Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold84
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: 2025335
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 30794 characters in sequence are not A, C, G, or T
File 5 of 13
Found at i:622827 original size:18 final size:18
Alignment explanation
Indices: 622793--622829 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
622783 TTCATGCATT
**
622793 TTATGACATTTTTGTGCA
1 TTATGACATTTCCGTGCA
622811 TTATGACATTTCCGTGCA
1 TTATGACATTTCCGTGCA
622829 T
1 T
622830 ATTTGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (18 bp):
TTATGACATTTCCGTGCA
Found at i:623080 original size:48 final size:48
Alignment explanation
Indices: 623005--623102 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 48
622995 TATCATGTAA
* *
623005 TTCATGCATTTTAGGGTTATTCTAGTCATTTTCCATGTCTTAAGGACT
1 TTCATGCATTTTAAGGTTATTCAAGTCATTTTCCATGTCTTAAGGACT
* * *
623053 TTCATGTATTTTAAGGTTATGT-AAGTCATTTTCCATGTTTTAAGGCCT
1 TTCATGCATTTTAAGGTTAT-TCAAGTCATTTTCCATGTCTTAAGGACT
623101 TT
1 TT
623103 ATATAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 43 0.98
49 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.48
Consensus pattern (48 bp):
TTCATGCATTTTAAGGTTATTCAAGTCATTTTCCATGTCTTAAGGACT
Found at i:623188 original size:58 final size:58
Alignment explanation
Indices: 623110--623415 Score: 225
Period size: 58 Copynumber: 5.3 Consensus size: 58
623100 TTTATATAAT
* * * *
623110 TTTC-TACATCTTAGGA-CCATTTTAGGT-ATTTTTCATGTTTTAAGAACTTTTATGCTA
1 TTTCATACATTTTA-GACCCATTTTA-GTCATTTTTCATGATTTAAGGATTTTTATGCTA
* *
623167 TTTCATACATTTTAGACCCATTTTAGTCATTTTTAATGATTTAAGGGTTTTTATG-TAA
1 TTTCATACATTTTAGACCCATTTTAGTCATTTTTCATGATTTAAGGATTTTTATGCT-A
** * * *
623225 TTTCATGTATTTTAG-CATCATTTTAAG-CATTTTTCATGATTTAGGGATTTTTGTGCTA
1 TTTCATACATTTTAGAC-CCATTTT-AGTCATTTTTCATGATTTAAGGATTTTTATGCTA
* ** * * *
623283 GTTT-ATGCATTTTAGAATCATTTTAGTCATTTTTTTCTTGATTTAAGCATTATTATG-TAA
1 -TTTCATACATTTTAGACCCATTTTAGTCA--TTTTTCATGATTTAAGGATTTTTATGCT-A
* * * * *** *
623343 TTTCATGCACTTTA-ACACTATTTTAGTCATTTTTCATGGTTTAAGGATCAATATGCAA
1 TTTCATACATTTTAGAC-CCATTTTAGTCATTTTTCATGATTTAAGGATTTTTATGCTA
*
623401 ATTCATACATTTTAG
1 TTTCATACATTTTAG
623416 GGTTATTTTA
Statistics
Matches: 199, Mismatches: 33, Indels: 32
0.75 0.12 0.12
Matches are distributed among these distances:
57 12 0.06
58 135 0.68
59 11 0.06
60 41 0.21
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.49
Consensus pattern (58 bp):
TTTCATACATTTTAGACCCATTTTAGTCATTTTTCATGATTTAAGGATTTTTATGCTA
Found at i:623374 original size:118 final size:116
Alignment explanation
Indices: 623127--623415 Score: 298
Period size: 118 Copynumber: 2.5 Consensus size: 116
623117 ATCTTAGGAC
* * * *
623127 CATTTTAGGT-ATTTTTCATGTTTTAAGAACTTTTATGCTATTTCATACATTTTAGACCCATTTT
1 CATTTTA-GTCATTTTTCATGATTTAAGGATTTTTATGCTATTTCATACATTTTAGAACCATTTT
** * * * *
623191 AGTCATTTTTAATGATTTAAGGGTTTTTATGTAATTTCATGTATTTTAGCAT
65 AGTCATTTTTAATGATTTAAGCATTATTATGTAATTTCATGCACTTTAACAT
* * * *
623243 CATTTTAAG-CATTTTTCATGATTTAGGGATTTTTGTGCTAGTTT-ATGCATTTTAGAATCATTT
1 CATTTT-AGTCATTTTTCATGATTTAAGGATTTTTATGCTA-TTTCATACATTTTAGAACCATTT
**
623306 TAGTCATTTTTTTCTTGATTTAAGCATTATTATGTAATTTCATGCACTTTAACA-
64 TAGTCA--TTTTTAATGATTTAAGCATTATTATGTAATTTCATGCACTTTAACAT
* *** * *
623360 CTATTTTAGTCATTTTTCATGGTTTAAGGATCAATATGCAAATTCATACATTTTAG
1 C-ATTTTAGTCATTTTTCATGATTTAAGGATTTTTATGCTATTTCATACATTTTAG
623416 GGTTATTTTA
Statistics
Matches: 140, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
116 54 0.39
117 9 0.06
118 77 0.55
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.50
Consensus pattern (116 bp):
CATTTTAGTCATTTTTCATGATTTAAGGATTTTTATGCTATTTCATACATTTTAGAACCATTTTA
GTCATTTTTAATGATTTAAGCATTATTATGTAATTTCATGCACTTTAACAT
Found at i:624616 original size:35 final size:35
Alignment explanation
Indices: 624570--624641 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
624560 TAAAATCACT
* *
624570 AATGGATTAGAAATTTCTTGATAAGAAATTTAACA
1 AATGGATTAGAAATTTCTTGATAAAAAAGTTAACA
624605 AATGGATTAGAAATTTCTTGATAAAAAAGTTAACA
1 AATGGATTAGAAATTTCTTGATAAAAAAGTTAACA
624640 AA
1 AA
624642 ACTAGTATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.32
Consensus pattern (35 bp):
AATGGATTAGAAATTTCTTGATAAAAAAGTTAACA
Found at i:628614 original size:26 final size:26
Alignment explanation
Indices: 628558--628615 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
628548 TATGATGCCT
*
628558 CATGCATGTGTTCTTTATCTCATAAA
1 CATGGATGTGTTCTTTATCTCATAAA
628584 CATGGATGTGTTCTTTATCTCATAAA
1 CATGGATGTGTTCTTTATCTCATAAA
628610 CATGGA
1 CATGGA
628616 CATACATTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (26 bp):
CATGGATGTGTTCTTTATCTCATAAA
Found at i:632261 original size:20 final size:20
Alignment explanation
Indices: 632236--632286 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
632226 TTTCAGAATG
632236 TATCGATACATTGAATACTA
1 TATCGATACATTGAATACTA
*
632256 TATCGATACATTGAATACTG
1 TATCGATACATTGAATACTA
632276 TATCGATACAT
1 TATCGATACAT
632287 CTAGAAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACATTGAATACTA
Found at i:632344 original size:13 final size:13
Alignment explanation
Indices: 632322--632359 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
632312 TATGTTCTTA
*
632322 GTATCGATACATT
1 GTATCAATACATT
632335 GTATCAATACATT
1 GTATCAATACATT
*
632348 ATATCAATACAT
1 GTATCAATACAT
632360 AGGTACAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (13 bp):
GTATCAATACATT
Found at i:634150 original size:317 final size:317
Alignment explanation
Indices: 633568--634203 Score: 986
Period size: 317 Copynumber: 2.0 Consensus size: 317
633558 TCAGTCACTT
*
633568 TTTCAAGGTGAATGGCGTTGATCTATCGTGTGACGCTGAGATTCCTATTTCTTGACCTCGCAACC
1 TTTCAAGGTGAATGGCGTTGATCTATCGTGTGACGCTGAGATTCCCATTTCTTGACCTCGCAACC
* *
633633 TAGGATCCAAAACTATGGCTAAGATTAGTTATGTAGTGAGACGTGGATCATTAGTGGTGAAACGA
66 TAGGATCCAAAACTATGGCTAAGATTAGTTATGTAGTGAGACGTGGATCACTAGTGGTGAAACAA
* * * * * *
633698 CAAGTGGATGAGCCTCCACAACGAGATGACGAGTTTAAGAAAGAATAAGCAATGGAAGTCGATAA
131 CAAGTGGATGAGCCTCCACAACAAGATGACAAGTTTAAGAAAGAATAAGAAATGGAAGCCAACAA
* * * * *
633763 GCCTCATCCTCCACCGTTGGCACCGACTACTTTGACTACATCAGAAATGCCTTCGATTCAAGAGA
196 GCCTCATCCACCACCATTGGCACCGACTACTTCGACTACATCAGAAATGCCATCGATTCAAGAAA
*
633828 TGCTCACTTCGCTCTATCAGCGCATAGATCAACGCTTCGACACAATAGATCAGTACC
261 TGCTCACTTCGCTCTATCAACGCATAGATCAACGCTTCGACACAATAGATCAGTACC
* * * * *
633885 TTTCGAGGTGAATGGCGTTGATCTATCGTGTGATG-TCGGGATTCCCATTTCTTGACCTTGCTAC
1 TTTCAAGGTGAATGGCGTTGATCTATCGTGTGACGCT-GAGATTCCCATTTCTTGACCTCGCAAC
* *
633949 CTAGGATCTAAAACTATGGCTAAGATTGGTTATGTAGTGAGACGTGGATCACTAGTGGTGAAACA
65 CTAGGATCCAAAACTATGGCTAAGATTAGTTATGTAGTGAGACGTGGATCACTAGTGGTGAAACA
*
634014 ACAAGTGGATGAGCCTCCACAACAAGATGACAAGTTTAAGGAAGAATAAGAAATGGAAGCCAACA
130 ACAAGTGGATGAGCCTCCACAACAAGATGACAAGTTTAAGAAAGAATAAGAAATGGAAGCCAACA
* * * *
634079 AGCCTCCTCCACCACCATTGGCACCGACTACTTCGACTACATTAGAAATGGCATCGATTCGAGAA
195 AGCCTCATCCACCACCATTGGCACCGACTACTTCGACTACATCAGAAATGCCATCGATTCAAGAA
* * *
634144 ATGCTCACTTCGCTCTCTCAACGCATAGATCAACGCTTTGACACAATAGATCAGTGCC
260 ATGCTCACTTCGCTCTATCAACGCATAGATCAACGCTTCGACACAATAGATCAGTACC
634202 TT
1 TT
634204 GAAATAATGG
Statistics
Matches: 288, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
316 1 0.00
317 287 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (317 bp):
TTTCAAGGTGAATGGCGTTGATCTATCGTGTGACGCTGAGATTCCCATTTCTTGACCTCGCAACC
TAGGATCCAAAACTATGGCTAAGATTAGTTATGTAGTGAGACGTGGATCACTAGTGGTGAAACAA
CAAGTGGATGAGCCTCCACAACAAGATGACAAGTTTAAGAAAGAATAAGAAATGGAAGCCAACAA
GCCTCATCCACCACCATTGGCACCGACTACTTCGACTACATCAGAAATGCCATCGATTCAAGAAA
TGCTCACTTCGCTCTATCAACGCATAGATCAACGCTTCGACACAATAGATCAGTACC
Found at i:634674 original size:13 final size:13
Alignment explanation
Indices: 634656--634681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
634646 TTATTAAAGG
634656 GGAGAAAAATTTT
1 GGAGAAAAATTTT
634669 GGAGAAAAATTTT
1 GGAGAAAAATTTT
634682 ATTATGGGGG
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:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GGAGAAAAATTTT
Found at i:635361 original size:19 final size:20
Alignment explanation
Indices: 635323--635363 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
635313 AGATGTATTA
635323 ATACATATTGCTTAGTATCG
1 ATACATATTGCTTAGTATCG
* *
635343 ATACATGTT-CTTGGTATCG
1 ATACATATTGCTTAGTATCG
635362 AT
1 AT
635364 CCACATCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (20 bp):
ATACATATTGCTTAGTATCG
Found at i:640584 original size:14 final size:14
Alignment explanation
Indices: 640565--640669 Score: 69
Period size: 14 Copynumber: 7.6 Consensus size: 14
640555 ATAATTATGT
640565 TTATAATTAGTTTA
1 TTATAATTAGTTTA
640579 TTATAATTA-TTT-
1 TTATAATTAGTTTA
* *
640591 TTGTTAATTACTTTA
1 TT-ATAATTAGTTTA
640606 TGT-T--TGTAGTTTA
1 T-TATAAT-TAGTTTA
640619 TTATAATTA-TTTA
1 TTATAATTAGTTTA
** * *
640632 TTATAAAACCATTTTT
1 TTAT--AATTAGTTTA
640648 TTATAATTAGTTTA
1 TTATAATTAGTTTA
640662 TTATAATT
1 TTATAATT
640670 GTTGGATTCG
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
12 4 0.06
13 25 0.35
14 29 0.41
15 5 0.07
16 8 0.11
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (14 bp):
TTATAATTAGTTTA
Found at i:641092 original size:19 final size:18
Alignment explanation
Indices: 641049--641092 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
641039 AATAACTATT
*
641049 TATTA-AATTAATTATTA
1 TATTATAATTAATTAATA
641066 TATATATAATTAATTAATA
1 TAT-TATAATTAATTAATA
641085 TAATTATA
1 T-ATTATA
641093 TACAAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 2 0.09
19 16 0.70
20 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTATAATTAATTAATA
Found at i:641161 original size:21 final size:22
Alignment explanation
Indices: 641124--641166 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
641114 TTATTATTAT
*
641124 AATTAAAATTATATAAATAATA
1 AATTAAAATTATATAAAAAATA
641146 AATT-AAATTA-ATTAAAAAATA
1 AATTAAAATTATA-TAAAAAATA
641167 TTTCGTCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AATTAAAATTATATAAAAAATA
Found at i:641306 original size:30 final size:31
Alignment explanation
Indices: 641252--641309 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
641242 AAATATTGAT
*
641252 TCAATAAGAAATATTTGTCAGAAAAAAAATC
1 TCAATAAGAAACATTTGTCAGAAAAAAAATC
641283 TCAAT-AGAAACATTTCGTC-GAAAAAAA
1 TCAATAAGAAACATTT-GTCAGAAAAAAA
641310 GTATTTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.24
Consensus pattern (31 bp):
TCAATAAGAAACATTTGTCAGAAAAAAAATC
Found at i:642394 original size:20 final size:20
Alignment explanation
Indices: 642369--642422 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
642359 CTACCACTGT
*
642369 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
642389 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
642409 TTGTATCGATACAT
1 TTGTATCGATACAT
642423 TGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:644357 original size:13 final size:13
