Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 56
Found at i:2660499 original size:556 final size:555
Alignment explanation
Indices: 2659441--2660551 Score: 2098
Period size: 556 Copynumber: 2.0 Consensus size: 555
2659431 TCCAACGGCT
2659441 CCAAACCTTCCAAAACGGCTAAAAACGACTGAAACTCATTCCAACATATAAAAACAAGTTGAGGA
1 CCAAACCTTCCAAAACGGCTAAAAACGACTGAAACTCATTCCAACATATAAAAACAAGTTGAGGA
2659506 CACTTGAAGAAGGTTACACAACACCTATCCAAGAAATCAATCACAAGAGAAAATCTTTTCATTCT
66 CACTTGAAGAAGGTTACACAACACCTATCCAAGAAATCAATCACAAGAGAAAATCTTTTCATTCT
*
2659571 TTATTTTCTTTCTCTTGTAAATAGTTGTGTTTTTTAGCTTTAATTTGTAAAAACCTTCCTTTTTA
131 TTATTTTCTTTCACTTGTAAATAGTTGTGTTTTTTAGCTTTAATTTGTAAAAACCTTCCTTTTTA
2659636 GAGGTTTTCTTGTTTAAAATTATTTTCCTTTGTAAAAGGGTTTTGGTTCTAGCTAATCCTTTGAA
196 GAGGTTTTCTTGTTTAAAATTATTTTCCTTTGTAAAAGGGTTTTGGTTCTAGCTAATCCTTTGAA
2659701 AATATAGGGAATTTGTAAAGGTTATCTCTTTATCCTTGAAAAAAAAGAACAAATTATTGGATTTG
261 AATATAGGGAATTTGTAAAGGTTATCTCTTTATCCTTGAAAAAAAAGAACAAATTATTGGATTTG
2659766 TTGGAAAATCCTAAGTGAGGAGCTTAGGTAGTGGATGTAGACTTCATTGAGGAAGTTGAACCACT
326 TTGGAAAATCCTAAGTGAGGAGCTTAGGTAGTGGATGTAGACTTCATTGAGGAAGTTGAACCACT
2659831 ATAAATCATTGTGCAAAATTTTCTATCTTTATACTCATTACTCCCTAAATTTCAAAAAGCCAATT
391 ATAAATCATTGTGCAAAATTTTCTATCTTTATACTCATTACTCCCTAAATTTCAAAAAGCCAATT
* *
2659896 CACCCCCTACTTGACATATTTCGATTGATCGAACGAGCTTTATCGAGCTTAACATGCTTGCTTAC
456 CACCCCCTACTTGACATATTTCGATTGATCGAACGAGCTTCATCGAGCCTAACATGCTTGCTTAC
* *
2659961 AATCATTTTCCTTCCACTACTTGAGTCTTTCTTAA
521 AATCATTTGCCTTCCAATACTTGAGTCTTTCTTAA
* *
2659996 CCAAACTTTCCAAAACGGCTAAAAACGACTAGTAACTCATTCCAACATATAAAAACAAGTTGAGG
1 CCAAACCTTCCAAAACGGCTAAAAACGACT-GAAACTCATTCCAACATATAAAAACAAGTTGAGG
2660061 ACACTTGAAGAAGGTTACACAACACCTATCCAAGAAATCAATCACAAGAGAAAATCTTTTCATTC
65 ACACTTGAAGAAGGTTACACAACACCTATCCAAGAAATCAATCACAAGAGAAAATCTTTTCATTC
2660126 TTTATTTTCTTTCACTTGTAAATAGTTGTG-TTTTTAGCTTTAATTTGTAAAAACCTTCCTTTTT
130 TTTATTTTCTTTCACTTGTAAATAGTTGTGTTTTTTAGCTTTAATTTGTAAAAACCTTCCTTTTT
* *
2660190 AGAGGTTTTCTTGTTTAAAATTCTTTTTCTTTGTAAAAGGGTTTTGGTTCTAGCTAATCCTTTGA
195 AGAGGTTTTCTTGTTTAAAATTATTTTCCTTTGTAAAAGGGTTTTGGTTCTAGCTAATCCTTTGA
2660255 AAATATAGGGAATTTGTAAAGGTTATCTCTTTATCCTTGAAAAAAAAAGAACAAATTATTGGATT
260 AAATATAGGGAATTTGTAAAGGTTATCTCTTTATCCTTG-AAAAAAAAGAACAAATTATTGGATT
*
2660320 TGTTGGAAAATCCTAAGTGAGGAGCTTAGGTAGTGGATGTAGACTTCATTGAGGAATTTGAACCA
324 TGTTGGAAAATCCTAAGTGAGGAGCTTAGGTAGTGGATGTAGACTTCATTGAGGAAGTTGAACCA
2660385 CTATAAATCATTGTGCAAAATTTTCTATCTTTATACTCATTACTCCCTAAATTTCAAAAAGCCAA
389 CTATAAATCATTGTGCAAAATTTTCTATCTTTATACTCATTACTCCCTAAATTTCAAAAAGCCAA
*
2660450 TTCACCCCCTACTTGACATATTTTGATTGATCGAACGAGCTTCATCGAGCCTAACATGCTTGCTT
454 TTCACCCCCTACTTGACATATTTCGATTGATCGAACGAGCTTCATCGAGCCTAACATGCTTGCTT
2660515 ACAATCATTTGCCTTCCAATACTTGAGTCTTTCTTAA
519 ACAATCATTTGCCTTCCAATACTTGAGTCTTTCTTAA
2660552 TTCAACATTT
Statistics
Matches: 543, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
555 165 0.30
556 378 0.70
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (555 bp):
CCAAACCTTCCAAAACGGCTAAAAACGACTGAAACTCATTCCAACATATAAAAACAAGTTGAGGA
CACTTGAAGAAGGTTACACAACACCTATCCAAGAAATCAATCACAAGAGAAAATCTTTTCATTCT
TTATTTTCTTTCACTTGTAAATAGTTGTGTTTTTTAGCTTTAATTTGTAAAAACCTTCCTTTTTA
GAGGTTTTCTTGTTTAAAATTATTTTCCTTTGTAAAAGGGTTTTGGTTCTAGCTAATCCTTTGAA
AATATAGGGAATTTGTAAAGGTTATCTCTTTATCCTTGAAAAAAAAGAACAAATTATTGGATTTG
TTGGAAAATCCTAAGTGAGGAGCTTAGGTAGTGGATGTAGACTTCATTGAGGAAGTTGAACCACT
ATAAATCATTGTGCAAAATTTTCTATCTTTATACTCATTACTCCCTAAATTTCAAAAAGCCAATT
CACCCCCTACTTGACATATTTCGATTGATCGAACGAGCTTCATCGAGCCTAACATGCTTGCTTAC
AATCATTTGCCTTCCAATACTTGAGTCTTTCTTAA
Found at i:2664675 original size:16 final size:16
Alignment explanation
Indices: 2664654--2664695 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
2664644 AAGCTAAATA
2664654 AATAGGGAAATTCAAC
1 AATAGGGAAATTCAAC
2664670 AATAGGGAAATTCAAC
1 AATAGGGAAATTCAAC
*
2664686 AAAAGGGAAA
1 AATAGGGAAA
2664696 AACGTACATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.14
Consensus pattern (16 bp):
AATAGGGAAATTCAAC
Found at i:2667240 original size:178 final size:179
Alignment explanation
Indices: 2666940--2667297 Score: 610
Period size: 178 Copynumber: 2.0 Consensus size: 179
2666930 AGTGTTAGTA
2666940 ACACTTGTGTTGATTTCTTGCTTAGTGAGAGAAGTTGAAGAAAGCTCCAAAACTAGAGGGAAAGA
1 ACACTTGTGTTGATTTCTTGCTTAGTGAGAGAAGTTGAAGAAAGCTCCAAAACTAGAGGGAAAGA
* *
2667005 GAAGGTTACTCTTGGTTGAACATTGGGTGTTTCCAGCAGTCTAGACATTCAAGGTAACACATTTC
66 GAAGGTTACTCTTGGTTGAACATTGGATGTTTCCAGCAGTCTAGACATTCAAGGTAACACACTTC
*
