Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
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: 2600608
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:640816 original size:15 final size:16
Alignment explanation
Indices: 640788--640827 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
640778 GTTTTTAAAG
*
640788 TTAAAATAGAAAC-ATT
1 TTAAAAT-GAAACAAAT
640804 TTAAAATGAAACAAAT
1 TTAAAATGAAACAAAT
640820 TTAAAATG
1 TTAAAATG
640828 TTTTTAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (16 bp):
TTAAAATGAAACAAAT
Found at i:644446 original size:3 final size:3
Alignment explanation
Indices: 644440--644479 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
644430 TTGATGTTGT
* * *
644440 TGA TGA TGA TGA TAA TGA TGA TGA TGT TGA TGT TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
644480 AATAATAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (3 bp):
TGA
Found at i:644484 original size:3 final size:3
Alignment explanation
Indices: 644478--644510 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
644468 GATGTTGATG
644478 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
644511 TGTTTTATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:645683 original size:2 final size:2
Alignment explanation
Indices: 645678--645710 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
645668 CCTTGTATGC
645678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
645711 GATTTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:646234 original size:2 final size:2
Alignment explanation
Indices: 646227--646277 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
646217 TATCGATACG
646227 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
646269 TA TA T- TA TA
1 TA TA TA TA TA
646278 ATTATAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:647118 original size:227 final size:226
Alignment explanation
Indices: 646413--647115 Score: 1032
Period size: 227 Copynumber: 3.1 Consensus size: 226
646403 TAACAAATTA
*
646413 AGTAATTAACCGGTTATGTTATCGTCGGATTTCTT-AGGCTCCATCAGCTTAAACTTTGTTAACA
1 AGTAATTAACCGGTTATGTTATCGTCGGA-TTCTTAAGGCTCCATCAGCTTAAACTTTGGTAACA
* * * * *
646477 TTTTAGGTGTTACCTAATATATTGATAAAATTGATAGCAACTTAAGTAATTAACCTATTTTGTTA
65 TTTTAGGTGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTA
* * * * * * * *
646542 TTGTCGGATTTCTAAAACTCCATCAGCTTTAATAATGTGCTACTTATTACGTTACATAAACGCTA
130 TCGTCGGATTTCTAAAGCCCCATCAGCTTTAAAAAAGAGCTACCTATTACGTTACATAAGCGCTA
* *
646607 CCTAATATGTTATTATGCTTGATAATGTTTTC
195 CCTAATATATTATTATGCTTGATAATGTTTCC
* *
646639 AGTAATTAACCGGTTATGTTATCGTCGGATT-TCTAAGGCTTCATCAGCTTAAACTTTGGAAACA
1 AGTAATTAACCGGTTATGTTATCGTCGGATTCT-TAAGGCTCCATCAGCTTAAACTTTGGTAACA
* *
646703 TTTTTAGGTGTTACCTAATATGTTGATAATACTCATGACAAATTAAGTAATTAACCTATTTTGTT
65 -TTTTAGGTGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTT
* * * * *
646768 ATCGTTGGATTTCTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCACT
129 ATCGTCGGATTTCTAAAGCCCCATCAGCTTTAAAAAAGAGCTACCTATTACGTTACATAAGCGCT
*
646833 ACCTAATATTTTATTATGCTTGATAATGTTTCC
194 ACCTAATATATTATTATGCTTGATAATGTTTCC
* * * *
646866 AGTAATTAACCGGTTATGTTATCTTCGGATTCTTAAAGCTCCATTAGCTTAAACTTTGGTAAGAT
1 AGTAATTAACCGGTTATGTTATCGTCGGATTCTTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
* *
646931 TTTAGGCGTTACCTAATATGTTGATAATACTGGTAACAAATTAAGTAATTAACCTATTTTGTTAT
66 TTTAGGTGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
*
646996 CGTCGGATTTCTAAAGCCCCACCAGCTTTAAAAAAGAGACTACCTATTACGTTACATAAGCGCTA
131 CGTCGGATTTCTAAAGCCCCATCAGCTTTAAAAAAGAG-CTACCTATTACGTTACATAAGCGCTA
* *
647061 CCTAATATATTATTATGTTTGATAATATTTCC
195 CCTAATATATTATTATGCTTGATAATGTTTCC
*
647093 AGTAATTAACTGGTTATGTTATC
1 AGTAATTAACCGGTTATGTTATC
647116 TTCAACATTT
Statistics
Matches: 429, Mismatches: 43, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
224 1 0.00
225 3 0.01
226 150 0.35
227 274 0.64
228 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (226 bp):
AGTAATTAACCGGTTATGTTATCGTCGGATTCTTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
TTTAGGTGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
CGTCGGATTTCTAAAGCCCCATCAGCTTTAAAAAAGAGCTACCTATTACGTTACATAAGCGCTAC
CTAATATATTATTATGCTTGATAATGTTTCC
Found at i:649290 original size:15 final size:17
Alignment explanation
Indices: 649270--649301 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
649260 CATTATATAA
649270 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
649285 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
649302 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:651247 original size:17 final size:18
Alignment explanation
Indices: 651217--651250 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
651207 AAATTTTATA
651217 ATTTTATATAATTTAAAT
1 ATTTTATATAATTTAAAT
*
651235 ATTTTTTAT-ATTTAAA
1 ATTTTATATAATTTAAA
651251 AGCAACCAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTATATAATTTAAAT
Found at i:654597 original size:20 final size:21
Alignment explanation
Indices: 654572--654612 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
654562 GATGTGGTTG
*
654572 TTTCTAGCTG-TTGGGGATGA
1 TTTCTAGCCGTTTGGGGATGA
654592 TTTCTAGCCGTTTGGGGATGA
1 TTTCTAGCCGTTTGGGGATGA
654613 AATCTCTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.39
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGGATGA
Found at i:654692 original size:21 final size:21
Alignment explanation
Indices: 654642--654685 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
654632 TGCCCAATAC
654642 AGAGGGTATTAGTACTCCTAA
1 AGAGGGTATTAGTACTCCTAA
654663 AGAGGGTATTAGTACTCCTAA
1 AGAGGGTATTAGTACTCCTAA
654684 AG
1 AG
654686 GGAGTATCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (21 bp):
AGAGGGTATTAGTACTCCTAA
Found at i:654698 original size:21 final size:21
Alignment explanation
Indices: 654642--654699 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
654632 TGCCCAATAC
*
654642 AGAGGGTATTAGTACTCCTAA
1 AGAGGGTATCAGTACTCCTAA
*
654663 AGAGGGTATTAGTACTCCTAA
1 AGAGGGTATCAGTACTCCTAA
*
654684 AG-GGAGTATCGGTACT
1 AGAGG-GTATCAGTACT
654700 ACCTTTGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (21 bp):
AGAGGGTATCAGTACTCCTAA
Found at i:658321 original size:24 final size:26
Alignment explanation
Indices: 658276--658327 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
658266 CGTTCGTGAA
*
658276 CGTTCGATTATATGTTCGTTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
658302 CGTTC-ATT-TATGTTCATTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
658326 CG
1 CG
658328 AACAGATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.54
Consensus pattern (26 bp):
CGTTCGATTATATGTTCATTTATGTT
Found at i:658632 original size:14 final size:14
Alignment explanation
Indices: 658613--658643 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
658603 CATTTATTAT
658613 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
658627 GTTCGTTTGTGTTC
1 GTTCGTTTATGTTC
658641 GTT
1 GTT
658644 TACATTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.13, G:0.26, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:659258 original size:20 final size:21
Alignment explanation
Indices: 659233--659273 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
659223 GATGTGGTCG
659233 TTTCTAGCC-GTTGGGGATGA
1 TTTCTAGCCAGTTGGGGATGA
*
659253 TTTCTAGCCATTTGGGGATGA
1 TTTCTAGCCAGTTGGGGATGA
659274 AATCTCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (21 bp):
TTTCTAGCCAGTTGGGGATGA
Found at i:660721 original size:21 final size:21
Alignment explanation
Indices: 660688--660727 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
660678 AGTTCTGCAA
* *
660688 TGAACTGGTTGGGAACTGGTG
1 TGAACCGGCTGGGAACTGGTG
660709 TGAACCGGCTGGGAACTGG
1 TGAACCGGCTGGGAACTGG
660728 CAAAACCGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.15, G:0.42, T:0.23
Consensus pattern (21 bp):
TGAACCGGCTGGGAACTGGTG
Found at i:663245 original size:138 final size:138
Alignment explanation
Indices: 662996--663273 Score: 466
Period size: 138 Copynumber: 2.0 Consensus size: 138
662986 AATTATCGTT
* *
662996 GATAATATTTAGATTTTGACAATTATTGATAATTTATTTCGTTTGATTTGGATAAAAAATCACAA
1 GATAATATTTAGATTTTGACAATTATTGATAATTTATTTCATTTGATCTGGATAAAAAATCACAA
*
663061 TCAACAATAATTTTAAGAGAGAGAATGTATGATGATGGTAGTCATCTTTCACTTAGAAAGAATGA
66 TCAACAATAATTTTAAGAGAGAGAATGTATGATGATGGTAGCCATCTTTCACTTAGAAAGAATGA
663126 ATATTCGA
131 ATATTCGA
* *
663134 GATAATATTTAGATTTTGACAATTATTGATAATTTATTTCATTTGATCTGGATAAATAATCGCAA
1 GATAATATTTAGATTTTGACAATTATTGATAATTTATTTCATTTGATCTGGATAAAAAATCACAA
* * * *
663199 TCAACAATAATTTTAAGAGAGATAATGTATGATGGTGGTGGCCATCTTTGACTTAGAAAGAATGA
66 TCAACAATAATTTTAAGAGAGAGAATGTATGATGATGGTAGCCATCTTTCACTTAGAAAGAATGA
*
663264 ATATTTGA
131 ATATTCGA
663272 GA
1 GA
663274 GATATCCCTC
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 130 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (138 bp):
GATAATATTTAGATTTTGACAATTATTGATAATTTATTTCATTTGATCTGGATAAAAAATCACAA
TCAACAATAATTTTAAGAGAGAGAATGTATGATGATGGTAGCCATCTTTCACTTAGAAAGAATGA
ATATTCGA
Found at i:664621 original size:39 final size:39
Alignment explanation
Indices: 664541--664691 Score: 126
Period size: 39 Copynumber: 3.9 Consensus size: 39
664531 TAGCGACGTG
* * *
664541 TTTTATAAACGCCGCTAAAGGTAAAGATATTTAGCCCTT
1 TTTTACAAACGCTGCTAAAGGTAATGATATTTAGCCCTT
** ***
664580 TTTTACAAACTTTGCTAAAGGTAATGATATTTAGTGTTT
1 TTTTACAAACGCTGCTAAAGGTAATGATATTTAGCCCTT
* * * *
664619 TTTTATAAACGCTGCTAAAGGCT-ATGATA-TAACGGCTTT
1 TTTTACAAACGCTGCTAAAGG-TAATGATATTTA-GCCCTT
* * * *
664658 TTTTACAAATGCCGCTAAAAGTTATGATATTTAG
1 TTTTACAAACGCTGCTAAAGGTAATGATATTTAG
664692 TGGCATTTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
38 3 0.03
39 83 0.93
40 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (39 bp):
TTTTACAAACGCTGCTAAAGGTAATGATATTTAGCCCTT
Found at i:665707 original size:29 final size:32
Alignment explanation
Indices: 665649--665708 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
665639 TATTTATACT
*
665649 TTTTATCTTTATATTTTTTAGAAATAAATATG
1 TTTTATCTTTATATTTTTCAGAAATAAATATG
*
665681 TTTTAT-TTTATA-TTTTCA-AAATCAATAT
1 TTTTATCTTTATATTTTTCAGAAATAAATAT
665709 TATAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 5 0.19
31 6 0.23
32 6 0.23
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTTATCTTTATATTTTTCAGAAATAAATATG
Found at i:668816 original size:23 final size:23
Alignment explanation
Indices: 668790--668837 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
668780 ATAAAGTACA
*
668790 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
668813 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
668836 AT
1 AT
668838 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:669245 original size:21 final size:22
Alignment explanation
Indices: 669220--669271 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
669210 ACACTTTACA
*
669220 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
669243 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