Alignment explanation
Indices: 644339--644364 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
644329 CAATTTTTTG
644339 TGTATCGATACAT
1 TGTATCGATACAT
644352 TGTATCGATACAT
1 TGTATCGATACAT
644365 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:645197 original size:61 final size:61
Alignment explanation
Indices: 645012--645213 Score: 199
Period size: 61 Copynumber: 3.4 Consensus size: 61
645002 ATTTGTACAT
*
645012 TCTCCCCCTTAAT-AAGATAATTCACACATTCTCTCCTTTATCTCCCTCGTTTATTAATAAA
1 TCTCCCCCTTAATCAAG-TAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAAA
* *** ** * * *
645073 TCTCCCCCTTAATCAAGTAATTCATATCAA----AAATTTAT-TTGCAC--ATATCT-ATACAT
1 TCTCCCCCTTAATCAAGTAATTCACA-CAATCTCTCCTTTATCTCCCTCGTTTAT-TAATA-AA
645129 TCTCCCCCTTAAT-AAGATAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAAA
1 TCTCCCCCTTAATCAAG-TAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAAA
645190 TCTCCCCCTTAATCAAGTAATTCA
1 TCTCCCCCTTAATCAAGTAATTCA
645214 TATCAAAAAT
Statistics
Matches: 108, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
55 12 0.11
56 23 0.21
57 3 0.03
58 5 0.05
59 5 0.05
60 3 0.03
61 43 0.40
62 14 0.13
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (61 bp):
TCTCCCCCTTAATCAAGTAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAAA
Found at i:645255 original size:117 final size:117
Alignment explanation
Indices: 645007--645241 Score: 461
Period size: 117 Copynumber: 2.0 Consensus size: 117
644997 AACGAATTTG
*
645007 TACATTCTCCCCCTTAATAAGATAATTCACACATTCTCTCCTTTATCTCCCTCGTTTATTAATAA
1 TACATTCTCCCCCTTAATAAGATAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAA
645072 ATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTA
66 ATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTA
645124 TACATTCTCCCCCTTAATAAGATAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAA
1 TACATTCTCCCCCTTAATAAGATAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAA
645189 ATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTA
66 ATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTA
645241 T
1 T
645242 TTTCTCTCCC
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (117 bp):
TACATTCTCCCCCTTAATAAGATAATTCACACAATCTCTCCTTTATCTCCCTCGTTTATTAATAA
ATCTCCCCCTTAATCAAGTAATTCATATCAAAAATTTATTTGCACATATCTA
Found at i:647036 original size:13 final size:13
Alignment explanation
Indices: 647018--647056 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
647008 ATAATCACCC
*
647018 TGTATCGATACAT
1 TGTATCGATACAA
647031 TGTATCGATACAA
1 TGTATCGATACAA
647044 TGTATCGATACAA
1 TGTATCGATACAA
647057 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:649432 original size:21 final size:21
Alignment explanation
Indices: 649403--649447 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
649393 AAGTTTTCAT
*
649403 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
649423 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
649445 TTT
1 TTT
649448 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:651682 original size:13 final size:13
Alignment explanation
Indices: 651664--651689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
651654 CAACTTTTTG
651664 TGTATCGATACAT
1 TGTATCGATACAT
651677 TGTATCGATACAT
1 TGTATCGATACAT
651690 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:656199 original size:13 final size:13
Alignment explanation
Indices: 656181--656220 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
656171 TACTCATTCC
656181 TTGTATCGATACA
1 TTGTATCGATACA
*
656194 TTGTATCGATACG
1 TTGTATCGATACA
*
656207 TTGAATCGATACA
1 TTGTATCGATACA
656220 T
1 T
656221 GGGTTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:664995 original size:13 final size:13
Alignment explanation
Indices: 664977--665003 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
664967 ACAACATTCC
664977 TTGTATCGATACA
1 TTGTATCGATACA
664990 TTGTATCGATACA
1 TTGTATCGATACA
665003 T
1 T
665004 GGGTTAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:667518 original size:20 final size:19
Alignment explanation
Indices: 667472--667528 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
667462 TTGTATTGAT
*
667472 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
667491 TCATTGTATCGATGCATGG
1 ACATTGTATCGATACATGG
*
667510 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
667529 AAGTTAGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:667575 original size:13 final size:13
Alignment explanation
Indices: 667557--667616 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
667547 CTACCACTGT
667557 TTGTATCGATACA
1 TTGTATCGATACA
667570 TTGTATCGATACA
1 TTGTATCGATACA
667583 -TG-AT-G--A-A
1 TTGTATCGATACA
*
667590 TTGTATTGATACA
1 TTGTATCGATACA
667603 TTGTATCGATACA
1 TTGTATCGATACA
667616 T
1 T
667617 GATTACTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 27 0.68
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:667627 original size:33 final size:33
Alignment explanation
Indices: 667557--667619 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
667547 CTACCACTGT
667557 TTGTATCGATACATTGTATCGATACATGATGAA
1 TTGTATCGATACATTGTATCGATACATGATGAA
*
667590 TTGTATTGATACATTGTATCGATACATGAT
1 TTGTATCGATACATTGTATCGATACATGAT
667620 TACTTGTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATTGTATCGATACATGATGAA
Found at i:671475 original size:76 final size:78
Alignment explanation
Indices: 671291--671497 Score: 214
Period size: 76 Copynumber: 2.7 Consensus size: 78
671281 TAGAAGTACT
* *
671291 TTAAAACTAAGTCTAAGG--TCATGTAGGAACCTTCATGATGGAAACATATCCATT-GTAGTTAT
1 TTAAAACTAAGTCT-AGGATTCATGTAGGAACCTTCATG-TTGAAACATGTCCATTAGTAGTTAT
*
671353 TTTGATAATAGTAAC
64 TTCGATAATAGTAAC
* * * * *
671368 TTAAAACTGAGTTTAGGATT-ATGTAGAAACCTTCACGTTGAAACATGTCCATTAG-GGTTATTT
1 TTAAAACTAAGTCTAGGATTCATGTAGGAACCTTCATGTTGAAACATGTCCATTAGTAGTTATTT
*
671431 CGATAATAGTACC
66 CGATAATAGTAAC
* * *
671444 TTAAAA-TCAAGTCTA-GTTTCATCTAGGAACCTTCATG-TCAATACATGTCCATTA
1 TTAAAACT-AAGTCTAGGATTCATGTAGGAACCTTCATGTTGAA-ACATGTCCATTA
671498 AAAGTATTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
75 7 0.06
76 72 0.67
77 28 0.26
78 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (78 bp):
TTAAAACTAAGTCTAGGATTCATGTAGGAACCTTCATGTTGAAACATGTCCATTAGTAGTTATTT
CGATAATAGTAAC
Found at i:678286 original size:155 final size:149
Alignment explanation
Indices: 677805--678286 Score: 427
Period size: 155 Copynumber: 3.1 Consensus size: 149
677795 TATCTCGATA
* * * * *
677805 ACCCTAAAGGACTTAAAAA-AATTATAGATGAGATGAACCTATCCTAAATACCACTTTAG-CATA
1 ACCCTAAGGGACTTAAAAAGAATT-TAAATGGGATGAACATATCCTAAATACCACCTTAGACATA
* * *
677868 AAAGTGGACCCGGTGACAACCTAAGAATTGGTTCTGAAAAATTACAAAAATACCTTTAGGGGATA
65 AAAGTGGAACCGGTGACAACCTAAGAATTGGTTCTG-AAAATTACAAAAATGCCCTT-GGGGATA
* *
677933 CCTTCGTCGTAAAAGTACCTGAT
128 CCTTCGACGTAAAAGTACC-AAT
* *
677956 ACCCCT-AGAGGACTTAAAAAGGATTTTAAATGGGATGAACATATCCTAAATATCCACCATTGGA
1 A-CCCTAAG-GGACTTAAAAA-GAATTTAAATGGGATGAACATATCCTAAATA-CCACC-TTAGA
* * ** * * * **
678020 -ATAAAAGCGG-ACTTGGTGATGACCTAAGAGTTGATTTTGGAAAATTATGAAAATGCCCTTGGG
61 CATAAAAGTGGAAC-CGGTGACAACCTAAGAATTGGTTCT-GAAAATTACAAAAATGCCCTTGGG
*
678083 AGATACCTTCGACATAAAAGTACCAGAT
124 -GATACCTTCGACGTAAAAGTACCA-AT
* * *
678111 ACCTCTGAA-GGACTTAAAAAAGAATTTAAATGGGATGAACATACCCTAAATGCCCACCTTCGAC
1 ACC-CT-AAGGGACTT-AAAAAGAATTTAAATGGGATGAACATATCCTAAAT-ACCACCTTAGAC
* * * *
678175 ATAAAAGTGGAACCGATGACAAACTAGGACTGTGGTTCTAGAGAAATTACAAAAATGCCCTTGGG
62 ATAAAAGTGGAACCGGTGACAACCTAAGAAT-TGGTTCT-GA-AAATTACAAAAATGCCCTTGGG
* * *
678240 GATACCTTTGACGTAGAAGCATCCAAT
124 GATACCTTCGACGTAAAAGTA-CCAAT
*
678267 ACTCCTAAGGGATTTAAAAA
1 AC-CCTAAGGGACTTAAAAA
678287 CATGAGGGAT
Statistics
Matches: 264, Mismatches: 44, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
151 2 0.01
152 15 0.06
153 23 0.09
154 17 0.06
155 139 0.53
156 43 0.16
157 25 0.09
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (149 bp):
ACCCTAAGGGACTTAAAAAGAATTTAAATGGGATGAACATATCCTAAATACCACCTTAGACATAA
AAGTGGAACCGGTGACAACCTAAGAATTGGTTCTGAAAATTACAAAAATGCCCTTGGGGATACCT
TCGACGTAAAAGTACCAAT
Found at i:679857 original size:10 final size:9
Alignment explanation
Indices: 679834--679881 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
679824 CAAAATCATA
679834 CTATTTTTT
1 CTATTTTTT
679843 CTATTTTTT
1 CTATTTTTT
*
679852 CTTATTTTCCT
1 C-TATTTT-TT
*
679863 CTCTTTTTT
1 CTATTTTTT
679872 CTATCTTTTT
1 CTAT-TTTTT
679882 ATCTCTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
9 14 0.44
10 16 0.50
11 2 0.06
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (9 bp):
CTATTTTTT
Found at i:679897 original size:11 final size:11
Alignment explanation
Indices: 679851--679897 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 11
679841 TTCTATTTTT
679851 TCTTATTTTCCTC
1 TCTT-TTTT-CTC
*
679864 TCTTTTTTCTA
1 TCTTTTTTCTC
679875 TCTTTTTATCTC
1 TCTTTTT-TCTC
679887 TCTTTTTTCTC
1 TCTTTTTTCTC
679898 CTTAGTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 13 0.42
12 14 0.45
13 4 0.13
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:680647 original size:168 final size:167
Alignment explanation
Indices: 680351--680761 Score: 460
Period size: 168 Copynumber: 2.5 Consensus size: 167
680341 AAAAACGAGA
* * ** * *
680351 AAATTTCAAAGAAAAATTTAAAACAT-ATGAAAATAAATTAATTTTTC-AAAACTGATTTAATAT
1 AAATTTTAAAAAAAAATGAAAAAC-TCATGAAAATGAATGAA-TTTTCGAAAACTGATTTAATAT
* * * * *
680414 GAAGT--A-AATGATGATACTTGATGAATTTTAAAAATTAAAAATCAAAACAAATCCCTCTGAAA
64 GAATTAAATAATAATAATACTTAATGAATTTTAAAAATTAAAAACCAAAACAAATCCCTCTGAAA
* *
680476 ACATTTACGGAGTAAAAAATTATATATTTCGAAAATAAG
129 ACATTTACAGAGTAAAAAACTATATATTTCGAAAATAAG
*
680515 AAAATTTTAAGAAAAAAATG-AACACTCATGAAAATGAATGAATTTTCGAAAACTGATTTAATAT
1 -AAATTTTAA-AAAAAAATGAAAAACTCATGAAAATGAATGAATTTTCGAAAACTGATTTAATAT
* * *
680579 AAATTAAATAATAATAATATTTAATGAATTTTAAAAATTAGAAACCAAGAA-AAATCCCT-TCGA
64 GAATTAAATAATAATAATACTTAATGAATTTTAAAAATTAAAAACCAA-AACAAATCCCTCT-GA
* * * * *
680642 AAACATTTATAGAGTAGAAAACTCTGTATTTTGAAAATAAG
127 AAACATTTACAGAGTAAAAAACTATATATTTCGAAAATAAG
* * * * *
680683 AGATTTTCAAAAAAAATGAAAAACTGATAAAAATGAATGAATTTTTGAAAACTGATTTAATATGA
1 AAATTTTAAAAAAAAATGAAAAACTCATGAAAATGAATGAATTTTCGAAAACTGATTTAATATGA
*
680748 ATTAAATAACAATA
66 ATTAAATAATAATA
680762 TTTGATAAAT
Statistics
Matches: 208, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
164 6 0.03
165 44 0.21
166 16 0.08
167 63 0.30
168 77 0.37
169 2 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (167 bp):
AAATTTTAAAAAAAAATGAAAAACTCATGAAAATGAATGAATTTTCGAAAACTGATTTAATATGA
ATTAAATAATAATAATACTTAATGAATTTTAAAAATTAAAAACCAAAACAAATCCCTCTGAAAAC
ATTTACAGAGTAAAAAACTATATATTTCGAAAATAAG
Found at i:680905 original size:164 final size:164
Alignment explanation
Indices: 680380--680930 Score: 472
Period size: 164 Copynumber: 3.3 Consensus size: 164
680370 AAAACATATG
** * * * * * *
680380 AAAATAAATTAATTTTTCAAAACTGATTTAATATGAAGTAAATGATGATACTTGATGAATTTTAA