2667070 TAACTCAACTCTACCACATTTAGATCATTAGATAAGTTTTGGTAGGTTG
131 TAACTCAACTCTAACACATTTAGATCATTAGATAAGTTTTGGTAGGTTG
* *
2667119 ACACTTGTGTTGATTTCTTGCTTAGTGAGA-AAGTTGGAGAAAGCTCCAAAACTAGAGGGAAATA
1 ACACTTGTGTTGATTTCTTGCTTAGTGAGAGAAGTTGAAGAAAGCTCCAAAACTAGAGGGAAAGA
* * * *
2667183 GAAGGTTACTCTTGGTTGACCCTTGGATGTTTCCAGCAGTCTAGATATTTAAGGTAACACACTTC
66 GAAGGTTACTCTTGGTTGAACATTGGATGTTTCCAGCAGTCTAGACATTCAAGGTAACACACTTC
* *
2667248 TAACTCAACTCTAACATATTTAGATCATTAGATAAGTTTTTGTAGGTTG
131 TAACTCAACTCTAACACATTTAGATCATTAGATAAGTTTTGGTAGGTTG
2667297 A
1 A
2667298 ATGAGTTATG
Statistics
Matches: 168, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
178 138 0.82
179 30 0.18
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (179 bp):
ACACTTGTGTTGATTTCTTGCTTAGTGAGAGAAGTTGAAGAAAGCTCCAAAACTAGAGGGAAAGA
GAAGGTTACTCTTGGTTGAACATTGGATGTTTCCAGCAGTCTAGACATTCAAGGTAACACACTTC
TAACTCAACTCTAACACATTTAGATCATTAGATAAGTTTTGGTAGGTTG
Found at i:2667895 original size:20 final size:20
Alignment explanation
Indices: 2667867--2667918 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2667857 AGTGAGTCAA
*
2667867 TATATATAC-CAATAGGTCGG
1 TATAGATACTCAAT-GGTCGG
*
2667887 TATAGATACTCAATGGTGGG
1 TATAGATACTCAATGGTCGG
*
2667907 TATCGATACTCA
1 TATAGATACTCA
2667919 GGGGTCAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
TATAGATACTCAATGGTCGG
Found at i:2690092 original size:23 final size:23
Alignment explanation
Indices: 2690027--2690092 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
2690017 CACCACAGCT
* *
2690027 CGTATAAATGCACCAAAGTACCA
1 CGTATAAATGCACCGAAGTGCCA
* * *
2690050 CGTATAATTGCACCGTAGTGCCG
1 CGTATAAATGCACCGAAGTGCCA
*
2690073 CGTAGAAATGCACCGAAGTG
1 CGTATAAATGCACCGAAGTG
2690093 TCATATAAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (23 bp):
CGTATAAATGCACCGAAGTGCCA
Found at i:2690489 original size:2 final size:2
Alignment explanation
Indices: 2690482--2690543 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
2690472 TTTTATGTCT
2690482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
2690523 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2690544 TACATGTTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2691516 original size:24 final size:20
Alignment explanation
Indices: 2691462--2691499 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2691452 TCCCCTTTGA
2691462 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
*
2691482 AGTGCATCGATTCATTCT
1 AGTGCATCGATACATTCT
2691500 TTAACATGTG
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:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:2691652 original size:14 final size:14
Alignment explanation
Indices: 2691633--2691660 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2691623 ATACACATTG
2691633 AATGTGCATCGATA
1 AATGTGCATCGATA
2691647 AATGTGCATCGATA
1 AATGTGCATCGATA
2691661 CACCTTGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
AATGTGCATCGATA
Found at i:2692899 original size:20 final size:19
Alignment explanation
Indices: 2692874--2692913 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2692864 TTCAATCCCT
*
2692874 TTCCTTTCTTTATTCCATTA
1 TTCCTTTATTTATTCC-TTA
2692894 TTCCTTTATTTATTCCTTA
1 TTCCTTTATTTATTCCTTA
2692913 T
1 T
2692914 ACACCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCCTTTATTTATTCCTTA
Found at i:2694917 original size:23 final size:23
Alignment explanation
Indices: 2694890--2694950 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 23
2694880 AGCTCGTATG
2694890 ATGCACCGAAGTGCCACGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
* *
2694913 TTGCA-CGTAGTGCCACGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
*
2694935 ATGGACCGAAGTGCCA
1 ATGCACCGAAGTGCCA
2694951 TATAAGGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 19 0.59
23 13 0.41
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.16
Consensus pattern (23 bp):
ATGCACCGAAGTGCCACGTAGAA
Found at i:2695319 original size:2 final size:2
Alignment explanation
Indices: 2695312--2695355 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2695302 ATGTCTTATC
*
2695312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2695354 AT
1 AT
2695356 TTACATGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2696272 original size:20 final size:21
Alignment explanation
Indices: 2696247--2696296 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
2696237 CCCTTTGAAA
2696247 TGCATCGATACATTC-TACAG
1 TGCATCGATACATTCTTACAG
* *
2696267 TGCATCGATGCATTCTTTCAG
1 TGCATCGATACATTCTTACAG
2696288 TGCATCGAT
