Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold49
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: 1668912
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 42860 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:475604 original size:26 final size:25
Alignment explanation
Indices: 475555--475604 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
475545 ATTATAAATA
* *
475555 TTAATATTTAATATTAAATTATTTT
1 TTAATATTTAATAATAAATAATTTT
*
475580 TTAATATTTTAATAATCAATAATTT
1 TTAATA-TTTAATAATAAATAATTT
475605 GATATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAATATTTAATAATAAATAATTTT
Found at i:478871 original size:33 final size:33
Alignment explanation
Indices: 478828--478893 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
478818 AATTTCATAG
* *
478828 TGTATTGATACATAGCAA-TTTGTATCTATACAT
1 TGTATCGATACATAGCAACTTT-TATCGATACAT
*
478861 TGTATCGATACTTAGCAACTTTTATCGATACAT
1 TGTATCGATACATAGCAACTTTTATCGATACAT
478894 CTGCATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATAGCAACTTTTATCGATACAT
Found at i:479447 original size:21 final size:22
Alignment explanation
Indices: 479406--479450 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
479396 AATAGTTTTT
*
479406 TTAATAATCTCCCTTTTTATTTC
1 TTAATAATCT-CCTCTTTATTTC
479429 TTAATAATCT-CTCTTTATTTC
1 TTAATAATCTCCTCTTTATTTC
479450 T
1 T
479451 CCATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
23 10 0.48
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATAATCTCCTCTTTATTTC
Found at i:481536 original size:20 final size:20
Alignment explanation
Indices: 481511--481548 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
481501 GAAAACTCAG
481511 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTGCA
481531 ATGTATCGATACATTTTG
1 ATGTATCGATACATTTTG
481549 AAAAAATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTGCA
Found at i:488388 original size:79 final size:79
Alignment explanation
Indices: 488299--488962 Score: 656
Period size: 79 Copynumber: 8.4 Consensus size: 79
488289 GTTTCTTCAG
* * * * * ** *
488299 TGGTGAAAAATCGGTGCTTTAGAAATAAAATCGAGGTTAAAGTATCCCCTTGAAAATAATGGGGT
1 TGGTAAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
488364 TGGAGTATCCCCGA
66 TGGAGTATCCCCGA
* * * * * * * *
488378 TGGTAGAAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTTAGAAATAACAGAGT
1 TGGTAAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
*
488443 TGGAGTATCCCCAA
66 TGGAGTATCCCCGA
* ** * *
488457 TAGTAAAAAAATCAGTGTTTTAGGAATAAAA-CTGGGGTTAGAGTATCCCCTCAAAAATAACAGG
1 TGGT-AAAAAATTGGTGTTTTAGAAATAAAATC-GGGGTTAGAGTATCCCCTCAAAAATAACGGG
* * *
488521 ATTGGAGTATTCTCGA
64 GTTGGAGTATCCCCGA
** * * * * * * *
488537 TGGTGGAAAATCGATATTTTAGACATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACAGGAT
1 TGGTAAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
*
488602 TGAAGTATCCCCGA
66 TGGAGTATCCCCGA
* * * * * * *
488616 TAGTGAAAAAATTGGTATTTTA-AGAATAAAATTGGGGTAAAAGTATCCTCTCAAAAATAACGGA
1 TGGT-AAAAAATTGGTGTTTTAGA-AATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGG
*
488680 GTTGAAGTATCCCCGA
64 GTTGGAGTATCCCCGA
** ** * * *
488696 TGGTGAAAAAATCAGTGTTTTACG-AATAAAATCGAAGTT-GAAGTATCCCCACAGAAATAA-TG
1 TGGT-AAAAAATTGGTGTTTTA-GAAATAAAATCGGGGTTAG-AGTATCCCCTCAAAAATAACGG
* *
488758 GATTGGAGTATCCCTGA
63 GGTTGGAGTATCCCCGA
* * *
488775 TGGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGGGGT
1 TGGTAAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
*
488840 TGGAGTAT-CCTGA
66 TGGAGTATCCCCGA
* * * * * *
488853 TAGTAGAAAAATTGATATTTTAGGAATAAAATCGGGGTTAGAGTATTCCCTCAAAAATAACGAGG
1 TGGTA-AAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGG
488918 TTGGAGTATCCCCGA
65 TTGGAGTATCCCCGA
488933 TGGTAAAAAATTGGTGTTTTAGAAATAAAA
1 TGGTAAAAAATTGGTGTTTTAGAAATAAAA
488963 CTAGGGTTGG
Statistics
Matches: 477, Mismatches: 95, Indels: 26
0.80 0.16 0.04
Matches are distributed among these distances:
77 1 0.00
78 51 0.11
79 248 0.52
80 177 0.37
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
TGGTAAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGGT
TGGAGTATCCCCGA
Found at i:488479 original size:159 final size:159
Alignment explanation
Indices: 488304--488962 Score: 717
Period size: 159 Copynumber: 4.2 Consensus size: 159
488294 TTCAGTGGTG
* * * ** *
488304 AAAAATCGGTGCTTTAGAAATAAAATCGAGGTTAAAGTATCCCCTTGAAAATAATGGGGTTGGAG
1 AAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAG
* * * *
488369 TATCCCCGATGGTAG-AAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTTAGAA
66 TATCCCCGATGGTAGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAA
*
488433 ATAACAGAGTTGGAGTATCCCCAATAGTAA
131 ATAACAGAGTTGGAGTATCCCCGATAGT-A
** * * * *
488463 AAAAATCAGTGTTTTAGGAATAAAA-CTGGGGTTAGAGTATCCCCTCAAAAATAACAGGATTGGA
1 AAAAATTGGTGTTTTAGAAATAAAATC-GGGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGA
* * * * *
488527 GTATTCTCGATGGT-GGAAAATCGATATTTTAGACATAAAATCGGGGTTGGAGTATCCCCTCAAA
65 GTATCCCCGATGGTAGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAA
*
488591 AATAACAG-GATTGAAGTATCCCCGATAGTGA
130 AATAACAGAG-TTGGAGTATCCCCGATAGT-A
* * * * * *
488622 AAAAATTGGTATTTTA-AGAATAAAATTGGGGTAAAAGTATCCTCTCAAAAATAACGGAGTTGAA
1 AAAAATTGGTGTTTTAGA-AATAAAATCGGGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGA
* * * ** * *
488686 GTATCCCCGATGGT-GAAAAAATCAGTGTTTTACG-AATAAAATCGAAGTTGAAGTATCCCCACA
65 GTATCCCCGATGGTAGAAAAATTGA-TATTTTA-GAAATAAAATCGGGGTTGGAGTATCCCCTCA
* ** * * *
488749 GAAATAATGGA-TTGGAGTATCCCTGATGGTG
128 AAAATAACAGAGTTGGAGTATCCCCGATAGTA
* * *
488780 AAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGGGGTTGGAG
1 AAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAG
* * * * *
488845 TAT-CCTGATAGTAGAAAAATTGATATTTTAGGAATAAAATCGGGGTTAGAGTATTCCCTCAAAA
66 TATCCCCGATGGTAGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAA
*
488909 ATAAC-GAGGTTGGAGTATCCCCGATGGTA
131 ATAACAGA-GTTGGAGTATCCCCGATAGTA
488938 AAAAATTGGTGTTTTAGAAATAAAA
1 AAAAATTGGTGTTTTAGAAATAAAA
488963 CTAGGGTTGG
Statistics
Matches: 412, Mismatches: 75, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
156 3 0.01
157 42 0.10
158 112 0.27
159 217 0.53
160 37 0.09
161 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (159 bp):
AAAAATTGGTGTTTTAGAAATAAAATCGGGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAG
TATCCCCGATGGTAGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAA
ATAACAGAGTTGGAGTATCCCCGATAGTA
Found at i:488970 original size:79 final size:78
Alignment explanation
Indices: 488299--489041 Score: 613
Period size: 79 Copynumber: 9.4 Consensus size: 78
488289 GTTTCTTCAG
* ** * * ** * *
488299 TGGTGAAAAATCGGTGCTTTAGAAATAAAATCGAGGTTAAAGTATCCCCTTGAAAATAATGGGGT
1 TGGTAAAAAATCGGTATTTTAGAAATAAAAT-GGGGTTAGAGTATCCCCTCAAAAATAACGAGGT
488364 TGGAGTATCCCCGA
65 TGGAGTATCCCCGA
* * * * * * *
488378 TGGTAGAAAATTGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTTAGAAATAAC-AGAG
1 TGGTAAAAAATCGGTATTTTAGAAATAAAA-TGGGGTTAGAGTATCCCCTCAAAAATAACGAG-G
*
488442 TTGGAGTATCCCCAA
64 TTGGAGTATCCCCGA
* * * *
488457 TAGTAAAAAAATCAGTGTTTTAGGAATAAAACTGGGGTTAGAGTATCCCCTCAAAAATAAC-AGG
1 TGGT-AAAAAATCGGTATTTTAGAAATAAAA-TGGGGTTAGAGTATCCCCTCAAAAATAACGAGG
* *
488521 ATTGGAGTATTCTCGA
64 -TTGGAGTATCCCCGA
** * * *
488537 TGGTGGAAAATCGATATTTTAGACATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAAC-AGGA
1 TGGTAAAAAATCGGTATTTTAGAAATAAAAT-GGGGTTAGAGTATCCCCTCAAAAATAACGAGG-
*
488601 TTGAAGTATCCCCGA
64 TTGGAGTATCCCCGA
* * * * *
488616 TAGTGAAAAAATTGGTATTTTA-AGAATAAAATTGGGGTAAAAGTATCCTCTCAAAAATAACG-G
1 TGGT-AAAAAATCGGTATTTTAGA-AATAAAA-TGGGGTTAGAGTATCCCCTCAAAAATAACGAG
*
488679 AGTTGAAGTATCCCCGA
63 -GTTGGAGTATCCCCGA
* * ** * * *
488696 TGGTGAAAAAATCAGTGTTTTACG-AATAAAATCGAAGTT-GAAGTATCCCCACAGAAATAATG-
1 TGGT-AAAAAATCGGTATTTTA-GAAATAAAAT-GGGGTTAG-AGTATCCCCTCAAAAATAACGA
* *
488758 GATTGGAGTATCCCTGA
62 GGTTGGAGTATCCCCGA
* * * *
488775 TGGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGGGGT
1 TGGTAAAAAATCGGTATTTTAGAAATAAAAT-GGGGTTAGAGTATCCCCTCAAAAATAACGAGGT
*
488840 TGGAGTAT-CCTGA
65 TGGAGTATCCCCGA
* * * * *
488853 TAGTAGAAAAATTGATATTTTAGGAATAAAATCGGGGTTAGAGTATTCCCTCAAAAATAACGAGG
1 TGGTA-AAAAATCGGTATTTTAGAAATAAAAT-GGGGTTAGAGTATCCCCTCAAAAATAACGAGG
488918 TTGGAGTATCCCCGA
64 TTGGAGTATCCCCGA
* * * * * * ** * *
488933 TGGTAAAAAATTGGTGTTTTAGAAATAAAACTAGGGTTGGAATATCCTCTCAGGAATAACAAGGC
1 TGGTAAAAAATCGGTATTTTAGAAATAAAA-TGGGGTTAGAGTATCCCCTCAAAAATAACGAGGT
* *
488998 TAGAGTATCCTCGA
65 TGGAGTATCCCCGA
* ** *
489012 TGATGGAAAATCGTTATTTTAGAAATAAAA
1 TGGTAAAAAATCGGTATTTTAGAAATAAAA
489042 ACATCAATGA
Statistics
Matches: 543, Mismatches: 101, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
77 1 0.00
78 55 0.10
79 306 0.56
80 179 0.33
81 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (78 bp):
TGGTAAAAAATCGGTATTTTAGAAATAAAATGGGGTTAGAGTATCCCCTCAAAAATAACGAGGTT
GGAGTATCCCCGA
Found at i:491453 original size:20 final size:20
Alignment explanation
Indices: 491404--491455 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
491394 ATGCCTGAAC
* **
491404 GTATCAAAACATTGAGAAAT
1 GTATCAATACATCAAGAAAT
**
491424 GTATTGATACATCAAGAAAT
1 GTATCAATACATCAAGAAAT
491444 GTATCAATACAT
1 GTATCAATACAT
491456 ATGGGTTAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (20 bp):
GTATCAATACATCAAGAAAT
Found at i:491540 original size:20 final size:20
Alignment explanation
Indices: 491515--491566 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
491505 AAATAGTAAT
*
491515 TGTATCGATACATTTA-TTTA
1 TGTATCGATACA-TTACTGTA
*
491535 TGTATCGATACATTACTGTG
1 TGTATCGATACATTACTGTA
491555 TGTATCGATACA
1 TGTATCGATACA
491567 AATTATAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTACTGTA
Found at i:492177 original size:21 final size:20
Alignment explanation
Indices: 492129--492187 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
492119 CCATTGGACC
*
492129 AAATGTATCGATACAATTCTT
1 AAATGTATCTATACAA-TCTT
*
492150 -GATGTATCTATACAATCTT
1 AAATGTATCTATACAATCTT
492169 AAAATGTAT-TGATACAATC
1 -AAATGTATCT-ATACAATC
492188 GAAGGATAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 4 0.12
20 14 0.44
21 14 0.44
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (20 bp):
AAATGTATCTATACAATCTT
Found at i:492276 original size:33 final size:33
Alignment explanation
Indices: 492233--492297 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
492223 AATTTCATAG
* *
492233 TATATTGATACATAGCAATTTGTATCGATACAA
1 TATATCGATACATAGCAACTTGTATCGATACAA
* *
492266 TATATCGATACTTAGCAACTTGTATTGATACA
1 TATATCGATACATAGCAACTTGTATCGATACA
492298 TCTGCATCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (33 bp):
TATATCGATACATAGCAACTTGTATCGATACAA
Found at i:496077 original size:208 final size:209
Alignment explanation
Indices: 495802--496181 Score: 484
Period size: 208 Copynumber: 1.8 Consensus size: 209
495792 TGAGCAAGAA
*
495802 CTTTTCTCGCAATTTTTTAATTTTTTACAATGAATATCAATATAAATACTACTATGGCATCGATA
1 CTTTTCTCACAATTTTTTAATTTTTTACAATGAATATCAATATAAATACTACTA-GGCATCGATA
* * * * * *
495867 AAAATATATGATAGTTAATT-TTCAAATTT-CTTAAAAAAGACTTGAAA-TTTT-TAAAAAAAGA
65 AAAATATACGACAGCTAATTCGTCAAATTTGC-T-AAAAAGACCTGAAACTTTTCTAAAAAAAAA
*
495928 GAAATCTGAATGTGATATCACATTTAAAAATATATTTCAT-ATTTGTCAATTTAACACATCGTGG
128 GAAATCTG-ATGTGATATCACATTTAAAAATATATTCCATCATTTGTCAATTTAACACATCGTGG
495992 TATAAATGTCTATAGTAG
192 TATAAATGTCTATAGTAG
* ** * * *
496010 CTTTTCTCATAATTTTTTAATTTTTTGTAATGAGTATCGATATAAATATCATACTA-GCATTGAT
1 CTTTTCTCACAATTTTTTAATTTTTTACAATGAATATCAATATAAATA-C-TACTAGGCATCGAT
* * *
496074 AAAAATATACGACAGCTGATTCGTGAATTTTGCTAAAAAGACCTGAAACTTTTCTAAAAAAAAAG
64 AAAAATATACGACAGCTAATTCGTCAAATTTGCTAAAAAGACCTGAAACTTTTCTAAAAAAAAAG
* * *
496139 AAATTTGATTTGATATCACATTTAAAAATGTATTCCATCATTT
129 AAATCTGATGTGATATCACATTTAAAAATATATTCCATCATTT
496182 TCATTGAAAT
Statistics
Matches: 145, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
208 79 0.54
209 40 0.28
210 26 0.18
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (209 bp):