1 AAAATAAAGGAATTTTTCAAAACTGATTTAATATGAATTAAATAATAATATTTAATAAATTTTAA
* * ** ** * * * * *
680445 AAATTAAAAATCAA-AACAAATCCCTCTGAAAACATTTACGGAGTAAAAAATTATATATTTCGAA
66 AAATGAAAAACCAAGAA-AAATCCCTCCAAAAACATTTATAGAGTAGAAAACTCTGTATTTTGAA
* * * * *
680509 AATAAGAAAATTTTAAGAAAAAAATG-AACACTCATG
130 AATAAGAGAA-TATCA-AAAAAAATGAAAAACTCATA
* * * *
680545 AAAATGAATGAA-TTTTCGAAAACTGATTTAATATAAATTAAATAATAATAATATTTAATGAATT
1 AAAATAAAGGAATTTTTC-AAAACTGATTTAATATGAATT--A-AATAATAATATTTAATAAATT
* * * *
680609 TTAAAAATTAGAAACCAAGAAAAATCCCTTCGAAAACATTTATAGAGTAGAAAACTCTGTATTTT
62 TTAAAAATGAAAAACCAAGAAAAATCCCTCCAAAAACATTTATAGAGTAGAAAACTCTGTATTTT
* * *
680674 GAAAATAAGAGATTTTCAAAAAAAATGAAAAACTGATA
127 GAAAATAAGAGAATATCAAAAAAAATGAAAAACTCATA
* * * * *
680712 AAAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAACAATATTTGATAAATTATT-
1 AAAATAAAGGAATTTTTCAAAACTGATTTAATATGAATTAAATAATAATATTTAATAAATT-TTA
* * *
680776 AAAATGAAAAACTAAGAAAAAT-CCTCCCAAAAATATTTATGGAGTAGAAAACTCTGTATTTT-A
65 AAAATGAAAAACCAAGAAAAATCCCT-CCAAAAACATTTATAGAGTAGAAAACTCTGTATTTTGA
* * * *
680839 AAA-ACAGTGGAATATCAAAGAAAATTAATAACTCAT-
129 AAATA-AG-AGAATATCAAAAAAAATGAAAAACTCATA
* * *
680875 AAAATAAAAGGTATTTTTCAAAATTGATTTAATA-GCAATTAAATTATAATATTTAA
1 AAAAT-AAAGGAATTTTTCAAAACTGATTTAATATG-AATTAAATAATAATATTTAA
680931 AGAGTTTTGA
Statistics
Matches: 321, Mismatches: 52, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
162 1 0.00
163 15 0.05
164 135 0.42
165 32 0.10
166 9 0.03
167 44 0.14
168 83 0.26
169 2 0.01
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (164 bp):
AAAATAAAGGAATTTTTCAAAACTGATTTAATATGAATTAAATAATAATATTTAATAAATTTTAA
AAATGAAAAACCAAGAAAAATCCCTCCAAAAACATTTATAGAGTAGAAAACTCTGTATTTTGAAA
ATAAGAGAATATCAAAAAAAATGAAAAACTCATA
Found at i:683131 original size:32 final size:32
Alignment explanation
Indices: 683076--683169 Score: 170
Period size: 32 Copynumber: 2.9 Consensus size: 32
683066 TTCAACGATT
683076 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
683109 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
683141 TGTATCGATACATAAGTTTTGTATCGATA
1 TGTATCGATACATAAGTGTTGTATCGATA
683170 TAATTTAAGC
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 47 0.78
33 13 0.22
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:683133 original size:19 final size:18
Alignment explanation
Indices: 683074--683169 Score: 86
Period size: 13 Copynumber: 5.7 Consensus size: 18
683064 ATTTCAACGA
683074 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
683093 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
683109 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
683125 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
683141 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
683157 TTTTGTATCGATA
1 -TTTGTATCGATA
683170 TAATTTAAGC
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 22 0.34
20 12 0.19
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:683291 original size:52 final size:52
Alignment explanation
Indices: 683247--683375 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
683237 CACTGATCTT
683247 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
683299 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
683351 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
683376 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:684601 original size:13 final size:13
Alignment explanation
Indices: 684583--684608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
684573 CAATTTTTGA
684583 TGTATCGATACAT
1 TGTATCGATACAT
684596 TGTATCGATACAT
1 TGTATCGATACAT
684609 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:684624 original size:32 final size:33
Alignment explanation
Indices: 684563--684626 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
684553 CCCGTGTAAC
**
684563 TGTATCGATACAATTTTTGATGTATCGATACAT
1 TGTATCGATACAATACTTGATGTATCGATACAT
*
684596 TGTATCGATAC-ATACTTGCTGTATCGATACA
1 TGTATCGATACAATACTTGATGTATCGATACA
684627 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGATGTATCGATACAT
Found at i:687171 original size:13 final size:13
Alignment explanation
Indices: 687153--687178 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
687143 ATAATCACCC
687153 TGTATCGATACAA
1 TGTATCGATACAA
687166 TGTATCGATACAA
1 TGTATCGATACAA
687179 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:687393 original size:8 final size:8
Alignment explanation
Indices: 687380--687427 Score: 96
Period size: 8 Copynumber: 6.0 Consensus size: 8
687370 CATCATTAAA
687380 CACAAAAT
1 CACAAAAT
687388 CACAAAAT
1 CACAAAAT
687396 CACAAAAT
1 CACAAAAT
687404 CACAAAAT
1 CACAAAAT
687412 CACAAAAT
1 CACAAAAT
687420 CACAAAAT
1 CACAAAAT
687428 TTAATCAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:689301 original size:15 final size:15
Alignment explanation
Indices: 689281--689311 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
689271 ATTTCGTTTG
*
689281 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
689296 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
689311 G
1 G
689312 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:700669 original size:202 final size:202
Alignment explanation
Indices: 700323--700916 Score: 1109
Period size: 202 Copynumber: 2.9 Consensus size: 202
700313 CCAAGTGTGC
700323 GGTTTGAGTGAGGGGAAACATGGCCATTATAAAATGACAATACTTAGAAGTTGCTATTAATCTTT
1 GGTTTGAGTGAGGGGAAACATGGCCATTATAAAATGACAATACTTAGAAGTTGCTATTAATCTTT
700388 TTTATAGATAAATGTGGCTGGTCACCTCTCAAAATCAATCTTTTATTAAAAATTTTTAAAATTAA
66 TTTATAGATAAATGTGGCTGGTCACCTCTCAAAATCAATCTTTTATTAAAAATTTTTAAAATTAA
700453 TTAAAAATCCTTTAGAAAGACAAATTTTAAGGTTTGGTTTTAAAACCAAAGAAAAACAAAAGGCA
131 TTAAAAATCCTTTAGAAAGACAAATTTTAAGGTTTGGTTTTAAAACCAAAGAAAAACAAAAGGCA
700518 AATGTAT
196 AATGTAT
*
700525 GGTTTGAGTGAGGGGAAACATGGCCATTATAAAATGACAATACTTAGAAGTTGTTATTAATCTTT
1 GGTTTGAGTGAGGGGAAACATGGCCATTATAAAATGACAATACTTAGAAGTTGCTATTAATCTTT
*
700590 TTTATAGATAAATGTGGCTGGCCACCTCTCAAAATCAATCTTTTATTAAAAATTTTTAAAATTAA
66 TTTATAGATAAATGTGGCTGGTCACCTCTCAAAATCAATCTTTTATTAAAAATTTTTAAAATTAA
*
700655 TTAAAAATCCTTTAGAAAGACAAATTTTAAGGTTTGGTTTCAAAACCAAAGAAAAACAAAAGGCA
131 TTAAAAATCCTTTAGAAAGACAAATTTTAAGGTTTGGTTTTAAAACCAAAGAAAAACAAAAGGCA
* *
700720 AGTGTGT
196 AATGTAT
*
700727 GGTTTGAGTGAGGGGAAACATGGCCATTATAAAATGACAATACTTAGAAGTTGCTACTAATCTTT
1 GGTTTGAGTGAGGGGAAACATGGCCATTATAAAATGACAATACTTAGAAGTTGCTATTAATCTTT
700792 TTTATAGATAAATGTGGCTGGTCACCTCTCAAAATCAATCTTTTATT-AAAATTTTTAAAATTAA
66 TTTATAGATAAATGTGGCTGGTCACCTCTCAAAATCAATCTTTTATTAAAAATTTTTAAAATTAA
* *
700856 TTAAAAATCCTTTACAAAGACAAATTTTAAGGTTTGGTTTTAAAATCAAAGAAAAACAAAA
131 TTAAAAATCCTTTAGAAAGACAAATTTTAAGGTTTGGTTTTAAAACCAAAGAAAAACAAAA
700917 CGAGTTTGGG
Statistics
Matches: 381, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
201 75 0.20
202 306 0.80
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (202 bp):
GGTTTGAGTGAGGGGAAACATGGCCATTATAAAATGACAATACTTAGAAGTTGCTATTAATCTTT
TTTATAGATAAATGTGGCTGGTCACCTCTCAAAATCAATCTTTTATTAAAAATTTTTAAAATTAA
TTAAAAATCCTTTAGAAAGACAAATTTTAAGGTTTGGTTTTAAAACCAAAGAAAAACAAAAGGCA
AATGTAT
Found at i:703974 original size:41 final size:41
Alignment explanation
Indices: 703917--703999 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
703907 TCATAATTAT
703917 ATTTAAGAATTTACATAAAAATAAAATAGTTTACTTTTAAC
1 ATTTAAGAATTTACATAAAAATAAAATAGTTTACTTTTAAC
*
703958 ATTTAAGAATTTACATAAAAATAAAATAGTTTATTTTTAAC
1 ATTTAAGAATTTACATAAAAATAAAATAGTTTACTTTTAAC
703999 A
1 A
704000 AGTAGTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (41 bp):
ATTTAAGAATTTACATAAAAATAAAATAGTTTACTTTTAAC
Found at i:705563 original size:12 final size:12
Alignment explanation
Indices: 705546--705587 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
705536 AGGTTCAACT
705546 AAAAAAAAGAAA
1 AAAAAAAAGAAA
705558 AAAAAAAGAGAAA
1 AAAAAAA-AGAAA
*
705571 AAAAAAGAGAAA
1 AAAAAAAAGAAA
705583 GAAAA
1 -AAAA
705588 GAGAGAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:705572 original size:23 final size:23
Alignment explanation
Indices: 705546--705591 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
705536 AGGTTCAACT
705546 AAAAAAAAGAAAAAAAAAAGAGA
1 AAAAAAAAGAAAAAAAAAAGAGA
* *
705569 AAAAAAAAGAGAAAGAAAAGAGA
1 AAAAAAAAGAAAAAAAAAAGAGA
705592 GAAGAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAAAAAGAGA
Found at i:705590 original size:11 final size:11
Alignment explanation
Indices: 705546--705591 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
705536 AGGTTCAACT
*
705546 AAAAAAAAGAA
1 AAAAAAAAGAG
705557 AAAAAAAAGAG
1 AAAAAAAAGAG
705568 AAAAAAAAAGAG
1 -AAAAAAAAGAG
*
705580 AAAGAAAAGAG
1 AAAAAAAAGAG
705591 A
1 A
705592 GAAGAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:705596 original size:12 final size:11
Alignment explanation
Indices: 705550--705598 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
705540 TCAACTAAAA
* *
705550 AAAAGAAAAAA
1 AAAAGAGAAAG
*
705561 AAAAGAGAAAAA
1 AAAAGAG-AAAG
705573 AAAAGAGAAAG
1 AAAAGAGAAAG
705584 AAAAGAGAGAAG
1 AAAAGAGA-AAG
705596 AAA
1 AAA
705599 TAGAAACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 17 0.50
12 17 0.50
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:709928 original size:18 final size:18
Alignment explanation
Indices: 709888--709921 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
709878 TTATATATAT
709888 AATTAATTTGTTAAATAA
1 AATTAATTTGTTAAATAA
709906 AATTAATTT-TTAAATA
1 AATTAATTTGTTAAATA
709922 TTTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATTAATTTGTTAAATAA
Found at i:709973 original size:22 final size:24
Alignment explanation
Indices: 709939--709982 Score: 58
Period size: 22 Copynumber: 1.9 Consensus size: 24
709929 TTACAATGTT
709939 ATATATTACAAATTAATT-ATATTG
1 ATATATTACAAA-TAATTGATATTG
709963 ATAT-TTA-AAATAATTGATAT
1 ATATATTACAAATAATTGATAT
709983 ATTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 3 0.16
24 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (24 bp):
ATATATTACAAATAATTGATATTG
Found at i:710876 original size:22 final size:22
Alignment explanation
Indices: 710823--710866 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
710813 TAATGCTCAT
710823 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
710845 GATATAATTTACTTTTTGATAA
1 GATATAATTTACTTTTTGATAA
710867 ATTACTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
GATATAATTTACTTTTTGATAA
Found at i:711281 original size:2 final size:2
Alignment explanation
Indices: 711274--711299 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
711264 TTGGTTTTAA
711274 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
711300 GTTGGCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:712184 original size:21 final size:21
Alignment explanation
Indices: 712153--712225 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
712143 TAAAAAAAGA
*
712153 AAACT-AAAAAAGTTATAAAT
1 AAACTAAAAAAAGTCATAAAT
