTTGGAGTATCCCCTCGGATGAAT
* * * *
3645712 GGAGTTGAAGTATCCTCT-TGATATAAT
1 GG-GTTGGAGTATCCCCTCGGAT-GAAT
3645739 GGGTTGGAGTATCCCCTCGGATGAAT
1 GGGTTGGAGTATCCCCTCGGATGAAT
3645765 GGGGGTTGGAGTATCCC
1 --GGGTTGGAGTATCCC
3645782 TGATAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 20 0.36
27 20 0.36
28 15 0.27
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (26 bp):
GGGTTGGAGTATCCCCTCGGATGAAT
Found at i:3648242 original size:20 final size:20
Alignment explanation
Indices: 3648217--3648298 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
3648207 AAAGCCAGAG
3648217 TGTATCGATACAATAAAAAA
1 TGTATCGATACAATAAAAAA
3648237 TGTATCGATACATTTGGATCAAACTTAGAA
1 TGTATCGATACA-----AT-AAA---A-AA
3648267 TGTATCGATACAATAAAAAA
1 TGTATCGATACAATAAAAAA
3648287 TGTATCGATACA
1 TGTATCGATACA
3648299 TTTTCTTTCC
Statistics
Matches: 52, Mismatches: 0, Indels: 20
0.72 0.00 0.28
Matches are distributed among these distances:
20 26 0.50
21 1 0.02
24 3 0.06
25 4 0.08
26 3 0.06
29 1 0.02
30 14 0.27
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAATAAAAAA
Found at i:3648292 original size:50 final size:50
Alignment explanation
Indices: 3648114--3648301 Score: 243
Period size: 51 Copynumber: 3.7 Consensus size: 50
3648104 ATTTAACTGG
* * * * * *
3648114 ATGTATCGATACATTGAAGAATGTATGGATACATTCGGGTCAAAACACAAA
1 ATGTATCGATACAATAAAAAATGTATCGATACATTTGGGTCAAAAC-CAGA
* *
3648165 ATGTATCGATACAATGAATAATGTATCGATACATTTGGGTCAAAAGCCAGA
1 ATGTATCGATACAATAAAAAATGTATCGATACATTTGGGTCAAAA-CCAGA
* * *
3648216 GTGTATCGATACAATAAAAAATGTATCGATACATTTGGATC-AAACTTAGA
1 ATGTATCGATACAATAAAAAATGTATCGATACATTTGGGTCAAAAC-CAGA
3648266 ATGTATCGATACAATAAAAAATGTATCGATACATTT
1 ATGTATCGATACAATAAAAAATGTATCGATACATTT
3648302 TCTTTCCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
49 1 0.01
50 41 0.33
51 81 0.65
52 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACAATAAAAAATGTATCGATACATTTGGGTCAAAACCAGA
Found at i:3653928 original size:76 final size:75
Alignment explanation
Indices: 3653823--3653997 Score: 262
Period size: 76 Copynumber: 2.3 Consensus size: 75
3653813 GCATTCTTTG
*
3653823 AAATTTGTCGAGATTTGAACTCCTTTTTTGTCAAAATTATTTATCATCCATGAGGATACTCCAAC
1 AAATTTGTCGAGATTTGAACT-CTTTTTTGTCAAAATTATTTATCATCCACGAGGATACTCCAAC
3653888 T-TCGCTCTTCA
65 TCT-GCTCTTCA
* * *
3653899 AAATTTGTCAAAATTTGAACTCTTCTTTTGTCAAAATTATTTATCATCCGCGAGGATACTCCAAC
1 AAATTTGTCGAGATTTGAACTCTT-TTTTGTCAAAATTATTTATCATCCACGAGGATACTCCAAC
*
3653964 TCTGTTCTTCA
65 TCTGCTCTTCA
*
3653975 AAGTTTGTCGAGATTTGAACTCT
1 AAATTTGTCGAGATTTGAACTCT
3653998 AAATTATTTG
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
75 3 0.03
76 85 0.96
77 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (75 bp):
AAATTTGTCGAGATTTGAACTCTTTTTTGTCAAAATTATTTATCATCCACGAGGATACTCCAACT
CTGCTCTTCA
Found at i:3656431 original size:6 final size:6
Alignment explanation
Indices: 3656402--3656441 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
3656392 TTAGCTTTGG
* * *
3656402 TTTTAG TTTTAG TTTTAA TTTTAA TTTTAA TTCTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
3656442 CAAAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:3659885 original size:20 final size:20
Alignment explanation
Indices: 3659845--3659887 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3659835 TAAATTTAAT
*
3659845 TATAAAAATATAATTATTAA
1 TATAAAAATATAATTAATAA
**
3659865 TATAAAAATATTGTTAATAA
1 TATAAAAATATAATTAATAA
3659885 TAT
1 TAT
3659888 GATAGATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TATAAAAATATAATTAATAA
Found at i:3661151 original size:33 final size:33
Alignment explanation
Indices: 3661109--3661209 Score: 116
Period size: 32 Copynumber: 2.9 Consensus size: 33
3661099 ATAAAAAATA
*
3661109 ATATAATATAAATATTTAAATATTTTAAAATTT
1 ATATAATATAAATATTTAAATATATTAAAATTT
*
3661142 ATATAATATAAA-ATATT-ATTATATTAAAATTT
1 ATATAATATAAATAT-TTAAATATATTAAAATTT
3661174 ATATAATTATAAAATAATTTAAATATAATTATAAAT
1 ATATAA-TAT-AAAT-ATTTAAATAT-ATTA-AAAT
3661210 AAAAAATTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
32 21 0.37
33 17 0.30
34 3 0.05
35 2 0.04
36 6 0.11
37 4 0.07
38 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
ATATAATATAAATATTTAAATATATTAAAATTT
Found at i:3661175 original size:15 final size:16
Alignment explanation
Indices: 3661133--3661182 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
3661123 TTTAAATATT
3661133 TTAAAATTTA-TATAA
1 TTAAAATTTATTATAA
3661148 TATAAAATATTATTAT-A
1 T-TAAAAT-TTATTATAA
3661165 TTAAAATTTA-TATAA
1 TTAAAATTTATTATAA
3661180 TTA
1 TTA
3661183 TAAAATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.10
15 8 0.26
16 12 0.39
17 5 0.16
18 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATTTATTATAA
Found at i:3661192 original size:11 final size:12
Alignment explanation
Indices: 3661174--3661210 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
3661164 ATTAAAATTT
3661174 ATATAATTATAA
1 ATATAATTATAA
3661186 A-ATAATT-TAA
1 ATATAATTATAA
3661196 ATATAATTATAA
1 ATATAATTATAA
3661208 ATA
1 ATA
3661211 AAAAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.17
11 12 0.52
12 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATAATTATAA
Found at i:3665139 original size:2 final size:2
Alignment explanation
Indices: 3665132--3665179 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
3665122 TTTTTGGCAT
*
3665132 TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3665174 TC TC TC
1 TC TC TC
3665180 ACATGAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3669470 original size:2 final size:2
Alignment explanation
Indices: 3669463--3669497 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
3669453 ATTTATTTAT
* *
3669463 TA TA TA TA TA CA TA AA 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 TA T
3669498 GGAACTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:3669993 original size:23 final size:23
Alignment explanation
Indices: 3669932--3669997 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
3669922 AATATAAATA
* *
3669932 TAAAAAATAGTAATATTTATTAG
1 TAAAAAATAATAATATTTATTAC
*
3669955 TAAAATAATAAAAATATTTA-TAC
1 TAAAA-AATAATAATATTTATTAC
3669978 TATAAAAATAATAATATTTA
1 TA-AAAAATAATAATATTTA
3669998 ATTAATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 22 0.59
24 15 0.41
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (23 bp):
TAAAAAATAATAATATTTATTAC
Found at i:3671629 original size:6 final size:7
Alignment explanation
Indices: 3671617--3671643 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3671607 AAAAATTTAA
3671617 TATTTTT
1 TATTTTT
3671624 TATTTTT
1 TATTTTT
3671631 TATTTTT
1 TATTTTT
3671638 TATTTT
1 TATTTT
3671644 GAAACTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:3673751 original size:24 final size:22
Alignment explanation
Indices: 3673723--3673767 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3673713 ATTTGTACCA
3673723 TTATTAAAGGGAAAGCTAACCATG
1 TTATTAAA-GG-AAGCTAACCATG
* *
3673747 TTATTGAATGAAGCTAACCAT
1 TTATTAAAGGAAGCTAACCAT
3673768 CTTTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 1 0.05
24 7 0.37
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (22 bp):
TTATTAAAGGAAGCTAACCATG
Found at i:3673778 original size:2 final size:2
Alignment explanation
Indices: 3673771--3673817 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3673761 TAACCATCTT
3673771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3673813 TA TA T
1 TA TA T
3673818 CTTTGCTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3676572 original size:21 final size:22
Alignment explanation
Indices: 3676537--3676578 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
3676527 CTTTCTTTCA
3676537 TTTAATTTTAATTAAAAAATATT
1 TTTAATTTT-ATTAAAAAATATT
*
3676560 TTTAATTTT-TTAAACAATA
1 TTTAATTTTATTAAAAAATA
3676579 AATAGAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATTTTATTAAAAAATATT
Found at i:3686023 original size:2 final size:2
Alignment explanation
Indices: 3686016--3686040 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3686006 TGGACTTGAT
3686016 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 T
3686041 GCATTTGATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3686458 original size:32 final size:34
Alignment explanation
Indices: 3686402--3686464 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 34
3686392 ATTTATTATG
*
3686402 TTTTATAAATAATTTTATATATTTTTAATATTTA
1 TTTTATAAATAATTATATATATTTTTAATATTTA
*
3686436 TTTTAT-AAT-ATTATATATATTTTTTATAT
1 TTTTATAAATAATTATATATATTTTTAATAT
3686465 GATATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 18 0.67
33 3 0.11
34 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (34 bp):
TTTTATAAATAATTATATATATTTTTAATATTTA
Found at i:3686592 original size:14 final size:14
Alignment explanation
Indices: 3686547--3686598 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