1 TGCATCGAT
2696297 GCACTACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (21 bp):
TGCATCGATACATTCTTACAG
Found at i:2696290 original size:21 final size:20
Alignment explanation
Indices: 2696247--2696299 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
2696237 CCCTTTGAAA
*
2696247 TGCATCGATACATTCTACAG
1 TGCATCGATGCATTCTACAG
*
2696267 TGCATCGATGCATTCTTTCAG
1 TGCATCGATGCATTC-TACAG
2696288 TGCATCGATGCA
1 TGCATCGATGCA
2696300 CTACCCATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (20 bp):
TGCATCGATGCATTCTACAG
Found at i:2701465 original size:29 final size:30
Alignment explanation
Indices: 2701400--2701462 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
2701390 AAATAATTCA
* *
2701400 TAATTAATCAAATTATAGGGATTAAATATG
1 TAATTATTAAAATTATAGGGATTAAATATG
* *
2701430 TTATTATTAAAATTA-AGGGATT-AATCTG
1 TAATTATTAAAATTATAGGGATTAAATATG
2701458 TAATT
1 TAATT
2701463 TATCCTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.32
29 7 0.25
30 12 0.43
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (30 bp):
TAATTATTAAAATTATAGGGATTAAATATG
Found at i:2702598 original size:3 final size:3
Alignment explanation
Indices: 2702592--2702699 Score: 177
Period size: 3 Copynumber: 37.0 Consensus size: 3
2702582 ATATATTTAT
* *
2702592 ATA ATA ATA ATA ATG ATG ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2702639 ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2702685 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
2702700 TGGATAAAAA
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
2 6 0.06
3 94 0.94
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2702621 original size:26 final size:26
Alignment explanation
Indices: 2702592--2702699 Score: 157
Period size: 26 Copynumber: 4.1 Consensus size: 26
2702582 ATATATTTAT
* *
2702592 ATAATAATAATAATGATGATAATATA
1 ATAATAATAATAATAATAATAATATA
2702618 ATAATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATAAT-ATA
2702645 ATAAT-ATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATAAT-ATA
2702671 ATAAT-ATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATAAT-ATA
2702697 ATA
1 ATA
2702700 TGGATAAAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 71 0.90
27 8 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAATAATAATAATAATAATAATATA
Found at i:2703239 original size:107 final size:110
Alignment explanation
Indices: 2703005--2703645 Score: 768
Period size: 107 Copynumber: 5.9 Consensus size: 110
2702995 AGCATCAAAC
** *
2703005 AAAGGTTGAACAAGCTCTTCTCATTATGAAC-T-TTCTTCCTTCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG---TTCTCATT
* * * *
2703068 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGATGAATTCAGGTA
63 ATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGATA
2703116 AAAGGTTGAAC-AATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGA-TTCTCATTATG
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTCATTATG
* * *
2703178 AACTTTCTCTGGAAAA-ATAATCCATCCAGTGATGAATTCAGATT
66 AACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGATA
2703222 AAAGGTTGAACAAATTC-T-T-ATTATG-ACTTCTTCTTCCTTCTTCAGATGAGTTCTTC-TCAT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC-TCAT--T
* * * *
2703282 ATGAACCTTCTCTGGCAAAA-A-AATCCATCAAGTGATGAATTCAAACA
63 ATGAACTTTCTCTGG-AAAAGATGATCCATCAAGTGATGAATTCAGATA
2703329 AAAGGTTGAACAAATTCTTCTCATTATGAACTTC-T-TTCCTTCTTCAGATGAGTTCTTCATTAT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC-TCATTAT
* * * * *
2703392 GAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATATA
65 GAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGATA
2703438 AAAGGTTGAACAAA-TCTTCTCATTATGAACTTCTTCTTCC-T-TTC--ATGAGTTCT--TTATG
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTCATTATG
**** * * * *
2703496 AACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 AACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGATA
2703541 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG---TTCTCATT
*
2703606 ATGAACTTTCTCTGGAAAAGATTTATCCATCAAGTGATGA
63 ATGAACTTTCTCTGGAAAAGA-TGATCCATCAAGTGATGA
2703646 TTTGAATTTG
Statistics
Matches: 461, Mismatches: 40, Indels: 55
0.83 0.07 0.10
Matches are distributed among these distances:
103 65 0.14
104 45 0.10
105 7 0.02
106 47 0.10
107 89 0.19
108 48 0.10
109 60 0.13
110 29 0.06
111 33 0.07
112 5 0.01
113 19 0.04
114 14 0.03
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (110 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTCATTATG
AACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGATA
Found at i:2704494 original size:83 final size:84
Alignment explanation
Indices: 2704355--2704566 Score: 383
Period size: 83 Copynumber: 2.5 Consensus size: 84
2704345 GTAGTTCTTA
*
2704355 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
2704420 ATTCAATGATTGGTTCTG-
66 ATTCAATGATTGGTTCTGT
* *
2704438 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
2704503 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
2704522 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
2704567 TGGCAACTTC
Statistics
Matches: 125, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
83 123 0.98
84 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (84 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTGT
Found at i:2705356 original size:18 final size:16
Alignment explanation
Indices: 2705333--2705377 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
2705323 AATAGAAAAG
*
2705333 AATAAATTGAATTTCCAA
1 AATAAATTGAATCT-C-A
*
2705351 AATAAATTAAATCTCA
1 AATAAATTGAATCTCA
2705367 AATAAATTGAA
1 AATAAATTGAA
2705378 CTTGAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 1 0.04
18 12 0.50
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (16 bp):
AATAAATTGAATCTCA
Found at i:2705707 original size:6 final size:6
Alignment explanation
Indices: 2705696--2705744 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
2705686 TTGACCCCCC
* *
2705696 TTTCTT TTTCTT CTTCTT TTTCTT TCT-TT TTTCTTT TTTCTT TTT-TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT
2705743 TT
1 TT
2705745 ATTTTCTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 8 0.22
6 23 0.62
7 6 0.16
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:2705714 original size:12 final size:11
Alignment explanation
Indices: 2705696--2705758 Score: 55
Period size: 10 Copynumber: 6.0 Consensus size: 11
2705686 TTGACCCCCC
2705696 TTTCTTTTTCT
1 TTTCTTTTTCT
2705707 TCTTCTTTTTC-
1 T-TTCTTTTTCT
2705718 TTTC-TTTT-T
1 TTTCTTTTTCT
*
2705727 TCT-TTTTTCT
1 TTTCTTTTTCT
*
2705737 TTT-TTTTTAT
1 TTTCTTTTTCT
2705747 TTTCTTCTTTCT
1 TTTCTT-TTTCT
2705759 CTTAAGCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
9 10 0.24
10 15 0.36
11 4 0.10
12 13 0.31
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:2705731 original size:17 final size:16
Alignment explanation
Indices: 2705696--2705749 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 16
2705686 TTGACCCCCC
2705696 TTTCTTTTTCTTCTTCTT
1 TTTCTTTTT-TT-TTCTT
2705714 TTTCTTTCTTTTTTCTTT
1 TTTCTTT-TTTTTTC-TT
*
2705732 TTTCTTTTTTTTTATT
1 TTTCTTTTTTTTTCTT
2705748 TT
1 TT
2705750 CTTCTTTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.12
17 9 0.27
18 18 0.55
19 2 0.06
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTTTCTT
Found at i:2705732 original size:29 final size:28
Alignment explanation
Indices: 2705695--2705758 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2705685 CTTGACCCCC
2705695 CTTTCTTTTTCTTCTTCTTTTT-CTTTCTT
1 CTTTCTTTTTCTT-TT-TTTTTACTTTCTT
* *
2705724 TTTTCTTTTTTCTTTTTTTTTATTTTCTT
1 CTTTC-TTTTTCTTTTTTTTTACTTTCTT
2705753 CTTTCT
1 CTTTCT
2705759 CTTAAGCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 6 0.20
29 16 0.53
30 8 0.27
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (28 bp):
CTTTCTTTTTCTTTTTTTTTACTTTCTT
Found at i:2705754 original size:18 final size:18
Alignment explanation
Indices: 2705712--2705758 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
2705702 TTTCTTCTTC
*
2705712 TTTTTCTTTCTTTTTTCT
1 TTTTTCTTTCTTTTTTAT
2705730 TTTTTCTTT-TTTTTTAT
1 TTTTTCTTTCTTTTTTAT
2705747 TTTCTTCTTTCT
1 TTT-TTCTTTCT
2705759 CTTAAGCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.38
18 15 0.58
19 1 0.04
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTCTTTTTTAT
Found at i:2705761 original size:24 final size:25
Alignment explanation
Indices: 2705695--2705761 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 25
2705685 CTTGACCCCC
2705695 CTTTC-TTTTTCTTC-TTCT-TTTT
1 CTTTCTTTTTTCTTCTTTCTCTTTT
2705717 CTTTCTTTTTTCTT-TTT-TCTTTT
1 CTTTCTTTTTTCTTCTTTCTCTTTT
2705740 -TTT-TTATTTTCTTCTTTCTCTT
1 CTTTCTT-TTTTCTTCTTTCTCTT
2705762 AAGCATAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
21 2 0.05
22 16 0.41
23 17 0.44
24 4 0.10
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (25 bp):
CTTTCTTTTTTCTTCTTTCTCTTTT
Found at i:2716282 original size:18 final size:19
Alignment explanation
Indices: 2716252--2716296 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
2716242 TGCAAATAAA