CTTTTCTCACAATTTTTTAATTTTTTACAATGAATATCAATATAAATACTACTAGGCATCGATAA
AAATATACGACAGCTAATTCGTCAAATTTGCTAAAAAGACCTGAAACTTTTCTAAAAAAAAAGAA
ATCTGATGTGATATCACATTTAAAAATATATTCCATCATTTGTCAATTTAACACATCGTGGTATA
AATGTCTATAGTAG
Found at i:508701 original size:15 final size:15
Alignment explanation
Indices: 508675--508716 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
508665 CTTATATTTA
*
508675 AATA-AAAT-TATTG
1 AATATAAATATATTC
508688 AATATAAATATATTC
1 AATATAAATATATTC
508703 AATATAAATATATT
1 AATATAAATATATT
508717 TGATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 4 0.15
14 4 0.15
15 18 0.69
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATAAATATATTC
Found at i:513756 original size:20 final size:20
Alignment explanation
Indices: 513733--513770 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
513723 TACATGTATG
513733 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
513753 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
513771 GTCTTGTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:513809 original size:20 final size:20
Alignment explanation
Indices: 513784--513835 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
513774 TTGTTACCCA
513784 GATGTATTGATACATTTTTC
1 GATGTATTGATACATTTTTC
513804 GATGTATTGATACATTTTTC
1 GATGTATTGATACATTTTTC
* *
513824 AATGTATCGATA
1 GATGTATTGATA
513836 TATCAAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
GATGTATTGATACATTTTTC
Found at i:522168 original size:27 final size:27
Alignment explanation
Indices: 522138--522747 Score: 587
Period size: 28 Copynumber: 22.2 Consensus size: 27
522128 CACGATTCAA
*
522138 TGGCATCCTTTTAAGTCCATAACTCCG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* * *
522165 TGGCATCCTTTTAAGTCTATAACTCTG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* *
522192 TGGCACCCTTTTAAAGTCCACAACTCTG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* *
522220 TGGTATCCTTTTAAGTCCACAACTCTG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* *
522247 TGGCA-CCCTTTAATGTCCACAACTCCA
1 TGGCATCCTTTTAA-GTCCACAACTCCG
* *
522274 TGGCACCCTTTTCAAGTCCAC-CCTTCCG
1 TGGCATCCTTTT-AAGTCCACAAC-TCCG
522302 TGGCATCCTTTTAAGTCCACAACTCCG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* *
522329 TGGCATCTTTTTAAAGTCCACAACTCTG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* * *
522357 TGGCACCCTTTCAAAGTCCACAACTCTG
1 TGGCATCCTTT-TAAGTCCACAACTCCG
* *
522385 TGGCATTCTTTTAAGTCCACAACTCTG
1 TGGCATCCTTTTAAGTCCACAACTCCG
*
522412 TGGCATTCTTTTAAGTCCACAACTCCG
1 TGGCATCCTTTTAAGTCCACAACTCCG
*
522439 TAGCATCCTTTTAAAGTCCACAACTCCG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* *
522467 TGGCACCCTTTTAAAGTCCACAACTTCG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* **
522495 TGGCAGCCTTTTAAGTCCACAACTTTG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* **
522522 TGGCA-CACTTTAAAGTCCACAACTTTG
1 TGGCATC-CTTTTAAGTCCACAACTCCG
* ** ** *
522549 TGGCACCCTTTTAAAGTTTACCCCTTCG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* *
522577 TGGTATCCTTTTAAGTCTACAACTCCG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* *
522604 TAGCATCTTTTTAAAGTCCACAACTCCG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
* * *** *
522632 TGACACCCTTTTAAAGTATTCAACTCTG
1 TGGCATCCTTTT-AAGTCCACAACTCCG
*
522660 TGGCATCCTTTTAAGTCCACAACTTCG
1 TGGCATCCTTTTAAGTCCACAACTCCG
* * *
522687 TGGCATCCTTTTTAAGCCCACAAGTCAG
1 TGGCATCC-TTTTAAGTCCACAACTCCG
* * * * *
522715 TGGCACCCTTCTAAAGTCTACAAGTCAG
1 TGGCATCCTT-TTAAGTCCACAACTCCG
522743 TGGCA
1 TGGCA
522748 CCCCTTTTTA
Statistics
Matches: 496, Mismatches: 72, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.02
27 233 0.47
28 253 0.51
29 2 0.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (27 bp):
TGGCATCCTTTTAAGTCCACAACTCCG
Found at i:522229 original size:55 final size:55
Alignment explanation
Indices: 522138--522755 Score: 615
Period size: 55 Copynumber: 11.2 Consensus size: 55
522128 CACGATTCAA
* * * *
522138 TGGCATCCTTTT-AAGTCCATAACTCCGTGGCATCCTTTTAAGTCTATAACTCTG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTG
* *
522192 TGGCACCCTTTTAAAGTCCACAACTCTGTGGTATCCTTTTAAGTCCACAACTCTG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTG
* * * * *
522247 TGGCACCC-TTTAATGTCCACAACTCCATGGCACCCTTTTCAAGTCCAC-CCTTCCG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAAC-TCTG
* *
522302 TGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTTAAAGTCCACAACTCTG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTG
* * *
522357 TGGCACCCTTTCAAAGTCCACAACTCTGTGGCATTCTTTTAAGTCCACAACTCTG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTG
** * *
522412 TGGCATTCTTTT-AAGTCCACAACTCCGTAGCATCCTTTTAAAGTCCACAACTCCG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTG
* * *
522467 TGGCACCCTTTTAAAGTCCACAACTTCGTGGCAGCCTTTTAAGTCCACAACTTTG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTG
* ** * ** **
522522 TGGCACAC-TTTAAAGTCCACAACTTTGTGGCACCCTTTTAAAGTTTACCCCT-TCG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCT-G
* * * * * *
522577 TGGTATCCTTTT-AAGTCTACAACTCCGTAGCATCTTTTTAAAGTCCACAACTCCG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTG
* *** *
522632 TGACACCCTTTTAAAGTATTCAACTCTGTGGCATCCTTTTAAGTCCACAACT-TCG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCT-G
* * * * * * * * * *
522687 TGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCTAAAGTCTACAAGTCAG
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTT-TTAAGTCCACAACTCTG
522743 TGGCACCCCTTTT
1 TGGCA-CCCTTTT
522756 TAAGCCCATA
Statistics
Matches: 462, Mismatches: 85, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
54 92 0.20
55 270 0.58
56 94 0.20
57 6 0.01
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (55 bp):
TGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTG
Found at i:522590 original size:165 final size:164
Alignment explanation
Indices: 522138--522747 Score: 708
Period size: 165 Copynumber: 3.7 Consensus size: 164
522128 CACGATTCAA
* * * *
522138 TGGCATCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAGTCTATAACTCTGTGGCACCCTTT
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
* * *
522203 TAAAGTCCACAACTCTGTGGTATCCTTTTAAGTCCACAACTCTGTGGCA-CCCTTTAATGTCCAC
66 TAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAA-GTCCAC
* * * * *
522267 AACTCCATGGCACCCTTTTCAAGTCCAC-CCTTCCG
130 AACTCCGTAGCATCCTTTTAAAGTCCACAAC-TCCG
* *
522302 TGGCATCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTAAAGTCCACAACTCTGTGGCACCCTT
1 TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCACCCTT
* ** *
522367 TCAAAGTCCACAACTCTGTGGCATTCTTTTAAGTCCACAACTCTGTGGCATTCTTTTAAGTCCAC
65 TTAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCAC
522432 AACTCCGTAGCATCCTTTTAAAGTCCACAACTCCG
130 AACTCCGTAGCATCCTTTTAAAGTCCACAACTCCG
* * * *
522467 TGGCACCCTTTTAAAGTCCACAACTTCGTGGCAGCCTTTTAAGTCCACAACTTTGTGGCACAC-T
1 TGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTT
* ** ** * *
522531 TTAAAGTCCACAACTTTGTGGCACCCTTTTAAAGTTTACCCCT-TCGTGGTATCCTTTTAAGTCT
65 TTAAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCT-GTGGCATCCTTTTAAGTCC
*
522595 ACAACTCCGTAGCATCTTTTTAAAGTCCACAACTCCG
128 ACAACTCCGTAGCATCCTTTTAAAGTCCACAACTCCG
* *** * *
522632 TGACACCCTTTTAAAGTATTCAACTCTGTGGCATCCTTTTAAGTCCACAACT-TCGTGGCATCCT
1 TGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCACCCT
* * * * * * * *
522696 TTTTAAGCCCACAAGTCAGTGGCACCCTTCTAAAGTCTACAAGTCAGTGGCA
64 TTTAAAGTCCACAACTCTGTGGCACCCTT-TTAAGTCCACAACTCTGTGGCA
522748 CCCCTTTTTA
Statistics
Matches: 383, Mismatches: 53, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
164 66 0.17
165 248 0.65
166 68 0.18
167 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (164 bp):
TGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
TAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACA
ACTCCGTAGCATCCTTTTAAAGTCCACAACTCCG
Found at i:522768 original size:29 final size:28
Alignment explanation
Indices: 522191--523738 Score: 386
Period size: 28 Copynumber: 53.8 Consensus size: 28
522181 CTATAACTCT
* * * *
522191 GTGGCACCCTTTTAAAGTCCACAACTCT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * * *
522219 GTGGTATCC-TTTTAAGTCCACAACTCT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* *
522246 GTGGCACCC--TTTAATGTCCACAACTCCA
1 GTGGCACCCTTTTTAA-GCCCACAAGT-CA
* * *** *
522274 -TGGCACCCTTTTCAAGTCCACCCTTCC
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * *
522301 GTGGCATCC-TTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * *
522328 GTGGCA-TCTTTTTAAAGTCCACAACTCT
1 GTGGCACCCTTTTT-AAGCCCACAAGTCA
** * * *
522356 GTGGCACCCTTTCAAAGTCCACAACTCT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
** * * *
522384 GTGGCATTC-TTTTAAGTCCACAACTCT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
** * * *
522411 GTGGCATTC-TTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * * * *
522438 GTAGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * *
522466 GTGGCACCCTTTTAAAGTCCACAACTTC-
1 GTGGCACCCTTTTTAAGCCCACAA-GTCA
* * * **
522494 GTGGCAGCC-TTTTAAGTCCACAACTTT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * * **
522521 GTGGCACAC-TTTAAAGTCCACAACTTT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* *** ***
522548 GTGGCACCCTTTTAAAGTTTACCCCTTC-
1 GTGGCACCCTTTTTAAGCCCA-CAAGTCA
* * * * * *
522576 GTGGTATCC-TTTTAAGTCTACAACTCC
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * * *
522603 GTAGCA-TCTTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTTT-AAGCCCACAAGTCA
* * **** * *
522631 GTGACACCCTTTTAAAGTATTCAACTCT
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * *
522659 GTGGCATCC-TTTTAAGTCCACAACTTC-
1 GTGGCACCCTTTTTAAGCCCACAA-GTCA
*
522686 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * *
522714 GTGGCACCCTTCTAAAGTCTACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
*
522742 GTGGCACCCCTTTTTAAGCCCATAAGTCA
1 GTGGCA-CCCTTTTTAAGCCCACAAGTCA
*** * *
522771 GTGGCATTATTTTAAAGCCCACACAAGTCG
1 GTGGCACCCTTTTTAAG-CC-CACAAGTCA
* * *
522801 GCGGCA-ACTTATTTGAAAGCCCACACAAGTCG
1 GTGGCACCCTT-TTT--AAG-CC-CACAAGTCA
** * *
522833 GTGGCAACCCATTTCAAAGTCCACAAGTTA
1 GTGGC-ACCC-TTTTTAAGCCCACAAGTCA
* ** ** **
522863 GTGGCATCAGTTCAAAGCCCACATAAGTTG
1 GTGGCACCCTTTTTAAGCCCAC--AAGTCA
* ** *
522893 GTGGCAACTCATTTCAAAGCCCACACAAGTCG
1 GTGGC-AC-CCTTTTTAAG-CC-CACAAGTCA
* * *
522925 GTGGCAACTCTTTTCAAAGGCCACAAGTCA
1 GTGGC-ACCCTTTT-TAAGCCCACAAGTCA
* * * *
522955 GTGGCA-TCTTTTCAAAAGACCACAAGTTA
1 GTGGCACCCTTTT--TAAGCCCACAAGTCA
* **
522984 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
** *
523012 GTGGCATACCCTTTCAAAGCCCACAAGTCG
1 GTGGC--ACCCTTTTTAAGCCCACAAGTCA
*** *
523042 GTGGCACCCTTCCAAAGCCCAAAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* *
523070 GTGGCACCCTTTTGAAGCCCATAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
*
523098 GTGGCACCCTTTTAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * * * * *
523126 ATGGCATACATTTTCAAAGCTCATAAGTCG
1 GTGGCA-CCCTTTT-TAAGCCCACAAGTCA
** * *
523156 GTGGCACCCTTTCAAAGCCCATAAGTTA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
*
523184 GTGGCA-CCTTTTTAAAGCTCACAAGTCA
1 GTGGCACCCTTTTT-AAGCCCACAAGTCA
* * * *
523212 GTGGCATACCTTTTCAAAGCTCACAAGTCG
1 GTGGCA-CCCTTTT-TAAGCCCACAAGTCA
*** * * *
523242 GTGGCACCCTTCCAAAGTCCATAAGTTA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
523270 GTGGCACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-CCCTTTTTAAGCCCACAAGTCA
*** ** *
523299 GTGGCATTATTTCAAAGCCCACACAAGTCG
1 GTGGCACCCTTTTTAAG-CC-CACAAGTCA
* **
523329 GTGGCAACTCATTTGAAAGCCCACGCAAGTC-
1 GTGGC-AC-CCTTTTTAAGCCCA--CAAGTCA
* ** * * **
523360 GATGGCAACTCATTTCAAATCCTAAACAAGTTG
1 G-TGGC-AC-CCTTTTTAAGCC--CACAAGTCA
**
523393 GTGGCAACCCATTTCAAAGCCCACAAGTCA
1 GTGGC-ACCC-TTTTTAAGCCCACAAGTCA
* ** ** *
523423 GTGGCATCAATTGAAAGCTCATACAAGTCA
1 GTGGCACCCTTTTTAAGC-C-CACAAGTCA
** **
523453 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGC-ACCC-TTTTTAAG-CC-CACAAGTCA
**
523485 GTGGCAACCCATTTCAAAGCTCACACAAGTCA