3686537 TGAGTTTTAT
3686547 TTTTTATTTAAATTTA
1 TTTTTATTTAAA--TA
3686563 TTTTTTGAATTT-AATA
1 -TTTTT--ATTTAAATA
3686579 TTTTTATTTAAATA
1 TTTTTATTTAAATA
3686593 TTTTTA
1 TTTTTA
3686599 AAAATTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.12
14 10 0.31
15 5 0.16
16 2 0.06
17 5 0.16
18 2 0.06
19 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTATTTAAATA
Found at i:3688404 original size:91 final size:91
Alignment explanation
Indices: 3688249--3688429 Score: 335
Period size: 91 Copynumber: 2.0 Consensus size: 91
3688239 TACTAAGGTT
*
3688249 TATTTAACATTTCCATGCATGTAGGTTATTTTTCATTATCTAGGGATCATTTAACAATTTTTATG
1 TATTTAACATTTCCATGCATGTAGGTTATTTTTCATTATCTAAGGATCATTTAACAATTTTTATG
3688314 CATTTTAGGGTTATTTAGGTTAGTTC
66 CATTTTAGGGTTATTTAGGTTAGTTC
*
3688340 TATTTAACATTTCCATGCATGTAGGTTATTTTTCATTATCTAAGGATCATTTATCAATTTTTATG
1 TATTTAACATTTCCATGCATGTAGGTTATTTTTCATTATCTAAGGATCATTTAACAATTTTTATG
*
3688405 TATTTTAGGGTTATTTAGGTTAGTT
66 CATTTTAGGGTTATTTAGGTTAGTT
3688430 TTATAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (91 bp):
TATTTAACATTTCCATGCATGTAGGTTATTTTTCATTATCTAAGGATCATTTAACAATTTTTATG
CATTTTAGGGTTATTTAGGTTAGTTC
Found at i:3688458 original size:59 final size:58
Alignment explanation
Indices: 3688361--3688533 Score: 215
Period size: 58 Copynumber: 3.0 Consensus size: 58
3688351 TCCATGCATG
* * * *
3688361 TAGGTTATTTTTCATTATCTAAGGATCATTTATCAATTTTTATGTATTTTAGGGTTATT
1 TAGGTTA-TTTTCATAATCTAAGGATCATTTAGCAAATTTCATGTATTTTAGGGTTATT
* * * *
3688420 TAGGTTAGTTTT-ATAATCTATGGACCATTTAGCAAATTTCATGCATTTTAAGGTTATT
1 TAGGTTA-TTTTCATAATCTAAGGATCATTTAGCAAATTTCATGTATTTTAGGGTTATT
* *
3688478 TAAGTTATTTTACATAATCTAAGGATTATTTAGCAAATTTCATGTA-TTTAGGGTTA
1 TAGGTTATTTT-CATAATCTAAGGATCATTTAGCAAATTTCATGTATTTTAGGGTTA
3688534 GCATTATACT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
57 4 0.04
58 53 0.55
59 40 0.41
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.48
Consensus pattern (58 bp):
TAGGTTATTTTCATAATCTAAGGATCATTTAGCAAATTTCATGTATTTTAGGGTTATT
Found at i:3689151 original size:49 final size:47
Alignment explanation
Indices: 3689075--3689431 Score: 183
Period size: 49 Copynumber: 7.5 Consensus size: 47
3689065 TCAAGTTTAG
*
3689075 TTTTAGGATAGTTTTGTACTTAT-CATTAAAACTAACCAAAATTGAGTC
1 TTTTAGGTTAGTTTTGTACTT-TCCATTAAAA-TAACCAAAATTGAGTC
* * ** *
3689123 TTTTAGGATTAGTTTTGTACTTTCCATTAAAATTGACCAAACTCAAGTG
1 TTTTAGG-TTAGTTTTGTACTTTCCATTAAAA-TAACCAAAATTGAGTC
* * *
3689172 TTTTAAGGTTAGTTTTGTACTTTCTATCAAAATCAACAAAAATTGAGGT-
1 TTTT-AGGTTAGTTTTGTACTTTCCATTAAAAT-AACCAAAATTGA-GTC
* *** *
3689221 TTTTAAGGTTAGTTTTAT-CTTTTTGTT-AAAT---TAAAATTGAGTC
1 TTTT-AGGTTAGTTTTGTACTTTCCATTAAAATAACCAAAATTGAGTC
** * ** * * *
3689264 TTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATCAGTCAAAA-CGAATT
1 TTTTA-GGTTAGTTTTGTACTTTCCATTAAAAT-AACCAAAATTGAGTC
*** * ** * *
3689312 TTTTAGGGTTAGTTTTGTACTTTTTGTCAAAATCAGTCAAAA-TGAATT
1 TTTTA-GGTTAGTTTTGTACTTTCCATTAAAAT-AACCAAAATTGAGTC
* *** * *
3689360 TTTTAGGGTTAGATTTGTACTTTTTGTCAAAATCAACCAAATTTGAGTC
1 TTTTA-GGTTAGTTTTGTACTTTCCATTAAAAT-AACCAAAATTGAGTC
*
3689409 TTTTAAAGTTAGTTTTGTACTTT
1 TTTT-AGGTTAGTTTTGTACTTT
3689432 TGATCCAAAC
Statistics
Matches: 258, Mismatches: 36, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
42 3 0.01
43 23 0.09
44 7 0.03
45 4 0.02
47 4 0.02
48 102 0.40
49 109 0.42
50 6 0.02
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (47 bp):
TTTTAGGTTAGTTTTGTACTTTCCATTAAAATAACCAAAATTGAGTC
Found at i:3689294 original size:92 final size:93
Alignment explanation
Indices: 3689172--3689432 Score: 271
Period size: 92 Copynumber: 2.8 Consensus size: 93
3689162 AACTCAAGTG
* *
3689172 TTTTAAGGTTAGTTTTGTACTTTCTATCAAAATCAACAAAAATTGAGGTTTTTAAGGTTAGTTTT
1 TTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATCAAC-AAAATTGA-GTTTTTAAGGTTAGTTTT
* *
3689237 AT-CTTTTTGT-TAAAT-T-AAAATTGAGTC
64 ATACTTTTTGTCAAAATATCAAAA-TGAATC
* * * *
3689264 TTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATCAGTCAAAA-CGAATTTTTTAGGGTTAGTTTT
1 TTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATCA-ACAAAATTG-AGTTTTTAAGGTTAGTTTT
* *
3689328 GTACTTTTTGTCAAAATCAGTCAAAATGAATT
64 ATACTTTTTGTCAAAAT-A-TCAAAATGAATC
* * * *
3689360 TTTTAGGGTTAGATTTGTACTTTTTGTCAAAATCAACCAAATTTGAGTCTTTTAAAGTTAGTTTT
1 TTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATCAA-CAAAATTGAGT-TTTTAAGGTTAGTTTT
*
3689425 GTACTTTT
64 ATACTTTT
3689433 GATCCAAACC
Statistics
Matches: 140, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
91 18 0.13
92 46 0.33
93 5 0.04
96 44 0.31
97 27 0.19
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.46
Consensus pattern (93 bp):
TTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATCAACAAAATTGAGTTTTTAAGGTTAGTTTTAT
ACTTTTTGTCAAAATATCAAAATGAATC
Found at i:3689353 original size:141 final size:142
Alignment explanation
Indices: 3689112--3689431 Score: 346
Period size: 141 Copynumber: 2.2 Consensus size: 142
3689102 AAAACTAACC
* * * *
3689112 AAAATTGAGTCTTTTAGGATTAGTTTTGTACTTTCCATTAAAATTGACCAAACTCAAGTGTTTTA
1 AAAATTGAGTCTTTTAGGGTTAGTTTTGTACTTTCCATCAAAATAGACAAAACTCAAGTGTTTTA
*
3689177 AGGTTAGTTTTGTACTTTCTATCAAAATCAACAAAAATTGAGGTTTTTAAGGTTAG-TTT-TATC
66 AGGTTAGTTTTGTACTTTCTATCAAAATCAAC-AAAA-TGAAGTTTTTAAGGTTAGATTTGTA-C
* *
3689240 TTTTTGT-TAAAT-T
128 TTTTTGTCAAAATCA
** * * *
3689253 AAAATTGAGTCTTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATCAGTCAAAAC-GAA-TTTTTT
1 AAAATTGAGTCTTTTAGGGTTAGTTTTGTACTTTCCATCAAAAT-AGACAAAACTCAAGTGTTTT
* * * * * *
3689316 AGGGTTAGTTTTGTACTTTTTGTCAAAATCAGTCAAAATGAATTTTTTAGGGTTAGATTTGTACT
65 AAGGTTAGTTTTGTACTTTCTATCAAAATCA-ACAAAATGAAGTTTTTAAGGTTAGATTTGTACT
3689381 TTTTGTCAAAATCA
129 TTTTGTCAAAATCA
**
3689395 ACCAAATTTGAGTCTTTTAAAGTTAGTTTTGTACTTT
1 A--AAA-TTGAGTCTTTTAGGGTTAGTTTTGTACTTT
3689432 TGATCCAAAC
Statistics
Matches: 150, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
139 15 0.10
140 48 0.32
141 49 0.33
142 7 0.05
144 3 0.02
145 28 0.19
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (142 bp):
AAAATTGAGTCTTTTAGGGTTAGTTTTGTACTTTCCATCAAAATAGACAAAACTCAAGTGTTTTA
AGGTTAGTTTTGTACTTTCTATCAAAATCAACAAAATGAAGTTTTTAAGGTTAGATTTGTACTTT
TTGTCAAAATCA
Found at i:3689432 original size:49 final size:48
Alignment explanation
Indices: 3689108--3689432 Score: 259
Period size: 48 Copynumber: 6.8 Consensus size: 48
3689098 CATTAAAACT
*** * *
3689108 AACCAAAATTGAGTCTTTT-AGGATTAGTTTTGTACTTTCCATTAAAATT
1 AACC-AAATTGAGTCTTTTAAGG-TTAGTTTTGTACTTTTTGTCAAAATC
* ** * * *
3689157 GACCAAACTCAAGTGTTTTAAGGTTAGTTTTGTACTTTCTATCAAAATC
1 AACCAAA-TTGAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAAAATC
* * *
3689206 AACAAAAATTGAGGT-TTTTAAGGTTAGTTTTAT-CTTTTTGT-TAAAT-
1 AAC-CAAATTGA-GTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAAAATC
* * *
3689252 TA--AAATTGAGTCTTTTAGGGTTAGTTTTGTACTTTCTGTCAAAATC
1 AACCAAATTGAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAAAATC
** ** * * *
3689298 AGTCAAAACGAATTTTTTAGGGTTAGTTTTGTACTTTTTGTCAAAATC
1 AACCAAATTGAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAAAATC
** * * * * *
3689346 AGTCAAAATGAATTTTTTAGGGTTAGATTTGTACTTTTTGTCAAAATC
1 AACCAAATTGAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAAAATC
*
3689394 AACCAAATTTGAGTCTTTTAAAGTTAGTTTTGTACTTTT
1 AACCAAA-TTGAGTCTTTTAAGGTTAGTTTTGTACTTTT
3689433 GATCCAAACC
Statistics
Matches: 228, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
42 2 0.01
43 23 0.10
44 7 0.03
45 4 0.02
46 1 0.00
47 4 0.02
48 99 0.43
49 80 0.35
50 8 0.04
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.44
Consensus pattern (48 bp):
AACCAAATTGAGTCTTTTAAGGTTAGTTTTGTACTTTTTGTCAAAATC
Found at i:3691341 original size:22 final size:22
Alignment explanation
Indices: 3691279--3691343 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
3691269 ATGACAAAAA
3691279 CTCTTCTTTTTTT-CTTTTTCTT
1 CTCTT-TTTTTTTCCTTTTTCTT
** *
3691301 CTCTTTTACTTTCCATTTTCTT
1 CTCTTTTTTTTTCCTTTTTCTT
3691323 -TCTTTTTTTATTCCTTTTTCT
1 CTCTTTTTTT-TTCCTTTTTCT
3691344 CAAGGATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 12 0.34
22 23 0.66
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (22 bp):
CTCTTTTTTTTTCCTTTTTCTT
Found at i:3691851 original size:28 final size:26
Alignment explanation
Indices: 3691787--3691879 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
3691777 TTTGCAAAAA
3691787 TTTAATAAAAAATTCCATAAGTGAAG
1 TTTAATAAAAAATTCCATAAGTGAAG
* * *
3691813 TTGAATAAAAACTTCCATATGTGAGAAG
1 TTTAATAAAAAATTCCATAAGT--GAAG
* * *
3691841 TTTAATTAAAAA-TCCATAAGTAAAA
1 TTTAATAAAAAATTCCATAAGTGAAG
3691866 TCTTAATTAAAAAA
1 T-TTAA-TAAAAAA
3691880 ATTCTAATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.06
26 23 0.43
27 14 0.26
28 13 0.25
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.31
Consensus pattern (26 bp):
TTTAATAAAAAATTCCATAAGTGAAG
Found at i:3691968 original size:27 final size:27