2716252 ATAAAACAT-ATAAATAT-T
1 ATAAAA-ATAATAAATATAT
*
2716270 ATGAAAATAATAAATATAT
1 ATAAAAATAATAAATATAT
2716289 ATAAAAAT
1 ATAAAAAT
2716297 TTTAAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 13 0.57
19 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATAATAAATATAT
Found at i:2717182 original size:30 final size:31
Alignment explanation
Indices: 2717129--2717197 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
2717119 ATCTAATTCA
* *
2717129 TAATTAATCAAAATTATAGGGATTAAATATG
1 TAATTTATTAAAATTATAGGGATTAAATATG
* *
2717160 TTATTTATTAAAATTA-AGGGATTAAATCTG
1 TAATTTATTAAAATTATAGGGATTAAATATG
2717190 TAATTTAT
1 TAATTTAT
2717198 CCTAAATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 20 0.61
31 13 0.39
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (31 bp):
TAATTTATTAAAATTATAGGGATTAAATATG
Found at i:2718373 original size:3 final size:3
Alignment explanation
Indices: 2718365--2718430 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
2718355 TTTAATATAT
*
2718365 ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2718413 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
2718431 TGGATAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2718543 original size:18 final size:19
Alignment explanation
Indices: 2718515--2718550 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
2718505 GTTATATCTA
2718515 TTTTTTATTTTGAATTTCC
1 TTTTTTATTTTGAATTTCC
2718534 TTTTTT-TTTTGAATTTC
1 TTTTTTATTTTGAATTTC
2718551 TATTTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (19 bp):
TTTTTTATTTTGAATTTCC
Found at i:2718556 original size:18 final size:18
Alignment explanation
Indices: 2718511--2718558 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
2718501 CTAAGTTATA
2718511 TCTATTTTTTATTTTGAATT
1 TCTA-TTTTT-TTTTGAATT
2718531 TCCT-TTTTTTTTTGAATT
1 T-CTATTTTTTTTTGAATT
2718549 TCTATTTTTT
1 TCTATTTTTT
2718559 CAAAATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 16 0.62
19 5 0.19
20 1 0.04
21 2 0.08
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (18 bp):
TCTATTTTTTTTTGAATT
Found at i:2719062 original size:2 final size:2
Alignment explanation
Indices: 2719055--2719083 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2719045 CGAGGCTGAC
2719055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2719084 ATAGGGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2720698 original size:22 final size:20
Alignment explanation
Indices: 2720651--2720721 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
2720641 TTGGAAAGGT
2720651 AGTATCGATACTCCTGGCTG
1 AGTATCGATACTCCTGGCTG
2720671 AGTATCGATACT-CTAGTGCTGG
1 AGTATCGATACTCCT-G-GCT-G
*
2720693 AGTATCAATA-T--TGGCCTG
1 AGTATCGATACTCCTGG-CTG
2720711 AGTATCGATAC
1 AGTATCGATAC
2720722 CAAAATTAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
18 11 0.25
19 5 0.11
20 14 0.32
21 4 0.09
22 10 0.23
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCCTGGCTG
Found at i:2723528 original size:20 final size:20
Alignment explanation
Indices: 2723488--2723529 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2723478 AATTTAATCC
* *
2723488 AAATCAACATTTTAACCTTA
1 AAATCAACATTCTAACATTA
*
2723508 AAATCAACATTCTAATATTA
1 AAATCAACATTCTAACATTA
2723528 AA
1 AA
2723530 TTCCAGCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATCAACATTCTAACATTA
Found at i:2725909 original size:64 final size:65
Alignment explanation
Indices: 2725826--2725946 Score: 183
Period size: 65 Copynumber: 1.9 Consensus size: 65
2725816 ACTAAGAGTA
* * *
2725826 CATCGATGCATGAAGTGCATTCGTTG-TTTCAAAATAG-CCTGAGTGCATCGATGCATGGCTTGT
1 CATCGATGCATCAAATGCATTCGATGTTTTCAAAA-AGCCCTGAGTGCATCGATGCATGGCTTGT
2725889 G
65 G
*
2725890 CATCGATGCATCAAATGCATTCGATGTTTTCATAAAGCCCTGAGTGCATCGATGCAT
1 CATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCCCTGAGTGCATCGATGCAT
2725947 AAAATGTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 25 0.49
65 26 0.51
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (65 bp):
CATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCCCTGAGTGCATCGATGCATGGCTTGTG
Found at i:2725960 original size:64 final size:63
Alignment explanation
Indices: 2725826--2725961 Score: 150
Period size: 64 Copynumber: 2.1 Consensus size: 63
2725816 ACTAAGAGTA
* * * ****
2725826 CATCGATGCATGAAGTGCATTCGTTGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTTGT
1 CATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATAAAATGT
*
2725889 GCATCGATGCATCAAATGCATTCGATGTTTTCATAA-AGCCCTGAGTGCATCGATGCATAAAATG