712173 AAACTAAAAAAAGTCATAAAT
1 AAACTAAAAAAAGTCATAAAT
*** *
712194 AAACTAATGGAAGTCCTAAAT
1 AAACTAAAAAAAGTCATAAAT
*
712215 AAACCAAAAAA
1 AAACTAAAAAA
712226 TTTAGTACTA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 5 0.12
21 38 0.88
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.19
Consensus pattern (21 bp):
AAACTAAAAAAAGTCATAAAT
Found at i:712669 original size:6 final size:6
Alignment explanation
Indices: 712658--712683 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
712648 CCTTCTCTTG
712658 CTGTTT CTGTTT CTGTTT CTGTTT CT
1 CTGTTT CTGTTT CTGTTT CTGTTT CT
712684 CTAGCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.15, T:0.65
Consensus pattern (6 bp):
CTGTTT
Found at i:713921 original size:2 final size:2
Alignment explanation
Indices: 713916--713942 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
713906 AAAAAAACAA
713916 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
713943 GTGCACGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:719068 original size:2 final size:2
Alignment explanation
Indices: 719061--719096 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
719051 AAACGTAAGC
719061 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
719097 CCTCGAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:721994 original size:20 final size:18
Alignment explanation
Indices: 721971--722015 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
721961 TTTTTGGAGC
721971 AAATATTAATTAAATGAAAA
1 AAATATTAATTAAAT--AAA
*
721991 AAATATT-ATTATATAAA
1 AAATATTAATTAAATAAA
722008 AAATATTA
1 AAATATTA
722016 TTATATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 10 0.43
19 6 0.26
20 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATATTAATTAAATAAA
Found at i:722010 original size:17 final size:17
Alignment explanation
Indices: 721988--722021 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
721978 AATTAAATGA
721988 AAAAAATATTATTATAT
1 AAAAAATATTATTATAT
722005 AAAAAATATTATTATAT
1 AAAAAATATTATTATAT
722022 TCTTTCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAAATATTATTATAT
Found at i:722961 original size:22 final size:22
Alignment explanation
Indices: 722933--722974 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
722923 ATTAATATAA
*
722933 AAATAA-TATTTTAATATTTTTT
1 AAATAATTA-TTTAAAATTTTTT
722955 AAATAATTATTTAAAATTTT
1 AAATAATTATTTAAAATTTT
722975 AAATTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATAATTATTTAAAATTTTTT
Found at i:722976 original size:20 final size:20
Alignment explanation
Indices: 722951--723001 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
722941 TTTTAATATT
722951 TTTTAAATAATT-ATTTAAAA
1 TTTTAAATAATTAATTT-AAA
722971 TTTTAAATTAATTCAATTTAAA
1 TTTTAAA-TAATT-AATTTAAA
722993 -TTTAAATAA
1 TTTTAAATAA
723002 AAAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 10 0.36
21 11 0.39
22 3 0.11
23 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTAAATAATTAATTTAAA
Found at i:723590 original size:3 final size:3
Alignment explanation
Indices: 723582--723609 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
723572 ACTTTCAAAC
723582 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
723610 CACCCGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:725262 original size:153 final size:153
Alignment explanation
Indices: 724943--725533 Score: 647
Period size: 153 Copynumber: 3.9 Consensus size: 153
724933 AAAAAATGCG
* * * * * *
724943 AAACTCATAAAATAAATTAAATTTTT-ACAACCTGATTCAATATGAATTTAATAAAAATATGTGA
1 AAACTCATAAAATAAATTAAATTTTTCA-AAACTGATTTAATATGAATTAAACAATAATATTTGA
* * * * * *
725007 TGAATTTTAAAAATTTTAAGCTAAGAAAAATCCAACTAAAGAAATTTAC-AGAGTAGAAAACT-C
65 AGAATTTTAAAAATTATAAACTTAGAAAAATCCTACCAAAGAAATTTACGA-AGTA-AAAACTCC
** * *
725070 -TAAATC-TTAGTATGAGAAAATTTCTA
128 GTATCTCAATAGTAAGA-AAAATTT-TA
* * * **
725096 AAATTCATAAAATAAATTGAATTTTTCAAAAATGATTTAATATGGGTTAAACAATAATATTTGAA
1 AAACTCATAAAATAAATTAAATTTTTCAAAACTGATTTAATATGAATTAAACAATAATATTTGAA
* * *
725161 GAATTTTAAAAATTATAAACTTAGAAAAATCCTACCTAAGAAATTTACGAAGCATAAAGCTCCGT
66 GAATTTTAAAAATTATAAACTTAGAAAAATCCTACCAAAGAAATTTACGAAGTA-AAAACTCCGT
725226 ATCTCAATAGTAAGAAAAATTTTA
130 ATCTCAATAGTAAGAAAAATTTTA
* * * * * *
725250 AAACTCAT-AAATAAACTAAATTTTTTAAAATTAATTTACTTTGAATTAAACAATAATATTTGAA
1 AAACTCATAAAATAAATTAAATTTTTCAAAACTGATTTAATATGAATTAAACAATAATATTTGAA
* * * * *
725314 GAATTTTGAAAATTATAAACTTAGAAAAATCATACCAAAAAAATTTATGGAGTAAAAACTCCGTA
66 GAATTTTAAAAATTATAAACTTAGAAAAATCCTACCAAAGAAATTTACGAAGTAAAAACTCCGTA
* * *
725379 TCTCAGTAAT-AGAAAATTTTTA
131 TCTCAATAGTAAGAAAAATTTTA
* * *
725401 AAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATAAATTAAAAAATTAATATTTGA
1 AAACTCATAAAATAAATTAAATTTTTCAAAACTGATTTAATATGAATTAAACAA-TAATATTTGA
* * * * *
725466 AGAATTTTAAAAATTAAAAATTTAGAAAAATCCTATCAAATAAATTTACGAAGTAAAAAACTTCG
65 AGAATTTTAAAAATTATAAACTTAGAAAAATCCTACCAAAGAAATTTACGAAGT-AAAAACTCCG
725531 TAT
129 TAT
725534 TTTGAAAATA
Statistics
Matches: 366, Mismatches: 64, Indels: 15
0.82 0.14 0.03
Matches are distributed among these distances:
151 19 0.05
152 54 0.15
153 251 0.69
154 24 0.07
155 11 0.03
156 7 0.02
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (153 bp):
AAACTCATAAAATAAATTAAATTTTTCAAAACTGATTTAATATGAATTAAACAATAATATTTGAA
GAATTTTAAAAATTATAAACTTAGAAAAATCCTACCAAAGAAATTTACGAAGTAAAAACTCCGTA
TCTCAATAGTAAGAAAAATTTTA
Found at i:725423 original size:28 final size:29
Alignment explanation
Indices: 725391--725452 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
725381 TCAGTAATAG
*
725391 AAAATTTTTAAAACTCA-TAAAATAAATT
1 AAAATTTTCAAAACTCATTAAAATAAATT
* *
725419 AAAATTTTCAAAACTGATTTAATATAAATT
1 AAAATTTTCAAAACTCA-TTAAAATAAATT
725449 AAAA
1 AAAA
725453 AATTAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 15 0.52
30 14 0.48
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTTTCAAAACTCATTAAAATAAATT
Found at i:726452 original size:50 final size:51
Alignment explanation
Indices: 726392--726506 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
726382 TGAATAGTGC
* * *
726392 ATGTATCGATACATTTTGTTTT-TTACTC-AGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTGTTTTGCTAC-CAAGATGTATCGATACATTATTCA
726442 ATGTATCGATACATTCTGTTTTGCTACCAAGATGTATCGATACATTATTCA
1 ATGTATCGATACATTCTGTTTTGCTACCAAGATGTATCGATACATTATTCA
726493 ATGTATCGATACAT
1 ATGTATCGATACAT
726507 CTAGTTAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
50 22 0.37
51 38 0.63
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (51 bp):
ATGTATCGATACATTCTGTTTTGCTACCAAGATGTATCGATACATTATTCA
Found at i:727425 original size:20 final size:20
Alignment explanation
Indices: 727388--727426 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
727378 TAGCATTTGA
* *
727388 TCATGCATTTTCACTATGTT
1 TCATACATTTTCAATATGTT
*
727408 TCATACATTTTTAATATGT
1 TCATACATTTTCAATATGT
727427 CCGACATCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (20 bp):
TCATACATTTTCAATATGTT
Found at i:728894 original size:13 final size:13
Alignment explanation
Indices: 728876--728900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
728866 AGATTGCACA
728876 GTATCGATACATT
1 GTATCGATACATT
728889 GTATCGATACAT
1 GTATCGATACAT
728901 GACCAAATGT
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:728913 original size:20 final size:21
Alignment explanation
Indices: 728888--728940 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
728878 ATCGATACAT
*
728888 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
728908 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
728929 TGTATCGATACA
1 TGTATCGATACA
728941 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:735168 original size:13 final size:13
Alignment explanation
Indices: 735150--735185 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
735140 GCATTCTCTA
*
735150 TATCGATACATTG
1 TATCGATACAGTG
*
735163 TATCGATATAGTG
1 TATCGATACAGTG
735176 TATCGATACA
1 TATCGATACA
735186 AAGGGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:739744 original size:52 final size:52
Alignment explanation
Indices: 739661--739787 Score: 236
Period size: 52 Copynumber: 2.4 Consensus size: 52
739651 AAATATTAAT
739661 ATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAA
1 ATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAA
* *
739713 ATTTGCCTGCATGTATCGATATATTTTATAGTGTATCGATACATCTGGGCAA
1 ATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAA
739765 ATTTGCCTGCATGTATCGATACA
1 ATTTGCCTGCATGTATCGATACA
739788 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
ATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAA
Found at i:739798 original size:52 final size:51
Alignment explanation
Indices: 739661--739807 Score: 224
Period size: 52 Copynumber: 2.8 Consensus size: 51
739651 AAATATTAAT
739661 ATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAA
1 ATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAA
* *
739713 ATTTGCCTGCATGTATCGATATATTTTATAGTGTATCGATACATCTGGGCAA
1 ATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAA
*
739765 ATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 ATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
739808 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
ATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAA
Found at i:739814 original size:13 final size:13
Alignment explanation
Indices: 739796--739820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
739786 CAAAGATCAG
739796 TGTATCGATACAA
1 TGTATCGATACAA
739809 TGTATCGATACA
1 TGTATCGATACA
739821 TTTGAGTAAT
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:739887 original size:19 final size:18
Alignment explanation
Indices: 739863--739960 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
739853 TAGCTTAAAT
739863 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
739882 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
739895 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
739914 TCTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
739927 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
*
739947 TGTATTGATACAAA
1 TGTATCGATACAAA
739961 TCGTTGAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.37
20 12 0.19
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:739900 original size:13 final size:13
Alignment explanation
Indices: 739882--739938 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
739872 ACAAAACTTA
739882 TGTATCGATACAT
1 TGTATCGATACAT
739895 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
739913 ATCTATCGATACAT
1 -TGTATCGATACAT
739927 TGTATCGATACA
1 TGTATCGATACA
739939 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:739902 original size:32 final size:32
Alignment explanation
Indices: 739861--739958 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
739851 AGTAGCTTAA
*
739861 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
739893 ATTGTATCGATACAACACTTATCTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