1 GTGGC-ACCC-TTTTTAAGC-C-CACAAGTCA
* ** * *
523517 GTGGTAACCCATTTCAAAGCTCACAAATCA
1 GTGG-CACCC-TTTTTAAGCCCACAAGTCA
*
523547 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTT-TAAGCCCACAAGTCA
** **
523575 GTGGCACCCTTTCAAAGCCCACAAGTTG
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * * * *
523603 GTGGTATCCTTTTCAAAGCCTACAAGTCG
1 GTGGCACCCTTTT-TAAGCCCACAAGTCA
* * * *
523632 GTGACA-TCTTTTCAAAGCCCACAAATCA
1 GTGGCACCCTTTT-TAAGCCCACAAGTCA
* **
523660 ATGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
** ** *
523688 GTGGCATTCTTTCAAAGTCCACAAGTCA
1 GTGGCACCCTTTTTAAGCCCACAAGTCA
* * **
523716 ATGACACCCTTTCAAAGCCCACA
1 GTGGCACCCTTTTTAAGCCCACA
523739 CAAGTCGATG
Statistics
Matches: 1218, Mismatches: 233, Indels: 138
0.77 0.15 0.09
Matches are distributed among these distances:
26 11 0.01
27 207 0.17
28 506 0.42
29 133 0.11
30 172 0.14
31 14 0.01
32 162 0.13
33 5 0.00
34 6 0.00
35 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
GTGGCACCCTTTTTAAGCCCACAAGTCA
Found at i:522881 original size:92 final size:91
Alignment explanation
Indices: 522734--523738 Score: 630
Period size: 92 Copynumber: 11.4 Consensus size: 91
522724 TCTAAAGTCT
* ** * * *
522734 ACAAGTCAGTGGCACCCCTTTTTAAGCCCATAAGTCAGTGGCATTATTTTAAAGCCCACACAAGT
1 ACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGT
* * *
522799 CGGCGGCAACTTATTTGAAAGCCCAC
66 CGGTGGCAACTCATTTCAAAGCCCAC
* * * * *
522825 ACAAGTCGGTGGCAACCCATTTCAAAGTCCACAAGTTAGTGGCATCAGTTCAAAGCCCACATAAG
1 ACAAGTCAGTGGC-ACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAG
*
522890 TTGGTGGCAACTCATTTCAAAGCCCAC
65 TCGGTGGCAACTCATTTCAAAGCCCAC
* * * * * *
522917 ACAAGTCGGTGGCAACTCTTTTCAAAGGCCACAAGTCAGTGGCATCTTTTCAAAAG-AC-CACAA
1 ACAAGTCAGTGGC-ACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTC-AAAGCCCACACAA
** *
522980 GTTAGTGGC-A-TCCTTTCAAAG-CC-C
64 GTCGGTGGCAACTCATTTCAAAGCCCAC
* * * *
523004 ACAAGTCAGTGGCATACCC-TTTCAAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCA-A-AA
1 ACAAGTCAGTGGC--ACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAA
* * **
523066 GTCAGTGGC-AC-CCTTTTGAAG-CC-C
64 GTCGGTGGCAACTCATTTCAAAGCCCAC
* * * * *
523090 ATAAGTCAGTGGCACCC-TTTTAAAGCCCACAAGTCAATGGCATACATTTTCAAAG--CTCATAA
1 ACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAT-CA-TTTCAAAGCCCACACAA
*
523152 GTCGGTGGC-AC-CCTTTCAAAG-CC-C
64 GTCGGTGGCAACTCATTTCAAAGCCCAC
* * * * * * *
523176 ATAAGTTAGTGGCA-CCTTTTTAAAGCTCACAAGTCAGTGGCATACCTTTTCAAAG--CTCACAA
1 ACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAT--CATTTCAAAGCCCACACAA
* * *
523238 GTCGGTGGC-AC-CCTTCCAAAG-TC-C
64 GTCGGTGGCAACTCATTTCAAAGCCCAC
* * * ** *
523262 ATAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCATTATTTCAAAGCCCACACAAGT
1 ACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGT
*
523327 CGGTGGCAACTCATTTGAAAGCCCAC
66 CGGTGGCAACTCATTTCAAAGCCCAC
* * * * ** *
523353 GCAAGTC-GATGGCAACTCATTTCAAATCCTAAACAAGTTGGTGGCAACCCATTTCAAAG-CC-C
1 ACAAGTCAG-TGGC-ACCCATTTCAAAGCC--CACAAGTCAGTGGC-A-TCATTTCAAAGCCCAC
* * * * *
523415 ACAAGTCAGTGGC-A-TCAATTGAAAGCTCAT
60 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
** * *
523445 ACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCTCACA
1 ACAAGTCAGTGGC-ACCCATTTCAAAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGCCCACA
* * * *
523510 CAAGTCAGTGGTAACCCATTTCAAAGCTCAC
61 CAAGTCGGTGGCAACTCATTTCAAAGCCCAC
* * *
523541 A-AA-TCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGT
1 ACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGT
* * * * *
523601 TGGTGGTATC-CTTTTCAAAG-CC-T
66 CGGTGGCAACTCATTTCAAAGCCCAC
* * * * * * * *
523624 ACAAGTCGGTGACA-TCTTTTCAAAGCCCACAAATCAATGGCACCCTTTCAAAG-CC-CACAAGT
1 ACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGT
* * *
523686 CAGTGGC-ATTC-TTTCAAAG-TC-C
66 CGGTGGCAACTCATTTCAAAGCCCAC
* *
523708 ACAAGTCAATGACACCC-TTTCAAAGCCCACA
1 ACAAGTCAGTGGCACCCATTTCAAAGCCCACA
523739 CAAGTCGATG
Statistics
Matches: 760, Mismatches: 119, Indels: 77
0.79 0.12 0.08
Matches are distributed among these distances:
83 1 0.00
84 65 0.09
85 79 0.10
86 169 0.22
87 85 0.11
88 17 0.02
89 18 0.02
90 15 0.02
91 35 0.05
92 193 0.25
93 10 0.01
94 45 0.06
95 6 0.01
96 22 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (91 bp):
ACAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGT
CGGTGGCAACTCATTTCAAAGCCCAC
Found at i:522885 original size:28 final size:28
Alignment explanation
Indices: 522686--523738 Score: 609
Period size: 28 Copynumber: 35.8 Consensus size: 28
522676 CCACAACTTC
* **
522686 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
** * *
522714 GTGGCA-CCCTTCTAAAGTCTACAAGTCA
1 GTGGCATCATTTC-AAAGCCCACAAGTCA
* * ** *
522742 GTGGCACCCCTTTTTAAGCCCATAAGTCA
1 GTGGCA-TCATTTCAAAGCCCACAAGTCA
* * *
522771 GTGGCATTATTTTAAAGCCCACACAAGTCG
1 GTGGCATCATTTCAAAG-CC-CACAAGTCA
* * * *
522801 GCGGCAACTTATTTGAAAGCCCACACAAGTCG
1 GTGGC-A-TCATTTCAAAG-CC-CACAAGTCA
* * *
522833 GTGGCAACCCATTTCAAAGTCCACAAGTTA
1 GTGGC-A-TCATTTCAAAGCCCACAAGTCA
* **
522863 GTGGCATCAGTTCAAAGCCCACATAAGTTG
1 GTGGCATCATTTCAAAGCCCAC--AAGTCA
*
522893 GTGGCAACTCATTTCAAAGCCCACACAAGTCG
1 GTGGC-A-TCATTTCAAAG-CC-CACAAGTCA
* *
522925 GTGGCAACTCTTTTCAAAGGCCACAAGTCA
1 GTGGC-A-TCATTTCAAAGCCCACAAGTCA
* * *
522955 GTGGCATCTTTTCAAAAGACCACAAGTTA
1 GTGGCATCATTTC-AAAGCCCACAAGTCA
*
522984 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
523012 GTGGCATACCCTTTCAAAGCCCACAAGTCG
1 GTGGCAT--CATTTCAAAGCCCACAAGTCA
* * * *
523042 GTGGCACCCTTCCAAAGCCCAAAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * ** *
523070 GTGGCACCCTTTTGAAGCCCATAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
523098 GTGGCACCCTTTTAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * * *
523126 ATGGCATACATTTTCAAAGCTCATAAGTCG
1 GTGGCAT-CA-TTTCAAAGCCCACAAGTCA
* * * *
523156 GTGGCACCCTTTCAAAGCCCATAAGTTA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * * *
523184 GTGGCACCTTTTTAAAGCTCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
523212 GTGGCATACCTTTTCAAAGCTCACAAGTCG
1 GTGGCAT--CATTTCAAAGCCCACAAGTCA
* * * * * *
523242 GTGGCACCCTTCCAAAGTCCATAAGTTA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * **
523270 GTGGCACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-TCATTTCAAAGCCCACAAGTCA
* *
523299 GTGGCATTATTTCAAAGCCCACACAAGTCG
1 GTGGCATCATTTCAAAG-CC-CACAAGTCA
*
523329 GTGGCAACTCATTTGAAAGCCCACGCAAGTC-
1 GTGGC-A-TCATTTCAAAGCCCA--CAAGTCA
* * **
523360 GATGGCAACTCATTTCAAATCCTAAACAAGTTG
1 G-TGGC-A-TCATTTCAAAGCC--CACAAGTCA
*
523393 GTGGCAACCCATTTCAAAGCCCACAAGTCA
1 GTGGC-A-TCATTTCAAAGCCCACAAGTCA
* * *
523423 GTGGCATCAATTGAAAGCTCATACAAGTCA
1 GTGGCATCATTTCAAAGC-C-CACAAGTCA
* **
523453 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGC-A-TCATTTCAAAG-CC-CACAAGTCA
*
523485 GTGGCAACCCATTTCAAAGCTCACACAAGTCA
1 GTGGC-A-TCATTTCAAAGC-C-CACAAGTCA
* * * *
523517 GTGGTAACCCATTTCAAAGCTCACAAATCA
1 GTGG-CA-TCATTTCAAAGCCCACAAGTCA
* *
523547 GTGGCACCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * **
523575 GTGGCACCCTTTCAAAGCCCACAAGTTG
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * * *
523603 GTGGTATCCTTTTCAAAGCCTACAAGTCG
1 GTGGCAT-CATTTCAAAGCCCACAAGTCA
* * *
523632 GTGACATCTTTTCAAAGCCCACAAATCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
523660 ATGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
*
523688 GTGGCATTC-TTTCAAAGTCCACAAGTCA
1 GTGGCA-TCATTTCAAAGCCCACAAGTCA
* * * *
523716 ATGACACCCTTTCAAAGCCCACA
1 GTGGCATCATTTCAAAGCCCACA
523739 CAAGTCGATG
Statistics
Matches: 837, Mismatches: 147, Indels: 82
0.79 0.14 0.08
Matches are distributed among these distances:
27 5 0.01
28 354 0.42
29 99 0.12
30 172 0.21
31 10 0.01
32 189 0.23
33 4 0.00
34 4 0.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (28 bp):
GTGGCATCATTTCAAAGCCCACAAGTCA
Found at i:523101 original size:86 final size:85
Alignment explanation
Indices: 522686--523738 Score: 743
Period size: 86 Copynumber: 11.9 Consensus size: 85
522676 CCACAACTTC
* ** * * *
522686 GTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCC-TTCTAAAGTCTACAAGTCAGTGGCACC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCAAC
** *
522750 CCTTTTTAAGCCCATAAGTCA
65 CCTTTCAAAGCCCACAAGTCA
*** * * * ** * *
522771 GTGGCATTATTTTAAAGCCCACACAAGTCGGCGGCAACTTATTTGAAAGCCCACACAAGTCGGTG
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTG
* *
522836 GCAACCCATTTCAAAGTCCACAAGTTA
60 GCAACCC-TTTCAAAGCCCACAAGTCA
* ** ** * *
522863 GTGGCATCAGTTCAAAGCCCACATAAGTTGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTG
1 GTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTG
* *
522928 GCAACTCTTTTCAAAGGCCACAAGTCA
60 GCAAC-CCTTTCAAAGCCCACAAGTCA
* * * * *
522955 GTGGCATCTTTTCAAAAGACCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATA
1 GTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-A
*
523020 CCCTTTCAAAGCCCACAAGTCG
64 CCCTTTCAAAGCCCACAAGTCA
* * ** *
523042 GTGGCACCCTTCCAAAGCCCAAAAGTCAGTGGCACCCTTTTGAAGCCCATAAGTCAGTGGC-ACC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACC
*
523106 CTTTTAAAGCCCACAAGTCA
66 CTTTCAAAGCCCACAAGTCA
* ** * * * * *
523126 ATGGCATACATTTTCAAAGCTCATAAGTCGGTGGCACCCTTTCAAAGCCCATAAGTTAGTGGC-A
1 GTGGC--ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAA
* * *
523190 CCTTTTTAAAGCTCACAAGTCA
64 CCCTTTCAAAGCCCACAAGTCA
* * * * * * * *
523212 GTGGCATACCTTTTCAAAGCTCACAAGTCGGTGGCACCCTTCCAAAGTCCATAAGTTAGTGGCAC
1 GTGGC--ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAA
**
523277 CCCTTTTTAAGCCCACAAGTCA
64 CCCTTTCAAAGCCCACAAGTCA
*** * * *
523299 GTGGCATTATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACGCAAGTC-GAT
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCA--CAAGTCAG-T
* * * **
523363 GGCAACTCATTTCAAATCCTAAACAAGTTG
59 GGCAAC-CCTTTCAAAGCC--CACAAGTCA
* ** * *
523393 GTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCAATTGAAAGCTCATACAAGTCAGTGGC
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC-C-CACAAGTCAGTGGC
**
523458 AACCCATTTCAAAGCCCACACAAGTTG
62 AACCC-TTTCAAAG-CC-CACAAGTCA
* * *
523485 GTGGCAACCCATTTCAAAGCTCACACAAGTCAGTGGTAACCCATTTCAAAGCTCACAAATCAGTG
1 GTGGC-ACCC-TTTCAAAGC-C-CACAAGTCAGTGG-CACCC-TTTCAAAGCCCACAAGTCAGTG
*
523550 GC-ACCTTTTCAAAGCCCACAAGTCA
60 GCAACCCTTTCAAAGCCCACAAGTCA
** * * * * * *
523575 GTGGCACCCTTTCAAAGCCCACAAGTTGGTGGTATCCTTTTCAAAGCCTACAAGTCGGTGAC-AT
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCAAC
* *
523639 CTTTTCAAAGCCCACAAATCA
65 CCTTTCAAAGCCCACAAGTCA
* ** * * *
523660 ATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTCAAAGTCCACAAGTCAATGAC-ACC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACC
523724 CTTTCAAAGCCCACA
66 CTTTCAAAGCCCACA
523739 CAAGTCGATG
Statistics
Matches: 797, Mismatches: 133, Indels: 77
0.79 0.13 0.08
Matches are distributed among these distances:
84 61 0.08
85 94 0.12
86 183 0.23
87 93 0.12
88 17 0.02
89 27 0.03
90 20 0.03
91 41 0.05
92 173 0.22
93 18 0.02
94 50 0.06
95 5 0.01
96 15 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (85 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACC
CTTTCAAAGCCCACAAGTCA
Found at i:523412 original size:64 final size:63
Alignment explanation
Indices: 522790--523600 Score: 323
Period size: 58 Copynumber: 13.6 Consensus size: 63
522780 TTTTAAAGCC
* * ** * * * *
522790 CACACAAGTCGGCGGCAACTTATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA-GT
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCAC-CAAGTCGATGGCAACTCATTTCAAACCT
* * * * * *
522853 C-CACAAGTTAGTGGC-A-TCAGTTCAAAGCCCACATAAGTTGGTGGCAACTCATTTCAAAGCC-
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCAC-CAAGTCGATGGCAACTCATTTCAAA-CCT
* * * * * ***
522914 CACACAAGTCGGTGGCAACTCTTTTCAAAGGCCA-CAAGTC-AGTGGC-A-TCTTTTCAAAAGA
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGA-TGGCAACTCATTTCAAACCT
* * * *
522974 C-CACAAGTTAGTGGC-ATCC-TTTCAAAGCCCA-CAAGTC-AGTGGCATAC-CCTTTCAAAGC-
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGA-TGGCA-ACTCATTTCAAACCT
* * * * ** *