1 -CATCGATGCATCAAATGCATTCGATG-TTTCAAAATAG-CCTGAGTGCATCGATGCATAAAATG
2725953 T
63 T
2725954 -ATTCGATG
1 CA-TCGATG
2725962 TTCAATTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
63 1 0.02
64 31 0.51
65 29 0.48
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
CATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATAAAATGT
Found at i:2728648 original size:23 final size:22
Alignment explanation
Indices: 2728618--2728697 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
2728608 GCATGACCTT
2728618 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
2728640 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
**
2728662 GTTTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
2728684 ATTCATCGATGCAC
1 GTGCATCGATGCAC
2728698 TGTTAGGTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 14 0.30
22 16 0.35
23 16 0.35
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:2728674 original size:21 final size:22
Alignment explanation
Indices: 2728644--2728697 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2728634 TCAAGGCGTG
* * *
2728644 CATCGGTGCACCTTCATGG-TT
1 CATCGATGCACATTCAAGGATT
*
2728665 TATCGATGCACATTCAAGGATT
1 CATCGATGCACATTCAAGGATT
2728687 CATCGATGCAC
1 CATCGATGCAC
2728698 TGTTAGGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (22 bp):
CATCGATGCACATTCAAGGATT
Found at i:2734582 original size:65 final size:65
Alignment explanation
Indices: 2734450--2734609 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
2734440 TTCATTAAGA
* * *
2734450 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGCTT
* *
2734514 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAA-AGCCCTGAGTGCATCGATGCATAG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAG-CCTGAGTGCATCGATGCATAGCT
2734577 AT
65 -T
* *
2734579 GTGCATCGATGCATAAAATGTATTCAATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
2734610 CAATTTATTC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 30 0.35
65 56 0.65
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGCTT
Found at i:2734599 original size:19 final size:19
Alignment explanation
Indices: 2734560--2734599 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2734550 AAAGCCCTGA
**
2734560 GTGCATCGATGCATAGTAT
1 GTGCATCGATGCATAAAAT
2734579 GTGCATCGATGCATAAAAT
1 GTGCATCGATGCATAAAAT
2734598 GT
1 GT
2734600 ATTCAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (19 bp):
GTGCATCGATGCATAAAAT
Found at i:2736440 original size:25 final size:25
Alignment explanation
Indices: 2736407--2736455 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2736397 TTAGCATATT
*
2736407 AAAAAGAAAGCTTGAAAA-TAAAAG
1 AAAAAGAAAACTTGAAAAGTAAAAG
2736431 AAAAATGAAAACTTGAAAAGTAAAA
1 AAAAA-GAAAACTTGAAAAGTAAAA
2736456 AGAGAAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 12 0.55
26 5 0.23
ACGTcount: A:0.67, C:0.04, G:0.14, T:0.14
Consensus pattern (25 bp):
AAAAAGAAAACTTGAAAAGTAAAAG
Found at i:2753380 original size:40 final size:40
Alignment explanation
Indices: 2753325--2753486 Score: 315
Period size: 40 Copynumber: 4.0 Consensus size: 40
2753315 TGCAGGTTTA
*
2753325 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGGG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2753365 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2753405 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2753445 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2753485 TA
1 TA
2753487 GCACTACGGT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2753702 original size:47 final size:47
Alignment explanation
Indices: 2753633--2753803 Score: 198
Period size: 48 Copynumber: 3.8 Consensus size: 47
2753623 AGTATATGGG
*
2753633 TAAAATAAGCTTACGAGCTTATGGGATTATATGGTAAGCATTTTGTA
1 TAAAATAAGCTTACGAGCTTATGGGATTATATGGTAAGTATTTTGTA
* *
2753680 TAAAATAAGCTTATGAGCTTATGGAATTTATATGGTAAGTATTTTGTA
1 TAAAATAAGCTTACGAGCTTATGGGA-TTATATGGTAAGTATTTTGTA
* * * *
2753728 TAAAATAAGCTTATG-G--AAT----TTAGATGGTAAGTATTTTG-G
1 TAAAATAAGCTTACGAGCTTATGGGATTATATGGTAAGTATTTTGTA
*
2753767 TAAAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAG
1 TAAAATAAGCTTACGAGCTTATGGGATTATATGGTAAG
2753804 AGATTTTATA
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
39 14 0.13
40 19 0.18
42 2 0.02
45 12 0.11
47 25 0.23
48 35 0.33
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (47 bp):
TAAAATAAGCTTACGAGCTTATGGGATTATATGGTAAGTATTTTGTA
Found at i:2753730 original size:48 final size:48
Alignment explanation
Indices: 2753633--2753790 Score: 201