669266 ATATAA
1 ATATAA
669272 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:669256 original size:23 final size:23
Alignment explanation
Indices: 669230--669292 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
669220 ATATAACCAC
669230 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
669253 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
669276 TACCTATTACATCATAT
1 TACCTATTACATTATAT
669293 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:669750 original size:39 final size:39
Alignment explanation
Indices: 669696--669782 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
669686 TCAAGTTGTA
*
669696 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
669735 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
669774 GATTTTGAT
1 GATTTTGAT
669783 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:669784 original size:17 final size:17
Alignment explanation
Indices: 669773--669809 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
669763 TATGAGCTTT
669773 GGATTTTGATGAGCATC
1 GGATTTTGATGAGCATC
669790 GGATTTTGATGAGCATC
1 GGATTTTGATGAGCATC
669807 GGA
1 GGA
669810 AGTATTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.32
Consensus pattern (17 bp):
GGATTTTGATGAGCATC
Found at i:670081 original size:18 final size:18
Alignment explanation
Indices: 670058--670094 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
670048 CGAAATATAT
670058 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
670076 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
670094 A
1 A
670095 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:670371 original size:25 final size:25
Alignment explanation
Indices: 670343--670393 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
670333 TTAATCCAAA
*
670343 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
670368 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
670393 T
1 T
670394 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:670683 original size:21 final size:22
Alignment explanation
Indices: 670658--670709 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
670648 ACACTTTACA
*
670658 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
670681 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
670704 ATATAA
1 ATATAA
670710 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:670694 original size:23 final size:23
Alignment explanation
Indices: 670668--670730 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
670658 ATATAACCAC
670668 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
670691 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
670714 TACCTATTACATCATAT
1 TACCTATTACATTATAT
670731 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:671114 original size:21 final size:22
Alignment explanation
Indices: 671089--671140 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
671079 ACACTTTACA
*
671089 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
671112 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
671135 ATATAA
1 ATATAA
671141 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:671125 original size:23 final size:23
Alignment explanation
Indices: 671099--671161 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
671089 ATATAACCAC
671099 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
671122 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
671145 TACCTATTACATCATAT
1 TACCTATTACATTATAT
671162 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:671224 original size:431 final size:427
Alignment explanation
Indices: 670425--671260 Score: 1591
Period size: 431 Copynumber: 1.9 Consensus size: 427
670415 TTTGAATTAT
670425 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
* *
670490 TTAGAATTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTATATGCCTATAATT
66 TTAGAATTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
670555 ACTAAATTAATATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
670620 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
196 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
670685 AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
261 AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
*
670750 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAA
326 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
670815 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
391 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
* *
670852 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
670917 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
66 TTAGAATTTTTAATTTAATAAT-ATATAT--CGTAACGTAAAAAATAAATCATTAGACGCCTATA
670982 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
128 ATTACTAAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGA
671047 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
192 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
671112 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
257 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
671177 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
322 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
671242 TCAATTTTTTTAACAGTGT
387 TCAATTTTTTTAACAGTGT
671261 ACTGCGAATT
Statistics
Matches: 400, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
427 85 0.21
428 6 0.01
430 62 0.16
431 247 0.62
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (427 bp):
TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
TTAGAATTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
ACTAAATTAATATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
Found at i:674048 original size:184 final size:184
Alignment explanation
Indices: 673739--674082 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
673729 TTCAAATTAC
* *
673739 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
* *
673804 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
673869 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
673923 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
*
673988 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * **
674053 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTACCTATTACATTATAAT
674083 ATGTTGAAAG
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
Found at i:675551 original size:3 final size:3
Alignment explanation
Indices: 675543--675629 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
675533 ACTTGTTTGG
* * * **
675543 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
675591 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
675630 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:675566 original size:18 final size:18
Alignment explanation
Indices: 675543--675644 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
675533 ACTTGTTTGG
675543 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
675561 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
675579 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
675597 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
675615 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
675633 AGCTTCATCTTC
1 ATCATCATCTTC
675645 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:675610 original size:42 final size:42
Alignment explanation
Indices: 675551--675641 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
675541 GGATCATCAT
*
675551 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
675593 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
675635 CTTCATC
1 CTTCATC
675642 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:678263 original size:197 final size:198
Alignment explanation
Indices: 677098--678391 Score: 2421
Period size: 199 Copynumber: 6.5 Consensus size: 198
677088 TTTAAATTAG
677098 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
677163 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
677228 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
677293 AAA
196 AAA
*
677296 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
677361 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* **
677426 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AA
677491 AAAAA
194 AAAAA
677496 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
677561 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* **
677626 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
677691 AAAA
195 AAAA
677695 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
677760 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
677825 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAA
677890 AAAA
195 AAAA
677894 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
677959 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
678024 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
678089 AAA
196 AAA
*
678092 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
678156 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
678221 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
678286 AAA
196 AAA
*
678289 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
678353 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT
678392 TTATATATGG
Statistics
Matches: 1079, Mismatches: 14, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
197 244 0.23
198 172 0.16
199 543 0.50
200 120 0.11
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:678504 original size:163 final size:163
Alignment explanation
Indices: 678229--678555 Score: 602
Period size: 163 Copynumber: 2.0 Consensus size: 163
678219 ATCGACACTT
*
678229 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCG
1 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGGAAAAAAATATCG
678294 ACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCAT-AAACCGGTATAATTGT
66 ACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATTGT
678358 ACCGGTTAGATTGAAAAATTACATATTACATTA
131 ACCGGTTAGATTGAAAAATTACATATTACATTA
* *
678391 TTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATC
1 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGG-AAAAAAATATC
*
678456 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTG
65 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATTG
678521 TACCGGTTAGATTGAAAAATTACATATTACATTA
130 TACCGGTTAGATTGAAAAATTACATATTACATTA
678555 T
1 T
678556 ACTTTTGGGT
Statistics
Matches: 159, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
162 50 0.31
163 59 0.37
164 50 0.31
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (163 bp):
TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGGAAAAAAATATCG
ACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATTGT
ACCGGTTAGATTGAAAAATTACATATTACATTA
Found at i:678694 original size:361 final size:360
Alignment explanation
Indices: 678032--678753 Score: 1365
Period size: 361 Copynumber: 2.0 Consensus size: 360
678022 ATCGACACTT
*
678032 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCG
1 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGGAAAAAAATATCG
678097 ACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAACCGGTATAATTGTA
66 ACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAACCGGTATAATTGTA
*
678162 CCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGATTTTGGGATCGACAC
131 CCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC
678227 TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATAT
196 TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATAT
678292 CGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCAT-AAACCGGTATAATT
261 CGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATT
678356 GTACCGGTTAGATTGAAAAATTACATATTACATTA
326 GTACCGGTTAGATTGAAAAATTACATATTACATTA
* *
678391 TTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATC
1 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGG-AAAAAAATATC
*
678456 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTG
65 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCAT-AAACCGGTATAATTG
*
678521 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGAC
129 TACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGAC
678586 ACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAT
194 ACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAT
678651 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAA
259 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAA
678716 TTGTACCGGTTAGATTGAAAAATTACATATTACATTA
324 TTGTACCGGTTAGATTGAAAAATTACATATTACATTA
678753 T
1 T
678754 ACTTTTGGTT
Statistics
Matches: 354, Mismatches: 6, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
359 50 0.14
360 59 0.17
361 195 0.55
362 50 0.14
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (360 bp):
TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGGAAAAAAATATCG
ACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAACCGGTATAATTGTA
CCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC
TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATAT
CGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATT
GTACCGGTTAGATTGAAAAATTACATATTACATTA
Found at i:678730 original size:198 final size:201
Alignment explanation
Indices: 678391--678827 Score: 790
Period size: 198 Copynumber: 2.2 Consensus size: 201
678381 TATTACATTA
* *
678391 TTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATC
1 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGGAAAAAAAATATC
*
678456 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTG
66 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATTG
678521 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGA
131 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGATCGA
678585 CAC-TT
196 CACTTT
*
678590 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATC
1 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGGAAAAAAAATATC
678654 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATTG
66 GACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATTG
* * *
678719 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGA
131 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGATCGA
678784 CACTTT
196 CACTTT
678790 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1 TTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
678828 GGCCATATTG
Statistics
Matches: 229, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
198 118 0.52
199 71 0.31
200 40 0.17
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (201 bp):
TTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCTGGAAAAAAAATATC
GACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAATTG
TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGATCGA
CACTTT
Found at i:678992 original size:19 final size:19
Alignment explanation
Indices: 678946--678994 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
678936 TTATATTCAC
*
678946 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
678965 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
678984 ATACAAAATTA
1 ATACAAAATTA
678995 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:680824 original size:33 final size:33
Alignment explanation
Indices: 680787--680852 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
680777 CATCTTAATA
*
680787 TCACCCCTTAACA-CTGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCT-AAACTTCTTTCACCACT
**
680820 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTAAACTTCTTTCACCACT
680853 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.24, C:0.44, G:0.02, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTAAACTTCTTTCACCACT
Found at i:683179 original size:17 final size:18
Alignment explanation
Indices: 683157--683199 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
683147 ATATATCCGG
683157 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
683174 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
683194 TATCAT
1 TATCAT
683200 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:683217 original size:20 final size:19
Alignment explanation
Indices: 683162--683208 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
683152 TCCGGTATCA
683162 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
683181 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
683202 TTTTACC
1 TTTTACC
683209 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:683356 original size:20 final size:20
Alignment explanation
Indices: 683330--683375 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
683320 CACTTTTAAA
683330 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
683349 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
683370 TTTACC
1 TTTACC
683376 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:683828 original size:229 final size:229
Alignment explanation
Indices: 683423--684100 Score: 1261
Period size: 229 Copynumber: 3.0 Consensus size: 229
683413 GATTTAAAAC
683423 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
683487 ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
66 ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
683552 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATA
131 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATA
683617 AGTATGGACACTTTTATAAAAATGATATATACTT
196 AGTATGGACACTTTTATAAAAATGATATATACTT
683651 TTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
683716 ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
66 ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
683781 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATA
131 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATA
683846 AGTATGGACACTTTTATAAAAATGATATATACTT
196 AGTATGGACACTTTTATAAAAATGATATATACTT
*
683880 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
* **
683945 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
66 ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
* * * *
684010 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATA
131 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATA
*
684074 AGTATGGACACTTTTATAAAAAGGATA
196 AGTATGGACACTTTTATAAAAATGATA
684101 GATAATTTAC
Statistics
Matches: 440, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
228 41 0.09
229 399 0.91
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (229 bp):
TTTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATA
AGTATGGACACTTTTATAAAAATGATATATACTT
Found at i:685200 original size:24 final size:24
Alignment explanation
Indices: 685156--685201 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
685146 TATAAGTTTT
* *
685156 AAAAAATATAAATTAATTATAACA
1 AAAAAAAATAAATTAAATATAACA
685180 AAAAAAAAT-AATTAAAATATAA
1 AAAAAAAATAAATT-AAATATAA
685202 TCTTGTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAAAAAATAAATTAAATATAACA
Found at i:686948 original size:28 final size:28
Alignment explanation
Indices: 686902--687002 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
686892 ATTAATTTTT
686902 TTAATTTAAAAATATATTTTATTCTTATC
1 TTAATTT-AAAATATATTTTATTCTTATC
*
686931 TTAATTTAAAATATATTTTATTCTTATT
1 TTAATTTAAAATATATTTTATTCTTATC
686959 TTAATTTAAAATATATTTTAGTT-TTATC
1 TTAATTTAAAATATATTTTA-TTCTTATC
*
686987 TTAATTTAAAAAATAT
1 TTAATTTAAAATATAT
687003 ATTTGGATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
28 59 0.87
29 9 0.13
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (28 bp):
TTAATTTAAAATATATTTTATTCTTATC
Found at i:687014 original size:30 final size:29
Alignment explanation
Indices: 686902--687030 Score: 140
Period size: 28 Copynumber: 4.5 Consensus size: 29
686892 ATTAATTTTT
*
686902 TTAATTTAAAAATATATTTTATTCTTATC
1 TTAATTTAAAAATATATTTGATTCTTATC
* *
686931 TTAATTT-AAAATATATTTTATTCTTATT
1 TTAATTTAAAAATATATTTGATTCTTATC
*
686959 TTAATTT-AAAATATATTTTAGTT-TTATC
1 TTAATTTAAAAATATATTTGA-TTCTTATC
686987 TTAATTTAAAAAATATATTTGGATT-TTATC
1 TTAATTT-AAAAATATATTT-GATTCTTATC
* **
687017 ATACCTTAAAAATA
1 TTAATTTAAAAATA
687031 AGAATAAAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
28 51 0.57
29 16 0.18
30 22 0.24
31 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (29 bp):
TTAATTTAAAAATATATTTGATTCTTATC
Found at i:687097 original size:29 final size:28
Alignment explanation
Indices: 687028--687162 Score: 137
Period size: 29 Copynumber: 4.5 Consensus size: 28
687018 TACCTTAAAA
*
687028 ATAAGAATAAAATATGTTTTTTAAGTTAAG
1 ATAA-AATAAAATAT-ATTTTTAAGTTAAG
687058 ATAAAATTAAAATATATTTTTAAGTTAA-
1 ATAAAA-TAAAATATATTTTTAAGTTAAG
*
687086 ATTATAAATAAAATATAATTTTAAGTTAAG
1 A-TA-AAATAAAATATATTTTTAAGTTAAG
* *
687116 ATAAGAATAAAATATATATTTAATAAATTAAA
1 ATAA-AATAAAATATAT-TTT--TAAGTTAAG
687148 ATAAAAATAAAATAT
1 AT-AAAATAAAATAT
687163 TAAGAATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 16
0.81 0.04 0.14
Matches are distributed among these distances:
28 2 0.02
29 49 0.54
30 19 0.21
32 19 0.21
33 2 0.02
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (28 bp):
ATAAAATAAAATATATTTTTAAGTTAAG
Found at i:687114 original size:58 final size:54
Alignment explanation
Indices: 687046--687157 Score: 163
Period size: 58 Copynumber: 2.0 Consensus size: 54
687036 AAAATATGTT
*
687046 TTTTAAGTTAAGATAA-AATTAAAATATATTTTTAAGTTAAATTATAAATAAAATATAA
1 TTTTAAGTTAAGATAAGAA-TAAAATATATATTTAA--TAAATTA-AAATAAAA-ATAA
687104 TTTTAAGTTAAGATAAGAATAAAATATATATTTAATAAATTAAAATAAAAATAA
1 TTTTAAGTTAAGATAAGAATAAAATATATATTTAATAAATTAAAATAAAAATAA
687158 AATATTAAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
54 4 0.08
55 8 0.15
56 7 0.13
58 31 0.60
59 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (54 bp):
TTTTAAGTTAAGATAAGAATAAAATATATATTTAATAAATTAAAATAAAAATAA
Found at i:687739 original size:20 final size:20
Alignment explanation
Indices: 687714--687785 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
687704 TTTTCCCAAT
687714 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
687734 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
687754 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAG-TAAA