Alignment explanation
Indices: 3691936--3692006 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
3691926 AACCCATATG
3691936 TAAAAGTTTAATTGAAAAATT-TATGTA
1 TAAAAGTTTAATT-AAAAATTCTATGTA
* * *
3691963 TTAAAGTTTAATTAAAATTTCTATGTC
1 TAAAAGTTTAATTAAAAATTCTATGTA
3691990 TAAAAGTTTAATTAAAA
1 TAAAAGTTTAATTAAAA
3692007 GCTAAATTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 6 0.15
27 33 0.85
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.42
Consensus pattern (27 bp):
TAAAAGTTTAATTAAAAATTCTATGTA
Found at i:3693571 original size:21 final size:21
Alignment explanation
Indices: 3693547--3693602 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
3693537 ACAATTAGTG
*
3693547 AATGTATCGATACATGTCTCA
1 AATGTATTGATACATGTCTCA
3693568 AATGTATTGATACATGTCTCA
1 AATGTATTGATACATGTCTCA
3693589 AATGTATTGATACA
1 AATGTATTGATACA
3693603 GGATCATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATTGATACATGTCTCA
Found at i:3693658 original size:20 final size:20
Alignment explanation
Indices: 3693633--3693682 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3693623 TGAAAAATTA
**
3693633 TATCGATACATGAGTAAATG
1 TATCGATACATGACCAAATG
**
3693653 TATCGATACATTCCCAAATG
1 TATCGATACATGACCAAATG
3693673 TATCGATACA
1 TATCGATACA
3693683 ATTTGCTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
TATCGATACATGACCAAATG
Found at i:3695545 original size:13 final size:13
Alignment explanation
Indices: 3695527--3695571 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
3695517 TCGTTAGAAG
3695527 CAATGTATCGATA
1 CAATGTATCGATA
3695540 CAATGTATCGATA
1 CAATGTATCGATA
* *
3695553 CATTGTATCGATC
1 CAATGTATCGATA
3695566 CAATGT
1 CAATGT
3695572 GCCATGTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3695642 original size:20 final size:20
Alignment explanation
Indices: 3695617--3695672 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
3695607 CTGCCAGTTT
**
3695617 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
3695637 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
3695656 CATGTATCGATACAATT
1 CATGTATCGATACAATT
3695673 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:3696672 original size:32 final size:33
Alignment explanation
Indices: 3696605--3696676 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
3696595 TACGTCGGTT
* *
3696605 AAGTGAACTAAAGTGCTCATCCATGCGCTGTGA
1 AAGTGAACTAAAGTGCTCATCCATGCACTGCGA
3696638 AAGTGAACTAAAGTGCTCAT-CATGCACTGCGA
1 AAGTGAACTAAAGTGCTCATCCATGCACTGCGA
3696670 AAGTGAA
1 AAGTGAA
3696677 GTGATCAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 17 0.46
33 20 0.54
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (33 bp):
AAGTGAACTAAAGTGCTCATCCATGCACTGCGA
Found at i:3698226 original size:31 final size:33
Alignment explanation
Indices: 3698169--3698229 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
3698159 ATGTATCGAT
*
3698169 ACATTGTATCGGTACAGTATATCGATACAAAGA
1 ACATTGTATCGATACAGTATATCGATACAAAGA
*
3698202 ACATTGTATCGATA-A-TGTATCGATACAA
1 ACATTGTATCGATACAGTATATCGATACAA
3698230 TTTTCAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 12 0.46
32 1 0.04
33 13 0.50
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (33 bp):
ACATTGTATCGATACAGTATATCGATACAAAGA
Found at i:3702107 original size:20 final size:21
Alignment explanation
Indices: 3702079--3702135 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
3702069 TACAAGCCAA
*
3702079 TGTACCGATACAAT-TTTTTG
1 TGTATCGATACAATGTTTTTG
3702099 TGTATCGATAC-ATGTTTTTG
1 TGTATCGATACAATGTTTTTG
3702119 TGTATCGATACAA-GTTT
1 TGTATCGATACAATGTTT
3702136 GGCTACTGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.91
21 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.46
Consensus pattern (21 bp):
TGTATCGATACAATGTTTTTG
Found at i:3702235 original size:20 final size:20
Alignment explanation
Indices: 3702182--3702237 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
3702172 ACAACTTTTT
*
3702182 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
3702202 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
3702221 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
3702238 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:3704461 original size:13 final size:13
Alignment explanation
Indices: 3704443--3704468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3704433 CAATTTTTTG
3704443 TGTATCGATACAT
1 TGTATCGATACAT
3704456 TGTATCGATACAT
1 TGTATCGATACAT
3704469 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3704533 original size:21 final size:19
Alignment explanation
Indices: 3704507--3704583 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 19
3704497 CTGCCAAGAA
3704507 ATGTATCGATACATCCTTTTT
1 ATGTATCGATACAT--TTTTT
****
3704528 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATT-TTTT
3704548 ATGTATCGATACATTTTTTTT
1 ATGTATCGATACA--TTTTTT
3704569 ATGTATCGATACATT
1 ATGTATCGATACATT
3704584 ACAACATGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.07
20 13 0.29
21 27 0.60
22 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (19 bp):
ATGTATCGATACATTTTTT
Found at i:3704553 original size:20 final size:20
Alignment explanation
Indices: 3704528--3704600 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
3704518 CATCCTTTTT
*
3704528 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTACAAC
*****
3704548 ATGTATCGATACATTTTTTTT
1 ATGTATCGATACA-TTACAAC
3704569 ATGTATCGATACATTACAAC
1 ATGTATCGATACATTACAAC
3704589 ATGTATCGATAC
1 ATGTATCGATAC
3704601 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTACAAC
Found at i:3704568 original size:41 final size:41
Alignment explanation
Indices: 3704507--3704600 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
3704497 CTGCCAAGAA
*
3704507 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTACAAC
**
3704548 ATGTATCGATACATTTTTTTTATGTATCGATACATTACAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTACAAC
3704589 ATGTATCGATAC
1 ATGTATCGATAC
3704601 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTACAAC
Found at i:3709292 original size:100 final size:100
Alignment explanation
Indices: 3709089--3709285 Score: 306
Period size: 100 Copynumber: 2.0 Consensus size: 100
3709079 TTGGGTTAGT
* * *
3709089 GATTTTGATAGGTGTCCAGTCACACCTAGCCCAAATGATCAGTTTCGACTCTAAATCTTCGGTCA
1 GATTTCGATAGGTGTCCAGTCACACCTAGCCCAAATGATCAGTGTCGACTCCAAATCTTCGGTCA
3709154 TTTCGTGATGACCATTGAAGATCAGTTAGACAGAC
66 TTTCGTGATGACCATTGAAGATCAGTTAGACAGAC
** *
3709189 GATTTCGATAGGTGTCGGGTCACACCTAGCCCAAATGATCGGTGGT-GACTCCAAATCTTCGGTC
1 GATTTCGATAGGTGTCCAGTCACACCTAGCCCAAATGATCAGT-GTCGACTCCAAATCTTCGGTC
* *
3709253 ATTTCGTGGTGACCGTTGAAGATCAGTTAGACA
65 ATTTCGTGATGACCATTGAAGATCAGTTAGACA
3709286 AGCGATTCAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 87 0.99
101 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (100 bp):
GATTTCGATAGGTGTCCAGTCACACCTAGCCCAAATGATCAGTGTCGACTCCAAATCTTCGGTCA
TTTCGTGATGACCATTGAAGATCAGTTAGACAGAC
Found at i:3710793 original size:40 final size:39
Alignment explanation
Indices: 3710722--3710832 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 39
3710712 AACCCTTATT
* * *
3710722 TATATTGATACAACCCAAATCATATCGATACAAGACATAA
1 TATATTGATACATCTCAAATC-TATCAATACAAGACATAA
*
3710762 TATATTGATACATCTTAAATTCTATCAATACAAGACATAA
1 TATATTGATACATCTCAAA-TCTATCAATACAAGACATAA
* *
3710802 TGTATTGATACATCTCAAAATGTATCAATAC
1 TATATTGATACATCTC-AAATCTATCAATAC
3710833 TTTGAGTTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 57 0.92
41 5 0.08
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (39 bp):
TATATTGATACATCTCAAATCTATCAATACAAGACATAA
Found at i:3712311 original size:20 final size:19
Alignment explanation
Indices: 3712300--3712351 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
3712290 ACAATTGTAT
*
3712300 ATGTATCGATACAATGATC
1 ATGTATCGATACAATGATA
* *
3712319 ATGTATTGATACAAAGCATA
1 ATGTATCGATACAATG-ATA
3712339 ATGTATCGATACA
1 ATGTATCGATACA
3712352 TCTAGATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGATA
Found at i:3712324 original size:19 final size:20
Alignment explanation
Indices: 3712278--3712351 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
3712268 ACTACCAGTT
* * *
3712278 TCATGTAACAATACAATTGTA
1 TCATGTATCGATACAA-TGCA
3712299 T-ATGTATCGATACAATG-A
1 TCATGTATCGATACAATGCA
* *
3712317 TCATGTATTGATACAAAGCA
1 TCATGTATCGATACAATGCA
*
3712337 TAATGTATCGATACA
1 TCATGTATCGATACA
3712352 TCTAGATTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.04
19 16 0.36
20 26 0.58
21 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACAATGCA
Found at i:3714899 original size:13 final size:13
Alignment explanation
Indices: 3714881--3714917 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
3714871 GTAACCCATG
*
3714881 TATCGATACATTA
1 TATCGATACAATA
*
3714894 TATCGATACAATG
1 TATCGATACAATA
3714907 TATCGATACAA
1 TATCGATACAA