523032 C-CACAAGTCGGTGGC-ACCC-TTCCAAAGCCCA-AAAGTC-AGTGGC-AC-CCTTTTGAAGC-
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGA-TGGCAACTCATTTCAAACCT
* * * *
523088 C-CATAAGTCAGTGGC-ACCC-TTTTAAAGCCCA-CAAGTCAATGGC-A-TACATTTTCAAAGCT
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGATGGCAACT-CA-TTTCAAACCT
* * * * * * *
523147 --CATAAGTCGGTGGC-ACCC-TTTCAAAGCCCA-TAAGT-TAGTGGC-AC-CTTTTTAAAGCT
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGA-TGGCAACTCATTTCAAACCT
* * * * * *
523203 --CACAAGTCAGTGGCATA-CCTTTTCAAAGCTCA-CAAGTCGGTGGC-AC-CCTTCCAAA-GT
1 CACACAAGTCAGTGGCA-ACCCATTTCAAAGCCCACCAAGTCGATGGCAACTCATTTCAAACCT
* * * ** *
523260 C-CATAAGTTAGTGGC-ACCCCTTTTTAAGCCCA-CAAGTC-AGTGGC-A-TTATTTCAAAGCC-
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGA-TGGCAACTCATTTCAAA-CCT
* * *
523318 CACACAAGTCGGTGGCAACTCATTTGAAAGCCCACGCAAGTCGATGGCAACTCATTTCAAATCCT
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCAC-CAAGTCGATGGCAACTCATTTCAAA-CCT
* ** * * *
523383 -AAACAAGTTGGTGGCAACCCATTTCAAAGCCCA-CAAGTC-AGTGGC-A-TCAATTGAAAGCT
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGA-TGGCAACTCATTTCAAACCT
* * * * *
523442 CATACAAGTCAGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCT
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCAC-CAAGTCGATGGCAACTCATTTCAAACCT
* * * * *
523506 CACACAAGTCAGTGGTAACCCATTTCAAAGCTCA-CAAATC-AGTGGC-AC-CTTTTCAAAGC-
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGA-TGGCAACTCATTTCAAACCT
523565 C-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCA-CAAGT
1 CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGT
523601 TGGTGGTATC
Statistics
Matches: 600, Mismatches: 105, Indels: 93
0.75 0.13 0.12
Matches are distributed among these distances:
56 85 0.14
57 62 0.10
58 138 0.23
59 35 0.06
60 107 0.18
61 7 0.01
62 68 0.11
63 5 0.01
64 93 0.16
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (63 bp):
CACACAAGTCAGTGGCAACCCATTTCAAAGCCCACCAAGTCGATGGCAACTCATTTCAAACCT
Found at i:523903 original size:48 final size:48
Alignment explanation
Indices: 523828--524093 Score: 381
Period size: 48 Copynumber: 5.5 Consensus size: 48
523818 GGCACCTTTA
* * * *
523828 TTAGCTCAATATCGCTGGCTTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
523876 TTAGCTTAATGTCGATAGCCTTGAATCAACACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* *
523924 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCTC
1 TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
523972 TTAGCTCAATGTCGCT-GACCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTAG-CCTTGAATCAGCACATTGTCCACTTTTCCC
* *
524020 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
1 TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
524068 TTAACTCGATGTCGTTAGCTTTGAAT
1 TTAGCTCAATGTCGTTAGCCTTGAAT
524094 TGGCACGTTG
Statistics
Matches: 197, Mismatches: 19, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 195 0.99
49 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:524004 original size:144 final size:144
Alignment explanation
Indices: 523828--524093 Score: 424
Period size: 144 Copynumber: 1.8 Consensus size: 144
523818 GGCACCTTTA
* * *
523828 TTAGCTCAATATCGCTGGCTTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTTAATGTCGATA
1 TTAGCTCAATATCGCTGACCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGATA
* *
523893 GCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCAATGTCGTTGGCCTTGAATCAGCACAT
66 GCCTTGAATCAACACATTGTCCACTTTTCCCTTAACTCAATGTCGTTAGCCTTGAATCAGCACAT
523958 TGTCCACTTTTCTC
131 TGTCCACTTTTCTC
* * *
523972 TTAGCTCAATGTCGCTGACCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGTTG
1 TTAGCTCAATATCGCTGACCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGATA
* * * *
524037 GCCTTGAATCAGCACATTGTCCATTTTTCCCTTAACTCGATGTCGTTAGCTTTGAAT
66 GCCTTGAATCAACACATTGTCCACTTTTCCCTTAACTCAATGTCGTTAGCCTTGAAT
524094 TGGCACGTTG
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
144 110 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (144 bp):
TTAGCTCAATATCGCTGACCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGATA
GCCTTGAATCAACACATTGTCCACTTTTCCCTTAACTCAATGTCGTTAGCCTTGAATCAGCACAT
TGTCCACTTTTCTC
Found at i:529986 original size:340 final size:340
Alignment explanation
Indices: 529366--530045 Score: 1342
Period size: 340 Copynumber: 2.0 Consensus size: 340
529356 ATCCTTAACA
529366 AAACCAAAGCAATTATAATTATGCAGCTTGGAATGAAGCAATTATAACAATGTAGAGAACTCTTA
1 AAACCAAAGCAATTATAATTATGCAGCTTGGAATGAAGCAATTATAACAATGTAGAGAACTCTTA
529431 TCTTGGGGCCTGGAGGTCGATAGTACATGTCTTTTTTGTTATTCAAAACATGAATCTAGAGATCA
66 TCTTGGGGCCTGGAGGTCGATAGTACATGTCTTTTTTGTTATTCAAAACATGAATCTAGAGATCA
* *
529496 TATTTTTTTTGAGTGTGATTTTTTGAGAACCATCTAGAAGGAAGTGCTTACTCTCTGCCATCTTC
131 TATTTTTTTTGAGTGTGATTTTTCGAAAACCATCTAGAAGGAAGTGCTTACTCTCTGCCATCTTC
529561 GAAAGAAAGTTACTACTTAGGAGAATGAGTTTCAATGGACAGTACGAAATCTAAAAGGTAAATCT
196 GAAAGAAAGTTACTACTTAGGAGAATGAGTTTCAATGGACAGTACGAAATCTAAAAGGTAAATCT
529626 TTAATCTCAATTATTTTGAGAATCGCTTGGAATGCTTTGATCTACCATGTATGGAAGGAAAGAAA
261 TTAATCTCAATTATTTTGAGAATCGCTTGGAATGCTTTGATCTACCATGTATGGAAGGAAAGAAA
529691 TAATAGATGTCATGG
326 TAATAGATGTCATGG
529706 AAACCAAAGCAATTATAATTATGCAGCTTGGAATGAAGCAATTATAACAATGTAGAGAACTCTTA
1 AAACCAAAGCAATTATAATTATGCAGCTTGGAATGAAGCAATTATAACAATGTAGAGAACTCTTA
529771 TCTTGGGGCCTGGAGGTCGATAGTACATGTCTTTTTTGTTATTCAAAACATGAATCTAGAGATCA
66 TCTTGGGGCCTGGAGGTCGATAGTACATGTCTTTTTTGTTATTCAAAACATGAATCTAGAGATCA
529836 TATTTTTTTTGAGTGTGATTTTTCGAAAACCATCTAGAAGGAAGTGCTTACTCTCTGCCATCTTC
131 TATTTTTTTTGAGTGTGATTTTTCGAAAACCATCTAGAAGGAAGTGCTTACTCTCTGCCATCTTC
529901 GAAAGAAAGTTACTACTTAGGAGAATGAGTTTCAATGGACAGTACGAAATCTAAAAGGTAAATCT
196 GAAAGAAAGTTACTACTTAGGAGAATGAGTTTCAATGGACAGTACGAAATCTAAAAGGTAAATCT
529966 TTAATCTCAATTATTTTGAGAATCGCTTGGAATGCTTTGATCTACCATGTATGGAAGGAAAGAAA
261 TTAATCTCAATTATTTTGAGAATCGCTTGGAATGCTTTGATCTACCATGTATGGAAGGAAAGAAA
530031 TAATAGATGTCATGG
326 TAATAGATGTCATGG
530046 TCGATCACCG
Statistics
Matches: 338, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
340 338 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (340 bp):
AAACCAAAGCAATTATAATTATGCAGCTTGGAATGAAGCAATTATAACAATGTAGAGAACTCTTA
TCTTGGGGCCTGGAGGTCGATAGTACATGTCTTTTTTGTTATTCAAAACATGAATCTAGAGATCA
TATTTTTTTTGAGTGTGATTTTTCGAAAACCATCTAGAAGGAAGTGCTTACTCTCTGCCATCTTC
GAAAGAAAGTTACTACTTAGGAGAATGAGTTTCAATGGACAGTACGAAATCTAAAAGGTAAATCT
TTAATCTCAATTATTTTGAGAATCGCTTGGAATGCTTTGATCTACCATGTATGGAAGGAAAGAAA
TAATAGATGTCATGG
Found at i:530595 original size:4 final size:4
Alignment explanation
Indices: 530582--530622 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
530572 GATACATATT
*
530582 TAAA TAAAA TAAA TAAA TAAA TAAA TAATT TAAA TAAA TAA
1 TAAA T-AAA TAAA TAAA TAAA TAAA TAA-A TAAA TAAA TAA
530623 TAAGTATAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 26 0.79
5 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:530604 original size:17 final size:18
Alignment explanation
Indices: 530582--530622 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
530572 GATACATATT
530582 TAAATAAAATAA-ATAAA
1 TAAATAAAATAATATAAA
*
530599 TAAAT-AAATAATTTAAA
1 TAAATAAAATAATATAAA
530616 TAAATAA
1 TAAATAA
530623 TAAGTATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATAAAATAATATAAA
Found at i:530608 original size:21 final size:21
Alignment explanation
Indices: 530582--530622 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
530572 GATACATATT
530582 TAAATAAAATAAATAAATAAA
1 TAAATAAAATAAATAAATAAA
**
530603 TAAATAATTTAAATAAATAA
1 TAAATAAAATAAATAAATAA
530623 TAAGTATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAATAAAATAAATAAATAAA
Found at i:531150 original size:15 final size:15
Alignment explanation
Indices: 531130--531194 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
531120 GAATATTAAT
531130 TATATTATGTATTTA
1 TATATTATGTATTTA
*
531145 TATATTATGTATATA
1 TATATTATGTATTTA
*
531160 TAATAATT-TATATATTA
1 T-AT-ATTATGTAT-TTA
531177 -ATA-TATGTATTT-
1 TATATTATGTATTTA
531189 TATATT
1 TATATT
531195 TATATACACT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
13 6 0.15
14 6 0.15
15 17 0.43
16 6 0.15
17 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TATATTATGTATTTA
Found at i:531842 original size:2 final size:2
Alignment explanation
Indices: 531835--531871 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
531825 TTTATCTCTG
531835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
531872 GTGTACCGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:532299 original size:2 final size:2
Alignment explanation
Indices: 532292--532326 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
532282 TGAGGTAAAC
532292 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
532327 TTTACAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:534573 original size:2 final size:2
Alignment explanation
Indices: 534566--534591 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
534556 GTTAGATATT
534566 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
534592 TAGTTCTAAC
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:535048 original size:124 final size:124
Alignment explanation
Indices: 534902--535148 Score: 370
Period size: 124 Copynumber: 2.0 Consensus size: 124
534892 TTAATTTTGG
534902 TTTTTAAGCATCAAGGTTGTTAGCTTTTAAGTGTTAAGTATTTTCTTTAAAGTCTATATGGAATA
1 TTTTTAAGCATCAAGGTTGTTAGCTTTTAAGTGTTAAGTATTTTCTTTAAAGTCTATATGGAATA
* * *
534967 ATATTTCTAGTTCT-TTTAGGGTTAGTATTGGTAGTAGCTTATATAATACTATTTCTTTA
66 AGAGTTCTAGTT-TGTTTAGGGTTAGGATTGGTAGTAGCTTATATAATACTATTTCTTTA
** * * *
535026 TTTTTAAGTGTCAAGGTTGTTAGCTTTTAAGTGTTATGTATTTTCTTTGAAGTCTATTTGGAATA
1 TTTTTAAGCATCAAGGTTGTTAGCTTTTAAGTGTTAAGTATTTTCTTTAAAGTCTATATGGAATA
* * * *
535091 AGAGTTCTGGTTTGTTTAGGGTTAGGATTGGTAGTAGGTTATATGATGCTATTTCTTT
66 AGAGTTCTAGTTTGTTTAGGGTTAGGATTGGTAGTAGCTTATATAATACTATTTCTTT
535149 TGAGGATAGA
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
123 1 0.01
124 109 0.99
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (124 bp):
TTTTTAAGCATCAAGGTTGTTAGCTTTTAAGTGTTAAGTATTTTCTTTAAAGTCTATATGGAATA
AGAGTTCTAGTTTGTTTAGGGTTAGGATTGGTAGTAGCTTATATAATACTATTTCTTTA
Found at i:537094 original size:2 final size:2
Alignment explanation
Indices: 537089--537129 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
537079 CTTATCTCCT
537089 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
537130 TTGAAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:543567 original size:16 final size:16
Alignment explanation
Indices: 543546--543578 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
543536 AATTCTTTGC
543546 ATCCAAAATATTAGTT
1 ATCCAAAATATTAGTT
*
543562 ATCCAAAATATTTGTT
1 ATCCAAAATATTAGTT
543578 A
1 A
543579 GACACTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (16 bp):
ATCCAAAATATTAGTT
Found at i:544239 original size:24 final size:24
Alignment explanation
Indices: 544207--544253 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
544197 GTTAACATTG
*
544207 TAATCAGCATCATATTAGAGATTC
1 TAATCAGCATAATATTAGAGATTC
*
544231 TAATTAGCATAATATTAGAGATT
1 TAATCAGCATAATATTAGAGATT
544254 ATTTTCTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (24 bp):
TAATCAGCATAATATTAGAGATTC
Found at i:550542 original size:24 final size:24
Alignment explanation
Indices: 550514--550561 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
550504 TCTAAATATT
550514 ATTTTTAAATATA-AATTTATTAA
1 ATTTTTAAATATATAATTTATTAA
* *
550537 ATTTTTAATTTTATAATTTATTAA
1 ATTTTTAAATATATAATTTATTAA
550561 A
1 A
550562 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTTAAATATATAATTTATTAA
Found at i:556628 original size:65 final size:66
Alignment explanation
Indices: 556539--556669 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 66
556529 TATTTGATTC
* *
556539 TTGAGAGGTTTTTTTTATCATTATAATGCCTTTGCATACTTAGCAATGGATGATGCACAATATAG
1 TTGAGAGGTTTTTTCTATCATTATAATGCATTTGCATACTTAGCAATGGATGATGCACAATATAG
556604 G
66 G
556605 TTGAGAGG-TTTTTCTATCATTATAATGCATTTGCATACTTAGCAATGGATGATGCACAATATAG