687775 TCGCAATGCGA
1 TCGCAATGCGA
687786 TACTGACTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 33 0.72
21 13 0.28
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:687799 original size:20 final size:20
Alignment explanation
Indices: 687774--687827 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
687764 AATTGGAAAA
687774 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
687794 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
687814 ATCGCAATGCGATA
1 ATCGCAATGCGATA
687828 ATACAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:687818 original size:61 final size:61
Alignment explanation
Indices: 687771--687887 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
687761 GCGAATTGGA
* * * * *
687771 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * * *
687832 AAAATTGCAACGAGATATTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
687888 TTACATAGCG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:687863 original size:20 final size:20
Alignment explanation
Indices: 687838--687888 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
687828 ATACAAAATT
687838 GCAACGAGATAT-TGACTTTC
1 GCAACGAGAT-TCTGACTTTC
*
687858 GCAACGCGATTCTGACTTTC
1 GCAACGAGATTCTGACTTTC
*
687878 GCAACGCGATT
1 GCAACGAGATT
687889 TACATAGCGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (20 bp):
GCAACGAGATTCTGACTTTC
Found at i:688480 original size:19 final size:19
Alignment explanation
Indices: 688444--688485 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
688434 ACGAGAGAAT
*
688444 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
688463 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
688482 CGCA
1 CGCA
688486 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:688503 original size:19 final size:19
Alignment explanation
Indices: 688481--688573 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
688471 GAAACCAAAA
*
688481 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
688500 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
688514 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
688533 TCGCGTTGCGATTCTCTTT
1 TCGCGTTGCGATTTTCATT
*
688552 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
688572 TC
1 TC
688574 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
14 10 0.17
16 2 0.03
17 3 0.05
19 27 0.47
20 16 0.28
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:688573 original size:39 final size:33
Alignment explanation
Indices: 688486--688549 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
688476 CAAAATCGCA
688486 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
688519 TTGCGATAGTCATTTCGCGTTGCGATTCTCT
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCT
688550 TTATCTCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:690125 original size:63 final size:63
Alignment explanation
Indices: 690026--690156 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
690016 GTTACGTGAT
*
690026 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAAGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
*
690089 GAGGTCAATGTCTTGCGTGAAGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAAGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
690152 GAGGT
1 GAGGT
690157 GTCTACTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAAGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:690805 original size:21 final size:21
Alignment explanation
Indices: 690781--690847 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
690771 TCATTCCTCG
690781 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
690802 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
690823 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
690844 AGAG
1 AGAG
690848 CTCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:690805 original size:42 final size:42
Alignment explanation
Indices: 690729--690847 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
690719 GACTCGCCTG
* * * * * * *
690729 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
690771 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
690813 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
690848 CTCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:692224 original size:14 final size:14
Alignment explanation
Indices: 692205--692240 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
692195 ATTGTTTAAT
692205 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
692219 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
692233 TGATTTGT
1 TGATTTGT
692241 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:692418 original size:33 final size:33
Alignment explanation
Indices: 692381--692451 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
692371 AACGAGAGAA
692381 TCGCAACGCGAAAT-TAGCGTTGCGATTTTCATT
1 TCGCAACGCG-AATCTAGCGTTGCGATTTTCATT
** * **
692414 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCAACGCGAATCTAGCGTTGCGATTTTCATT
692447 TCGCA
1 TCGCA
692452 TTGCGATAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (33 bp):
TCGCAACGCGAATCTAGCGTTGCGATTTTCATT
Found at i:692424 original size:19 final size:19
Alignment explanation
Indices: 692400--692458 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
692390 GAAATTAGCG
692400 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
692419 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
692433 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
692452 TTGCGAT
1 TTGCGAT
692459 AGTAATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:692748 original size:20 final size:20
Alignment explanation
Indices: 692723--692760 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
692713 ATTCATTTGA
*
692723 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGAGAAAATGG
692743 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
692761 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:692803 original size:14 final size:16
Alignment explanation
Indices: 692783--692856 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
692773 TGAAAATCAC
692783 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
692798 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
692815 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
692834 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
692850 -TTGCGAT
1 ATTGCGAT
692857 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:692820 original size:19 final size:19
Alignment explanation
Indices: 692798--692846 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
692788 GATTTTCTCG
692798 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
692817 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
692836 TTGCGATTTTC
1 TTGCGATTTTC
692847 TCGTTGCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:692963 original size:14 final size:14
Alignment explanation
Indices: 692944--692980 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
692934 CATCAATTAA
692944 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
692958 ACAAATCATCTTTT
1 ACAAATCAACATTT
692972 ACAAATCAA
1 ACAAATCAA
692981 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:694884 original size:20 final size:19
Alignment explanation
Indices: 694849--694904 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
694839 GAAACTTAAA
694849 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
694868 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
*
694888 ATCGCAATGCGAAATGA
1 ATCGCAACGCGAAATGA
694905 AAATCACAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:694923 original size:14 final size:14
Alignment explanation
Indices: 694904--694961 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
694894 ATGCGAAATG
*
694904 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
694918 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
694934 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
694950 AAAATCGCAACG
1 AAAATCGCAACG
694962 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:694947 original size:32 final size:33
Alignment explanation
Indices: 694888--694966 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
694878 GGAAATGGCT
*
694888 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
*
694921 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
694953 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
694967 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCACAACGACAAA
Found at i:694995 original size:19 final size:18
Alignment explanation
Indices: 694973--695068 Score: 66
Period size: 19 Copynumber: 5.7 Consensus size: 18
694963 GAAACACAAA
694973 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
694992 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
695008 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
*
695024 TC-CAATTGCGATTT--TG
1 TCGC-ATTGCGATTTCATT
695040 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
*
695057 TTGCATTGCGAT
1 TCGCATTGCGAT
695069 AGCCATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 23
0.67 0.07 0.26
Matches are distributed among these distances:
14 15 0.25
15 3 0.05
16 10 0.17
17 3 0.05
18 13 0.22
19 16 0.27
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.47
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:695014 original size:14 final size:14
Alignment explanation
Indices: 694995--695052 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
694985 TTTCATTTCG
694995 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
695009 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
695025 CCAATTGCGATTTTGT
1 -C-GTTGCGATTTTGT
695041 CGTTGCGATTTT
1 CGTTGCGATTTT
695053 CATTTTGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 4 0.11
17 1 0.03
18 9 0.25
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:695025 original size:32 final size:33
Alignment explanation
Indices: 694978--695068 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 33
694968 ACAAATCGCA
*
694978 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
695011 TTGCGA-TTTCATTTC-CAATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGC-ATTGCGATTTTGTCG
*
695043 TTGCGATTTTCATTTTGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
695069 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.02
32 29 0.55
33 22 0.42
34 1 0.02
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:695087 original size:20 final size:20
Alignment explanation
Indices: 695062--695107 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
695052 TCATTTTGCA
695062 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
695082 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
695102 TTGCGA
1 TTGCGA
695108 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:695609 original size:18 final size:18
Alignment explanation
Indices: 695583--695627 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
695573 GTCGATCAGA
*
695583 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