3714918 AGAACATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:3716358 original size:16 final size:16
Alignment explanation
Indices: 3716337--3716367 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3716327 CAATATTTCC
*
3716337 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
3716353 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
3716368 GAAAGCCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:3717294 original size:209 final size:209
Alignment explanation
Indices: 3716934--3717348 Score: 758
Period size: 209 Copynumber: 2.0 Consensus size: 209
3716924 TTGGATTGCC
*
3716934 GATAATCTCACATTCTTGCACATAAGTCAACTCCTTCGAATGTTTTCTTTCGGTTTGAGTTGGCT
1 GATAATCTCACATTCTTGCACATAAGTCAACTCCCTCGAATGTTTTCTTTCGGTTTGAGTTGGCT
* *
3716999 CTTATTCGTTAACTTCTTTTGAAGCTTCTTCGACTTGAACATTTTCTTCTTGCTCCTTGTGTGAT
66 CTTATTCGTTAACTTCTTTTGAAGCTTCTTCCACTTGAAAATTTTCTTCTTGCTCCTTGTGTGAT
3717064 GCTTGTTCTAGATTTTCTTCATAAATTTCTACATCATTGTCAACAAGAGATACCTTCCTTATGGA
131 GCTTGTTCTAGATTTTCTTCATAAATTTCTACATCATTGTCAACAAGAGATACCTTCCTTATGGA
3717129 AGAGTTAGATTACT
196 AGAGTTAGATTACT
*
3717143 GATAATCTCACCTTCTTGCACATAAGTCAACTCCCTCGAATGTTTTCTTTCGGTTTGAGTTGGCT
1 GATAATCTCACATTCTTGCACATAAGTCAACTCCCTCGAATGTTTTCTTTCGGTTTGAGTTGGCT
* *
3717208 CTTATTCGTTAACTTCTTTTGGAGCTTCTTCCATTTGAAAATTTTCTTCTTGCTCCTTGTGTGAT
66 CTTATTCGTTAACTTCTTTTGAAGCTTCTTCCACTTGAAAATTTTCTTCTTGCTCCTTGTGTGAT
* *
3717273 GCTTGTTCTAGATTTTCTTCATAAATTTCTACATCATTGTCAACAAGAGATATCTTTCTTATGGA
131 GCTTGTTCTAGATTTTCTTCATAAATTTCTACATCATTGTCAACAAGAGATACCTTCCTTATGGA
3717338 AGAGTTAGATT
196 AGAGTTAGATT
3717349 CATCAAAAAC
Statistics
Matches: 198, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
209 198 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (209 bp):
GATAATCTCACATTCTTGCACATAAGTCAACTCCCTCGAATGTTTTCTTTCGGTTTGAGTTGGCT
CTTATTCGTTAACTTCTTTTGAAGCTTCTTCCACTTGAAAATTTTCTTCTTGCTCCTTGTGTGAT
GCTTGTTCTAGATTTTCTTCATAAATTTCTACATCATTGTCAACAAGAGATACCTTCCTTATGGA
AGAGTTAGATTACT
Found at i:3719232 original size:24 final size:24
Alignment explanation
Indices: 3719205--3719253 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
3719195 GTAGAGATAG
3719205 TTTCCTTTTCTAGTTCGATAATTT
1 TTTCCTTTTCTAGTTCGATAATTT
*
3719229 TTTCCTTTTCTAGTTTGATAATTT
1 TTTCCTTTTCTAGTTCGATAATTT
3719253 T
1 T
3719254 CTTTTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.61
Consensus pattern (24 bp):
TTTCCTTTTCTAGTTCGATAATTT
Found at i:3719668 original size:15 final size:15
Alignment explanation
Indices: 3719648--3719682 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3719638 CGAGTCAACT
3719648 TCATCATTATCATCA
1 TCATCATTATCATCA
*
3719663 TCATCATTATCTTCA
1 TCATCATTATCATCA
3719678 TCATC
1 TCATC
3719683 TTCAATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:3727233 original size:18 final size:19
Alignment explanation
Indices: 3727210--3727246 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3727200 TTTAAACTCT
*
3727210 TTCAAA-ACTATTTTCACC
1 TTCAAACACCATTTTCACC
3727228 TTCAAACACCATTTTCACC
1 TTCAAACACCATTTTCACC
3727247 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (19 bp):
TTCAAACACCATTTTCACC
Found at i:3728446 original size:13 final size:14
Alignment explanation
Indices: 3728428--3728460 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3728418 ACAAATACTA
*
3728428 TATTTTTT-AATTT
1 TATTTTTTGAAATT
3728441 TATTTTTTGAAATT
1 TATTTTTTGAAATT
3728455 TATTTT
1 TATTTT
3728461 AAATTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTTTTGAAATT
Found at i:3728461 original size:19 final size:21
Alignment explanation
Indices: 3728437--3728484 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
3728427 ATATTTTTTA
3728437 ATTTTATTTTTTGA-AATTT-
1 ATTTTATTTTTTGATAATTTC
**
3728456 ATTTTA-AATTTGATAATTTC
1 ATTTTATTTTTTGATAATTTC
3728476 ATTTTATTT
1 ATTTTATTT
3728485 ATTTTGGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (21 bp):
ATTTTATTTTTTGATAATTTC
Found at i:3734532 original size:13 final size:14
Alignment explanation
Indices: 3734514--3734546 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3734504 ATCCCTTTAA
*
3734514 ATTTTAAAA-ATTT
1 ATTTTAAAAGATTG
3734527 ATTTTAAAAGATTG
1 ATTTTAAAAGATTG
3734541 ATTTTA
1 ATTTTA
3734547 TTACCGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATTTTAAAAGATTG
Found at i:3737827 original size:31 final size:32
Alignment explanation
Indices: 3737792--3737853 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
3737782 AAAAGCTAAG
* *
3737792 TAATTTCAATATAAATAAAA-ATAAATAAAAC
1 TAATTTAAAAATAAATAAAATATAAATAAAAC
*
3737823 TAATTTAAAAATAAATAAAATCTAAATAAAA
1 TAATTTAAAAATAAATAAAATATAAATAAAA
3737854 AATCCAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (32 bp):
TAATTTAAAAATAAATAAAATATAAATAAAAC
Found at i:3737833 original size:21 final size:22
Alignment explanation
Indices: 3737803--3737856 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
3737793 AATTTCAATA
3737803 TAAA-TAAAAATAAATAAAA-C
1 TAAATTAAAAATAAATAAAATC
*
3737823 TAATTTAAAAATAAATAAAATC
1 TAAATTAAAAATAAATAAAATC
*
3737845 TAAATAAAAAAT
1 TAAATTAAAAAT
3737857 CCAAAACTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 3 0.10
21 15 0.52
22 11 0.38
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAATTAAAAATAAATAAAATC
Found at i:3737848 original size:11 final size:10
Alignment explanation
Indices: 3737802--3737854 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
3737792 TAATTTCAAT
3737802 ATAAATAAAA
1 ATAAATAAAA
3737812 ATAAATAAAA
1 ATAAATAAAA
* *
3737822 CTAATTTAAAA
1 ATAA-ATAAAA
3737833 ATAAATAAAA
1 ATAAATAAAA
*
3737843 TCTAAATAAAA
1 -ATAAATAAAA
3737854 A
1 A
3737855 ATCCAAAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:3740996 original size:16 final size:16
Alignment explanation
Indices: 3740969--3741018 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
3740959 TGAAGGTCTA
3740969 ATGAAG-AAAAATGTC
1 ATGAAGAAAAAATGTC
*
3740984 ATGAAGAAAAAATAGGC
1 ATGAAGAAAAAAT-GTC
*
3741001 AAAGAA-AAAAAATGTC
1 -ATGAAGAAAAAATGTC
3741017 AT
1 AT
3741019 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 9 0.32
18 4 0.14
ACGTcount: A:0.60, C:0.06, G:0.18, T:0.16
Consensus pattern (16 bp):
ATGAAGAAAAAATGTC
Found at i:3745566 original size:110 final size:110
Alignment explanation
Indices: 3745364--3745964 Score: 579
Period size: 110 Copynumber: 5.5 Consensus size: 110
3745354 TTGGAGAGAC
* ** * **
3745364 CTATTTCGGGGCCAATCTCTTGGTGCCCAAATATTGTGTAATTTACACAAAAAATGAATTA-CCT
1 CTATTTCGGGGCCAATCTCTTGGTGCCCGAATATTACGTAATTAATGCAAAAAATGAATTATCC-
** * ** * ** *
3745428 TACATAAAGGGCGTTTATATGCCACTTTATGACTCTAGATGATGAT
65 TATGTAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACGATGAT
* * *
3745474 CTATTTCGGGGCCAATCTTTTGGTTCCCGAAT-TTAGGTAATTAATGCAAAAAATAGAATTATCC
1 CTATTTCGGGGCCAATCTCTTGGTGCCCGAATATTACGTAATTAATGCAAAAAAT-GAATTATCC
* * * *
3745538 TATATAAAGGGCATTCGTACGCTGCTTTATGGCTCTAGATGATGAC
65 TATGTAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACGATGAT
* * * * * *
3745584 CTATTTCAGGACCAATCCCTTGATGCCCGAATATTACGTAATTAATGTAATAAATGAATTATCCT
1 CTATTTCGGGGCCAATCTCTTGGTGCCCGAATATTACGTAATTAATGCAAAAAATGAATTATCCT
* ** *
3745649 ATGTAAAGGGAATTCGTACG-TCGCTTTACAACTCTAGGCGATGAT
66 ATGTAAAGGGCATTCGTACGCT-GCTTTATGACTCTAGACGATGAT
* ** * * * *
3745694 TTATTTCGACGCCAATCTCTTGGTGTCTGAATATTATGTAATTAATGTAAAAAATGAATTA-CTC
1 CTATTTCGGGGCCAATCTCTTGGTGCCCGAATATTACGTAATTAATGCAAAAAATGAATTATC-C
* * *
3745758 TATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGAT
65 TATGTAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACGATGAT
* ** * *
3745804 TTATTTCGGGGTTAATCCCTTGGTGCCCGAATATTACGTAATTAATGTAAAAAA--AAGTTATCC
1 CTATTTCGGGGCCAATCTCTTGGTGCCCGAATATTACGTAATTAATGCAAAAAATGAA-TTATCC
*
3745867 TATGTAAAGGGCATTCGTACG-TCGCTTTATGACTCTAGACGATAAT
65 TATGTAAAGGGCATTCGTACGCT-GCTTTATGACTCTAGACGATGAT
* ** * * * * * *
3745913 TTATTTCAAGACCAATTTTTTGGTACCCGAAT-CTACGTAATTAATACAAAAA
1 CTATTTCGGGGCCAATCTCTTGGTGCCCGAATATTACGTAATTAATGCAAAAA
3745965 TAAATTTTAA
Statistics
Matches: 408, Mismatches: 74, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
108 19 0.05
109 87 0.21
110 281 0.69
111 21 0.05
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (110 bp):
CTATTTCGGGGCCAATCTCTTGGTGCCCGAATATTACGTAATTAATGCAAAAAATGAATTATCCT
ATGTAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACGATGAT
Found at i:3746230 original size:14 final size:15
Alignment explanation
Indices: 3746211--3746242 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
3746201 ATATACAAGG
3746211 TAAACATAAAAA-AA
1 TAAACATAAAAATAA
3746225 TAAACATAAAAATAA
1 TAAACATAAAAATAA
3746240 TAA
1 TAA
3746243 TAATAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAACATAAAAATAA
Found at i:3746665 original size:12 final size:12
Alignment explanation
Indices: 3746648--3746681 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
3746638 CATTTATCTT