1 TTGAGAGGTTTTTTCTATCATTATAATGCATTTGCATACTTAGCAATGGATGATGCACAATATAG
556669 G
66 G
556670 CTTAAGGATT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 55 0.87
66 8 0.13
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (66 bp):
TTGAGAGGTTTTTTCTATCATTATAATGCATTTGCATACTTAGCAATGGATGATGCACAATATAG
G
Found at i:559177 original size:30 final size:27
Alignment explanation
Indices: 559121--559177 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
559111 TTTAAAAGTA
*
559121 GGGTTGGAGTATCCCCTCGAAAAAATT
1 GGGTTGGAGTATCCCATCGAAAAAATT
*
559148 GGGTTGGAGTATACCCGATGGATAAAAATT
1 GGGTTGGAGTAT-CCC-ATCGA-AAAAATT
559178 TTGATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.48
28 3 0.12
29 3 0.12
30 7 0.28
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (27 bp):
GGGTTGGAGTATCCCATCGAAAAAATT
Found at i:561619 original size:51 final size:52
Alignment explanation
Indices: 561504--561639 Score: 195
Period size: 52 Copynumber: 2.6 Consensus size: 52
561494 AACCTACATA
561504 TATCGATAC-ATCGAAGAATGTATCAATACATTTGAGTCAAAAACTCAAAATG
1 TATCGATACAAT-GAAGAATGTATCAATACATTTGAGTCAAAAACTCAAAATG
* * * *
561556 TATCTATACAATGAAGAATGTATCAATACATTTGGGTCAAAACCT-AGAATG
1 TATCGATACAATGAAGAATGTATCAATACATTTGAGTCAAAAACTCAAAATG
* *
561607 TATCGATACAATGAACAATGTATCGATACATTT
1 TATCGATACAATGAAGAATGTATCAATACATTT
561640 TTTTCCAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
51 35 0.46
52 39 0.51
53 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (52 bp):
TATCGATACAATGAAGAATGTATCAATACATTTGAGTCAAAAACTCAAAATG
Found at i:562778 original size:28 final size:31
Alignment explanation
Indices: 562732--562789 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
562722 ATTTTTTATT
562732 TATTATAATTTTAAAAATA-AAAAATAAAAA
1 TATTATAATTTTAAAAATATAAAAATAAAAA
*
562762 TATTA-AA-TTTAATAATATAAAAATAAAA
1 TATTATAATTTTAAAAATATAAAAATAAAA
562790 TACTTGCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.35
29 12 0.46
30 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
TATTATAATTTTAAAAATATAAAAATAAAAA
Found at i:567499 original size:2 final size:2
Alignment explanation
Indices: 567492--567519 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
567482 AATTTTCATT
567492 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
567520 AAGCCCACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:567846 original size:17 final size:17
Alignment explanation
Indices: 567826--567861 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
567816 TTATACTTAT
567826 ATCCAAATATGCATATA
1 ATCCAAATATGCATATA
*
567843 ATCCGAATATGCATATA
1 ATCCAAATATGCATATA
567860 AT
1 AT
567862 ATAAAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (17 bp):
ATCCAAATATGCATATA
Found at i:577388 original size:52 final size:52
Alignment explanation
Indices: 577241--577369 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
577231 CGAAATATGA
*
577241 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * * * *
577293 AAATTTGCTTGTATGTATCAATACATTTCATAATGTATCGATACATCTAGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
577345 AAATTTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
577370 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:577465 original size:13 final size:13
Alignment explanation
Indices: 577447--577562 Score: 70
Period size: 13 Copynumber: 7.5 Consensus size: 13
577437 AGCTTCGTAG
577447 CGATACATTGTAT
1 CGATACATTGTAT
577460 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
577479 CGATACATTGTAT
1 CGATACATTGTAT
577492 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
577511 CGATACATTGTAT
1 CGATACATTGTAT
577524 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
577543 CGATACATTGTAT
1 CGATACATTGTAT
577556 CGATACA
1 CGATACA
577563 ACACTTATGT
Statistics
Matches: 85, Mismatches: 0, Indels: 36
0.70 0.00 0.30
Matches are distributed among these distances:
13 35 0.41
14 2 0.02
15 2 0.02
16 14 0.16
17 2 0.02
18 2 0.02
19 28 0.33
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:577479 original size:19 final size:19
Alignment explanation
Indices: 577455--577601 Score: 159
Period size: 19 Copynumber: 8.7 Consensus size: 19
577445 AGCGATACAT
*
577455 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
577474 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
577487 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
577506 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
577519 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
577538 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
577551 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
577570 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
577589 TGTATCGATACAA
1 TGTATCGATACAA
577602 ATCGTAGAAA
Statistics
Matches: 109, Mismatches: 1, Indels: 36
0.75 0.01 0.25
Matches are distributed among these distances:
13 27 0.25
14 3 0.03
16 17 0.16
18 3 0.03
19 59 0.54
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:577488 original size:32 final size:32
Alignment explanation
Indices: 577447--577581 Score: 261
Period size: 32 Copynumber: 4.2 Consensus size: 32
577437 AGCTTCGTAG
*
577447 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
577479 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
577511 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
577543 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
577575 CGATACA
1 CGATACA
577582 ACACTTATGT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 102 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:577542 original size:51 final size:51
Alignment explanation
Indices: 577487--577601 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 51
577477 ATCGATACAT
577487 TGTATCGATACAACACTTATGTATCGAT-ACA-T-TGTATCGATACAACACTTA
1 TGTATCGATACAACA--T-TGTATCGATAACACTATGTATCGATACAACACTTA
577538 TGTATCGAT---ACATTGTATCGATACAACACTTATGTATCGATACAACACTTA
1 TGTATCGATACAACATTGTATCGAT--AACAC-TATGTATCGATACAACACTTA
577589 TGTATCGATACAA
1 TGTATCGATACAA
577602 ATCGTAGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
45 9 0.16
46 1 0.02
48 6 0.11
50 1 0.02
51 37 0.67
54 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (51 bp):
TGTATCGATACAACATTGTATCGATAACACTATGTATCGATACAACACTTA
Found at i:593711 original size:75 final size:77
Alignment explanation
Indices: 593577--593719 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 77
593567 CCAATAAATT
* * * * * *
593577 AAATGTCATTAAAGATAAATTGTGTCTTTACCTCATGATTAATATAGCATGAGTTCAAATTATGG
1 AAATGTCATTAAAGATAAACTATGTCTTTACCTAATGACTAATACAACATGAGTTCAAATTATGG
593642 GCACAATGGATG
66 GCACAATGGATG
*
593654 AAATGTCATTAAAGAT-AACTATGTC-TTACTTAATGACTAATACAACATGAGTTCAAATTATGG
1 AAATGTCATTAAAGATAAACTATGTCTTTACCTAATGACTAATACAACATGAGTTCAAATTATGG
593717 GCA
66 GCA
593720 TAATAATTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 36 0.61
76 7 0.12
77 16 0.27
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (77 bp):
AAATGTCATTAAAGATAAACTATGTCTTTACCTAATGACTAATACAACATGAGTTCAAATTATGG
GCACAATGGATG
Found at i:598873 original size:52 final size:52
Alignment explanation
Indices: 598791--598912 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
598781 TGAAAAGTTG
* * *
598791 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAATTTT
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTA
*
598843 CCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTA
598895 CCTGCATGTATCGATACA
1 CCTGCATGTATCGATACA
598913 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTA
Found at i:598925 original size:52 final size:51
Alignment explanation
Indices: 598791--598932 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 51
598781 TGAAAAGTTG
* *
598791 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAATTTT
1 CCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTA
* *
598843 CCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTA
*
598895 CCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
598933 ATCGATACAT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (51 bp):
CCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTA
Found at i:599023 original size:13 final size:13
Alignment explanation
Indices: 599005--599062 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
598995 ACAAAACTTA
599005 TGTATCGATACAT
1 TGTATCGATACAT
599018 TGTATCGATACAATACTTT
1 TGTATCGATAC---A---T
599037 ATGTATCGATACAT
1 -TGTATCGATACAT
599051 TGTATCGATACA
1 TGTATCGATACA
599063 ATACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:599043 original size:20 final size:20
Alignment explanation
Indices: 599018--599083 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
599008 ATCGATACAT
599018 TGTATCGATACAATACTTTA
1 TGTATCGATACAATACTTTA
599038 TGTATCGATAC---A---T-
1 TGTATCGATACAATACTTTA
599051 TGTATCGATACAATACTTTA
1 TGTATCGATACAATACTTTA
599071 TGTATCGATACAA
1 TGTATCGATACAA
599084 ATCGTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 24 0.62
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATACTTTA
Found at i:599044 original size:33 final size:33
Alignment explanation
Indices: 598984--599082 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
598974 AGTAGCTTAA
*
598984 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAATACTTTATGTATCGATAC
599016 ATTGTATCGATACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAATACTTTATGTATCGATAC
599049 ATTGTATCGATACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAATACTTTATGTATCGATAC
599082 A
1 A
599083 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 17 0.26
33 48 0.74
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
ATTGTATCGATACAATACTTTATGTATCGATAC
Found at i:601963 original size:28 final size:30
Alignment explanation
Indices: 601908--601963 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
601898 AATCCAAGAT
*
601908 GTAATTAAGTATGGCTGAATTAAATAAAAG
1 GTAATTAAGTATGGATGAATTAAATAAAAG
* *
601938 GTAATTAA-T-TGGATGACTTAATTAAA
1 GTAATTAAGTATGGATGAATTAAATAAA
601964 TAGTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 1 0.04
30 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (30 bp):
GTAATTAAGTATGGATGAATTAAATAAAAG
Found at i:602190 original size:21 final size:21
Alignment explanation
Indices: 602164--602214 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
602154 TTATCTTGTG
602164 ATATTAAT-TATTTGATGATTA
1 ATATTAATATATTTGATGA-TA
602185 ATATTAAATACTATTTGATGATA
1 ATATT-AATA-TATTTGATGATA
602208 ATATTAA
1 ATATTAA
602215 AAAGATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 7 0.26
24 10 0.37
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (21 bp):
ATATTAATATATTTGATGATA
Found at i:603736 original size:166 final size:166
Alignment explanation
Indices: 603564--603908 Score: 385
Period size: 167 Copynumber: 2.1 Consensus size: 166
603554 AGTTTTTCAT
* * * *
603564 TTTTCTTTTGAAAACTT-CTC-GTTTCCGAAATATAAAGTTTTCTTCTCCGTAAATTTTTTCGAG
1 TTTTCTTTTGAAAA-TTCCTCAATTTCCAAAATACAAAGCTTTCTTCTCCGTAAATTTTTTCGAG
* * * * * *
603627 AAAATTTTCATTGGTTTAAAGTTTTTAATATTCATCAAATATTATCACTTAGTTACCATCAAATC
65 AAAATCTTCATTGGTTTAAAATTTTTAAAATTCATAAAATATTATCACTTAATCACCATCAAATC
603692 AGTTTCAAAAAA-TTCATTTTATTCCATGAATTTTTTTA
130 AGTTTCAAAAAATTTC-TTTTATTCCATGAA-TTTTTTA
* * ** * * *
603730 TTTTCTTTTG-GAATTCCTCATATTTTCAAAATACGGAGCTTTGTTCTTCGTAATTTTTTTCGAG
1 TTTTCTTTTGAAAATTCCTCA-ATTTCCAAAATACAAAGCTTTCTTCTCCGTAAATTTTTTCGAG
* * * * **
603794 AAGATCTTCATTGGTTTAAAATTTTTAAAATTCATAAAATATTATTATTTAATCACTATTTAATC
65 AAAATCTTCATTGGTTTAAAATTTTTAAAATTCATAAAATATTATCACTTAATCACCATCAAATC
* *
603859 AGTTTTAAAAAATTTCTTTTATTTCATGAATTTTTTA
130 AGTTTCAAAAAATTTCTTTTATTCCATGAATTTTTTA
603896 TTTT-TTCTTGAAA
1 TTTTCTT-TTGAAA
603909 TTTTTCTTGT
Statistics
Matches: 147, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
164 2 0.01
165 7 0.05
166 24 0.16
167 111 0.76
168 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (166 bp):
TTTTCTTTTGAAAATTCCTCAATTTCCAAAATACAAAGCTTTCTTCTCCGTAAATTTTTTCGAGA