739925 ATTGTATCGATACAACACTTTATGTATTGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
739958 A
1 A
739959 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 48 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:740893 original size:49 final size:49
Alignment explanation
Indices: 740821--741851 Score: 1087
Period size: 43 Copynumber: 21.9 Consensus size: 49
740811 GAAGGTGCTG
740821 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * *
740870 AGGTGCCAATGTGCTGGTTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---A
** * *
740922 AGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---A
* *
740974 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * *
741019 -GG-GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGA
* * *
741067 GGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G-
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
*
741110 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * * *
741159 TGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* *
741202 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* *
741251 AGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGACTT----A--A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
*
741294 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * *
741343 AGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G---A
* * *
741397 ATGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--A
1 A-GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* *
741441 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT-GACTTAAAGAAGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
*
741489 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * *
741532 AGGTGGCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* *
741581 AGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A-G-
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * *
741624 AGGTGCCAATGTGCTGATTCAAGACCAACTACATTGGACTTAAAGATGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * *
741673 TGGTGCCAATATGCTGATTCAAGGCTAG-TGATATTGGACTT---G--GA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGA
*
741717 A-GTGCCAATGTGCTGATTC-AGGCCAGCTACATTGGACTTAAAGATGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
* * *
741764 TGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
*
741807 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
741852 GAAGATGCCA
Statistics
Matches: 837, Mismatches: 79, Indels: 134
0.80 0.08 0.13
Matches are distributed among these distances:
42 21 0.03
43 310 0.37
44 7 0.01
45 8 0.01
46 5 0.01
47 7 0.01
48 54 0.06
49 261 0.31
50 35 0.04
51 4 0.00
52 87 0.10
54 2 0.00
55 36 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
Found at i:741206 original size:92 final size:90
Alignment explanation
Indices: 740926--741852 Score: 865
Period size: 92 Copynumber: 10.0 Consensus size: 90
740916 TGACAAAGAC
* *
740926 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-G----AGGTGCCAATATGCTGA
* * *
740991 TTCAAGGCCAGCGATATTGGACTTAAAGGG
61 TTCAAGGCCAGCTACATTGGACTTAAAGGT
* * *
741021 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTGATT
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGA-GA-GGTGCCAATATGCTGATT
* * **
741086 CAAGGCCAGCGATATTGGACTTGGAGGT
63 CAAGGCCAGCTACATTGGACTTAAAGGT
* *
741114 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCTAATATGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-GA-GGTGCCAATATGCTGATTC
* *
741179 AAGGCCAGCGATATTGGACTTAAAGGT
64 AAGGCCAGCTACATTGGACTTAAAGGT
*
741206 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-AG-AGGTGCCAATATGCTGATTC
* *
741271 AGGGCCAGCTATATTGGACTTAAAGGT
64 AAGGCCAGCTACATTGGACTTAAAGGT
* *
741298 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-G-AGGTGCCAATATGCTGATTC
* *
741363 AAGGCCAGCGATATTGGACTTAAAGATGAGAAAAATGAT
64 AAGGCCAGCTACATTGGACTT--A-A--AG------G-T
* * *
741402 GTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-A-AGGTGCCAATGTGCTGATTCAA
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGGTGCCAATATGCTGATTCAA
741463 GGCCAGCTACATT-GACTTAAAGAAGAAGGT
66 GGCCAGCTACATTGGACTT-----A-AAGGT
* * *
741493 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A-AGGTGGCAATGTGCTGATTCAA
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGGTGCCAATATGCTGATTCAA
741554 GGCCAGCTACATTGGACTTAAAGATAAAGGT
66 GGCCAGCTACATTGGAC-T-----TAAAGGT
* * *
741585 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----AGAGGTGCCAATGTGCTGATTCAA
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGGTGCCAATATGCTGATTCAA
* *
741646 GACCAACTACATTGGACTTAAAGATGATGGT
66 GGCCAGCTACATTGGACTT--A-A--A-GGT
* * * *
741677 GCCAATATGCTGATTCAAGGCTAG-TGATATTGGACTT---G-GAAGTGCCAATGTGCTGATTC-
1 GCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGAGAGGTGCCAATATGCTGATTCA
741736 AGGCCAGCTACATTGGACTTAAAGATGATGGT
65 AGGCCAGCTACATTGGACTT--A-A--A-GGT
* * *
741768 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-AGGTGCCAATGTGCTGATTCAA
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGGTGCCAATATGCTGATTCAA
741829 GGCCAGCTACATTGGACTTAAAGG
66 GGCCAGCTACATTGGACTTAAAGG
741853 AAGATGCCAC
Statistics
Matches: 752, Mismatches: 40, Indels: 89
0.85 0.05 0.10
Matches are distributed among these distances:
86 3 0.00
87 1 0.00
88 1 0.00
89 2 0.00
90 1 0.00
91 158 0.21
92 376 0.50
93 82 0.11
94 1 0.00
95 35 0.05
96 7 0.01
97 7 0.01
98 34 0.05
100 4 0.01
101 1 0.00
102 1 0.00
103 1 0.00
104 37 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (90 bp):
GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGGTGCCAATATGCTGATTCAA
GGCCAGCTACATTGGACTTAAAGGT
Found at i:742056 original size:98 final size:97
Alignment explanation
Indices: 741857--742118 Score: 413
Period size: 98 Copynumber: 2.7 Consensus size: 97
741847 TAAAGGAAGA
* *
741857 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACTGACTTGTGTGGGCTTTAGA-AAGGG
1 TGCCACCAACTTGTGTGGGC-TTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGG
741921 TTGCCACCGACTTGTGTGGGCTTTGGAGAGGGGT
65 TTGCCACCGACTTGTGTGGGCTTT-GAGAGGGGT
*
741955 TGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGG
1 TGCCACCAACTTGTGTGGGCTTT-GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGG
742020 TTGCCACCGACTTGTGTGGGCTTT-AGAGGGGAT
65 TTGCCACCGACTTGTGTGGGCTTTGAGAGGGG-T
* *
742053 TGCCACCAACTTGTGTGGGCTTTG-AGAAGGGTTGCCATCGACTTGTGTGGGCTTTGGAGAATGG
1 TGCCACCAACTTGTGTGGGCTTTGAAGAA-GGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGG
742117 TT
65 TT
742119 AAAGATGCCA
Statistics
Matches: 154, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
96 4 0.03
97 46 0.30
98 75 0.49
99 29 0.19
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (97 bp):
TGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGGT
TGCCACCGACTTGTGTGGGCTTTGAGAGGGGT
Found at i:742108 original size:32 final size:32
Alignment explanation
Indices: 741857--742118 Score: 352
Period size: 33 Copynumber: 8.0 Consensus size: 32
741847 TAAAGGAAGA
*
741857 TGCCACCAACTTGTGTGGGCTTTTGAAGAA-GGT
1 TGCCACCGACTTGTGTGGGC-TTTG-AGAAGGGT
*
741890 TGCCACTGACTTGTGTGGGCTTT-AGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAG-AAGGGT
*
741922 TGCCACCGACTTGTGTGGGCTTTGGAGAGGGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
741955 TGCCACCGACTTGTGTGGGCTTT-AGAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAG--GGT
741988 TGCCACCGACTTGTGTGGGCTTTGGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
*
742021 TGCCACCGACTTGTGTGGGCTTT-AGAGGGGAT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGG-T
*
742053 TGCCACCAACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
* *
742085 TGCCATCGACTTGTGTGGGCTTTGGAGAATGGT
1 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
742118 T
1 T
742119 AAAGATGCCA
Statistics
Matches: 207, Mismatches: 11, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
30 2 0.01
31 12 0.06
32 73 0.35
33 113 0.55
34 2 0.01
35 5 0.02
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
Found at i:742161 original size:33 final size:33
Alignment explanation
Indices: 742124--743030 Score: 807
Period size: 33 Copynumber: 27.6 Consensus size: 33
742114 TGGTTAAAGA
*
742124 TGCCACGAAGTTGTGGACTTAAAAAGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * * * *
742157 TGCCATGGAGTTGTGGGCTTTAAAAGGGAAAAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAA-AG-AACAAGG
* *
742193 TGCCACGGAGTTGTGGGCTTTGAAAAG---AAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* ** ** *
742224 TGCCACGGAGTCGCAGACTTTGAAAG--GAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* *
742255 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * *
742288 TGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAA-AGAACAAG-G
* * *
742324 TGCCACAGAGTTGTGGGCTTTGAAAAG---AAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* *
742355 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * *
742388 TGCCATGGAGTTGTGGATTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
*
742421 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAG-G
* *
742455 TGCCACGGAGTTGTGGGCTTTGAAAAG---AAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* *
742486 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * * *
742519 TGCCATGGAGTCGTGGATTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
*
742552 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAG-G
* * *
742586 TGCCATGGAGTTGTGGGCTTTGAAAAG---AAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* *
742617 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * * *
742650 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
*
742683 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAG-G
*
742717 TGCCACGGAGTTGTGGGCTTTAAAAAG---AAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* *
742748 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* *
742781 TGCCACAGAGTTGTAGACTTAAAAAGAA-AAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * * * *
742813 TGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* *
742847 TGCCACGGAGTTGTGGGCTTTAAAAAG--GAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* * * * *
742879 TGCCACAGAGTCGTGGACTTAAAAGGAATAAGA
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * * *
742912 TGCCACGGAGTCGTGGACTTAAAAGGAATAAGA
1 TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
* * *
742945 TGCCACGGGGTCGTGGACTTAAAAGGAACAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAC-AAG-G
* *
742980 TGCCACGGAGTTGTGGGCTTTGAAAAG---AAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAACAAGG
* *
743011 TGCCACAGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
743031 TAAGAAGGTA
Statistics
Matches: 734, Mismatches: 106, Indels: 71
0.81 0.12 0.08
Matches are distributed among these distances:
30 33 0.04
31 131 0.18
32 52 0.07
33 319 0.43
34 96 0.13
35 47 0.06
36 56 0.08
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAAGAACAAGG
Found at i:742274 original size:131 final size:129