*
3746648 CTTTTTTTTTCC
1 CTTTTTCTTTCC
3746660 CTTTTTCTTT-C
1 CTTTTTCTTTCC
3746671 CTTTTTCTTTC
1 CTTTTTCTTTC
3746682 TTTCTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTTCTTTCC
Found at i:3746670 original size:4 final size:4
Alignment explanation
Indices: 3746663--3746706 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
3746653 TTTTTCCCTT
*
3746663 TTTC TTTC CTT- TTTC TTTC TTTC TTTC -TTC -TTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
3746707 TCCTTTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 8 0.22
4 28 0.78
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:3746673 original size:11 final size:10
Alignment explanation
Indices: 3746646--3746702 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
3746636 CCCATTTATC
*
3746646 TTCTTTTTTT
1 TTCTTTTTCT
3746656 TTCCCTTTTTCT
1 TT--CTTTTTCT
3746668 TTCCTTTTTCT
1 TT-CTTTTTCT
3746679 TTC--TTTCT
1 TTCTTTTTCT
*
3746687 TTCTTCTTCT
1 TTCTTTTTCT
3746697 TTCTTT
1 TTCTTT
3746703 CTTTTCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 8 0.20
10 12 0.30
11 11 0.28
12 9 0.22
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:3746696 original size:14 final size:15
Alignment explanation
Indices: 3746663--3746705 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
3746653 TTTTTCCCTT
3746663 TTTCTTTCCTTT-TTC
1 TTTCTTT-CTTTCTTC
3746678 TTTCTTTCTTTCTTC
1 TTTCTTTCTTTCTTC
3746693 -TTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
3746706 TTCCTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTTTCTTTCTTC
Found at i:3746698 original size:18 final size:19
Alignment explanation
Indices: 3746663--3746711 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
3746653 TTTTTCCCTT
*
3746663 TTTCTTTCCTTTTTCTTTC
1 TTTCTTTCCTTCTTCTTTC
3746682 TTTCTTT-CTTCTTCTTTC
1 TTTCTTTCCTTCTTCTTTC
3746700 TTTCTTTTCCTT
1 TTTC-TTTCCTT
3746712 TTTTCCCTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 14 0.52
19 10 0.37
20 3 0.11
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCTTTCCTTCTTCTTTC
Found at i:3746704 original size:11 final size:11
Alignment explanation
Indices: 3746663--3746705 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
3746653 TTTTTCCCTT
3746663 TTTCTTTCCTT-
1 TTTCTTT-CTTC
3746674 TTTCTTTCTTTC
1 TTTCTTTC-TTC
3746686 TTTC-TTCTTC
1 TTTCTTTCTTC
3746696 TTTCTTTCTT
1 TTTCTTTCTT
3746706 TTCCTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.28
11 17 0.59
12 4 0.14
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTCTTC
Found at i:3747315 original size:15 final size:15
Alignment explanation
Indices: 3747297--3747326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3747287 TGCATTTTGT
3747297 TTTTTGTTGTTTTTA
1 TTTTTGTTGTTTTTA
*
3747312 TTTTTTTTGTTTTTA
1 TTTTTGTTGTTTTTA
3747327 ATTAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTTTGTTGTTTTTA
Found at i:3747665 original size:28 final size:28
Alignment explanation
Indices: 3747600--3748318 Score: 606
Period size: 28 Copynumber: 26.8 Consensus size: 28
3747590 TCAGCTAGTG
3747600 TGGGCTTTGACTTA-GATGCCAA-G--TA
1 TGGGCTTTGACTTATG-TGCCAACGAATA
* * *
3747625 TGGGCTTTAACTTAGGTGCCAACGAAAA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* * *
3747653 TGGGCTTAGACTTATGTGCCAATGAATT
1 TGGGCTTTGACTTATGTGCCAACGAATA
* **
3747681 TGGGCTTTGAC-T-TGTGCCAACTAACG
1 TGGGCTTTGACTTATGTGCCAACGAATA
* * *
3747707 TGGGCTTTGACTTATGTGCTAGCGAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
* * *
3747735 TGGGCTTAGACTTTTGTGCCAACGAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
* ** *
3747763 TGGGCTTTGAC-TA-GTGCTAATTAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
*
3747789 TGGGCTTTAAC-T-TGTGCCAACGAATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3747815 TGGGCTTTGAC-T-TGTGCCAACTAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
* **
3747841 TGGGCTTTGAATTATGTGCCAGTGAATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
** * * *
3747869 TGGGCTTAAACTTATGTGCTAATGGATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3747897 TGGGCTTTGAC-T-TGTGCCAACTATTA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3747923 TGGGCTTTGACTTATGTGCCAGCGAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
** * *
3747951 TGGGCTTAAACTTATGTGCCAATGGATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3747979 TGGAC-TT---TT-TGTGCCAACGGATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
*
3748002 TGGAC-TT---TT-TGTGCCAACGAATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3748025 TGGGCTTTGAC-T-TGTGCCAACTAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
* * *
3748051 T-GGCTTTGAGTTATGTGCCAGCGAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
** * *
3748078 TGGGCTTAAACTTATGTGCCAATGGATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3748106 TGGGCTTTGAC-T-TGTGCCAACTAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
3748132 TGGGCTTTGACTTATGTGCCAACGAATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3748160 TGGGCTTTGAC-T-TGTGCCAACTAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3748186 TGGGCTTTGACTTATGTGCCAAAGAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
** * *
3748214 TGGGCTTAAACTTATGTGCCAATGGATA
1 TGGGCTTTGACTTATGTGCCAACGAATA
* *
3748242 TGGGCTTTGAC-T-TGTGCCAACTAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
*
3748268 TGGGCTTTGACTTATGTGCCAACGAATG
1 TGGGCTTTGACTTATGTGCCAACGAATA
*
3748296 TGGGCTTTGA-TTCATATGCCAAC
1 TGGGCTTTGACTT-ATGTGCCAAC
3748319 TAGCGTGGGC
Statistics
Matches: 565, Mismatches: 104, Indels: 47
0.79 0.15 0.07
Matches are distributed among these distances:
23 39 0.07
24 4 0.01
25 27 0.05
26 186 0.33
27 28 0.05
28 281 0.50
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (28 bp):
TGGGCTTTGACTTATGTGCCAACGAATA
Found at i:3747712 original size:54 final size:54
Alignment explanation
Indices: 3747600--3748305 Score: 539
Period size: 54 Copynumber: 13.2 Consensus size: 54
3747590 TCAGCTAGTG
* * * *
3747600 TGGGCTTTGACTTA-GATGCCAA-G--TATGGGCTTTAACTTAGGTGCCAACGAAAA
1 TGGGCTTTGACTTATG-TGCCAATGAATGTGGGCTTTGACTT--GTGCCAACTAATA
* * **
3747653 TGGGCTTAGACTTATGTGCCAATGAATTTGGGCTTTGACTTGTGCCAACTAACG
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGACTTGTGCCAACTAATA
* ** * * *
3747707 TGGGCTTTGACTTATGTGCTAGCGAATGTGGGCTTAGACTTTTGTGCCAACGAATG
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGAC--TTGTGCCAACTAATA
* * * *
3747763 TGGGCTTTGAC-TA-GTGCTAATTAATGTGGGCTTTAACTTGTGCCAACGAATA
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGACTTGTGCCAACTAATA
* *
3747815 TGGGCTTTGAC-T-TGTGCCAACT-AATGTGGGCTTTGAATTATGTGCC-AGTGAATA
1 TGGGCTTTGACTTATGTGCCAA-TGAATGTGGGCTTTG-ACT-TGTGCCAACT-AATA
** * * * *
3747869 TGGGCTTAAACTTATGTGCTAATGGATATGGGCTTTGACTTGTGCCAACTATTA
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGACTTGTGCCAACTAATA
** ** *
3747923 TGGGCTTTGACTTATGTGCCAGCGAATGTGGGCTTAAACTTATGTGCCAA-TGGATA
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGAC-T-TGTGCCAACT-AATA
* * * * * *
3747979 TGGAC-TT---TT-TGTGCCAACGGATATGGACTTT---TTGTGCCAACGAATA
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGACTTGTGCCAACTAATA
* * * *
3748025 TGGGCTTTGAC-T-TGTGCCAACT-AATGT-GGCTTTGAGTTATGTGCCAGCGAATG
1 TGGGCTTTGACTTATGTGCCAA-TGAATGTGGGCTTTGA-CT-TGTGCCAACTAATA
** * * *
3748078 TGGGCTTAAACTTATGTGCCAATGGATATGGGCTTTGACTTGTGCCAACTAATG
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGACTTGTGCCAACTAATA
* * *
3748132 TGGGCTTTGACTTATGTGCCAACGAATATGGGCTTTGACTTGTGCCAACTAATG
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGACTTGTGCCAACTAATA
* ** *
3748186 TGGGCTTTGACTTATGTGCCAAAGAATGTGGGCTTAAACTTATGTGCCAA-TGGATA
1 TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGAC-T-TGTGCCAACT-AATA
* *
3748242 TGGGCTTTGAC-T-TGTGCCAACT-AATGTGGGCTTTGACTTATGTGCCAACGAATG
1 TGGGCTTTGACTTATGTGCCAA-TGAATGTGGGCTTTGAC-T-TGTGCCAACTAATA
3748296 TGGGCTTTGA
1 TGGGCTTTGA
3748306 TTCATATGCC
Statistics
Matches: 533, Mismatches: 82, Indels: 75
0.77 0.12 0.11
Matches are distributed among these distances:
46 15 0.03
47 3 0.01
48 5 0.01
49 12 0.02
51 17 0.03
52 47 0.09
53 44 0.08
54 265 0.50
55 27 0.05
56 98 0.18
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (54 bp):
TGGGCTTTGACTTATGTGCCAATGAATGTGGGCTTTGACTTGTGCCAACTAATA
Found at i:3747739 original size:82 final size:82
Alignment explanation
Indices: 3747600--3748318 Score: 633
Period size: 82 Copynumber: 8.9 Consensus size: 82
3747590 TCAGCTAGTG
* * * ** *
3747600 TGGGCTTTGACTTAGATGCCAAGT-A--TGGGCTTTAACTTAGGTGCCAACGAAAATGGGCTTAG
1 TGGGCTTTGACTT-G-TGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTG
* *
3747662 ACTTATGTGCCAATGAATT
64 ACTTATGTGCCAACGAATA
* * * *
3747681 TGGGCTTTGACTTGTGCCAACTAACGTGGGCTTTGACTTATGTGCTAGCGAATGTGGGCTTAGAC
1 TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTGAC
* *
3747746 TTTTGTGCCAACGAATG
66 TTATGTGCCAACGAATA
* * * * *