AAATCTTCATTGGTTTAAAATTTTTAAAATTCATAAAATATTATCACTTAATCACCATCAAATCA
GTTTCAAAAAATTTCTTTTATTCCATGAATTTTTTA
Found at i:603993 original size:166 final size:165
Alignment explanation
Indices: 603606--604092 Score: 506
Period size: 166 Copynumber: 2.9 Consensus size: 165
603596 TAAAGTTTTC
* * *
603606 TTCTCCGTAAATTTTTTCGAGAAAATTTTCATTGGTTTAAAGTTTTTAATATTCATCAAATATTA
1 TTCTCCGTAAATATTTTCGAGAAGATTTTCATTGGTTTAAA-TTTTTAAAATTCATCAAATATTA
* * * * * * *
603671 TCACTTAGTTACCATCAAATCAGTTTCAAAAAA-TTCATTTTATTCCATGAATTTTTTTATTTTC
65 TCATTTAATCACTATAAAATCAGTTTTAAAAAATTTC-TTTTATTTCATGAA-TTTTTTATTTT-
* * * *
603735 TT-TTGGAATTCCTCATATTTTCAAAATACGGAGCTTTG
127 TTCTTGAAATTTCTCTTGTTTTCAAAATACGGAGCTTTG
* * * * *
603773 TTCTTCGTAATTTTTTTCGAGAAGATCTTCATTGGTTTAAAATTTTTAAAATTCATAAAATATTA
1 TTCTCCGTAAATATTTTCGAGAAGATTTTCATTGGTTT-AAATTTTTAAAATTCATCAAATATTA
* **
603838 TTATTTAATCACTATTTAATCAGTTTTAAAAAATTTCTTTTATTTCATGAATTTTTTATTTTTTC
65 TCATTTAATCACTATAAAATCAGTTTTAAAAAATTTCTTTTATTTCATGAATTTTTTATTTTTTC
* * *
603903 TTGAAATTTTTCTTGTTTTTAAAATACGGAG-TTTT
130 TTGAAATTTCTCTTGTTTTCAAAATACGGAGCTTTG
603938 TTACTCCGTAAATATTTTC-A-AAGGGATTTTTC-TTGGTTTATAATTTTTAAAATTCATCAAAT
1 TT-CTCCGTAAATATTTTCGAGAA--GA-TTTTCATTGGTTTA-AATTTTTAAAATTCATCAAAT
* * * * * * *
604000 ATCATCATTTAATTCA-TAAAAAATCATTTTTGAAAAATTT-ATTTATTTTCATGAGTTTTTCAT
61 ATTATCATTTAA-TCACTATAAAATCAGTTTTAAAAAATTTCTTTTA-TTTCATGAATTTTTTAT
604063 TTTTTCTTTGAAA-TTCTCTTGTTTTCAAAA
124 TTTTTC-TTGAAATTTCTCTTGTTTTCAAAA
604093 AACTAAGTTT
Statistics
Matches: 270, Mismatches: 39, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
164 2 0.01
165 13 0.05
166 143 0.53
167 106 0.39
168 6 0.02
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (165 bp):
TTCTCCGTAAATATTTTCGAGAAGATTTTCATTGGTTTAAATTTTTAAAATTCATCAAATATTAT
CATTTAATCACTATAAAATCAGTTTTAAAAAATTTCTTTTATTTCATGAATTTTTTATTTTTTCT
TGAAATTTCTCTTGTTTTCAAAATACGGAGCTTTG
Found at i:604134 original size:166 final size:166
Alignment explanation
Indices: 603598--604157 Score: 470
Period size: 166 Copynumber: 3.4 Consensus size: 166
603588 CCGAAATATA
* * * * * *
603598 AAGTTTTCTTCTCCGTAAATTTTTTCGAGAA-AATTTTCATTGGTTTAAAGTTTTTAATATTCAT
1 AAGTTTTCTACTCCATAAATATTTTCGAGAAGATTTTTC-TTGGTTTAAAATTTTTAAAATTCAT
* * * * * * ** * * *
603662 CAAATATTATCACTTAGTTACCATCAAATCAGTTTCAAAAAATTCATTTTATTCCATGAATTTTT
65 AAAATATCATCATTTAATCACTAAAAAATCAGTTTTAAAAAATTTATTTTATTTCATGAA-TTTT
* * * * * *
603727 TTATTTTCTT-TTGGAATTCCTCATATTTTCAAAATACG
129 TCATTTT-TTCTTGAAATTTCTCTTGTTTTCAAAAAACG
* * * * * * * * *
603765 GAGCTTTGTTCTTCGTAATTTTTTTCGAGAAGA-TCTTCATTGGTTTAAAATTTTTAAAATTCAT
1 AAGTTTTCTACTCCATAAATATTTTCGAGAAGATTTTTC-TTGGTTTAAAATTTTTAAAATTCAT
* * *** *
603829 AAAATATTATTATTTAATCACTATTTAATCAGTTTTAAAAAATTTCTTTTATTTCATGAATTTTT
65 AAAATATCATCATTTAATCACTAAAAAATCAGTTTTAAAAAATTTATTTTATTTCATGAATTTTT
* * * *
603894 TATTTTTTCTTGAAATTTTTCTTGTTTTTAAAATACG
130 CATTTTTTCTTGAAATTTCTCTTGTTTTCAAAAAACG
* * * *
603931 GAGTTTTTTACTCCGTAAATATTTTC-A-AAGGGATTTTTCTTGGTTTATAATTTTTAAAATTCA
1 AAGTTTTCTACTCCATAAATATTTTCGAGAA--GATTTTTCTTGGTTTAAAATTTTTAAAATTCA
* * * *
603994 TCAAATATCATCATTTAATTCA-TAAAAAATCATTTTTGAAAAATTTA-TTTATTTTCATGAGTT
64 TAAAATATCATCATTTAA-TCACTAAAAAATCAGTTTTAAAAAATTTATTTTA-TTTCATGAATT
*
604057 TTTCATTTTTTCTTTGAAA-TTCTCTTGTTTTCAAAAAACT
127 TTTCATTTTTTC-TTGAAATTTCTCTTGTTTTCAAAAAACG
* * * * *
604097 AAGTTTTCTATTCCATACATGTTTTCGAGAAGATTTTTCTCGATTTAAAATTTTTTAAAAT
1 AAGTTTTCTACTCCATAAATATTTTCGAGAAGATTTTTCTTGGTTTAAAA-TTTTTAAAAT
604158 ATCGTCTAAT
Statistics
Matches: 324, Mismatches: 58, Indels: 22
0.80 0.14 0.05
Matches are distributed among these distances:
164 2 0.01
165 7 0.02
166 186 0.57
167 126 0.39
168 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.49
Consensus pattern (166 bp):
AAGTTTTCTACTCCATAAATATTTTCGAGAAGATTTTTCTTGGTTTAAAATTTTTAAAATTCATA
AAATATCATCATTTAATCACTAAAAAATCAGTTTTAAAAAATTTATTTTATTTCATGAATTTTTC
ATTTTTTCTTGAAATTTCTCTTGTTTTCAAAAAACG
Found at i:604561 original size:14 final size:14
Alignment explanation
Indices: 604542--604591 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
604532 ATGCATAATT
604542 TTTAATTTTTACAA
1 TTTAATTTTTACAA
** *
604556 TTTAATCCTTATAA
1 TTTAATTTTTACAA
604570 -TTAATTTTTACAA
1 TTTAATTTTTACAA
*
604583 TATAATTTT
1 TTTAATTTT
604592 ACATAATATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATTTTTACAA
Found at i:609347 original size:18 final size:19
Alignment explanation
Indices: 609324--609363 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
609314 CACTATGTTT
609324 CAATATA-ATGTATCGATA
1 CAATATACATGTATCGATA
*
609342 CAATATACCATGTATTGATA
1 CAATATA-CATGTATCGATA
609362 CA
1 CA
609364 TTTCACTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
CAATATACATGTATCGATA
Found at i:609451 original size:13 final size:13
Alignment explanation
Indices: 609433--609469 Score: 67
Period size: 12 Copynumber: 2.9 Consensus size: 13
609423 ACCAAGATCA
609433 TGTATCGATACAG
1 TGTATCGATACAG
609446 TGTATCGAT-CAG
1 TGTATCGATACAG
609458 TGTATCGATACA
1 TGTATCGATACA
609470 AAGCAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:609460 original size:12 final size:12
Alignment explanation
Indices: 609428--609466 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
609418 TCGATACCAA
609428 GATCA-TGTATC
1 GATCAGTGTATC
609439 GATACAGTGTATC
1 GAT-CAGTGTATC
609452 GATCAGTGTATC
1 GATCAGTGTATC
609464 GAT
1 GAT
609467 ACAAAGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 3 0.12
12 14 0.54
13 9 0.35
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (12 bp):
GATCAGTGTATC
Found at i:610154 original size:23 final size:21
Alignment explanation
Indices: 610112--610157 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
610102 TAACTCCCCT
**
610112 TTAATAAAATTTTTCTCTCTC
1 TTAATAAAATTTTAATCTCTC
610133 TTAATAAAATATTTAATGCTCTC
1 TTAATAAAAT-TTTAAT-CTCTC
610156 TT
1 TT
610158 TTGTTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 4 0.19
23 7 0.33
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATAAAATTTTAATCTCTC
Found at i:610253 original size:23 final size:22
Alignment explanation
Indices: 610227--610270 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
610217 GAGATCTCCC
*
610227 CTTTTCGTTTTAGAAATAATCTT
1 CTTTTCGTTTCA-AAATAATCTT
*
610250 CTTTTTGTTTCAAAATAATCT
1 CTTTTCGTTTCAAAATAATCT
610271 CCCCTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (22 bp):
CTTTTCGTTTCAAAATAATCTT
Found at i:616647 original size:3 final size:3
Alignment explanation
Indices: 616639--616669 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
616629 CGAGTCAACT
*
616639 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
616670 TATTGATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:618694 original size:21 final size:20
Alignment explanation
Indices: 618669--618715 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
618659 CAAGATCCTA
*
618669 ACAAAAACTTTCATACTTCTT
1 ACAAAAACTATCA-ACTTCTT
*
618690 ACAAAAACTATCAATTTCTT
1 ACAAAAACTATCAACTTCTT
618710 A-AAAAA
1 ACAAAAA
618716 ATAACTACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 7 0.29
21 12 0.50
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (20 bp):
ACAAAAACTATCAACTTCTT
Found at i:618708 original size:20 final size:21
Alignment explanation
Indices: 618669--618716 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
618659 CAAGATCCTA
*
618669 ACAAAAACTTTCATACTTCTT
1 ACAAAAACTATCATACTTCTT
*
618690 ACAAAAACTATCA-ATTTCTT
1 ACAAAAACTATCATACTTCTT
*
618710 AAAAAAA
1 ACAAAAA
618717 TAACTACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (21 bp):
ACAAAAACTATCATACTTCTT
Found at i:618961 original size:199 final size:196
Alignment explanation
Indices: 618688--619086 Score: 563
Period size: 200 Copynumber: 2.0 Consensus size: 196
618678 TTCATACTTC
*
618688 TTACAAAAACTATCAATTTCTTAAAAAAATAACTACTCAAATTTAAAATATTTTTTAAAAATATT
1 TTACAAAAACTACCAATTTCTTAAAAAAATAACTACTCAAATTTAAAATATTTTTTAAAAATATT
* *****
618753 TTCACATATTTTTTCATTTATCC-ACATA-AAAAATTACACACTAATTTTATGTTTAAAAGAAAC
66 TTCACATATTTTTTCATTTA-CCTACATAGAAAAACTACACACTAATTTTACCACCAAAAGAAAC
* *
618816 TATCTATTTTTTAAAAAATTATTTATATTTTTTTACTTATTAATTTA-AAACTCTTTTAAAAATA
130 TATCTACTTTTTAAAAAATTACTTATATTTTTTTACTTATTAATTTATAAACTCTTTTAAAAATA
618880 TT
195 TT
*
618882 TTACAAAAA-TACCAATTTCTTAAAAAAACTAACTACTCAAATTTAAATATTTTTTCTTTTTAAA
1 TTACAAAAACTACCAATTTCTTAAAAAAA-TAACTACTCAAATTTAAA-A---TAT-TTTTTAAA
618946 AATATTTTCACATATTTTTTCATTTACCTACATAGAAAAACTACACACTAATTTTACCACCAAAA
60 AATATTTTCACATATTTTTTCATTTACCTACATAGAAAAACTACACACTAATTTTACCACCAAAA
* * * * *
619011 GAAATTATTTACTTTTTAAAAAATTACTTATATTTTTTTATTTATTAATTTATTGAACTCTTTTT
125 GAAACTATCTACTTTTTAAAAAATTACTTATATTTTTTTACTTATTAATTTA-TAAACTCTTTTA
619076 AAAATATT
189 AAAATATT
619084 TTA
1 TTA
619087 AAATATATAT
Statistics
Matches: 180, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
193 18 0.10
194 27 0.15
195 1 0.01
198 4 0.02
199 39 0.22
200 71 0.39
202 20 0.11
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (196 bp):
TTACAAAAACTACCAATTTCTTAAAAAAATAACTACTCAAATTTAAAATATTTTTTAAAAATATT
TTCACATATTTTTTCATTTACCTACATAGAAAAACTACACACTAATTTTACCACCAAAAGAAACT
ATCTACTTTTTAAAAAATTACTTATATTTTTTTACTTATTAATTTATAAACTCTTTTAAAAATAT
T
Found at i:619534 original size:6 final size:6
Alignment explanation
Indices: 619509--619578 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
619499 TTTAATAAAA
* * * * *
619509 TAAATT TAATTTT TATATT TAAATT TAAATT TAATTATT TATACT TACATT
1 TAAATT TAA-ATT TAAATT TAAATT TAAATT TAA--ATT TAAATT TAAATT
* *
619560 CAAATT TAAATT AAAATT T
1 TAAATT TAAATT TAAATT T
619579 TTAATATTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
6 39 0.81
7 4 0.08
8 5 0.10
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:619564 original size:26 final size:25
Alignment explanation
Indices: 619510--619568 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
619500 TTAATAAAAT
* *
619510 AAATTTAATTTTTATATTTAAATTT
1 AAATTTAATTTTTATACTTAAATTC
*
619535 AAATTTAATTATTTATACTTACATTC
1 AAATTTAATT-TTTATACTTAAATTC
619561 AAATTTAA
1 AAATTTAA
619569 ATTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
AAATTTAATTTTTATACTTAAATTC
Found at i:622190 original size:2 final size:2
Alignment explanation
Indices: 622183--622226 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
622173 AGTAAAAGAA
622183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
622225 AT
1 AT
622227 GTGTTGAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:626617 original size:31 final size:30
Alignment explanation
Indices: 626561--626632 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
626551 AAGTTTAAGT
*
626561 AATAATCTATAAACTTCAATGACTAAATCTA
1 AATAATCT-TAAACTTCAATCACTAAATCTA
*
626592 AATATATCTTAAATTTCAATCACTAAATCTA
1 AATA-ATCTTAAACTTCAATCACTAAATCTA
626623 AATACATCTT
1 AATA-ATCTT
626633 GAAGCCATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (30 bp):
AATAATCTTAAACTTCAATCACTAAATCTA
Found at i:627890 original size:21 final size:21
Alignment explanation
Indices: 627864--627940 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
627854 AAAAAATTCA
627864 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
627885 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
627906 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
627927 AATGTATCGATACA
1 AATGTATCGATACA
627941 GGGTCTCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:628069 original size:13 final size:13
Alignment explanation
Indices: 628051--628076 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
628041 CATTTTTCTG
628051 TGTATCGATACAT
1 TGTATCGATACAT
628064 TGTATCGATACAT
1 TGTATCGATACAT
628077 GGATCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:630507 original size:51 final size:52
Alignment explanation
Indices: 630447--630835 Score: 278
Period size: 52 Copynumber: 7.4 Consensus size: 52
630437 AATTCTCCAC
* * *
630447 AATCGGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT-AT