Alignment explanation
Indices: 742119--743030 Score: 1272
Period size: 131 Copynumber: 7.0 Consensus size: 129
742109 GAGAATGGTT
* * * * * *
742119 AAAGATGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCATGGAGTTGTGGGCTTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAA-A
* ** *
742184 GAAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCAGACTTTGAAA
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TTAAAA
742249 GG
128 GG
* * *
742251 -AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAA-A
*
742315 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
742380 G
129 G
* *
742381 AACAAGGTGCCATGGAGTTGTGGATTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
1 -A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
742446 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
742511 G
129 G
* * *
742512 AACAAGGTGCCATGGAGTCGTGGATTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
1 -A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
*
742577 GAAAAAGAGTGCCATGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
742642 G
129 G
* * *
742643 AACAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAA
1 -A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
*
742708 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
64 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
742773 G
129 G
* * * * * * *
742774 AACAAGGTGCCACAGAGTTGTAGACTTAAAAAGAA-AAGGTGCCACGGAGTGGTGGGCTTTGAGA
1 -A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
742838 AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAGGTGCCACAGAGTCGTGGACTTAAA
63 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGGTGCCACGGAGTCGTGGACTTAAA
742902 AGG
127 AGG
* * * * * * *
742905 AATAAGATGCCACGGAGTCGTGGACTTAAAAGGAATAAGATGCCACGGGGTCGTGGACTTAAAAG
1 -A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
*
742970 GAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGTGGACTT
64 GAA-AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTT
743031 TAAGAAGGTA
Statistics
Matches: 722, Mismatches: 50, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
130 54 0.07
131 538 0.75
132 53 0.07
133 77 0.11
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (129 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGG
Found at i:743735 original size:116 final size:116
Alignment explanation
Indices: 743531--743765 Score: 443
Period size: 116 Copynumber: 2.0 Consensus size: 116
743521 CAATCGAGGC
* *
743531 GTGAGCAGAACTCCTTCACTTTTCTTGCCTTTTTATGTAACACCAAGATATCCTGATACAAATTT
1 GTGAGCAAAACTCCTTCACTTTTCTTGCCTTTTTATGTAACACCAAGATATCCTGAAACAAATTT
743596 TTAATCAATTATCAAATATTATCAGCTAAATGACAAATGCAAAGATGTGGT
66 TTAATCAATTATCAAATATTATCAGCTAAATGACAAATGCAAAGATGTGGT
743647 GTGAGCAAAACTCCTTCACTTTTCTTGCCTTTTTATGTAACACCAAGATATCCTGAAACAAATTT
1 GTGAGCAAAACTCCTTCACTTTTCTTGCCTTTTTATGTAACACCAAGATATCCTGAAACAAATTT
*
743712 TTAATCAATTATCAAATATTATCAGCTAAATGATAAATGCAAAGATGTGGT
66 TTAATCAATTATCAAATATTATCAGCTAAATGACAAATGCAAAGATGTGGT
743763 GTG
1 GTG
743766 GAGAGAGAAA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (116 bp):
GTGAGCAAAACTCCTTCACTTTTCTTGCCTTTTTATGTAACACCAAGATATCCTGAAACAAATTT
TTAATCAATTATCAAATATTATCAGCTAAATGACAAATGCAAAGATGTGGT
Found at i:744166 original size:17 final size:16
Alignment explanation
Indices: 744129--744172 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
744119 TTTTTGTTTG
*
744129 TTTGTTTCTTCTTT-T
1 TTTGTTTCTTTTTTAT
*
744144 TTT-TTCCTTTTTTAT
1 TTTGTTTCTTTTTTAT
744159 TTTGTTTCTTTTTT
1 TTTGTTTCTTTTTT
744173 GGAAAAGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 7 0.29
16 9 0.38
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTGTTTCTTTTTTAT
Found at i:747321 original size:34 final size:35
Alignment explanation
Indices: 747283--747349 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
747273 CCTTACAACA
747283 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
747317 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
747350 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:747829 original size:13 final size:13
Alignment explanation
Indices: 747811--747836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
747801 AATTTTTTTG
747811 TGTATCGATACAT
1 TGTATCGATACAT
747824 TGTATCGATACAT
1 TGTATCGATACAT
747837 ACTTTGTGTA
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:749749 original size:13 final size:13
Alignment explanation
Indices: 749731--749755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
749721 ACTGAAGCAA
749731 TGTATCGATACAT
1 TGTATCGATACAT
749744 TGTATCGATACA
1 TGTATCGATACA
749756 ATCTGGAAAA
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):
TGTATCGATACAT
Found at i:752986 original size:34 final size:35
Alignment explanation
Indices: 752948--753014 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
752938 CCTTACAACA
752948 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
752982 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
753015 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:753494 original size:13 final size:13
Alignment explanation
Indices: 753476--753501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
753466 AATTTTTTTG
753476 TGTATCGATACAT
1 TGTATCGATACAT
753489 TGTATCGATACAT
1 TGTATCGATACAT
753502 ACTTTGTGTA
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:758227 original size:52 final size:52
Alignment explanation
Indices: 758149--758277 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
758139 CGAAATATTA
758149 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
* *
758201 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
758253 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
758278 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
Found at i:758288 original size:52 final size:51
Alignment explanation
Indices: 758149--758297 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
758139 CGAAATATTA
*
758149 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
758201 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
758253 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
758298 ATGTATTGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:758377 original size:19 final size:18
Alignment explanation
Indices: 758353--758482 Score: 92
Period size: 19 Copynumber: 7.8 Consensus size: 18
758343 TAGCTTAAAT
758353 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
758372 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
758385 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
758404 TCTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
758417 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
758436 TCTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
758449 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
758469 TGTATCGATACAAA
1 TGTATCGATACAAA
758483 TCGTTGAAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 38
0.68 0.03 0.29
Matches are distributed among these distances:
13 31 0.35
14 3 0.03
16 6 0.07
18 2 0.02
19 33 0.38
20 13 0.15
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:758390 original size:13 final size:13
Alignment explanation
Indices: 758372--758460 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 13
758362 ACAAAACTTA
758372 TGTATCGATACAT
1 TGTATCGATACAT
758385 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
758403 ATCTATCGATACAT
1 -TGTATCGATACAT
758417 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
758435 ATCTATCGATACAT
1 -TGTATCGATACAT
758449 TGTATCGATACA
1 TGTATCGATACA
758461 ACACTTTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
13 28 0.47
14 2 0.03
16 12 0.20
18 2 0.03
19 16 0.27
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:758392 original size:32 final size:32
Alignment explanation
Indices: 758351--758480 Score: 224
Period size: 32 Copynumber: 4.0 Consensus size: 32
758341 AGTAGCTTAA
* *
758351 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATCTATCGATAC
758383 ATTGTATCGATACAACACTTATCTATCGATAC
1 ATTGTATCGATACAACACTTATCTATCGATAC
758415 ATTGTATCGATACAACACTTATCTATCGATAC
1 ATTGTATCGATACAACACTTATCTATCGATAC
*
758447 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATCTATCGATAC
758480 A
1 A
758481 AATCGTTGAA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 80 0.85
33 14 0.15
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATCTATCGATAC
Found at i:759609 original size:13 final size:13
Alignment explanation
Indices: 759591--759615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
759581 AGATTGCACA
759591 GTATCGATACATT
1 GTATCGATACATT
759604 GTATCGATACAT
1 GTATCGATACAT
759616 GACCAAATGT
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:759628 original size:20 final size:21
Alignment explanation
Indices: 759603--759655 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
759593 ATCGATACAT
*
759603 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
759623 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
759644 TGTATCGATACA
1 TGTATCGATACA
759656 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:759722 original size:13 final size:13
Alignment explanation
Indices: 759704--759729 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
759694 TACACACAAG
759704 ATGTATCGATACA
1 ATGTATCGATACA
759717 ATGTATCGATACA
1 ATGTATCGATACA
759730 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:759746 original size:33 final size:32
Alignment explanation
Indices: 759686--759749 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
759676 CTTAACTGTT
*
759686 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
759718 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
759750 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:765966 original size:105 final size:105
Alignment explanation
Indices: 765851--766073 Score: 412
Period size: 105 Copynumber: 2.1 Consensus size: 105
765841 ACCCTAAAAA
*
765851 GTATCGATACACATTTAAAAGTATCGATAA-ATGTTGCATTGTATCGATACATGAAAAAGATGTA
1 GTATCGATACACATTTAAAAGTATCGA-AACATGTTGCATTGTATCGATACATGAAAAAGATCTA
765915 TCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTT
65 TCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTT
*
765956 GTATCGATACACATTTAAAAGTATCGAAACATGTTGCATTGTATCGATATATGAAAAAGATCTAT
1 GTATCGATACACATTTAAAAGTATCGAAACATGTTGCATTGTATCGATACATGAAAAAGATCTAT
766021 CGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTT
66 CGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTT
766061 GTATCGATACACA
1 GTATCGATACACA
766074 AAGTATGTAT
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
104 2 0.02
105 113 0.98
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (105 bp):
GTATCGATACACATTTAAAAGTATCGAAACATGTTGCATTGTATCGATACATGAAAAAGATCTAT
CGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTT
Found at i:766097 original size:13 final size:13
Alignment explanation