3747763 TGGGCTTTGACTAGTGCTAATTAATGTGGGCTTTAAC-T-TGTGCCAACGAATATGGGCTTTGAC
1 TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTGAC
* *
3747826 -T-TGTGCCAACTAATG
66 TTATGTGCCAACGAATA
* * * ** * * * *
3747841 TGGGCTTTGAATTATGTGCC-AGTGAATATGGGCTTAAACTTATGTGCTAATGGATATGGGCTTT
1 TGGGCTTTG-ACT-TGTGCCAACT-AATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTT
* *
3747905 GAC-T-TGTGCCAACTATTA
63 GACTTATGTGCCAACGAATA
* * ** * * * *
3747923 TGGGCTTTGACTTATGTGCCAGCGAATGTGGGCTTAAACTTATGTGCCAATGGATATGGAC-TT-
1 TGGGCTTTGAC-T-TGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTG
*
3747986 --TT-TGTGCCAACGGATA
64 ACTTATGTGCCAACGAATA
* * * * *
3748002 TGGACTTT---TTGTGCCAACGAATATGGGCTTTGAC-T-TGTGCCAACTAATGT-GGCTTTGAG
1 TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTGAC
* *
3748061 TTATGTGCCAGCGAATG
66 TTATGTGCCAACGAATA
** * * *
3748078 TGGGCTTAAACTTATGTGCCAA-TGGATATGGGCTTTGAC-T-TGTGCCAACTAATGTGGGCTTT
1 TGGGCTTTGAC-T-TGTGCCAACT-AATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTT
3748140 GACTTATGTGCCAACGAATA
63 GACTTATGTGCCAACGAATA
* **
3748160 TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAAAGAATGTGGGCTTAAAC
1 TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTGAC
* *
3748225 TTATGTGCCAATGGATA
66 TTATGTGCCAACGAATA
3748242 TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTGA-
1 TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTGAC
*
3748306 TTCATATGCCAAC
66 TT-ATGTGCCAAC
3748319 TAGCGTGGGC
Statistics
Matches: 535, Mismatches: 76, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
71 2 0.00
72 13 0.02
73 1 0.00
74 21 0.04
75 3 0.01
76 17 0.03
78 22 0.04
79 31 0.06
80 62 0.12
81 61 0.11
82 302 0.56
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (82 bp):
TGGGCTTTGACTTGTGCCAACTAATGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTTGAC
TTATGTGCCAACGAATA
Found at i:3747991 original size:23 final size:23
Alignment explanation
Indices: 3747965--3748032 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
3747955 CTTAAACTTA
*
3747965 TGTGCCAATGGATATGGACTTTT
1 TGTGCCAACGGATATGGACTTTT
3747988 TGTGCCAACGGATATGGACTTTT
1 TGTGCCAACGGATATGGACTTTT
* *
3748011 TGTGCCAACGAATATGGGCTTT
1 TGTGCCAACGGATATGGACTTT
3748033 GACTTGTGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (23 bp):
TGTGCCAACGGATATGGACTTTT
Found at i:3749604 original size:9 final size:9
Alignment explanation
Indices: 3749590--3749614 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3749580 CTGAGTTTTT
3749590 TTTTTTTGC
1 TTTTTTTGC
3749599 TTTTTTTGC
1 TTTTTTTGC
3749608 TTTTTTT
1 TTTTTTT
3749615 TTGTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:3749625 original size:20 final size:20
Alignment explanation
Indices: 3749588--3749624 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3749578 ATCTGAGTTT
3749588 TTTTTTTTTGCTTTTTTTGC
1 TTTTTTTTTGCTTTTTTTGC
3749608 TTTTTTTTTG-TTTTTTT
1 TTTTTTTTTGCTTTTTTT
3749625 TAGATCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTGCTTTTTTTGC
Found at i:3761396 original size:109 final size:108
Alignment explanation
Indices: 3761240--3761486 Score: 282
Period size: 109 Copynumber: 2.3 Consensus size: 108
3761230 AATCGAGTAA
* * * *
3761240 ATATTACGTAATTAATGTAAAAAAAAAATTACCCTGTGTAAAGGGCATTTATATGCCGCTTTACG
1 ATATTACGTAATTAATGT-AAAAATAAATTACCCTATGTAAAGGGCATTCATACGCCGCTTTACG
* * * *
3761305 ACTCTAGACAATGATTTATTTCGGGGCCAA-TCCTTTGGTGCCCG
65 ACTCTAGACAATAATTTATTTCGAGACCAATTCC-TTGGTACCCG
* * * ** * *
3761349 TATATTACATAATTAATGTAAAAATGAGTTGTCCTATGTAAAGGGCATTCATACGCCGTTTTATG
1 -ATATTACGTAATTAATGTAAAAATAAATTACCCTATGTAAAGGGCATTCATACGCCGCTTTACG
* *
3761414 ACTGTAGACGATAATTTATTTCGAGACCAATTCCTTGGTACCCG
65 ACTCTAGACAATAATTTATTTCGAGACCAATTCCTTGGTACCCG
*
3761458 A-ATCTACGTAATTAATGCAAAAATAAATT
1 ATAT-TACGTAATTAATGTAAAAATAAATT
3761487 TTAAATAGGT
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
107 2 0.02
108 22 0.19
109 70 0.61
110 20 0.18
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (108 bp):
ATATTACGTAATTAATGTAAAAATAAATTACCCTATGTAAAGGGCATTCATACGCCGCTTTACGA
CTCTAGACAATAATTTATTTCGAGACCAATTCCTTGGTACCCG
Found at i:3762198 original size:4 final size:4
Alignment explanation
Indices: 3762191--3762222 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
3762181 TTTTTCCTTC
3762191 TTCT TTCT TTCT TTC- TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
3762223 CTCCTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:3762201 original size:15 final size:15
Alignment explanation
Indices: 3762183--3762224 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
3762173 TCCCTTTTTT
*
3762183 TTTCCTTCTTCTTTC
1 TTTCTTTCTTCTTTC
3762198 TTTCTTTCTTCTTTC
1 TTTCTTTCTTCTTTC
3762213 TTTCTTTCTTCT
1 TTTCTTTCTTCT
3762225 CCTTTTCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCTTTCTTCTTTC
Found at i:3762233 original size:15 final size:15
Alignment explanation
Indices: 3762183--3762229 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
3762173 TCCCTTTTTT
* *
3762183 TTTCCTTCTTCTTTC
1 TTTCTTTCTTCTCTC
*
3762198 TTTCTTTCTTCTTTC
1 TTTCTTTCTTCTCTC
3762213 TTTCTTTCTTCTC-C
1 TTTCTTTCTTCTCTC
3762227 TTT
1 TTT
3762230 TCTTCCCTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTTTCTTCTCTC
Found at i:3763676 original size:21 final size:20
Alignment explanation
Indices: 3763638--3763728 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 20
3763628 GATAGTGAAA
*
3763638 GATTAATCCTTGAGGTAAAT
1 GATTAATCCTTAAGGTAAAT
*
3763658 GATTAATCCTCTAAGGTAAAG
1 GATTAATCCT-TAAGGTAAAT
* * *
3763679 GATCAA-ACTT-AGGCAAAT
1 GATTAATCCTTAAGGTAAAT
*
3763697 GATTAATCCTTTAAGGTAAAA
1 GATTAATCC-TTAAGGTAAAT
*
3763718 GATCAATCCTT
1 GATTAATCCTT
3763729 TAAGTGTTAG
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
18 11 0.20
19 2 0.04
20 16 0.29
21 27 0.48
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
GATTAATCCTTAAGGTAAAT
Found at i:3769371 original size:13 final size:13
Alignment explanation
Indices: 3769349--3769378 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3769339 GATACATGGC
3769349 ACATTATATCGAT
1 ACATTATATCGAT
*
3769362 ACATTGTATCGAT
1 ACATTATATCGAT
3769375 ACAT
1 ACAT
3769379 GAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:3769374 original size:33 final size:32
Alignment explanation
Indices: 3769332--3769401 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 32
3769322 ATACCTTTGT
3769332 TTGTATCGATACATG-GCACATTATATCGATACA
1 TTGTATCGATACATGAG-A-ATTATATCGATACA
*
3769365 TTGTATCGATACATGAAGAATTGTATCGATACA
1 TTGTATCGATACATG-AGAATTATATCGATACA
3769398 TTGT
1 TTGT
3769402 CCCAAACGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTATATCGATACA
Found at i:3775602 original size:13 final size:13
Alignment explanation
Indices: 3775584--3775608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3775574 CAATGTTCTT
3775584 TGTATCGATACAA
1 TGTATCGATACAA
3775597 TGTATCGATACA
1 TGTATCGATACA
3775609 TGAGTTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3778152 original size:19 final size:20
Alignment explanation
Indices: 3778128--3778181 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
3778118 ACAATATGCT
***
3778128 TTGTATCGATACATG-TTTA
1 TTGTATCGATACATGCACAA
3778147 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCACAA
3778167 TTGTATCGATACATG
1 TTGTATCGATACATG
3778182 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:3778171 original size:20 final size:19
Alignment explanation
Indices: 3778128--3778182 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
3778118 ACAATATGCT
***
3778128 TTGTATCGATACATGTTTA
1 TTGTATCGATACATGACAA
3778147 TTGTATCGATACATGCACAA
1 TTGTATCGATACATG-ACAA
3778167 TTGTATCGATACATGA
1 TTGTATCGATACATGA
3778183 AACTGGCAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:3778249 original size:13 final size:13
Alignment explanation
Indices: 3778227--3778256 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3778217 GATACATGGC
*
3778227 ACATTGTATCGAT
1 ACATTATATCGAT
3778240 ACATTATATCGAT
1 ACATTATATCGAT
3778253 ACAT
1 ACAT
3778257 GAAGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:3778250 original size:33 final size:32
Alignment explanation
Indices: 3778213--3778279 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
3778203 CCACTGTTTG
3778213 TATCGATACATG-GCACATTGTATCGATACATTA
1 TATCGATACATGAG-A-ATTGTATCGATACATTA
3778246 TATCGATACATGAAGAATTGTATCGATACATTA
1 TATCGATACATG-AGAATTGTATCGATACATTA
3778279 T
1 T
3778280 CCCAAACGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACATTA
Found at i:3783917 original size:73 final size:73
Alignment explanation
Indices: 3783829--3783965 Score: 256
Period size: 73 Copynumber: 1.9 Consensus size: 73
3783819 ATCTCATTTT
* *
3783829 TCACTGTTCATGTATCGATACATCACTGTTCATCACTATACATTGAGCCCAATGGCTATAATTTC
1 TCACTGTTCAAGTATCGATACATCACTGTTCATCACTATACATTGAGCCCAATGACTATAATTTC
3783894 ATTGTTCA