695601 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
695619 TGATGGCTC
1 TGATGGCTC
695628 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:696995 original size:20 final size:20
Alignment explanation
Indices: 696947--697005 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
696937 AATAGTTTCT
** *
696947 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
696967 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
696987 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
697006 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:697053 original size:19 final size:19
Alignment explanation
Indices: 697031--697081 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
697021 GAAACTAAAA
697031 TCGCGTTGCGATTTGCATT
1 TCGCGTTGCGATTTGCATT
*
697050 TCGCGTTACGATTTGCATT
1 TCGCGTTGCGATTTGCATT
697069 TCGCGTTGCGATT
1 TCGCGTTGCGATT
697082 CTCGGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.12, C:0.22, G:0.25, T:0.41
Consensus pattern (19 bp):
TCGCGTTGCGATTTGCATT
Found at i:697314 original size:22 final size:22
Alignment explanation
Indices: 697287--697330 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
697277 GATGGAGATA
697287 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
697309 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
697331 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:697548 original size:20 final size:20
Alignment explanation
Indices: 697518--697610 Score: 150
Period size: 20 Copynumber: 4.7 Consensus size: 20
697508 GATTATGTAT
*
697518 TATCACGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
697538 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
697558 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
697578 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
697598 TATCTCGTTGCGA
1 TATCGCGTTGCGA
697611 TTTTGTATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:697641 original size:41 final size:42
Alignment explanation
Indices: 697533--697672 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 42
697523 CGTTGCGAAA
* * **
697533 GTCAGAATCGCGTTGCGAAAGTCAGTATCGCGTTGCGA--AA
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTT
* *
697573 GTCAGTATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTT
* * * *
697615 GT-ATTATCGCATTGCGATAGTCAGTATCACATTGCGATTTT
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTT
** *
697656 CCCAAT-TCGCGTTGCGA
1 GTCAGTATCGCGTTGCGA
697673 TTTACTTATT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
40 35 0.43
41 43 0.52
42 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
GTCAGTATCGCGTTGCGAAAGTCAGTATCACGTTGCGATTTT
Found at i:697672 original size:21 final size:21
Alignment explanation
Indices: 697646--697733 Score: 90
Period size: 20 Copynumber: 4.3 Consensus size: 21
697636 CAGTATCACA
*
697646 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTTACCAATTCGCG
** *
697667 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTACCAATTCGCG
*
697687 TTGCGATTTTTCCAATTCGCG
1 TTGCGATTTTACCAATTCGCG
** *
697708 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTACCAATTCGCG
697728 TTGCGA
1 TTGCGA
697734 ATTGGGAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
20 32 0.59
21 22 0.41
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (21 bp):
TTGCGATTTTACCAATTCGCG
Found at i:697673 original size:41 final size:40
Alignment explanation
Indices: 697580--697714 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 40
697570 AAAGTCAGTA
* * * ** *
697580 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCAAT
* *
697620 ATCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTT-CCAAT
* ** *
697662 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTTCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCACATTGCGA-TTTTCCAAT
697703 TCGCGTTGCGAT
1 TCGCGTTGCGAT
697715 TTACTTATTC
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
40 3 0.04
41 68 0.88
42 6 0.08
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (40 bp):
TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCAAT
Found at i:697685 original size:20 final size:20
Alignment explanation
Indices: 697660--697733 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
697650 GATTTTCCCA
*
697660 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
697680 ATTCGCATTGCGATTTTTCCA
1 ATTCGCATTGCGA-TTTACTT
*
697701 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
697721 ATTCGCATTGCGA
1 ATTCGCATTGCGA
697734 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:697715 original size:41 final size:41
Alignment explanation
Indices: 697644--697733 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
697634 GTCAGTATCA
697644 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
*
697685 CATTGCGATTTTTCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
697726 CATTGCGA
1 CATTGCGA
697734 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
Found at i:699890 original size:15 final size:15
Alignment explanation
Indices: 699870--699898 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
699860 TTCACCACAG
699870 TTTATTTTATTTTTC
1 TTTATTTTATTTTTC
699885 TTTATTTTATTTTT
1 TTTATTTTATTTTT
699899 TAGTACGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTTTATTTTTC
Found at i:702098 original size:100 final size:100
Alignment explanation
Indices: 701912--702099 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
701902 TTCATAAATT
701912 TTAAAAAATATATGTATATCATTAGATTTTTCTGAACAAATATATCATTATATTTTTTAAATTTA
1 TTAAAAAATATATGTATATCATTAGATTTTTCTGAACAAATATATCATTATATTTTTTAAATTTA
****
701977 TAAATTTTTTTAATAATATATATATATATTAGAAA
66 TAAAAAAATTTAATAATATATATATATATTAGAAA
*
702012 TTAAAAAATATATGTATATCATTAGATTTTTCTGAACAAATATATATATATATATTTTTTAAATT
1 TTAAAAAATATATGTATATCATTAGATTTTTCTGAACAAATATAT-CAT-TATATTTTTTAAATT
702077 TATAAAAAAATTTAATAATATAT
64 TATAAAAAAATTTAATAATATAT
702100 CTTAGTCAAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 45 0.56
101 2 0.02
102 34 0.42
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (100 bp):
TTAAAAAATATATGTATATCATTAGATTTTTCTGAACAAATATATCATTATATTTTTTAAATTTA
TAAAAAAATTTAATAATATATATATATATTAGAAA
Found at i:705007 original size:26 final size:27
Alignment explanation
Indices: 704954--705007 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
704944 AAGAAAGTAA
*
704954 AATATATTTATTATATTATAATTATTT
1 AATATATTTATTATATTATAAATATTT
*
704981 AATA-ATTTATTATTTTATTAAAT-TTT
1 AATATATTTATTATATTA-TAAATATTT
705007 A
1 A
705008 TTGTACTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
AATATATTTATTATATTATAAATATTT
Found at i:712147 original size:94 final size:90
Alignment explanation
Indices: 711979--712402 Score: 460
Period size: 81 Copynumber: 4.8 Consensus size: 90
711969 GAAAAAATAT
* *
711979 TTTATTTGAAAATTATTAACCGAACCAAATTAACCAATTTTTTTCTTTAACATTAATCGAACCAA
1 TTTATTTGAAAATTATTAACC-AA-CAAA-TAACGAATTTTTTTCTTTAACATTAATCGAACCGA
* *
712044 AATTATTTGATCGTTAATCGAACCGAAA
63 AATTATTTGACCGTTAATCGAACCCAAA
712072 TTTATTTGAAAATTATTAACCAAACCAAATTAACTGAATTTTTTTCTTTAACATTAATCGAACCG
1 TTTATTTGAAAATTATTAACC-AA-CAAA-TAAC-GAATTTTTTTCTTTAACATTAATCGAACCG
*
712137 AAATTATTTGACCGTTAATCGAACCGAAA
62 AAATTATTTGACCGTTAATCGAACCCAAA
* *
712166 TTTATTTGAAAATTATT----AAC------CGAATTTTTTTCTTTAACCATTAATTGAACCAAAA
1 TTTATTTGAAAATTATTAACCAACAAATAACGAATTTTTTTCTTTAA-CATTAATCGAACCGAAA
712221 TTATTTGACCGTTAATCGAACCCAAA
65 TTATTTGACCGTTAATCGAACCCAAA
*
712247 TTTATTTGAAAATTATT----AAC------CGAATTTTTTTCTTTAACCAGTAATCGAACCGAAA
1 TTTATTTGAAAATTATTAACCAACAAATAACGAATTTTTTTCTTTAA-CATTAATCGAACCGAAA
712302 TTATTTGACCGTTAATCGAACCCAAA
65 TTATTTGACCGTTAATCGAACCCAAA
* * * *
712328 TTTATTTGAAAATTATTAACCGAATAAAATAA--ATTATTTTTTATTTAACTGTTAATCGAACCG
1 TTTATTTGAAAATTATTAACC-AA-CAAATAACGAAT-TTTTTTCTTTAAC-ATTAATCGAACCG
712391 AAATTTATTTGA
62 AAA-TTATTTGA
712403 AAATTATTAA
Statistics
Matches: 299, Mismatches: 15, Indels: 34
0.86 0.04 0.10
Matches are distributed among these distances:
80 16 0.05
81 136 0.45
86 2 0.01
88 1 0.00
89 2 0.01
91 3 0.01
92 25 0.08
93 41 0.14
94 73 0.24
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (90 bp):
TTTATTTGAAAATTATTAACCAACAAATAACGAATTTTTTTCTTTAACATTAATCGAACCGAAAT
TATTTGACCGTTAATCGAACCCAAA
Found at i:712161 original size:26 final size:26
Alignment explanation
Indices: 712125--712336 Score: 110
Period size: 26 Copynumber: 7.9 Consensus size: 26
712115 TTCTTTAACA
712125 TTAATCGAACCGAAATTATTTGACCG
1 TTAATCGAACCGAAATTATTTGACCG
***
712151 TTAATCGAACCGAAATTTATTTGAAAA
1 TTAATCGAACCGAAA-TTATTTGACCG
* * * * *
712178 TT-AT-TAACCGAATTTTTTTCTTTAACCA
1 TTAATCGAACCGAA----ATTATTTGACCG
* *
712206 TTAATTGAACCAAAATTATTTGACCG
1 TTAATCGAACCGAAATTATTTGACCG
* ***
712232 TTAATCGAACCCAAATTTATTTGAAAA
1 TTAATCGAACCGAAA-TTATTTGACCG
* * * *
712259 TT-AT-TAACCGAATTTTTTTCTTTAACCAG
1 TTAATCGAACCGAA----ATTATTTGACC-G
712288 -TAATCGAACCGAAATTATTTGACCG
1 TTAATCGAACCGAAATTATTTGACCG
*
712313 TTAATCGAACCCAAATTTATTTGA
1 TTAATCGAACCGAAA-TTATTTGA
712337 AAATTATTAA
Statistics
Matches: 136, Mismatches: 33, Indels: 33
0.67 0.16 0.16
Matches are distributed among these distances:
25 14 0.10
26 61 0.45
27 28 0.21
28 16 0.12
29 4 0.03
30 13 0.10
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (26 bp):
TTAATCGAACCGAAATTATTTGACCG
Found at i:712383 original size:66 final size:67
Alignment explanation
Indices: 712302--712470 Score: 227
Period size: 66 Copynumber: 2.5 Consensus size: 67
712292 CGAACCGAAA
* * *
712302 TTATTTGACCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACCGAATAAAAT-AA-ATTAT
1 TTATTTAACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACAAAATCAACATT-T
712365 TTT
65 TTT
* *
712368 TTATTTAACTGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATT
1 TTATTTAACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACAAAATCAA-C-ATT
712433 TTTT
64 TTTT
* *
712437 TTCTTTAACCATTAATCGAACCGAAA-TTATTTGA
1 TTATTTAACCGTTAATCGAACCGAAATTTATTTGA
712471 CCGCTAATCG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
66 51 0.56
67 2 0.02
68 8 0.09
69 27 0.30
70 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (67 bp):
TTATTTAACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACAAAATCAACATTTT
TT
Found at i:712479 original size:95 final size:93
Alignment explanation
Indices: 712380--712563 Score: 255
Period size: 95 Copynumber: 2.0 Consensus size: 93
712370 ATTTAACTGT
* * *
712380 TAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATT-TTTTTTCTTTA
1 TAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACAAAAT-AA---ATTATTTTATCCTTA
*
712444 ACCATTAATCGAACCGAAA-TTATTTGACCGC
62 ACCATTAATCGAACCAAAATTTATTTGACCGC
* * *
712475 TAATCGAATCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAATTATTTTATCCTTAACCG
1 TAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACAAAATAAATTATTTTATCCTTAACCA
712540 TTAATCGAACCAAAATTTATTTGA
66 TTAATCGAACCAAAATTTATTTGA
712564 AAATTATTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
91 3 0.04