Indices: 766079--766103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
766069 ACACAAAGTA
766079 TGTATCGATACAT
1 TGTATCGATACAT
766092 TGTATCGATACA
1 TGTATCGATACA
766104 CCATAAAATG
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):
TGTATCGATACAT
Found at i:766100 original size:32 final size:33
Alignment explanation
Indices: 766059--766126 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
766049 GTAGCCAAAC
*
766059 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
766091 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
766124 TTG
1 TTG
766127 GCTTGCAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:773731 original size:8 final size:8
Alignment explanation
Indices: 773715--773754 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
773705 CTCAAAAAGC
*
773715 AAAATAAA
1 AAAACAAA
773723 AAAACAAA
1 AAAACAAA
773731 AAAAC-AA
1 AAAACAAA
773738 AAAAC-AA
1 AAAACAAA
773745 AAAACAAA
1 AAAACAAA
773753 AA
1 AA
773755 CCAAAAAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 14 0.47
8 16 0.53
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAACAAA
Found at i:773761 original size:8 final size:7
Alignment explanation
Indices: 773707--773762 Score: 69
Period size: 7 Copynumber: 8.0 Consensus size: 7
773697 GCATCCTTCT
*
773707 CAAAAAG
1 CAAAAAA
*
773714 CAAAATA
1 CAAAAAA
773721 -AAAAAA
1 CAAAAAA
773727 CAAAAAAA
1 C-AAAAAA
773735 CAAAAAA
1 CAAAAAA
773742 CAAAAAA
1 CAAAAAA
*
773749 CAAAAAC
1 CAAAAAA
773756 CAAAAAA
1 CAAAAAA
773763 GCAATACAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.12
7 30 0.71
8 7 0.17
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (7 bp):
CAAAAAA
Found at i:775095 original size:28 final size:28
Alignment explanation
Indices: 775060--775896 Score: 953
Period size: 28 Copynumber: 29.5 Consensus size: 28
775050 TATGACACCT
*
775060 TTTCAAAGCCCACAAGTTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775087 TTCTCAAAGCCTACGAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
775116 ATTTTCAAAGCCCACAAGTCAGTGGCATCC
1 --TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * * *
775146 TTTCAGAGCCTACAAGTTAGTCGCTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775174 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775202 TTTCAAATCCCACGAGTCAGTGGCATCCC
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CC
* *
775231 TTTTCAAAGCCCACAAGTCAATGTCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775260 TTTCAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
775288 TTTCAAAGCCCACGAGTCAGTGGCATCCC
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CC
*
775317 TTTTCAAAGCCCACAAATCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
*
775346 TTTCAAAGCCCATAAGTCAGTGGCA-CTC
1 TTTCAAAGCCCACAAGTCAGTGGCATC-C
* * * * *
775374 TTTTAGAGCCCACAAGTTAGTGGCTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775402 TTTCAAAGTCCACAAG-CAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
775429 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775457 TTTCAAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
775485 TTTTAGAGCCCACAAGTCAGTGGCTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775513 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
775541 TTTCAAAGCCCACGAGTCAGTGGCATCTC
1 TTTCAAAGCCCACAAGTCAGTGGCATC-C
775570 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
1 -TTTCAAAGCCCACAAGTCAGTGGCAT-CC
775600 TTTTCAAAGCCCACAAGTCAGTGGCATCCC
1 -TTTCAAAGCCCACAAGTCAGTGGCAT-CC
* *
775630 TTTTCAAAGCCCATAAGTAAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* **
775659 TTTCAAAGCCTATGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
775687 TTTTAAAGCCTATGAA-TCAGTTGCATCC
1 TTTCAAAGCCCA-CAAGTCAGTGGCATCC
* * * * *
775715 TTTTAGAGCCCACAAGTTAGTGGCTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
775743 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775771 TTTCAAAGCCTACAAGTCAGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775799 TTTCAAAGCCCACGAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * **
775827 TTTCAGAGCCCACAAGTCAGTGGCTTTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
775855 TTTCAAAGCCCACAAGTAAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
775883 TTTTAAAACCCACA
1 TTTCAAAGCCCACA
775897 CAAGTCGGTG
Statistics
Matches: 681, Mismatches: 113, Indels: 31
0.83 0.14 0.04
Matches are distributed among these distances:
27 27 0.04
28 485 0.71
29 15 0.02
30 151 0.22
31 3 0.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:775536 original size:84 final size:85
Alignment explanation
Indices: 775057--775909 Score: 902
Period size: 86 Copynumber: 10.0 Consensus size: 85
775047 CAATATGACA
* ** * * *
775057 CCTTTTCAAAGCCCACAAGTTAGTGGCACCTTCTCAAAGCCTACGAGTCAGTGGCATCCATTTTC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCAT-C-TTTTC
775122 AAAGCCCACAAGTCAGTGGCAT
64 AAAGCCCACAAGTCAGTGGCAT
* * * * * * *
775144 CC-TTTCAGAGCCTACAAGTTAGTCGCTTCTTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAA
* *
775208 ATCCCACGAGTCAGTGGCAT
66 AGCCCACAAGTCAGTGGCAT
* * * * * * *
775228 CCCTTTTCAAAGCCCACAAGTCAATGTCATCCTTTCAAAGCCTACAAGTCAGTGGCACCCTTTCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCA
*
775293 AAGCCCACGAGTCAGTGGCAT
65 AAGCCCACAAGTCAGTGGCAT
* * * *
775314 CCCTTTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTT-
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTC
* *
775378 AGAGCCCACAAGTTAGTGGC-T
64 AAAGCCCACAAGTCAGTGGCAT
* *
775399 TCTTTTCAAAGTCCACAAG-CAGTGGCATTC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGC-TTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCA
* *
775462 AAGCCTACAAGTTAGTGGCAT
65 AAGCCCACAAGTCAGTGGCAT
* * * *
775483 CCTTTT-AGAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAA
*
775547 AGCCCACGAGTCAGTGGCAT
66 AGCCCACAAGTCAGTGGCAT
*
775567 CTCTTTTCAAAGCCCACAAGTCAGTGGCATCCCTTTTCAAAGCCCACAAGTCAGTGGCATCCCTT
1 C-CTTTTCAAAGCCCACAAGTCAGTGGC-T-TCTTTTCAAAGCCCACAAGTCAGTGGCAT--CTT
* *
775632 TTCAAAGCCCATAAGTAAGTGGCAT
61 TTCAAAGCCCACAAGTCAGTGGCAT
* ** * * * *
775657 CC-TTTCAAAGCCTATGAGTCAGTGGCATCCTTTT-AAAGCCTATGAA-TCAGTTGCATCCTTTT
1 CCTTTTCAAAGCCCACAAGTCAGTGGC-TTCTTTTCAAAGCCCA-CAAGTCAGTGGCAT-CTTTT
* *
775719 -AGAGCCCACAAGTTAGTGGC-T
63 CAAAGCCCACAAGTCAGTGGCAT
* * * * * *
775740 TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCTACAAGTCAGTGGTATCCTTTCAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAA
* *
775805 AGCCCACGAGTTAGTGGCAT
66 AGCCCACAAGTCAGTGGCAT
* * * *
775825 CC-TTTCAGAGCCCACAAGTCAGTGGCTTTTTTTCAAAGCCCACAAGTAAGTGGCATCCTTTTAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCA
* *
775889 AACCCACACAAGTCGGTGGCA
65 AAGCC-CACAAGTCAGTGGCA
775910 ACTTTCTCTA
Statistics
Matches: 650, Mismatches: 94, Indels: 45
0.82 0.12 0.06
Matches are distributed among these distances:
82 6 0.01
83 74 0.11
84 223 0.34
85 26 0.04
86 231 0.36
87 15 0.02
88 49 0.08
89 1 0.00
90 25 0.04
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (85 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAA
AGCCCACAAGTCAGTGGCAT
Found at i:776847 original size:101 final size:101
Alignment explanation
Indices: 776668--776856 Score: 236
Period size: 101 Copynumber: 1.9 Consensus size: 101
776658 CAAACCACAA
* * * * * *
776668 ATGCCATCATTTCTCGCTCTATCACCAGGGACACTTTATCGGCAACCGAAAGTAAGTTTAGGAGG
1 ATGCCATCATTTCTCGCTCTATCACCAGGGACACCTCAGCGACAACCGAAAGCAAGTTTAGAAGG
*
776733 GGAGGATCGAAGATGTATGGGGACGAACTTCGCCAG
66 GGAGGATCAAAGATGTATGGGGACGAACTTCGCCAG
* * * * *
776769 ATGCCATCCTTTCTCGCT-TCGTCACCGGGGACACCTCAGCGACAACCGGAAGCATGTTTAGAAG
1 ATGCCATCATTTCTCGCTCT-ATCACCAGGGACACCTCAGCGACAACCGAAAGCAAGTTTAGAAG
* *
776833 GGGAGGATTAAAGATGTGTGGGGA
65 GGGAGGATCAAAGATGTATGGGGA
776857 TGTTGGTGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
100 1 0.01
101 72 0.99
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (101 bp):
ATGCCATCATTTCTCGCTCTATCACCAGGGACACCTCAGCGACAACCGAAAGCAAGTTTAGAAGG
GGAGGATCAAAGATGTATGGGGACGAACTTCGCCAG
Found at i:777116 original size:30 final size:31
Alignment explanation
Indices: 777080--777155 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
777070 TGAATAGTAC
777080 ATGTATCGATACATTCTATTTT-TTAGCC-AG
1 ATGTATCGATACATTCTATTTTGTTA-CCTAG
*
777110 ATGTATCGATACATTCTGTTTTGTTACCTAG
1 ATGTATCGATACATTCTATTTTGTTACCTAG
777141 ATGTATCGATACATT
1 ATGTATCGATACATT
777156 GAATAATGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
30 23 0.53
31 20 0.47
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (31 bp):
ATGTATCGATACATTCTATTTTGTTACCTAG
Found at i:783476 original size:79 final size:78
Alignment explanation
Indices: 783254--783667 Score: 351
Period size: 79 Copynumber: 5.3 Consensus size: 78
783244 TTCCACCATC
** * * * * * * *
783254 GGGGATACTCTAACCTTGGTTTTATTTCTAAAACATCGAATTTCCCCTATTGGGGTTACTCCAAC
1 GGGGATACTC-AACCTCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAAC
*
783319 CCTATTATTTTTGA
65 CCTGTTATTTTTGA
* * * * *
783333 GGGGATACTCAAACCCTCATTTTTATTTCTAAAACACCTATTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTC-AA-CCTCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAA
783398 CCCTGTTATTTTTGA
64 CCCTGTTATTTTTGA
* ** ** * *
783413 GGGGATACTTCGACCTTGGTTTTATTTCTAAAATGTCAATTTTTTACAATCGAGGATACTCCAA-
1 GGGGATAC-TCAACCTCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAAC
* *
783477 TCTCGTTAATTTTGA
65 CCT-GTTATTTTTGA
* * * *
783492 GGGGATACTCCAACCCCAG-TTTATTTCTAAAATATCGATTTTTCACAAT-TAGGGATACTCTAA
1 GGGGATACT-CAACCTCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGA-GGATACTCCAA
* *
783555 CCCCGTTATTTTCGA
64 CCCTGTTATTTTTGA
* * * * *
783570 GAGGATACTCAAACTCCGGTTTTATTTCCAAAACATCGATTTTTCACCATCGAGGATACT----C
1 GGGGATACTCAACCT-CAGTTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAAC
783631 CC-GTTATTTTTGA
65 CCTGTTATTTTTGA
* *
783644 -GGGATACTCTAACCCCATTTTTAT
1 GGGGATACTC-AACCTCAGTTTTAT
783668 CTCCAAAATA
Statistics
Matches: 271, Mismatches: 54, Indels: 26
0.77 0.15 0.07
Matches are distributed among these distances:
73 15 0.06
74 13 0.05
75 3 0.01
77 5 0.02
78 59 0.22
79 111 0.41
80 63 0.23
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (78 bp):
GGGGATACTCAACCTCAGTTTTATTTCTAAAACATCGATTTTTCACAATCGAGGATACTCCAACC
CTGTTATTTTTGA
Found at i:783591 original size:157 final size:159
Alignment explanation
Indices: 783327--783631 Score: 391
Period size: 157 Copynumber: 1.9 Consensus size: 159
783317 ACCCTATTAT
* * * *
783327 TTTTGAGGGGATACTCAAACCCTCATTTTTATTTCTAAAACACCTATTTTTCATAATCGGGGATA
1 TTTTGAGGGGATACTCAAACCCTCATGTTTATTTCTAAAACACCGATTTTTCACAATCAGGGATA
* * * * * * * **
783392 CTCCAACCCTGTTATTTTTGAGGGGATACTTCGACCTTGGTTTTATTTCTAAAATGTCAATTTTT
66 CTCCAACCCCGTTATTTTCGAGAGGATACTTCAAACTCGGTTTTATTTCCAAAACATCAATTTTT
*
783457 TACAATCGAGGATACTCCAATCTCGTTAA
131 CACAATCGAGGATACTCCAATCTCGTTAA
* * * *
783486 TTTTGAGGGGATACTCCAACCC-CA-GTTTATTTCTAAAATATCGATTTTTCACAATTAGGGATA
1 TTTTGAGGGGATACTCAAACCCTCATGTTTATTTCTAAAACACCGATTTTTCACAATCAGGGATA
* *