66 ATTGTTCA
3783902 TCACTGTTCAAGTATCGATACATCACTGTTCATCACTATACATTGAGCCCAATGACTATAATTT
1 TCACTGTTCAAGTATCGATACATCACTGTTCATCACTATACATTGAGCCCAATGACTATAATTT
3783966 AAAATGCATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (73 bp):
TCACTGTTCAAGTATCGATACATCACTGTTCATCACTATACATTGAGCCCAATGACTATAATTTC
ATTGTTCA
Found at i:3791151 original size:12 final size:12
Alignment explanation
Indices: 3791134--3791165 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3791124 CCCGAGTGAC
3791134 GATTAGTCATAG
1 GATTAGTCATAG
3791146 GATTAGTCATAG
1 GATTAGTCATAG
*
3791158 GAGTAGTC
1 GATTAGTC
3791166 GTATGCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (12 bp):
GATTAGTCATAG
Found at i:3791605 original size:24 final size:23
Alignment explanation
Indices: 3791532--3791644 Score: 105
Period size: 20 Copynumber: 5.0 Consensus size: 23
3791522 AAGGCAGATA
*
3791532 ATTTGTTAAGAGAGAGTACTAAAT
1 ATTTGTTAAGGGAGAGTA-TAAAT
3791556 ATTTTGTTAAGGGAGAG-A-AAA-
1 A-TTTGTTAAGGGAGAGTATAAAT
*
3791577 ATTTGTTAAGGGAAAGTATTAAAT
1 ATTTGTTAAGGGAGAGTA-TAAAT
*
3791601 ATTTGTTAAGGGCGAG-A-AAA-
1 ATTTGTTAAGGGAGAGTATAAAT
3791621 ATTTGTTAATGGG-GAGTACTAAAT
1 ATTTGTTAA-GGGAGAGTA-TAAAT
3791645 TGAAAATGAC
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
20 26 0.35
21 9 0.12
22 3 0.04
23 7 0.09
24 16 0.21
25 14 0.19
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.33
Consensus pattern (23 bp):
ATTTGTTAAGGGAGAGTATAAAT
Found at i:3791644 original size:44 final size:44
Alignment explanation
Indices: 3791531--3791644 Score: 158
Period size: 44 Copynumber: 2.5 Consensus size: 44
3791521 AAAGGCAGAT
*
3791531 AATTTGTTAAGAGAGAGTACTAAATATTTTGTTAAGGGAGAGAAA
1 AATTTGTTAAG-GGGAGTACTAAATATTTTGTTAAGGGAGAGAAA
* * *
3791576 AATTTGTTAAGGGAAAGTATTAAATA-TTTGTTAAGGGCGAGAAA
1 AATTTGTTAAGGG-GAGTACTAAATATTTTGTTAAGGGAGAGAAA
3791620 AATTTGTTAATGGGGAGTACTAAAT
1 AATTTGTTAA-GGGGAGTACTAAAT
3791645 TGAAAATGAC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 37 0.61
45 24 0.39
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (44 bp):
AATTTGTTAAGGGGAGTACTAAATATTTTGTTAAGGGAGAGAAA
Found at i:3792324 original size:13 final size:13
Alignment explanation
Indices: 3792306--3792330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3792296 ATATTGCTTA
3792306 GTATCGATACATT
1 GTATCGATACATT
3792319 GTATCGATACAT
1 GTATCGATACAT
3792331 GTTCATAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:3792345 original size:32 final size:33
Alignment explanation
Indices: 3792285--3792348 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
3792275 CACACCCAGA
*
3792285 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCATAGTATCGATACAT
*
3792318 TGTATCGATACATGTT-CATAGTATCGATACA
1 TGTATCGATACATATTGCATAGTATCGATACA
3792349 CCTTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATATTGCATAGTATCGATACAT
Found at i:3794853 original size:20 final size:19
Alignment explanation
Indices: 3794777--3794851 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
3794767 AAGTACCCAG
3794777 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTT-A
* * *
3794797 ATGTATCGATATATGTATGA
1 ATGTATCGATACAT-TTTTA
3794817 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATT-TTTA
3794837 ATGTATCGATACATT
1 ATGTATCGATACATT
3794852 CTGTTTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.94
21 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (19 bp):
ATGTATCGATACATTTTTA
Found at i:3803435 original size:110 final size:111
Alignment explanation
Indices: 3803235--3803738 Score: 628
Period size: 110 Copynumber: 4.6 Consensus size: 111
3803225 AGTGGCATTT
** * * *
3803235 CTTTTCAAAGTCCACAACTCCATGGCATCCTTTTAAGTCCATAACTCCGTGGTATCCTTTTAAAG
1 CTTTT-AAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAG
*
3803300 TCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTCGTGGTATC
65 TCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGTATC
* * * * *
3803347 CTTTT-AAGTCCACAACTCTGTAGCACCCTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAAAT
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
* * * * *
3803411 CCACAACTCTGTGGCACCCTTTT-AAGCCCACAACTCCATGGCACC
66 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGTATC
* * * * *
3803456 CTTTTAAAGTCTACCACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC--TTAAAGT
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
* * * *
3803519 CCACAACTCTGTGGCATCCTTTTAAAGTCCATAACTCTGTGGTATC
66 CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGTATC
* *
3803565 CTTTTAAAGTCCACAACTCTGCGGCACCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTAAAG
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTTCGTGGCATCCTTTTAAAG
* *
3803630 TCCACAACTCCGTGGCACTCTTTTAAAGTCCACCACTCCGTGG-A-C
65 TCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGTATC
* * *
3803675 CTTTTTAAGTCCAGAACTCTATGGCATCCTTTTAAGTCCACAAC-TCTGTGGCAT-CTCTTTAAA
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTC-GTGGCATCCT-TTTAAA
3803738 G
64 G
3803739 CCCATAAGTC
Statistics
Matches: 334, Mismatches: 51, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
108 32 0.10
109 91 0.27
110 162 0.49
111 1 0.00
112 48 0.14
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.30
Consensus pattern (111 bp):
CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
CCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGTATC
Found at i:3803782 original size:137 final size:139
Alignment explanation
Indices: 3803209--3804323 Score: 675
Period size: 137 Copynumber: 7.9 Consensus size: 139
3803199 CTGTGACCTC
* * * * *
3803209 TTAAAGTCCACGATTTAGTGGCATTTCTTTTCAAAGTCCACAACTCCATGGCATCCTTTT-AAGT
1 TTAAAGTCCACAACTCAGTGGCA-CTCTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAAGT
* *
3803273 CCATAACTCCGTGGTATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTT
64 CCATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTT
*
3803338 CGTGGTATCCT
129 CGTGGCATCCT
* * * * * * *
3803349 TTTAAGTCCACAACTCTGTAGCAC-CCTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAAATCC
1 TTAAAGTCCACAACTCAGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCC
* * * * * * *
3803413 ACAACTCTGTGGCACCCTTTT-AAGCCCACAACTCCATGGCACCCTTTTAAAGTCTACCACTCCG
66 ATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTCG
3803477 TGGCATCCT
131 TGGCATCCT
* * *
3803486 TTTAAGTCCACAACTCCA-TGGCA-TC-CTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTC
1 TTAAAGTCCACAACT-CAGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTC
* * *
3803548 CATAACTCTGTGGTATCCTTTTAAAGTCCACAACTCTGCGGCACCCTTTTAAAGTCCACAACTTC
65 CATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTC
3803613 GTGGCATCCTT
130 GTGGCATCC-T
* * *
3803624 TTAAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACCACTCCGTGG-A-CCTTTTTAAGTCC
1 TTAAAGTCCACAACTCAGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCC
* * * * * * *
3803687 AGAACTCTATGGCATCCTTTT-AAGTCCACAACTCTGTGGCA-TCTCTTTAAAGCCCATAA-GTC
66 ATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCT-TTTAAAGTCCACAACTTC
*
3803749 AGTGGCATCAT
130 -GTGGCATCCT
* * * * * * * *
3803760 TTCAAAGCCCACAAGTCAGTGGCA-TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCA
1 TT-AAAGTCCACAACTCAGTGGCACTC-TTTTAAAG-TC-CACAACTCCGTGGC-A-TCCTTTTA
* * * * * * * * *
3803824 AAGCCCACACAAGT-TGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-
60 AAG-TC-CATAACTCT-GTGGC-ATCC-TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
* * *
3803887 CCTACAA-GTCAATGGCACTCTT
120 CC-ACAACTTC-GTGGCA-TCCT
* * * * * ** *
3803909 TTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAA
1 TT-AAAGTCCACA--ACTCAGTGGC-ACTCTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAA
* ** * * * * * * * *
3803974 AGCCCACGAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
61 AGTCCATAACTCTGTGGCATC-CTTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
*
3804039 AA-GTCAGTGGCATCCT
124 AACTTC-GTGGCATCCT
* * * * * * * *
3804055 TTCAAAGCCCACGAGTCGGTGGCAACTATTTTTAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAA
1 TT-AAAGTCCACAACTCAGTGGC-ACT-CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAA
* * * * * * * * * * * *
3804119 GCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAGGCCCACGA-
62 GTCCATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAAC
*
3804183 GTCGGTGGCAACTCCT
127 TTC-GTGGC-A-TCCT
* * * * * * * *
3804199 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTTCAAAG
1 TT-AAAGTCCACAACTCAGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATC-CTTTT-AAAG
* * * ** * * * * * * *
3804263 CCCACAAGTCACTAGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
63 TCCATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
3804324 GCAAGTCAAT
Statistics
Matches: 821, Mismatches: 113, Indels: 79
0.81 0.11 0.08
Matches are distributed among these distances:
136 60 0.07
137 200 0.24
138 78 0.10