1 AATC-GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTCAT
* *
630499 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC--AAAACACCAATTTTC-TCAT
* ** * *
630553 AATCGGGGATACTCCAACCCCG--TTAATCATCGAGGATACTCCAACCCCGTTATT-TC-T
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC-A--AAACACCAA-----TT-TTCTCAT
* * * ***
630610 GA--GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTCAT
* * * * * *
630659 AATCGGGGATACTCGAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCTCAT
* *
630711 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC-CTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTC-AT
* * * * *
630763 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAGAAACACCAATTTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCA-AAACACCAA-TTTTCTCAT
*
630817 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
630836 TTGTTATTTC
Statistics
Matches: 264, Mismatches: 48, Indels: 48
0.73 0.13 0.13
Matches are distributed among these distances:
48 4 0.02
49 4 0.02
50 3 0.01
51 60 0.23
52 86 0.33
53 29 0.11
54 46 0.17
55 19 0.07
56 1 0.00
57 7 0.03
58 2 0.01
59 1 0.00
60 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTCAT
Found at i:630584 original size:27 final size:28
Alignment explanation
Indices: 630554--630629 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
630544 TTTCTTCACA
630554 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
630581 ATCGAGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
630609 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
630630 ACTTTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:630739 original size:103 final size:106
Alignment explanation
Indices: 630612--630835 Score: 283
Period size: 103 Copynumber: 2.1 Consensus size: 106
630602 TTATTTCTGA
* *** * *
630612 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTTTC-ATAATCGGGGATACTCGAA
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
* * *
630676 CCCCGGTTTTATTGCTA-AAACACTAA-TTTTTTCACAATC
66 CCCCGATTTTATTGCCAGAAACACCAATTTTTTTCACAATC
** * *
630715 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAG
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
* *
630780 CTCCGATTTTATTTCCAGAAACACCAATTTTTTTCACAATC
66 CCCCGATTTTATTGCCAGAAACACCAATTTTTTTCACAATC
*
630821 GAGGATACTCCAACC
1 GGGGATACTCCAACC
630836 TTGTTATTTC
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
103 38 0.37
104 29 0.28
105 8 0.08
106 27 0.26
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
CCCCGATTTTATTGCCAGAAACACCAATTTTTTTCACAATC
Found at i:636801 original size:16 final size:16
Alignment explanation
Indices: 636764--636809 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
636754 CAAATCTTCA
*
636764 CTTTTTTTTGTTTT--
1 CTTTTTTTTTTTTTAC
*
636778 CTTCTTTTTTTTTTAC
1 CTTTTTTTTTTTTTAC
636794 CTTTTTTTTTTTTTAC
1 CTTTTTTTTTTTTTAC
636810 AATTGCCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 12 0.44
16 15 0.56
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (16 bp):
CTTTTTTTTTTTTTAC
Found at i:641152 original size:49 final size:51
Alignment explanation
Indices: 641092--641198 Score: 164
Period size: 54 Copynumber: 2.1 Consensus size: 51
641082 CTCCCCATCA
641092 AATTCAACAGAAAGAGTACCCTCAT-C-TACATGAAAGGTCTCCCTAACAG
1 AATTCAACAGAAAGAGTACCCTCATGCTTACATGAAAGGTCTCCCTAACAG
*
641141 AATTCAACAGAAAGAGTACCCTCATGCAGTTTTCATGAAAGGTCTCCCTAACAG
1 AATTCAACAGAAAGAGTACCCTCATGC---TTACATGAAAGGTCTCCCTAACAG
641195 AATT
1 AATT
641199 GAAGCCAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
49 25 0.48
50 1 0.02
54 26 0.50
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (51 bp):
AATTCAACAGAAAGAGTACCCTCATGCTTACATGAAAGGTCTCCCTAACAG
Found at i:652959 original size:20 final size:20
Alignment explanation
Indices: 652916--652968 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 20
652906 TAATTTTATC
652916 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAATATA
652937 TAAATATTAATATAAAA-ATA
1 TAAAT-TTAATATAAAATATA
652957 TAAATTTTAATA
1 TAAA-TTTAATA
652969 ATATTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.43
21 13 0.43
22 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATTTAATATAAAATATA
Found at i:663480 original size:15 final size:14
Alignment explanation
Indices: 663443--663513 Score: 54
Period size: 16 Copynumber: 4.7 Consensus size: 14
663433 AATAATAATT
*
663443 AATTATATTTTAAAA
1 AATTTTATTTT-AAA
663458 ATATTTTATGTTTAAA
1 A-ATTTTAT-TTTAAA
663474 AATTTTATATATTAAA
1 AATTTTAT-T-TTAAA
* *
663490 TATTTAATTTT-AA
1 AATTTTATTTTAAA
663503 AATTTATATTT
1 AATTT-TATTT
663514 GCATTATGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.13
14 6 0.13
15 10 0.22
16 21 0.46
17 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (14 bp):
AATTTTATTTTAAA
Found at i:663488 original size:16 final size:16
Alignment explanation
Indices: 663445--663513 Score: 67
Period size: 17 Copynumber: 4.5 Consensus size: 16
663435 TAATAATTAA
663445 TTATATTTTAAAAATAT
1 TTATATTTTAAAAAT-T
663462 TT-TATGTTTAAAAATT
1 TTATAT-TTTAAAAATT
* *
663478 TTATATATTAAATA-T
1 TTATATTTTAAAAATT
663493 TTA-ATTTT-AAAA-T
1 TTATATTTTAAAAATT
663506 TTATATTT
1 TTATATTT
663514 GCATTATGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
13 7 0.16
14 8 0.18
15 4 0.09
16 12 0.27
17 14 0.31
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (16 bp):
TTATATTTTAAAAATT
Found at i:668085 original size:2 final size:2
Alignment explanation
Indices: 668073--668111 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
668063 ATCTATTATG
*
668073 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
668112 AAACTTAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:677974 original size:16 final size:17
Alignment explanation
Indices: 677953--677987 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
677943 GAGGAATTTT
677953 AAAATG-CACCATTTAC
1 AAAATGCCACCATTTAC
*
677969 AAAATGCCAGCATTTAC
1 AAAATGCCACCATTTAC
677986 AA
1 AA
677988 TTTTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (17 bp):
AAAATGCCACCATTTAC
Found at i:683775 original size:19 final size:20
Alignment explanation
Indices: 683735--683775 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
683725 CCTACAACCA
*
683735 ATTAAAAATCGGCAGTAAAAT
1 ATTAAAAATC-GCAGAAAAAT
683756 ATTAAAAATC-CAGAAAAAT
1 ATTAAAAATCGCAGAAAAAT
683775 A
1 A
683776 ACAATGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (20 bp):
ATTAAAAATCGCAGAAAAAT
Found at i:684264 original size:2 final size:2
Alignment explanation
Indices: 684259--684298 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
684249 AGATTTATAT
684259 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
684299 AAAACATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:696136 original size:17 final size:15
Alignment explanation
Indices: 696098--696146 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
696088 TAAATAATTT
696098 ATTTAAATTTAAAAA
1 ATTTAAATTTAAAAA
696113 ATATTAATATTTAAAAA
1 AT-TTAA-ATTTAAAAA
696130 AGTTTAAA--TAAAAA
1 A-TTTAAATTTAAAAA
696144 ATT
1 ATT
696147 AAGTTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.06
14 7 0.23
15 2 0.06
16 5 0.16
17 14 0.45
18 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
ATTTAAATTTAAAAA
Found at i:700432 original size:56 final size:56
Alignment explanation
Indices: 700365--700478 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
700355 AAAAGCTTGC
* *
700365 TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCGAGGGGTTGGCCAATCTTTTA
1 TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAAGGGTTGGCCAATCTTTTA
700421 TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAAGGGTTGGCCAATCTTTTA
1 TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAAGGGTTGGCCAATCTTTTA
700477 TA
1 TA
700479 GCTTGCTAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (56 bp):
TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAAGGGTTGGCCAATCTTTTA
Found at i:702926 original size:18 final size:18
Alignment explanation
Indices: 702884--702967 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 18
702874 TCCATCTTCT
702884 TCTCTCCTC-CTCT-TGTCA
1 TCTCTCCTCTCTCTAT-T-A
*
702902 TCCCTCCTCTCTCTATTA
1 TCTCTCCTCTCTCTATTA
702920 TCTCTCCTATCTCTCCACTTATTA
1 TCTCTCC--TCTCT---C-TATTA
* *
702944 TCCCTCCTATCTCTATTA
1 TCTCTCCTCTCTCTATTA
702962 TCTCTC
1 TCTCTC
702968 TCATCTCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
18 25 0.47
19 6 0.11
20 6 0.11
22 4 0.08
23 1 0.02
24 11 0.21
ACGTcount: A:0.12, C:0.42, G:0.01, T:0.45
Consensus pattern (18 bp):
TCTCTCCTCTCTCTATTA
Found at i:702973 original size:18 final size:17
Alignment explanation
Indices: 702927--702975 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
702917 TTATCTCTCC
702927 TATCTCTCCA-CT-TAT
1 TATCTCTCCATCTCTAT
*
702942 TATCCCTCCTATCTCTAT
1 TATCTCTCC-ATCTCTAT
702960 TATCTCTCTCATCTCT
1 TATCTCTC-CATCTCT
702976 CCTCCTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 8 0.29
16 1 0.04
17 2 0.07
18 16 0.57
19 1 0.04
ACGTcount: A:0.16, C:0.37, G:0.00, T:0.47
Consensus pattern (17 bp):
TATCTCTCCATCTCTAT
Found at i:702987 original size:12 final size:12
Alignment explanation
Indices: 702970--703011 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
702960 TATCTCTCTC
702970 ATCTCTCCTCCT
1 ATCTCTCCTCCT
*
702982 ATCTCTCTTCCT
1 ATCTCTCCTCCT
*
702994 ATCATC-CCTCAT
1 ATC-TCTCCTCCT
703006 ATCTCT
1 ATCTCT
703012 TCTTTCTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (12 bp):
ATCTCTCCTCCT
Found at i:702996 original size:42 final size:42
Alignment explanation
Indices: 702901--702983 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
702891 TCCTCTTGTC
* *
702901 ATCCCTCCTCTCTCTATTATCTCTCCTATCTCTCCACTTATT
1 ATCCCTCCTATCTCTATTATCTCTCCTATCTCTCCACCTATT
*
702943 ATCCCTCCTATCTCTATTATCTCT-CTCATCTCTCCTCCTAT
1 ATCCCTCCTATCTCTATTATCTCTCCT-ATCTCTCCACCTAT
702984 CTCTCTTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (42 bp):
ATCCCTCCTATCTCTATTATCTCTCCTATCTCTCCACCTATT
Found at i:705611 original size:38 final size:38
Alignment explanation
Indices: 705497--705646 Score: 123
Period size: 38 Copynumber: 4.0 Consensus size: 38
705487 TTTGGTTTTA
* *
705497 ACTCAAAATTACTAAAATGACTTTAAAAACTCGATTT-
1 ACTCAAAATTATTAAAATGACTCTAAAAACTCGATTTG
* * *
705534 AC-CAAAAAATAATAAAATGACTCTAAAAAACT-TATTTTG
1 ACTC-AAAATTATTAAAATGACTCT-AAAAACTCGA-TTTG
*
705573 ACTCAAAATTATTAAAATGA-TCCTAAAAGCTCGATTTG
1 ACTCAAAATTATTAAAATGACT-CTAAAAACTCGATTTG
* * * *
705611 ACATCGAAA-TATTAAAATAACCCTAAAGACTC-ATTT
1 AC-TCAAAATTATTAAAATGACTCTAAAAACTCGATTT
705647 TGACAAATAA
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
36 1 0.01
37 24 0.26
38 41 0.45
39 24 0.26
40 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (38 bp):
ACTCAAAATTATTAAAATGACTCTAAAAACTCGATTTG
Found at i:705647 original size:76 final size:76
Alignment explanation
Indices: 705492--705650 Score: 171
Period size: 76 Copynumber: 2.1 Consensus size: 76
705482 AGAGATTTGG
* * * *
705492 TTTTAACTCAAAATTACTAAAATGACTTTAAAAACTCGATTTACCAAAAAATAATAAAATGACTC
1 TTTTGACTCAAAATTACTAAAATGACTCTAAAAACTCGATTTACCAAAAAATAATAAAATAACCC
*
705557 TAAAAAACTTA
66 TAAAAAACTCA
* * ** *
705568 TTTTGACTCAAAATTATTAAAATGA-TCCTAAAAGCTCGATTTGA-CATCGAAATATTAAAATAA
1 TTTTGACTCAAAATTACTAAAATGACT-CTAAAAACTCGATTT-ACCA-AAAAATAATAAAATAA
*
705631 CCCT-AAAGACTCA
63 CCCTAAAAAACTCA
705644 TTTTGAC
1 TTTTGAC
705651 AAATAAATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.01
76 52 0.75
77 16 0.23
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (76 bp):
TTTTGACTCAAAATTACTAAAATGACTCTAAAAACTCGATTTACCAAAAAATAATAAAATAACCC
TAAAAAACTCA
Found at i:705744 original size:38 final size:36
Alignment explanation
Indices: 705702--705903 Score: 115
Period size: 38 Copynumber: 5.3 Consensus size: 36
705692 AAAAAAAAAA
*
705702 AAAAAAACCAAGCAAACTTTAAAGATTATATTTGACAT
1 AAAAAAACCAA-TAAACTTTAAAGATTAT-TTTGACAT
** *
705740 AAAAAATGACCAAGTTGACTTTAAAAAATTATTTCT-AGCAT
1 AAAAAA--ACCAA-TAAACTTT-AAAGATTATTT-TGA-CAT
*