Period size: 47 Copynumber: 3.5 Consensus size: 48
2753623 AGTATATGGG
* *
2753633 TAAAATAAGCTTACGAGCTTATGGGA-TTATATGGTAAGCATTTTGTA
1 TAAAATAAGCTTACGAGCTTATGGAATTTATATGGTAAGTATTTTGTA
*
2753680 TAAAATAAGCTTATGAGCTTATGGAATTTATATGGTAAGTATTTTGTA
1 TAAAATAAGCTTACGAGCTTATGGAATTTATATGGTAAGTATTTTGTA
* *
2753728 T--AA-AA---TA--AGCTTATGGAATTTAGATGGTAAGTATTTTG-G
1 TAAAATAAGCTTACGAGCTTATGGAATTTATATGGTAAGTATTTTGTA
2753767 TAAAATAAGCTTACGAGCTTATGG
1 TAAAATAAGCTTACGAGCTTATGG
2753791 GATAAATGGT
Statistics
Matches: 97, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
39 1 0.01
40 30 0.31
41 2 0.02
42 4 0.04
45 4 0.04
46 2 0.02
47 33 0.34
48 21 0.22
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (48 bp):
TAAAATAAGCTTACGAGCTTATGGAATTTATATGGTAAGTATTTTGTA
Found at i:2753739 original size:40 final size:39
Alignment explanation
Indices: 2753695--2753779 Score: 143
Period size: 40 Copynumber: 2.2 Consensus size: 39
2753685 TAAGCTTATG
*
2753695 AGCTTATGGAATTTATATGGTAAGTATTTTGTATAAAATA
1 AGCTTATGGAATTTAGATGGTAAGTATTTTG-ATAAAATA
*
2753735 AGCTTATGGAATTTAGATGGTAAGTATTTTGGTAAAATA
1 AGCTTATGGAATTTAGATGGTAAGTATTTTGATAAAATA
2753774 AGCTTA
1 AGCTTA
2753780 CGAGCTTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 13 0.30
40 30 0.70
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (39 bp):
AGCTTATGGAATTTAGATGGTAAGTATTTTGATAAAATA
Found at i:2760879 original size:22 final size:22
Alignment explanation
Indices: 2760853--2760904 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2760843 AAATCTTATG
*
2760853 CCCATGCTCCACTACACTGTTA
1 CCCATGCCCCACTACACTGTTA
* * *
2760875 CCCATGCCCCACTATACTTTTG
1 CCCATGCCCCACTACACTGTTA
2760897 CCCATGCC
1 CCCATGCC
2760905 TTACACAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.44, G:0.10, T:0.27
Consensus pattern (22 bp):
CCCATGCCCCACTACACTGTTA
Found at i:2762856 original size:20 final size:20
Alignment explanation
Indices: 2762810--2762856 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2762800 CACAAAATCT
*
2762810 TCTTTAATTTCTCTCAAATAC
1 TCTTTAAATTCTCTC-AATAC
2762831 TC-TTAAATTCTCTC-ATAGC
1 TCTTTAAATTCTCTCAATA-C
2762850 TCTTTAA
1 TCTTTAA
2762857 GGTATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 15 0.65
21 2 0.09
ACGTcount: A:0.28, C:0.23, G:0.02, T:0.47
Consensus pattern (20 bp):
TCTTTAAATTCTCTCAATAC
Found at i:2762882 original size:17 final size:18
Alignment explanation
Indices: 2762860--2762893 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2762850 TCTTTAAGGT
2762860 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
2762877 ATATTTTGTTAGTATTT
1 ATATTTTATTAGTATTT
2762894 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:2762925 original size:29 final size:31
Alignment explanation
Indices: 2762860--2762932 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
2762850 TCTTTAAGGT
2762860 ATATTTTA-TT-A-TATTTAATATTTTGTTA
1 ATATTTTATTTAATTATTTAATATTTTGTTA
*
2762888 GTATTTTATTTAATTATTTAA-ATTTT-TTA
1 ATATTTTATTTAATTATTTAATATTTTGTTA
2762917 ATATTTTATTTAATTA
1 ATATTTTATTTAATTA
2762933 ATTTTTTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 7 0.17
29 20 0.50
30 6 0.15
31 7 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (31 bp):
ATATTTTATTTAATTATTTAATATTTTGTTA
Found at i:2769982 original size:22 final size:22
Alignment explanation
Indices: 2769957--2769999 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2769947 CTTATATATC
2769957 ACTAAACATATTTTT-TATTTTA
1 ACTAAACAT-TTTTTGTATTTTA
* *
2769979 ACTATATATTTTTTGTATTTT
1 ACTAAACATTTTTTGTATTTT
2770000 TTAATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (22 bp):
ACTAAACATTTTTTGTATTTTA
Found at i:2770811 original size:26 final size:26
Alignment explanation
Indices: 2770751--2770819 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
2770741 TTTCTTAAAA
* *
2770751 AAAATAATTTTCAAAAAATAGAAAATG
1 AAAAT-ATTTTCTATAAATAGAAAATG
* *
2770778 AAACTATTTTCTATAAATA-AAAATAT
1 AAAATATTTTCTATAAATAGAAAAT-G
2770804 AAAATATTTTCTATAA
1 AAAATATTTTCTATAA
2770820 CCAAACAGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.14
26 27 0.75
27 4 0.11
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (26 bp):
AAAATATTTTCTATAAATAGAAAATG
Found at i:2782162 original size:21 final size:21
Alignment explanation
Indices: 2782124--2782177 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
2782114 TTTTTTTGTC
* *
2782124 TTTAGGTTTAGTAATTTAATA
1 TTTAAGTTTATTAATTTAATA
* * *
2782145 TTTAAGTTTATTACTTTATTG
1 TTTAAGTTTATTAATTTAATA
*