92 26 0.32
93 8 0.10
94 2 0.03
95 41 0.51
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (93 bp):
TAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACAAAATAAATTATTTTATCCTTAACCA
TTAATCGAACCAAAATTTATTTGACCGC
Found at i:712492 original size:161 final size:161
Alignment explanation
Indices: 712055--712630 Score: 676
Period size: 161 Copynumber: 3.6 Consensus size: 161
712045 ATTATTTGAT
* *
712055 CGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAACCAAATTAACTGAATTTTTTTCTT
1 CGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAAACAAATTAACCGAATTTTTTTCTT
712120 TAA-CATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTA
66 TAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTA
712184 ACCG---------AA-T-TTTTTTCTTTAAC
131 ACCGAATAAAATAAATTATTTTTTCTTTAAC
* * * *** * *
712204 CATTAATTGAACC-AAAATTATTTGACCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACC
1 CGTTAATCGAACCGAAATTTATTTGAAAATT-AT-TAA-CC-AA---A----ACAA--ATTAACC
* *
712268 GAATTTTTTTCTTTAACCAGTAATCGAACCGAAATTATTTGACCGTTAATCGAACCCAAATTTAT
53 GAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTAT
*
712333 TTGAAAATTATTAACCGAATAAAATAAATTATTTTTTATTTAAC
118 TTGAAAATTATTAACCGAATAAAATAAATTATTTTTTCTTTAAC
* * * * *
712377 TGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTCTT
1 CGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAAACAAATTAACCGAATTTTTTTCTT
* *
712442 TAACCATTAATCGAACCGAAATTATTTGACCGCTAATCGAATCGAAATTTATTTGAAAATTATTA
66 TAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTA
* *
712507 ACCGAATAAAATAAATTATTTTATCCTTAAC
131 ACCGAATAAAATAAATTATTTTTTCTTTAAC
* *
712538 CGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAATA-GAATTAACCGAATTTTTTTCT
1 CGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAA-ACAAATTAACCGAATTTTTTTCT
** *
712602 GGAACCATTAATCGAACTGAAATTTATTT
65 TTAACCATTAATCGAACCGAAA-TTATTT
712631 AACCAAATAA
Statistics
Matches: 356, Mismatches: 43, Indels: 43
0.81 0.10 0.10
Matches are distributed among these distances:
148 13 0.04
149 13 0.04
150 2 0.01
151 2 0.01
152 2 0.01
155 1 0.00
159 2 0.01
161 204 0.57
162 69 0.19
163 2 0.01
167 1 0.00
170 1 0.00
171 4 0.01
172 3 0.01
173 24 0.07
174 13 0.04
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (161 bp):
CGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAAACAAATTAACCGAATTTTTTTCTT
TAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTA
ACCGAATAAAATAAATTATTTTTTCTTTAAC
Found at i:721816 original size:17 final size:17
Alignment explanation
Indices: 721785--721818 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
721775 TAAATATAAC
*
721785 TCAAATTTATTTTATTA
1 TCAAATTTATGTTATTA
*
721802 TCAAATTTGTGTTATTA
1 TCAAATTTATGTTATTA
721819 CCCTTTTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TCAAATTTATGTTATTA
Found at i:723582 original size:22 final size:22
Alignment explanation
Indices: 723529--723582 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
723519 TATTCATACG
723529 GTATTGATACATTCTTAGAACA
1 GTATTGATACATTCTTAGAACA
* *
723551 GTACTAATACATTCTTAGAACA
1 GTATTGATACATTCTTAGAACA
*
723573 TTATTGATAC
1 GTATTGATAC
723583 TAGATAAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (22 bp):
GTATTGATACATTCTTAGAACA
Found at i:729671 original size:15 final size:15
Alignment explanation
Indices: 729651--729696 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
729641 TAAATACTAA
*
729651 CTTTTTTTTCTTTTT
1 CTTTTTTTTATTTTT
*
729666 CTTTTTTATATTTTT
1 CTTTTTTTTATTTTT
*
729681 CATTTTTTTTGTTTTT
1 C-TTTTTTTTATTTTT
729697 AAGAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTATTTTT
Found at i:730955 original size:39 final size:39
Alignment explanation
Indices: 730885--731213 Score: 491
Period size: 39 Copynumber: 8.5 Consensus size: 39
730875 ATTTTAAGAA
* *
730885 AAACAATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
730923 AAACTATCTCAAGCGACATAAAATCTTCTGTTTCAAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
730962 AAACTCTCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * *
731001 AAACCATCTCAAGAGAGATAAAATCTTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
731040 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * *
731078 AAACTATCTCAAGTGAGATAGAATCTTCTGTTTCGAGTA
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
731117 AAACTATCTCAAGCTAGATAAAATCTTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
** * *
731156 AAACTATCTCAAGCTTGATAAAATCGTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
731195 AAACTATCTCAAGCGAGAT
1 AAACTATCTCAAGCGAGAT
731214 GTTGAACCCT
Statistics
Matches: 263, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
38 52 0.20
39 211 0.80
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
Found at i:731156 original size:155 final size:155
Alignment explanation
Indices: 730885--731213 Score: 523
Period size: 155 Copynumber: 2.1 Consensus size: 155
730875 ATTTTAAGAA
* *
730885 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGACATAAAATCTT
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGACATAAAATCTT
* * *
730950 CTGTTTCAAGTGAAACTCTCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACCATCTCAAGA
66 CTGTTTCAAGTAAAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGTGAAACCATCTCAAGA
*
731015 GAGATAAAATCTTCTATTTCGAGTG
131 GAGATAAAATCGTCTATTTCGAGTG
* * *
731040 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAGAATCTT
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGACATAAAATCTT
* * * *
731105 CTGTTTCGAGTAAAACTATCTCAAGCTAGATAAAATCTTCTATTTCGAGTGAAACTATCTCAAGC
66 CTGTTTCAAGTAAAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGTGAAACCATCTCAAGA
**
731170 TTGATAAAATCGTCTATTTCGAGTG
131 GAGATAAAATCGTCTATTTCGAGTG
731195 AAACTATCTCAAGCGAGAT
1 AAACTATCTCAAGCGAGAT
731214 GTTGAACCCT
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
155 159 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (155 bp):
AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGACATAAAATCTT
CTGTTTCAAGTAAAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGTGAAACCATCTCAAGA
GAGATAAAATCGTCTATTTCGAGTG
Found at i:731164 original size:22 final size:22
Alignment explanation
Indices: 731139--731203 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
731129 GCTAGATAAA
731139 ATCTTCTATTTCGAGTGAAACT
1 ATCTTCTATTTCGAGTGAAACT
* *
731161 ATC-TCAAGCTT-GA-T-AAA--
1 ATCTTCTA-TTTCGAGTGAAACT
*
731178 ATCGTCTATTTCGAGTGAAACT
1 ATCTTCTATTTCGAGTGAAACT
731200 ATCT
1 ATCT
731204 CAAGCGAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 14
0.62 0.10 0.28
Matches are distributed among these distances:
17 5 0.16
18 5 0.16
19 4 0.13
20 4 0.13
21 5 0.16
22 8 0.26
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (22 bp):
ATCTTCTATTTCGAGTGAAACT
Found at i:731410 original size:42 final size:41
Alignment explanation
Indices: 731297--731410 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 41
731287 CCCCGAAGGT
* * * *
731297 CTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCAAAAGA
* * *
731338 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCAAAAGA
731380 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
731411 AGAAACCCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 20 0.33
42 39 0.65
43 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCAAAAGA
Found at i:731497 original size:58 final size:52
Alignment explanation
Indices: 731465--731794 Score: 254
Period size: 52 Copynumber: 6.1 Consensus size: 52
731455 TTCAGTTATA
731465 ATCAAGAAACCTCTAAAAATTAGGCTTAGTTTC-TAAAAATTCATTTAAAAAT
1 ATCAAGAAACC-CTAAAAATTAGGCTTAGTTTCTTAAAAATTCATTTAAAAAT
* *
731517 ATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTTAAAAATTCATTGGAAATCAT
1 ATCAAGAAA-CCCTAAAAATTAGGCTTAGTTTC--TTAAAAATTCATT-TAAA-AAT
* * *
731574 CATCAAGAAACCCCAGAAAATTAGGC-TAGTTTC-TAAAAACTCATTTAAAAAC
1 -ATCAAGAAACCCTA-AAAATTAGGCTTAGTTTCTTAAAAATTCATTTAAAAAT
* ** * * * **
731626 ATCCAGAAACCCTTAAAAATTATACTTAACTTCTTTTAAAAATTCATTGGAACTTAT
1 ATCAAGAAACCC-TAAAAATTAGGCTT-AGTT-TCTTAAAAATTCATT-TAA-AAAT
* * * * * * *
731683 CATCAACAAACCCTTGAAAATCAGGCTTAGTTTC-TAAAAACTCAGTTGAAAAC
1 -ATCAAGAAACCC-TAAAAATTAGGCTTAGTTTCTTAAAAATTCATTTAAAAAT
* * * *
731736 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAAAGTTCATTTGAAAAC
1 ATCAAGAAA-CCCTAAAAATTAGGCTTAG-TT-TCTTAAAAATTCATTTAAAAAT
731791 ATCA
1 ATCA
731795 TATCAAGGAG
Statistics
Matches: 218, Mismatches: 40, Indels: 37
0.74 0.14 0.13
Matches are distributed among these distances:
51 19 0.09
52 55 0.25
53 14 0.06
54 14 0.06
55 53 0.24
56 6 0.03
57 17 0.08
58 40 0.18
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (52 bp):
ATCAAGAAACCCTAAAAATTAGGCTTAGTTTCTTAAAAATTCATTTAAAAAT
Found at i:731646 original size:109 final size:110
Alignment explanation
Indices: 731465--731795 Score: 468
Period size: 109 Copynumber: 3.0 Consensus size: 110
731455 TTCAGTTATA
* *
731465 ATCAAGAAACCTCTA-AAAATTAGGCTTAGTTTCTAAAAATTCATTTAAAAATATCAAGAAACCC
1 ATCAAGAAACC-CTAGAAAATTAGGCTTAGTTTCTAAAAACTCATTTAAAAACATCAAGAAACCC
*
731529 CTAAAAATTAGGCTTAGTTTCTTTTAAAAATTCATTGGAAATCATC
65 CTAAAAATTAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATCATC
* * *
731575 ATCAAGAAACCCCAGAAAATTAGGC-TAGTTTCTAAAAACTCATTTAAAAACATCCAGAAACCCT
1 ATCAAGAAACCCTAGAAAATTAGGCTTAGTTTCTAAAAACTCATTTAAAAACATCAAGAAACCCC
** * * *
731639 TAAAAATTATACTTAACTTCTTTTAAAAATTCATTGGAACTTATC
66 TAAAAATTAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATCATC
* * * * *
731684 ATCAACAAACCCTTGAAAATCAGGCTTAGTTTCTAAAAACTCAGTTGAAAACATCAAGAAACCCC
1 ATCAAGAAACCCTAGAAAATTAGGCTTAGTTTCTAAAAACTCATTTAAAAACATCAAGAAACCCC
* * *
731749 TAAAAATTAGGCTTAGCTTCTTTTAAAAGTTCATTTGAAAACATC
66 TAAAAATTAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATCATC
731794 AT
1 AT
731796 ATCAAGGAGC
Statistics
Matches: 192, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
109 97 0.51
110 95 0.49
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (110 bp):
ATCAAGAAACCCTAGAAAATTAGGCTTAGTTTCTAAAAACTCATTTAAAAACATCAAGAAACCCC
TAAAAATTAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATCATC
Found at i:734222 original size:45 final size:45
Alignment explanation
Indices: 734189--734519 Score: 545
Period size: 45 Copynumber: 7.4 Consensus size: 45
734179 TATTGGCATG
* *
734189 AAAGTATGCTATAATTGAAATGCATATGAGTGCATTGTCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
**
734234 AAAGTATGCTATAGTTGAAATGCATATGGGCACATTGTCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
* *
734279 ATAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCGACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
734324 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
* *
734369 AAAGTATGCTATAGTTGAAATGCATATAGGTACATTGTCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
*
734414 AAAGTATGCTATAGTTGAAATGCATATAGGTGCATTGTCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
* * *
734459 AAAGTATGCGATAGTTGAAATGCATATGGGTGCGTTATCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
*
734504 AAAATATGCTATAGTT