139 13 0.02
140 36 0.04
141 1 0.00
142 69 0.08
143 85 0.10
144 80 0.10
145 13 0.02
146 23 0.03
147 62 0.08
148 39 0.05
149 28 0.03
150 1 0.00
151 21 0.03
152 6 0.01
153 6 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (139 bp):
TTAAAGTCCACAACTCAGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCC
ATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTCG
TGGCATCCT
Found at i:3803812 original size:86 final size:86
Alignment explanation
Indices: 3803225--3804604 Score: 1003
Period size: 86 Copynumber: 16.2 Consensus size: 86
3803215 TCCACGATTT
* * * * * * * *
3803225 AGTGGCATTTCTTTTCAAAGTCCACAACTCCA-TGGCA-TCCTTT-TAAGTCCATAACTCCGTGG
1 AGTGGCA-CTCTTTTCAAAGCCCACAAGT-CAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
3803287 TATCCTTTTAAAGTCCACAACTC
64 CACCCTTTCAAAGCCCACAAGTC
* * * * * * * * * *
3803310 CGTGGCACCCTTTT-AAAGTCCACAACTTC-GTGGTA-TCCTTT-TAAGTCCACAACTCTGTAGC
1 AGTGGCACTCTTTTCAAAGCCCACAA-GTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
3803371 ACCCTTT-AAAGTCCACAACTTC
65 ACCCTTTCAAAGCCCACAA-GTC
* ** * * * *
3803393 -GTGGCACCCTTTT-AAAATCCACAACTCTGTGGCAC-CCTTT-TAAGCCCACAACTCCA-TGGC
1 AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT-CAGTGGC
* * * * *
3803453 ACCCTTTTAAAGTCTACCACTC
65 ACCCTTTCAAAGCCCACAAGTC
* * * * * *
3803475 CGTGGCA-TCCTTTT--AAGTCCACAACTCCA-TGGCA-TCC-TT-AAAGTCCACAACTCTGTGG
1 AGTGGCACT-CTTTTCAAAGCCCACAAGT-CAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
3803533 CATCCTTTTAAAGTCCATAACTC
64 CACCCTTTCAAAGCCCACAAGTC
* * * * * * * * *
3803556 TGTGGTA-TCCTTTT-AAAGTCCACAACTCTGCGGCAC-CCTTTTAAAGTCCACAACTTC-GTGG
1 AGTGGCACT-CTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAA-GTCAGTGG
* * * *
3803617 CATCCTTTTAAAGTCCACAACTC
64 CACCCTTTCAAAGCCCACAAGTC
* * * * * ** * * *
3803640 CGTGGCACTCTTTT-AAAGTCCACCACTCCGTGG-A--CCTTTTTAAGTCCAGAACTCTA-TGGC
1 AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTC-AGTGGC
* * * *
3803700 ATCCTTT-TAAGTCCACAACTC
65 ACCCTTTCAAAGCCCACAAGTC
* * *
3803721 TGTGGCA-TCTCTTT-AAAGCCCATAAGTCAGTGGCA-TCATTTCAAAGCCCACAAGTCAGTGGC
1 AGTGGCACTCT-TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
3803783 ATCATTTCAAAGCCCACACAAGTC
65 ACCCTTTCAAAG-CC-CACAAGTC
* * **
3803807 GGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAAC-CCATTTCAAAGCCCACAAGTCAG
1 AGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-TTTCAAAGCCCACAAGTCAG
*
3803871 TGGCACCCTTTCAAAGCCTACAAGTC
61 TGGCACCCTTTCAAAGCCCACAAGTC
* * * *
3803897 AATGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTG
1 AGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCAGTG
* *
3803962 GCATCCTTTCAAAGCCCACGAGTC
63 GCACCCTTTCAAAGCCCACAAGTC
3803986 AGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGC
1 AGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
3804050 ATCCTTTCAAAGCCCACGAGTC
65 ACCCTTTCAAAGCCCACAAGTC
* * * * *
3804072 GGTGGCAACTATTTTTAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCATAAGTCAGTGGC
1 AGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
*
3804136 ATCCTTTCAAAGCCCACAAGTC
65 ACCCTTTCAAAGCCCACAAGTC
* * * * *
3804158 AGTGGCA-TCCTTTCAAGGCCCACGAGTCGGTGGCAACTCCTTTCAAAGCCCATAAGTCAGTGGC
1 AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCAGTGGC
3804222 ACCCTTTCAAAGCCCACAAGTC
65 ACCCTTTCAAAGCCCACAAGTC
* *
3804244 AGTGGCACTCTTTTCAAAGCCCACAAGTCACTAGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
3804308 CCCTTTCAAAGCCCACGCAAGTC
66 CCCTTTCAAAGCCCA--CAAGTC
* * * * * * * *
3804331 AATGGCAC-CCTTTCAAAGCCAACAAGTTAATGGCACTCTTTTCAAAGCCCACAAGTTAATGGCA
1 AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3804395 CCTTTTCAAAGCTCACAAGTC
66 CCCTTTCAAAGCCCACAAGTC
* *
3804416 AGTGGCACTCTTTTCAAA-CCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCATAAGTCAATGGCA
1 AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3804479 CCCTTTTAAAGCCCGCAAGTC
66 CCCTTTCAAAGCCCACAAGTC
* * * * *
3804500 AGTGGCAC-CCTTTCAAAGCCCACTAG-CTAGTGGTAACTCTTTTCAAAGCCCACACGAGTCGGT
1 AGTGGCACTCTTTTCAAAGCCCACAAGTC-AGTGG-CACTCCTTTCAAAGCCCACA--AGTCAGT
* *
3804563 GGCAACTCTTTTCAAAGTCCACACAAGTT
62 GGC-AC-CCTTTCAAAG-CC-CACAAGTC
3804592 AGTGGCAC-CTTTT
1 AGTGGCACTCTTTT
3804605 TTAAAAAAAA
Statistics
Matches: 1098, Mismatches: 140, Indels: 107
0.82 0.10 0.08
Matches are distributed among these distances:
80 4 0.00
81 88 0.08
82 132 0.12
83 104 0.09
84 155 0.14
85 83 0.08
86 242 0.22
87 82 0.07
88 25 0.02
89 75 0.07
90 50 0.05
91 6 0.01
92 52 0.05
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (86 bp):
AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
CCCTTTCAAAGCCCACAAGTC
Found at i:3804365 original size:28 final size:28
Alignment explanation
Indices: 3803290--3804600 Score: 948
Period size: 28 Copynumber: 46.0 Consensus size: 28
3803280 TCCGTGGTAT
* * * *
3803290 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
3803318 CCTTTTAAAGTCCACAACTTC-GTGGTAT
1 CCTTTCAAAGCCCACAA-GTCAGTGGCAC
* * * * *
3803346 CCTTT-TAAGTCCACAACTCTGTAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3803373 CCTTT-AAAGTCCACAACTTC-GTGGCAC
1 CCTTTCAAAGCCCACAA-GTCAGTGGCAC
* ** * *
3803400 CCTTTTAAAATCCACAACTCTGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3803428 CCTTT-TAAGCCCACAACTCCA-TGGCAC
1 CCTTTCAAAGCCCACAAGT-CAGTGGCAC
* * * * * * *
3803455 CCTTTTAAAGTCTACCACTCCGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
3803483 CCTTT-TAAGTCCACAACTCCA-TGGCAT
1 CCTTTCAAAGCCCACAAGT-CAGTGGCAC
* * * *
3803510 CC-TT-AAAGTCCACAACTCTGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * * * *
3803536 CCTTTTAAAGTCCATAACTCTGTGGTAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
3803564 CCTTTTAAAGTCCACAACTCTGCGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
3803592 CCTTTTAAAGTCCACAACTTC-GTGGCAT
1 CCTTTCAAAGCCCACAA-GTCAGTGGCAC
* * * *
3803620 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * * *
3803648 TCTTTTAAAGTCCACCACTCCGTGG-A-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
** * * * *
3803674 CCTTTTTAAGTCCAGAACTCTA-TGGCAT
1 CCTTTCAAAGCCCACAAGTC-AGTGGCAC
* * * *
3803702 CCTTT-TAAGTCCACAACTCTGTGGCATC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
3803730 TCTTT-AAAGCCCATAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3803757 CATTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3803785 CATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-AC
* **
3803816 TCATTTCAAAGCCCACACAAGTTGGTGGCAAC
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGC-AC
3803848 CCATTTCAAAGCCCACAAGTCAGTGGCAC
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAC
* *
3803877 CCTTTCAAAGCCTACAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3803905 TCTTTTCAAAGCCCACACGAGTCGGTGGCAAC
1 -CCTTTCAAAGCCCACA--AGTCAGTGGC-AC
* * *
3803937 TCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
3803966 CCTTTCAAAGCCCACGAGTCAGTGGCAAC
1 CCTTTCAAAGCCCACAAGTCAGTGGC-AC
*
3803995 TCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
3804024 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3804052 CCTTTCAAAGCCCACGAGTCGGTGGCAAC
1 CCTTTCAAAGCCCACAAGTCAGTGGC-AC
** *
3804081 TATTTTTAAAGCCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3804110 CTTTTCAAAGCCCATAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
3804138 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3804166 CCTTTCAAGGCCCACGAGTCGGTGGCAAC
1 CCTTTCAAAGCCCACAAGTCAGTGGC-AC
*
3804195 TCCTTTCAAAGCCCATAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
3804224 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
3804252 TCTTTTCAAAGCCCACAAGTCACTAGCAT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
3804281 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
3804309 CCTTTCAAAGCCCACGCAAGTCAATGGCAC
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAC
* * *
3804339 CCTTTCAAAGCCAACAAGTTAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
3804367 TCTTTTCAAAGCCCACAAGTTAATGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3804396 CTTTTCAAAGCTCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3804424 TCTTTTCAAA-CCCACAAGTCAGTGGCAT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3804452 CCTTTCAAAGCCCATAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3804480 CCTTTTAAAGCCCGCAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
3804508 CCTTTCAAAGCCCACTAG-CTAGTGGTAAC
1 CCTTTCAAAGCCCACAAGTC-AGTGG-CAC
* *
3804537 TCTTTTCAAAGCCCACACGAGTCGGTGGCAAC
1 -CCTTTCAAAGCCCACA--AGTCAGTGGC-AC
* *
3804569 TCTTTTCAAAGTCCACACAAGTTAGTGGCAC
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGCAC
3804600 C
1 C
3804601 TTTTTTAAAA
Statistics
Matches: 1091, Mismatches: 142, Indels: 98
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.00
26 43 0.04
27 118 0.11
28 588 0.54
29 95 0.09
30 141 0.13
31 14 0.01
32 84 0.08
33 3 0.00
34 4 0.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Done.