783549 CTCTAACCCCGTTATTTTCGAGAGGATAC-TCAAACTCCGGTTTTATTTCCAAAACATCGATTTT
66 CTCCAACCCCGTTATTTTCGAGAGGATACTTCAAACT-CGGTTTTATTTCCAAAACATCAATTTT
*
783613 TCACCATCGAGGATACTCC
130 TCACAATCGAGGATACTCC
783632 CGTTATTTTT
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
156 5 0.04
157 96 0.77
158 2 0.02
159 21 0.17
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (159 bp):
TTTTGAGGGGATACTCAAACCCTCATGTTTATTTCTAAAACACCGATTTTTCACAATCAGGGATA
CTCCAACCCCGTTATTTTCGAGAGGATACTTCAAACTCGGTTTTATTTCCAAAACATCAATTTTT
CACAATCGAGGATACTCCAATCTCGTTAA
Found at i:787419 original size:28 final size:28
Alignment explanation
Indices: 787334--788002 Score: 689
Period size: 28 Copynumber: 23.4 Consensus size: 28
787324 CATTAGCTTG
*
787334 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTT-AAAAG-GGTGCCACTGACT
* * *
787364 CGTGTGGTCTTTGAAAAGAGTTACCACT-AGCT
1 --TGTGGGCTTT-AAAAG-GGTGCCACTGA-CT
*
787396 TGTGGACTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * *
787424 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * ** *
787452 TATGTGCTTTGAAAA-GACGCCACTAACT
1 TGTGGGCTTT-AAAAGGGTGCCACTGACT
**
787480 TGTGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTT-AAAAGGGTGCCACTGACT
*
787509 TGTGGGCTTTGAAAGGGTGCCACTGACTT
1 TGTGGGCTTTAAAAGGGTGCCACTGAC-T
* *
787538 GTGTGGGCTTTGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTAAAAGGGTGCCACTGACT
* *
787567 TGTGGGCTTTAAAAGAGTTCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
*
787595 TGTGGGGGCTTTGAAAGGGTGCCACTGACT
1 TGT--GGGCTTTAAAAGGGTGCCACTGACT
*
787625 TGTGGGCTTTAAAAGAGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
*
787653 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * * *
787681 GGTGGACTTTGAAAGGGTGCCCCTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * * *
787709 CGTGGGCTTTGAAAGGATGCCACTTACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* *
787737 TGTGGGCTTTGAAAATAGTTGCCA-TCGACT
1 TGTGGGCTTT-AAAA-GGGTGCCACT-GACT
** *
787767 CATGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTT-AAAAGGGTGCCACTGACT
787796 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * *
787824 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * *
787852 TTTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTT-AAAAGGGTGCCACTGACT
*
787881 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* ** *
787909 TATGGGCTTTGAAAA-TATGCCATTGACT
1 TGTGGGCTTT-AAAAGGGTGCCACTGACT
* * *
787937 TGTGGGCTTTGAAAGGGTGCCATTGATT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
787965 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
787993 TGTGGGCTTT
1 TGTGGGCTTT
788003 GAAGAGATGA
Statistics
Matches: 540, Mismatches: 82, Indels: 34
0.82 0.12 0.05
Matches are distributed among these distances:
27 3 0.01
28 352 0.65
29 76 0.14
30 82 0.15
31 1 0.00
32 26 0.05
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGGTGCCACTGACT
Found at i:787509 original size:85 final size:85
Alignment explanation
Indices: 787334--788005 Score: 763
Period size: 85 Copynumber: 7.8 Consensus size: 85
787324 CATTAGCTTG
* * *
787334 TGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGTGGTCTTTGAAAAGAGTTACCACT-AGCTTG
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAAG-G-TGCCACTGA-CTTG
* *
787398 TGGACTTT-AAAAGGGTGCCACTGACT
59 TGGGCTTTGAAAAGAGTGCCACTGACT
* * * * ** *
787424 TATGGGCTTTGAAAGGGTGCCACTAACTTATGTGCTTTGAAAAGACGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
*
787489 TGAAAAAAGTGCCACTGACT
66 TGAAAAGAGTGCCACTGACT
* *
787509 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGC
1 TGTGGGCTTTGAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC
*
787574 TTT-AAAAGAGTTCCACTGACT
64 TTTGAAAAGAGTGCCACTGACT
787595 TGTGGGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGG
1 TGT--GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGG
*
787659 CTTTG-AAAGGGTGCCACTGACT
63 CTTTGAAAAGAGTGCCACTGACT
* * * * *
787681 GGTGGACTTTGAAAGGGTGCCCCTGACTCGTGGGCTTTG-AAAGGATGCCACTTACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCT
*
787745 TTGAAAATAGTTGCCA-TCGACT
65 TTGAAAAGAG-TGCCACT-GACT
** * *
787767 CATGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGC
*
787831 TTTGAAATGA-TGCCACTGACT
64 TTTGAAAAGAGTGCCACTGACT
* * * * *
787852 TTTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCT
* *
787917 TTGAAAATA-TGCCATTGACT
65 TTGAAAAGAGTGCCACTGACT
* *
787937 TGTGGGCTTTGAAAGGGTGCCATTGATTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCT
788001 TTGAA
65 TTGAA
788006 GAGATGAACG
Statistics
Matches: 506, Mismatches: 56, Indels: 46
0.83 0.09 0.08
Matches are distributed among these distances:
83 4 0.01
84 123 0.24
85 141 0.28
86 101 0.20
87 86 0.17
88 37 0.07
89 4 0.01
90 10 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (85 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
TGAAAAGAGTGCCACTGACT
Found at i:789241 original size:15 final size:14
Alignment explanation
Indices: 789211--789271 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
789201 CCCTTTTTAA
* *
789211 TTTTTTGCTATTTT
1 TTTTTTGGTTTTTT
*
789225 TTTCTTGG--TTTT
1 TTTTTTGGTTTTTT
*
789237 TTTTTTGTTTTTTT
1 TTTTTTGGTTTTTT
789251 TTTTTTGGTTTTTT
1 TTTTTTGGTTTTTT
789265 TATTTTT
1 T-TTTTT
789272 TTGGTATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.26
14 24 0.62
15 5 0.13
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (14 bp):
TTTTTTGGTTTTTT
Found at i:789249 original size:8 final size:8
Alignment explanation
Indices: 789236--789274 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
789226 TTCTTGGTTT
789236 TTTTTTTG
1 TTTTTTTG
789244 TTTTTTT-
1 TTTTTTTG
*
789251 TTTTTTGG
1 TTTTTTTG
*
789259 TTTTTTTA
1 TTTTTTTG
789267 TTTTTTTG
1 TTTTTTTG
789275 GTATAAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:789250 original size:11 final size:11
Alignment explanation
Indices: 789211--789273 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 11
789201 CCCTTTTTAA
789211 TTTTTTGCTATTT
1 TTTTTTG-T-TTT
789224 TTTTCTTGGTTTT
1 TTTT-TT-GTTTT
789237 TTTTTTGTTTT
1 TTTTTTGTTTT
789248 TTTTTT-TTTGGT
1 TTTTTTGTTT--T
*
789260 TTTTTTATTTT
1 TTTTTTGTTTT
789271 TTT
1 TTT
789274 GGTATAAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
10 3 0.07
11 15 0.33
12 9 0.20
13 14 0.31
14 3 0.07
15 1 0.02
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:789250 original size:26 final size:26
Alignment explanation
Indices: 789211--789273 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
789201 CCCTTTTTAA
* *
789211 TTTTTTGCTATTTTTTTCTTGGTTTT
1 TTTTTTGTTTTTTTTTTCTTGGTTTT
*
789237 TTTTTTGTTTTTTTTTTTTTGGTTTT
1 TTTTTTGTTTTTTTTTTCTTGGTTTT
*
789263 TTTATT-TTTTT
1 TTTTTTGTTTTT
789274 GGTATAAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (26 bp):
TTTTTTGTTTTTTTTTTCTTGGTTTT
Found at i:789274 original size:17 final size:16
Alignment explanation
Indices: 789233--789276 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 16
789223 TTTTTCTTGG
789233 TTTTTTTTTT-G-TTT
1 TTTTTTTTTTGGTTTT
789247 TTTTTTTTTTGGTTTT
1 TTTTTTTTTTGGTTTT
789263 TTTATTTTTTTGGT
1 TTT-TTTTTTTGGT
789277 ATAAAGGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.37
15 1 0.04
16 6 0.22
17 10 0.37
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTGGTTTT
Found at i:792863 original size:163 final size:158
Alignment explanation
Indices: 792582--792907 Score: 415
Period size: 163 Copynumber: 2.0 Consensus size: 158
792572 ATTCTAATTA
* * * *
792582 TTTTTTCTAATTTTTTATATTCCTATGGGCATCCATAGGGGTATAAAAGATTTCAAAAACGTTTC
1 TTTTTTCTAATCTTTTATATTCCTATGGGCATCCATAGGAGTATAAAAGATTTAAAAAACATTTC
* * *
792647 GTATCCTTTCGGGCTTCCATTAGGGTACGAGATAGTATTTTTGAAAATAAATAAAATTAA-ATTG
66 GTATCCTTTCGGGCTTCCATTAGGGTACGAAATAGTATTTTCGAAAATAAATAAAATTAAGA-TA
*
792711 AATTAATACT-TTCGAG-ATAAATTTTAAT
130 AATTAATACTCTT-GAGAAAAAATTTTAAT
* *
792739 TTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGAGTATAAAATATTTTTTTTAAAAAAA
1 TTTTTTCTAATCTTTTATATTCCTATGGGCATCCATAGGAGTATAAAAGA-----TTT-AAAAAA
* * * * *
792804 TATTTCGTATCTTTTTGGGCTTCCATTAGGGTACGAAATGGTGTTTTCGAAAATAAATAAAATTA
60 CATTTCGTATCCTTTCGGGCTTCCATTAGGGTACGAAATAGTATTTTCGAAAATAAATAAAATTA
792869 AGATAAATTAATACTCTTGAGAAAAAATTTTAAT
125 AGATAAATTAATACTCTTGAGAAAAAATTTTAAT
*
792903 CTTTT
1 TTTTT
792908 ATATTCCTAT
Statistics
Matches: 144, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
157 46 0.32
162 3 0.02
163 77 0.53
164 18 0.12
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (158 bp):
TTTTTTCTAATCTTTTATATTCCTATGGGCATCCATAGGAGTATAAAAGATTTAAAAAACATTTC
GTATCCTTTCGGGCTTCCATTAGGGTACGAAATAGTATTTTCGAAAATAAATAAAATTAAGATAA
ATTAATACTCTTGAGAAAAAATTTTAAT
Found at i:798141 original size:15 final size:16
Alignment explanation
Indices: 798106--798144 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
798096 TATATATATG
798106 TTAAA-AATAAATTAA
1 TTAAATAATAAATTAA
*
798121 TAAAATAATAAA-TAA
1 TTAAATAATAAATTAA
798136 TTAAATAAT
1 TTAAATAAT
798145 TTGTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAATAATAAATTAA
Found at i:798478 original size:19 final size:20
Alignment explanation
Indices: 798454--798506 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
798444 CATTATGCTT
**
798454 TGTATCGATACATGT-TTAC
1 TGTATCGATACATGTACAAC
*
798473 TGTATCGATACATGTACAAT
1 TGTATCGATACATGTACAAC
798493 TGTATCGATACATG
1 TGTATCGATACATG
798507 AAATTGACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGTACAAC
Found at i:798572 original size:13 final size:13
Alignment explanation
Indices: 798554--798581 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
798544 TACATGGCAT
798554 ATTGTATCGATAC
1 ATTGTATCGATAC
798567 ATTGTATCGATAC
1 ATTGTATCGATAC
798580 AT
1 AT
798582 GATGAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:798580 original size:33 final size:32
Alignment explanation
Indices: 798538--798603 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
798528 CCACTGTTTA
*
798538 TATCGATACATGGCAT-ATTGTATCGATACATTG
1 TATCGATACAT-G-ATAATTATATCGATACATTG
798571 TATCGATACATGATGAATTATATCGATACATTG
1 TATCGATACATGAT-AATTATATCGATACATTG
798604 CTTCAAACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 2 0.07
32 1 0.03
33 27 0.90
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (32 bp):
TATCGATACATGATAATTATATCGATACATTG
Found at i:800213 original size:3 final size:3
Alignment explanation
Indices: 800192--800225 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
800182 CATCAAAGAC
* *
800192 GAT GAA GAT GAT AAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
800226 GTGACTCAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:804797 original size:13 final size:13
Alignment explanation
Indices: 804779--804814 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
804769 ATATTCTTTG
804779 TATCGATACATTA
1 TATCGATACATTA
804792 TATCGATACATTA
1 TATCGATACATTA
804805 TATCGATACA
1 TATCGATACA
804815 AGGGTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (13 bp):
TATCGATACATTA
Done.