1 AAAGTATGCTATAGTT
734520 AAAAAATGCA
Statistics
Matches: 267, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 267 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (45 bp):
AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
Found at i:735478 original size:16 final size:16
Alignment explanation
Indices: 735457--735490 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
735447 TTGATCGGTT
735457 TTCTTTATTTTCTTTC
1 TTCTTTATTTTCTTTC
*
735473 TTCTTTCTTTTCTTTC
1 TTCTTTATTTTCTTTC
735489 TT
1 TT
735491 TTTTTTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTATTTTCTTTC
Found at i:739863 original size:25 final size:26
Alignment explanation
Indices: 739817--739865 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
739807 AAATACTAAT
* * *
739817 TTTTTTCTTTTTTTATATATTTTTCA
1 TTTTTTCGTTTTTAAGATATTTTTCA
739843 TTTTTTCGTTTTTAAGA-ATTTTT
1 TTTTTTCGTTTTTAAGATATTTTT
739866 TAGAGAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTTTTCGTTTTTAAGATATTTTTCA
Found at i:742027 original size:81 final size:81
Alignment explanation
Indices: 741927--742814 Score: 1167
Period size: 81 Copynumber: 11.0 Consensus size: 81
741917 ACATTTCCAA
* ** *
741927 AGTAAAAGATTAATGGCCTAACTGTATATTTGGCAGAAATGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
741992 CGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * *
742008 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAA-GATGTCAAATGTGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATG-TGTCAATTATGCCAGTTAGATGA
** *
742072 ACGGTTAAATGTCATTG
65 ACGGTTAAATACCGTTG
* * * * *
742089 CGTAAAAGATTAATGGTCTAGCTATGCATTTGGCAGAAATGTGTCAATTATGCCAATCAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
742154 CGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * *
742170 AGTAAAAGATCAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATTCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
742235 TGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * * * *
742251 AGTAAAAGATAAATTGCCTAGCTGTTCATTTAGCAGAAAGGTGTC-A--A-G-CAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
* *
742311 CGATTAAATACCATTG
66 CGGTTAAATACCGTTG
*
742327 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGACAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
**
742392 CGGTTAAATATTGTTG
66 CGGTTAAATACCGTTG
* * * * * * * *
742408 AGTAAAATATTAATGGCCTAGTTGTGCATTTGGAAAAAATGTGTCAATTATACTAGTTAAATAAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
* *
742473 TGGTTAAATATCGTTG
66 CGGTTAAATACCGTTG
** * *
742489 AGTAAAAGATTAATGGCCTAATTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
742554 CGGTTAAATATCGTTG
66 CGGTTAAATACCGTTG
* * * * *
742570 AGTAAAAGATTAATGGCCTAGTTGTGCATTTTGCAAAAAGGTGTCAATTATGCCAGTTAGAAGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
742635 CGGTTAAATACTGTTG
66 CGGTTAAATACCGTTG
* * ** * * * *
742651 AGTAAAAGATTAATGGCATAACTGTGCATTTGAAAAAAAGGTGTCAATTATGTCAGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
742716 CAGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * *
742732 AGTAAAAGATTAATGGCCTAGTTGTACATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
742797 CGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
742813 AG
1 AG
742815 CATTTCATAG
Statistics
Matches: 703, Mismatches: 97, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
76 64 0.09
77 1 0.00
78 1 0.00
79 1 0.00
80 3 0.00
81 632 0.90
82 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAATACCGTTG
Found at i:742642 original size:243 final size:242
Alignment explanation
Indices: 741927--743670 Score: 2005
Period size: 243 Copynumber: 7.3 Consensus size: 242
741917 ACATTTCCAA
* **
741927 AGTAAAAGATTAATGGCCTAACTGTATATTTGGCAGAAATGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTAT-CTAGTTAGATGAA
* * * *
741992 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAAAT
65 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* ** * * * *
742057 GTGCCAGTTAGATGAACGGTTAAATGTCATTGCGTAAAAGATTAATGGTCTAGCTATGCATTTGG
130 ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGG
* * * *
742122 CAGAAATGTGTCAATTATGCCAATCAGATGAACGGTTAAATACCGTTG
195 CAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* *
742170 AGTAAAAGATCAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATTCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTA-TCTAGTTAGATGAA
* * * * * *
742235 TGGTTAAATACCGTTGAGTAAAAGATAAATTGCCTAGCTGTTCATTTAGCAGAAAGGTGTC-A--
65 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* *
742297 A-G-CAGTTAGATGAACGATTAAATACCATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
130 ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGG
* * * **
742360 CAGAAATGTGTCAATTATGACAGTTAGATGAACGGTTAAATATTGTTG
195 CAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * * * *
742408 AGTAAAATATTAATGGCCTAGTTGTGCATTTGGAAAAAATGTGTCAATTATACTAGTTAAATAAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTAT-CTAGTTAGATGAA
* * * *
742473 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAATTGTGCATTTGGCATAAAGGTGTCAATT
65 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* * *
742538 ATGCCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTTG
130 ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGG
* *
742603 CAAAAAGGTGTCAATTATGCCAGTTAGAAGAACGGTTAAATACTGTTG
195 CAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * ** * * * *
742651 AGTAAAAGATTAATGGCATAACTGTGCATTTGAAAAAAAGGTGTCAATTATGTCAGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATCT-AGTTAGATGAA
* * * *
742716 CAGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTACATTTGGCAAAAATGTGTCAATT
65 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* * **** * * * * * *
742781 ATGCCAGTTAGATGAACGGTTAAATACCGTTGAGCATTTCATAGAAAGGCGTCAATTATGCCAGT
130 ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGAT-TAATGGCCT-AGTTGTG-CATT
* * *
742846 TAG-AAGAA-----CAATTAAATACC-G-T---TG-A--G-TAAA-A-----G
192 TGGCAAAAAGGTGTCAATT--ATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * * * *
742878 A-T--TA-A-T---GGCCTAGCTATGCATTTGGGAAAAATGTATCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTAT-CTAGTTAGATGAA
* * ** ** *
742935 CGGTTAAATACCGTTGAGTAAAAGATTAAAGGCCTAGGTGTAAATTTGGCAGAAATATATCAATT
65 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* * *
743000 ATGCTAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTTTGCATTTGG
130 ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGG
*
743065 -AAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCGTTG
195 CAA-AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
** * * *
743113 CTTAAAAGATTAATGCCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTAT-CTAGTTAGATGAA
* * * *
743178 TGGTTAAATACCGTTGATTAAAATATTAATGGTCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
65 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* * ** *
743243 ATGCTAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGTCTAACTGTGTATTTGG
130 ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGG
* *
743308 CAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
195 CAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * *
743356 AGTAAAAGATTAATGACCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATCT-AGTTAGATGAA
* *
743421 CGGTTAAATACCTTTGAGTAAAAGATTAAT-GCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATT
65 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* * *
743485 ATGCCAGTTAAATGAACGGTTAAA-ACAATTGAGTAAAAGATTAATGGCCTACTTGTGCATTTGG
130 ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGG
743549 CAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
195 CAAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * *
743597 AGTAAAAGATTAATGGCCTAGCTGTGCATTAGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTAT-CTAGTTAGATGAA
* *
743662 AGGCTAAAT
65 CGGTTAAAT
743671 GTCTTTGGGT
Statistics
Matches: 1283, Mismatches: 172, Indels: 94
0.83 0.11 0.06
Matches are distributed among these distances:
216 7 0.01
217 7 0.01
218 6 0.00
219 134 0.10
220 4 0.00
221 1 0.00
222 7 0.01
223 1 0.00
224 1 0.00
225 2 0.00
226 2 0.00
227 2 0.00
228 1 0.00
229 4 0.00
230 1 0.00
232 1 0.00
233 4 0.00
234 1 0.00
235 1 0.00
236 2 0.00
237 2 0.00
238 207 0.16
239 3 0.00
240 7 0.01
241 149 0.12
242 61 0.05
243 643 0.50
244 8 0.01
245 9 0.01
246 5 0.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (242 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATCTAGTTAGATGAAC
GGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTA
TGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGC
AAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
Found at i:742924 original size:138 final size:138
Alignment explanation
Indices: 742687--742952 Score: 442
Period size: 138 Copynumber: 1.9 Consensus size: 138
742677 CATTTGAAAA
* * * * *
742687 AAAGGTGTCAATTATGTCAGTTATATGAACAGTTAAATACCGTTGAGTAAAAGATTAATGGCCTA
1 AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCCTA
* * *
742752 GTTGTACATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGCA
66 GCTATACATTTGGCAAAAATGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGCA
742817 TTTCATAG
131 TTTCATAG
742825 AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCCTA
1 AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCCTA
* *
742890 GCTATGCATTTGGGAAAAATGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
66 GCTATACATTTGGCAAAAATGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
742953 TAAAAGATTA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 118 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (138 bp):
AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCCTA
GCTATACATTTGGCAAAAATGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGCA
TTTCATAG
Found at i:743000 original size:219 final size:219
Alignment explanation
Indices: 742606--743033 Score: 667
Period size: 219 Copynumber: 2.0 Consensus size: 219
742596 CATTTTGCAA
* ** *
742606 AAAGGTGTCAATTATGCCAGTTAGAAGAACGGTTAAATACTGTTGAGTAAAAGATTAATGGCATA
1 AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCATA
* * * *
742671 ACTGTGCATTTGAAAAAAAGGTGTCAATTATGTCAGTTATATGAACAGTTAAATACCGTTGAGTA
66 ACTATGCATTTGAAAAAAAGGTATCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTA
* * * * *
742736 AAAGATTAATGGCCTAGTTGTACATTTGGCAAAAATGTGTCAATTATGCCAGTTAGATGAACGGT
131 AAAGATTAAAGGCCTAGGTGTAAATTTGGCAAAAATATATCAATTATGCCAGTTAGATGAACGGT
742801 TAAATACCGTTGAGCATTTCATAG
196 TAAATACCGTTGAGCATTTCATAG
*
742825 AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCCTA
1 AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCATA
* ** * *
742890 GCTATGCATTTGGGAAAAATGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTA
66 ACTATGCATTTGAAAAAAAGGTATCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTA
* *
742955 AAAGATTAAAGGCCTAGGTGTAAATTTGGCAGAAATATATCAATTATGCTAGTTAGATGAACGGT
131 AAAGATTAAAGGCCTAGGTGTAAATTTGGCAAAAATATATCAATTATGCCAGTTAGATGAACGGT
743020 TAAATACCGTTGAG
196 TAAATACCGTTGAG
743034 TAAAAGATTA