705781 AAAAAAACCAA-AATGACTTTAAAGATTATTTTTTACAT
1 AAAAAAACCAATAA--ACTTTAAAGATTA-TTTTGACAT
* ** * *
705819 AATATTACCAAAATAACCTTAAAGAATTACTTTTGACAT
1 AAAAAAACCAATA-AACTTTAAAG-ATTA-TTTTGACAT
* * **
705858 -AAAAGACTAAATTGACTTTAAAGATTATTTTGACAT
1 AAAAAAAC-CAATAAACTTTAAAGATTATTTTGACAT
705894 -AAAAAACCAA
1 AAAAAAACCAA
705904 AATGACAAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 29
0.71 0.13 0.16
Matches are distributed among these distances:
35 2 0.02
36 15 0.12
37 4 0.03
38 45 0.35
39 29 0.23
40 15 0.12
41 18 0.14
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (36 bp):
AAAAAAACCAATAAACTTTAAAGATTATTTTGACAT
Found at i:705890 original size:18 final size:18
Alignment explanation
Indices: 705837--705893 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
705827 CAAAATAACC
705837 TTAAAGAATTACTTTTGACA
1 TTAAAG-ATTA-TTTTGACA
* * ** *
705857 TAAAAGACTAAATTGACT
1 TTAAAGATTATTTTGACA
705875 TTAAAGATTATTTTGACA
1 TTAAAGATTATTTTGACA
705893 T
1 T
705894 AAAAAACCAA
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
18 19 0.70
19 3 0.11
20 5 0.19
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (18 bp):
TTAAAGATTATTTTGACA
Found at i:707931 original size:13 final size:13
Alignment explanation
Indices: 707913--707941 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
707903 ATATAGATTG
707913 CATTGTATCGATA
1 CATTGTATCGATA
707926 CATTGTATCGATA
1 CATTGTATCGATA
707939 CAT
1 CAT
707942 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:707954 original size:20 final size:21
Alignment explanation
Indices: 707929--707979 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
707919 ATCGATACAT
**
707929 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
707949 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
707970 TGTATCGATA
1 TGTATCGATA
707980 TAGGTCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:708051 original size:13 final size:13
Alignment explanation
Indices: 708033--708058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
708023 ACACACAGTA
708033 TGTATCGATACAT
1 TGTATCGATACAT
708046 TGTATCGATACAT
1 TGTATCGATACAT
708059 CATAAAATGT
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:708074 original size:33 final size:32
Alignment explanation
Indices: 708013--708080 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
708003 GTAGCCAAAC
**
708013 TTGTATCGATACACACAGTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
708045 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
708078 TTG
1 TTG
708081 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:722376 original size:17 final size:15
Alignment explanation
Indices: 722338--722386 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 15
722328 TGAATAATTT
722338 ATTTAAATTTAAAAA
1 ATTTAAATTTAAAAA
722353 ATATTAATATTTAAAAAA
1 AT-TTAA-ATTT-AAAAA
722371 ATTTAAA--TAAAAA
1 ATTTAAATTTAAAAA
722384 ATT
1 ATT
722387 AAGTTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.26
14 1 0.03
15 2 0.06
16 5 0.16
17 8 0.26
18 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTAAATTTAAAAA
Found at i:725964 original size:18 final size:18
Alignment explanation
Indices: 725941--725984 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
725931 AAATAGATAG
725941 CCATCATGCTTGTAAAAC
1 CCATCATGCTTGTAAAAC
725959 CCATCATGCTTGTAAAAC
1 CCATCATGCTTGTAAAAC
725977 CCATCATG
1 CCATCATG
725985 AGCCCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (18 bp):
CCATCATGCTTGTAAAAC
Found at i:726691 original size:56 final size:56
Alignment explanation
Indices: 726623--726736 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
726613 AAAAGCTTGC
* * *
726623 TAACCCGTGGAAGCTCCTCACTTCACTCACAGTCCGAGGGGTTGGCCAATCTTTTA
1 TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAGGGGTTGGCCAATCTCTTA
726679 TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAGGGGTTGGCCAATCTCTTA
1 TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAGGGGTTGGCCAATCTCTTA
726735 TA
1 TA
726737 GCTTGCTAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (56 bp):
TAACCCATGGAAGCTCCTCACTTCACTCACAGTCCAAGGGGTTGGCCAATCTCTTA
Found at i:729228 original size:18 final size:17
Alignment explanation
Indices: 729182--729230 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
729172 TTATCTCTCA
729182 TATCTCTCCA-C-CTAT
1 TATCTCTCCATCTCTAT
*
729197 TATCCCTCCTATCTCTAT
1 TATCTCTCC-ATCTCTAT
729215 TATCTCTCTCATCTCT
1 TATCTCTC-CATCTCT
729231 CCTCCTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 8 0.29
16 1 0.04
17 1 0.04
18 17 0.61
19 1 0.04
ACGTcount: A:0.16, C:0.39, G:0.00, T:0.45
Consensus pattern (17 bp):
TATCTCTCCATCTCTAT
Found at i:729242 original size:12 final size:12
Alignment explanation
Indices: 729182--729266 Score: 60
Period size: 12 Copynumber: 7.6 Consensus size: 12
729172 TTATCTCTCA
*
729182 TATCTCTCCACC
1 TATCTCTCCTCC
*
729194 TAT-TATCCCTCC
1 TATCTCT-CCTCC
*
729206 TATCTCT-AT--
1 TATCTCTCCTCC
729215 TATCTCT-CT-C
1 TATCTCTCCTCC
729225 -ATCTCTCCTCC
1 TATCTCTCCTCC
*
729236 TATCTCTCTTCC
1 TATCTCTCCTCC
729248 TATCATC-CCTCC
1 TATC-TCTCCTCC
729260 TATCTCT
1 TATCTCT
729267 TCTTTCTCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
9 14 0.24
10 2 0.03
11 6 0.10
12 32 0.55
13 4 0.07
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (12 bp):
TATCTCTCCTCC
Found at i:729251 original size:42 final size:42
Alignment explanation
Indices: 729156--729238 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
729146 TCCTCTTGTC
*
729156 ATCCCTCCTCTCTCTATTATCTCTCATATCTCTCCACCTATT
1 ATCCCTCCTATCTCTATTATCTCTCATATCTCTCCACCTATT
*
729198 ATCCCTCCTATCTCTATTATCTCTC-TCATCTCTCCTCCTAT
1 ATCCCTCCTATCTCTATTATCTCTCAT-ATCTCTCCACCTAT
729239 CTCTCTTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.16, C:0.41, G:0.00, T:0.43
Consensus pattern (42 bp):
ATCCCTCCTATCTCTATTATCTCTCATATCTCTCCACCTATT
Found at i:730047 original size:18 final size:19
Alignment explanation
Indices: 730019--730054 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
730009 TGGTTTTTTC
730019 CTTTCTTTTTGTATTCTTT
1 CTTTCTTTTTGTATTCTTT
730038 CTTT-TTTTTGTATTCTT
1 CTTTCTTTTTGTATTCTT
730055 GAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (19 bp):
CTTTCTTTTTGTATTCTTT
Found at i:731868 original size:38 final size:38
Alignment explanation
Indices: 731754--731903 Score: 141
Period size: 38 Copynumber: 4.0 Consensus size: 38
731744 TTTGGTTTTA
*
731754 ACTCAAAATTATTAAAATGACTTTAAAAACTCGATTT-
1 ACTCAAAATTATTAAAATGACTCTAAAAACTCGATTTG
* * *
731791 AC-CAAAAAATAATAAAATGACTCTAAAAAACT-TATTTTG
1 ACTC-AAAATTATTAAAATGACTCT-AAAAACTCGA-TTTG
*
731830 ACTCAAAATTATTAAAATGA-TCCTAAAAGCTCGATTTG
1 ACTCAAAATTATTAAAATGACT-CTAAAAACTCGATTTG
* * *
731868 ACATCAAAA-TATTAAAATAACCCTAAAGACTC-ATTT
1 AC-TCAAAATTATTAAAATGACTCTAAAAACTCGATTT
731904 TGACAAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
36 1 0.01
37 24 0.26
38 41 0.45
39 25 0.27
40 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (38 bp):
ACTCAAAATTATTAAAATGACTCTAAAAACTCGATTTG
Found at i:731904 original size:76 final size:76
Alignment explanation
Indices: 731749--731907 Score: 189
Period size: 76 Copynumber: 2.1 Consensus size: 76
731739 AGAGATTTGG
* * * *
731749 TTTTAACTCAAAATTATTAAAATGACTTTAAAAACTCGATTTACCAAAAAATAATAAAATGACTC
1 TTTTGACTCAAAATTATTAAAATGACTCTAAAAACTCGATTTACCAAAAAATAATAAAATAACCC
*
731814 TAAAAAACTTA
66 TAAAAAACTCA
* * *
731825 TTTTGACTCAAAATTATTAAAATGA-TCCTAAAAGCTCGATTTGA-CATCAAAATATTAAAATAA
1 TTTTGACTCAAAATTATTAAAATGACT-CTAAAAACTCGATTT-ACCA-AAAAATAATAAAATAA
*
731888 CCCT-AAAGACTCA
63 CCCTAAAAAACTCA
731901 TTTTGAC
1 TTTTGAC
731908 AAATAAATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 1 0.01
76 53 0.75
77 17 0.24
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (76 bp):
TTTTGACTCAAAATTATTAAAATGACTCTAAAAACTCGATTTACCAAAAAATAATAAAATAACCC
TAAAAAACTCA
Found at i:731998 original size:38 final size:36
Alignment explanation
Indices: 731956--732157 Score: 115
Period size: 38 Copynumber: 5.3 Consensus size: 36
731946 GCAAAAAAAA
*
731956 AAAAAAACCAAGCAAACTTTAAAGATTATATTTGACAT
1 AAAAAAACCAA-TAAACTTTAAAGATTAT-TTTGACAT
** *
731994 AAAAAATGACCAAGTTGACTTTAAAAAATTATTTCT-AGCAT
1 AAAAAA--ACCAA-TAAACTTT-AAAGATTATTT-TGA-CAT
*
732035 AAAAAAACCAA-AATGACTTTAAAGATTATTTTTTACAT
1 AAAAAAACCAATAA--ACTTTAAAGATTA-TTTTGACAT
* ** * *
732073 AATATTACCAAAATAACCTTAAAGAATTACTTTTGACAT
1 AAAAAAACCAATA-AACTTTAAAG-ATTA-TTTTGACAT
* * **
732112 -AAAAGACTAAATTGACTTTAAAGATTATTTTGACAT
1 AAAAAAAC-CAATAAACTTTAAAGATTATTTTGACAT
732148 -AAAAAACCAA
1 AAAAAAACCAA
732158 AATGACAAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 29
0.71 0.13 0.16
Matches are distributed among these distances:
35 2 0.02
36 15 0.12
37 4 0.03
38 45 0.35
39 29 0.23
40 15 0.12
41 18 0.14
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (36 bp):
AAAAAAACCAATAAACTTTAAAGATTATTTTGACAT
Found at i:732144 original size:18 final size:18
Alignment explanation
Indices: 732091--732147 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
732081 CAAAATAACC
732091 TTAAAGAATTACTTTTGACA
1 TTAAAG-ATTA-TTTTGACA
* * ** *
732111 TAAAAGACTAAATTGACT
1 TTAAAGATTATTTTGACA
732129 TTAAAGATTATTTTGACA
1 TTAAAGATTATTTTGACA
732147 T
1 T
732148 AAAAAACCAA
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
18 19 0.70
19 3 0.11
20 5 0.19
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (18 bp):
TTAAAGATTATTTTGACA
Found at i:734189 original size:13 final size:13
Alignment explanation
Indices: 734171--734199 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
734161 ATATAGATTG
734171 CATTGTATCGATA
1 CATTGTATCGATA
734184 CATTGTATCGATA
1 CATTGTATCGATA
734197 CAT
1 CAT
734200 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:734212 original size:20 final size:21
Alignment explanation
Indices: 734187--734239 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
734177 ATCGATACAT
**
734187 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
734207 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
734228 TGTATCGATACA
1 TGTATCGATACA
734240 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:734309 original size:13 final size:13
Alignment explanation
Indices: 734291--734316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
734281 ACACACAATA
734291 TGTATCGATACAT
1 TGTATCGATACAT
734304 TGTATCGATACAT
1 TGTATCGATACAT
734317 CATAAAATGT
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:734332 original size:33 final size:32
Alignment explanation
Indices: 734271--734338 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
734261 GTAGCCAAAC
*
734271 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
734303 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
734336 TTG
1 TTG
734339 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:735414 original size:32 final size:30
Alignment explanation
Indices: 735364--735422 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
735354 AAAATCAAAT
735364 ACAAAAGAGCTTTGAAAATAATAACAATAAGA
1 ACAAAAGAGCTTTGAAAAT-ATAA-AATAAGA
*
735396 ACAAAAGATC-TTGAAAAATATAAAATA
1 ACAAAAGAGCTTTG-AAAATATAAAATA
735423 CTTTAATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 7 0.28
32 14 0.56
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGAGCTTTGAAAATATAAAATAAGA
Found at i:735701 original size:13 final size:13
Alignment explanation
Indices: 735683--735707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
735673 CATTTTATGG
735683 TGTATCGATACAA
1 TGTATCGATACAA
735696 TGTATCGATACA
1 TGTATCGATACA
735708 TACTGTGTGT
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:735706 original size:33 final size:32
Alignment explanation
Indices: 735660--735727 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
735650 CGTTACAAGC
* **
735660 CAATGTATTGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTAT-GTGTATCGATA
*
735693 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
735725 CAA
1 CAA
735728 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Done.