Statistics
Matches: 188, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
219 188 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (219 bp):
AAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCATA
ACTATGCATTTGAAAAAAAGGTATCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTA
AAAGATTAAAGGCCTAGGTGTAAATTTGGCAAAAATATATCAATTATGCCAGTTAGATGAACGGT
TAAATACCGTTGAGCATTTCATAG
Found at i:743686 original size:81 final size:81
Alignment explanation
Indices: 742823--743670 Score: 1207
Period size: 81 Copynumber: 10.5 Consensus size: 81
742813 AGCATTTCAT
* * **
742823 AGAAAGGCGTCAATTATGCCAGTTAGAAGAACAATTAAATACCGTTGAGTAAAAGATTAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
* *
742888 TAGCTATGCATTTGGG
66 TAGCTGTGCATTTGGC
* * * *
742904 AAAAATGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAAAGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
* **
742969 TAGGTGTAAATTTGGC
66 TAGCTGTGCATTTGGC
** * *
742985 AGAAATATATCAATTATGCTAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
* * *
743050 TAGTTTTGCATTTGGA
66 TAGCTGTGCATTTGGC
* ** *
743066 AGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCGTTGCTTAAAAGATTAATGCCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
*
743131 TAGCTGTGCATTTGGA
66 TAGCTGTGCATTTGGC
* * * * *
743147 AGAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCGTTGATTAAAATATTAATGGTC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
*
743212 TAGTTGTGCATTTGGC
66 TAGCTGTGCATTTGGC
* * *
743228 AGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGTC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
* *
743293 TAACTGTGTATTTGGC
66 TAGCTGTGCATTTGGC
* *
743309 AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGACC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
*
743374 TAGTTGTGCATTTGGC
66 TAGCTGTGCATTTGGC
* *
743390 AGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCTTTGAGTAAAAGATTAAT-GCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
* *
743454 TAGTTGTGCATTTGGT
66 TAGCTGTGCATTTGGC
* **
743470 AGAAAGGTGTCAATTATGCCAGTTAAATGAACGGTTAAA-ACAATTGAGTAAAAGATTAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
743534 TA-CTTGTGCATTTGGC
66 TAGC-TGTGCATTTGGC
*
743550 AAAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
*
743615 TAGCTGTGCATTAGGC
66 TAGCTGTGCATTTGGC
* * *
743631 AGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAAT
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAT
743671 GTCTTTGGGT
Statistics
Matches: 687, Mismatches: 76, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
79 19 0.03
80 107 0.16
81 560 0.82
82 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (81 bp):
AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCC
TAGCTGTGCATTTGGC
Found at i:749775 original size:13 final size:13
Alignment explanation
Indices: 749757--749784 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
749747 TAAATTCTTT
749757 TCCTACTAAAAGA
1 TCCTACTAAAAGA
749770 TCCTACTAAAAGA
1 TCCTACTAAAAGA
749783 TC
1 TC
749785 ATAATGCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (13 bp):
TCCTACTAAAAGA
Found at i:750341 original size:59 final size:59
Alignment explanation
Indices: 750249--750367 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
750239 GTTGACATCA
*
750249 ATTGGTGAAATAAACGAACAAAACACATAGAAATTACTTCGTAATTAATTAATAACTTT
1 ATTGGTGAAATAAACGAACAAAACACATAGAAATTACTTCGTAATTAAATAATAACTTT
750308 ATTGGTGAAATAAACGAACAAAGA-ACATAGAAATTACTTCGTAATTAAATAATAACTTT
1 ATTGGTGAAATAAACGAACAAA-ACACATAGAAATTACTTCGTAATTAAATAATAACTTT
750367 A
1 A
750368 ATTTCAAATC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 57 0.98
60 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (59 bp):
ATTGGTGAAATAAACGAACAAAACACATAGAAATTACTTCGTAATTAAATAATAACTTT
Found at i:751629 original size:35 final size:33
Alignment explanation
Indices: 751556--751657 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 33
751546 GAATACATTA
751556 TTTTTGGACCTCTATTTTTAAATTTTAAGATCTCC
1 TTTTTGGACC-CTATTTTTAAATTTTAA-ATCTCC
* *
751591 TTTTTGGAGCCCTATTTTTAAATTTTTAAATTTTC
1 TTTTTGGA-CCCTATTTTTAAA-TTTTAAATCTCC
***
751626 TTTTAAAACCCTATTTTTAAAATTTTAAATCT
1 TTTTTGGACCCTATTTTT-AAATTTTAAATCT
751658 GCCATTGGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
34 19 0.33
35 31 0.53
36 8 0.14
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (33 bp):
TTTTTGGACCCTATTTTTAAATTTTAAATCTCC
Found at i:751989 original size:19 final size:18
Alignment explanation
Indices: 751952--751990 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
751942 TAAAAGCTCA
**
751952 AAATAGTATCGATGTCTT
1 AAATAGTATCGATACCTT
751970 AAATAGATATCGATACCTT
1 AAATAG-TATCGATACCTT
751989 AA
1 AA
751991 TGAGGCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (18 bp):
AAATAGTATCGATACCTT
Found at i:753109 original size:33 final size:33
Alignment explanation
Indices: 753066--753265 Score: 337
Period size: 33 Copynumber: 6.1 Consensus size: 33
753056 TAGGAGGACC
* *
753066 ACCTCTTGCTCCTCTGGGAGAATAGTCTTCCCT
1 ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
*
753099 GCCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
1 ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
* *
753132 GCCTCTTGCTCCTCTAGGAGAAAAGTCTCCCCT
1 ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
753165 ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
1 ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
*
753198 ACCCCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
1 ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
*
753231 ACCCCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
1 ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
753264 AC
1 AC
753266 GTGGAGGAGG
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 160 1.00
ACGTcount: A:0.20, C:0.35, G:0.17, T:0.29
Consensus pattern (33 bp):
ACCTCTTGCTCCTCTAGGAGAAAAGTCTTCCCT
Found at i:755764 original size:31 final size:31
Alignment explanation
Indices: 755728--755791 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
755718 ATTTTTTTGG
755728 AAAAAT-ATAAATTAAATCCT-TCAAAATTTTA
1 AAAAATCATAAATTAAA-CCTCT-AAAATTTTA
* *
755759 AAAAATCTTAATTTAAACCTCTAAAATTTTA
1 AAAAATCATAAATTAAACCTCTAAAATTTTA
755790 AA
1 AA
755792 TTGATCCCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAAATCATAAATTAAACCTCTAAAATTTTA
Found at i:757164 original size:161 final size:161
Alignment explanation
Indices: 756899--757222 Score: 648
Period size: 161 Copynumber: 2.0 Consensus size: 161
756889 CTTGAGGAGA
756899 ATCCGGAGTTCTTGCTCTTCAGGCAGCAAGATAAATTGCTTGCTTCTTGGTTATTAACCACTGTA
1 ATCCGGAGTTCTTGCTCTTCAGGCAGCAAGATAAATTGCTTGCTTCTTGGTTATTAACCACTGTA
756964 AGTATAAAGATTCTTCCTCATCTTACTGGTCTTACCTCTTCGGTTGCTATTTGGCATGCTGTGAC
66 AGTATAAAGATTCTTCCTCATCTTACTGGTCTTACCTCTTCGGTTGCTATTTGGCATGCTGTGAC
757029 TCGTCTGTTTAGTGCGATATCTAGTGTAAAG
131 TCGTCTGTTTAGTGCGATATCTAGTGTAAAG
757060 ATCCGGAGTTCTTGCTCTTCAGGCAGCAAGATAAATTGCTTGCTTCTTGGTTATTAACCACTGTA
1 ATCCGGAGTTCTTGCTCTTCAGGCAGCAAGATAAATTGCTTGCTTCTTGGTTATTAACCACTGTA
757125 AGTATAAAGATTCTTCCTCATCTTACTGGTCTTACCTCTTCGGTTGCTATTTGGCATGCTGTGAC
66 AGTATAAAGATTCTTCCTCATCTTACTGGTCTTACCTCTTCGGTTGCTATTTGGCATGCTGTGAC
757190 TCGTCTGTTTAGTGCGATATCTAGTGTAAAG
131 TCGTCTGTTTAGTGCGATATCTAGTGTAAAG
757221 AT
1 AT
757223 TTCTTCTTTC
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 163 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (161 bp):
ATCCGGAGTTCTTGCTCTTCAGGCAGCAAGATAAATTGCTTGCTTCTTGGTTATTAACCACTGTA
AGTATAAAGATTCTTCCTCATCTTACTGGTCTTACCTCTTCGGTTGCTATTTGGCATGCTGTGAC
TCGTCTGTTTAGTGCGATATCTAGTGTAAAG
Found at i:757899 original size:12 final size:11
Alignment explanation
Indices: 757852--757963 Score: 93
Period size: 12 Copynumber: 9.5 Consensus size: 11
757842 AGCGTATGTG
757852 TATTATAT-TA
1 TATTATATATA
*
757862 TATAATATATGCA
1 TATTATATAT--A
* *
757875 TATTATGTTGTA
1 TATTAT-ATATA
757887 TATTATATAGTA
1 TATTATATA-TA
*
757899 TAAATATATATA
1 T-ATTATATATA
757911 TATATATATATA
1 TAT-TATATATA
757923 TATATATATATA
1 TAT-TATATATA
757935 TATATATATATA
1 TAT-TATATATA
757947 TATTATCA-ATA
1 TATTAT-ATATA
757958 TATTAT
1 TATTAT
757964 TACATTATTC
Statistics
Matches: 86, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
10 7 0.08
11 15 0.17
12 49 0.57
13 13 0.15
14 2 0.02
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (11 bp):
TATTATATATA
Found at i:757960 original size:2 final size:2
Alignment explanation
Indices: 757885--757949 Score: 105
Period size: 2 Copynumber: 32.5 Consensus size: 2
757875 TATTATGTTG
*
757885 TA TA T- TA TA TA GTA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
757927 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
757950 TATCAATATA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.95
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:762022 original size:13 final size:13
Alignment explanation
Indices: 762004--762028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
761994 TCTTTTAAAT
762004 AATAAACGAACAC
1 AATAAACGAACAC
762017 AATAAACGAACA
1 AATAAACGAACA
762029 TAAACGAACA
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:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (13 bp):
AATAAACGAACAC
Found at i:763105 original size:95 final size:95
Alignment explanation
Indices: 762993--763194 Score: 332
Period size: 95 Copynumber: 2.1 Consensus size: 95
762983 CAGATTATAA
*
762993 TATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGACTTT
1 TATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTT
* * *
763058 ATGGATAAGATTCAGCTAGCCTGATAAAGGT
65 ATGAATAAGATTCAGCTAACCTGATAAAGGC
* *
763089 TATTATAATATACAATAAAGTTTGAGTTGTCCCTCTAAAGTAATTGGTTAAACGCCCCGACTTTA
1 TATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
763154 TGAATAAGATTCAGCTAACCTGATAAAGGC
66 TGAATAAGATTCAGCTAACCTGATAAAGGC
*
763184 GATTATAATAT
1 TATTATAATAT
763195 TGAGCTGTCC
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
95 92 0.93
96 7 0.07
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (95 bp):
TATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
TGAATAAGATTCAGCTAACCTGATAAAGGC
Found at i:764421 original size:85 final size:86
Alignment explanation
Indices: 764316--764492 Score: 257
Period size: 85 Copynumber: 2.1 Consensus size: 86
764306 CCCATGTGGT
* * * **
764316 TTTCCCATTAAAGGGAGTCATCCAAAGATAATCTTACCTGGTTCAGACTTGCTAAGGGGAACCAC
1 TTTCCCATTAAAGGAAGTCATCCAAAGATAATCTCACCTGGTTCAAACCCGCTAAGGGGAACCAC
*
764381 CTGAGGAATATATCACATGGC
66 CTGAGGAATATACCACATGGC
* * *
764402 TTTCCCA-TAAAGGAAGTCATCTAAAGATCATCTCACCTGGTTCAAACCCGCTCAGGGGAACCAC
1 TTTCCCATTAAAGGAAGTCATCCAAAGATAATCTCACCTGGTTCAAACCCGCTAAGGGGAACCAC
*
764466 CTGAGGAATATACCACTTGGC
66 CTGAGGAATATACCACATGGC
764487 TTTCCC
1 TTTCCC
764493 GTGAAGGGGA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 74 0.91
86 7 0.09
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (86 bp):
TTTCCCATTAAAGGAAGTCATCCAAAGATAATCTCACCTGGTTCAAACCCGCTAAGGGGAACCAC
CTGAGGAATATACCACATGGC
Done.