2782166 TTTAATTTTATT
1 TTTAAGTTTATT
2782178 TTTGCAGACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTAAGTTTATTAATTTAATA
Found at i:2788565 original size:18 final size:17
Alignment explanation
Indices: 2788533--2788573 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
2788523 AAATTATATT
2788533 AGTAAAATATTAAATAA
1 AGTAAAATATTAAATAA
*
2788550 AGTAACATACTTAAATAA
1 AGTAAAATA-TTAAATAA
*
2788568 ATTAAA
1 AGTAAA
2788574 TACATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (17 bp):
AGTAAAATATTAAATAA
Found at i:2790324 original size:16 final size:16
Alignment explanation
Indices: 2790299--2790332 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2790289 GAATCAGCTG
2790299 CATCAACTTCTGGGAT
1 CATCAACTTCTGGGAT
*
2790315 CATCATCTTCTGGGAT
1 CATCAACTTCTGGGAT
2790331 CA
1 CA
2790333 CTTTTATATT
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:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (16 bp):
CATCAACTTCTGGGAT
Found at i:2796950 original size:35 final size:36
Alignment explanation
Indices: 2796886--2796968 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 36
2796876 TTCGGTTAAT
2796886 TTTGTT-TA-TTACCATTTAATATCAGTTATTGTAA-
1 TTTGTTATATTTACCATTTAATATCA-TTATTGTAAG
2796920 TTTGGTTATCATTTACCATTTAATA-C-TTATTGTAAG
1 TTT-GTTAT-ATTTACCATTTAATATCATTATTGTAAG
2796956 TTTGTTATATTTA
1 TTTGTTATATTTA
2796969 AAATTATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
34 8 0.18
35 17 0.39
36 4 0.09
37 2 0.05
38 13 0.30
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (36 bp):
TTTGTTATATTTACCATTTAATATCATTATTGTAAG
Found at i:2800555 original size:42 final size:42
Alignment explanation
Indices: 2800507--2800608 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
2800497 CAATTATACA
* *
2800507 AGGCGCGGTACTTG-CCTCACACTATATATAATTATAAAGGTC
1 AGGCGCGGCACCTGACC-CACACTATATATAATTATAAAGGTC
* * *
2800549 AGGCGCGGCCCCTGACCCGCGCTATATATAATTATAAAGGTC
1 AGGCGCGGCACCTGACCCACACTATATATAATTATAAAGGTC
* *
2800591 AGGCGCAGCCCCTGACCC
1 AGGCGCGGCACCTGACCC
2800609 GCGCTATACC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 51 0.96
43 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (42 bp):
AGGCGCGGCACCTGACCCACACTATATATAATTATAAAGGTC
Found at i:2800609 original size:42 final size:42
Alignment explanation
Indices: 2800528--2800616 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
2800518 TTGCCTCACA
*
2800528 CTATATATAATTATAAAGGTCAGGCGCGGCCCCTGACCCGCG
1 CTATATATAATTATAAAGGTCAGGCGCAGCCCCTGACCCGCG
2800570 CTATATATAATTATAAAGGTCAGGCGCAGCCCCTGACCCGCG
1 CTATATATAATTATAAAGGTCAGGCGCAGCCCCTGACCCGCG
2800612 CTATA
1 CTATA
2800617 CCCTACGTGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (42 bp):
CTATATATAATTATAAAGGTCAGGCGCAGCCCCTGACCCGCG
Found at i:2802047 original size:31 final size:33
Alignment explanation
Indices: 2801999--2802068 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
2801989 ACCATCAAAG
2801999 ATTTTTTTTTGATAATAT-TATTCAATTTTCT-TA
1 ATTTTTTTTTGATAATATATATT--ATTTTCTCTA
*
2802032 ATTTTTTTTT-A-AATATATATTATTTTTTCTA
1 ATTTTTTTTTGATAATATATATTATTTTCTCTA
2802063 ATTTTT
1 ATTTTT
2802069 AACAATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 6 0.18
31 13 0.38
32 5 0.15
33 10 0.29
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (33 bp):
ATTTTTTTTTGATAATATATATTATTTTCTCTA
Found at i:2802505 original size:18 final size:18
Alignment explanation
Indices: 2802482--2802517 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2802472 ACGAGGGTCC
2802482 AAAGTCTGTCACTTTCTA
1 AAAGTCTGTCACTTTCTA
2802500 AAAGTCTGTCACTTTCTA
1 AAAGTCTGTCACTTTCTA
2802518 CATAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
AAAGTCTGTCACTTTCTA
Found at i:2803096 original size:21 final size:21
Alignment explanation
Indices: 2803059--2803098 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2803049 ATGTATCATA
*
2803059 TTTATATTTAAATATTATAAG
1 TTTATATTAAAATATTATAAG
2803080 TTTATA-TAAAATCATTATA
1 TTTATATTAAAAT-ATTATA
2803099 TATTAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTATATTAAAATATTATAAG
Found at i:2803734 original size:14 final size:13
Alignment explanation
Indices: 2803698--2803738 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
2803688 TTGTCACATC
2803698 AAAT-TCTTT-AA
1 AAATATCTTTAAA
2803709 AAATAT-TTTAAA
1 AAATATCTTTAAA
2803721 AAATATGCTTTAAA
1 AAATAT-CTTTAAA
2803735 AAAT
1 AAAT
2803739 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 9 0.35
14 10 0.38
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (13 bp):
AAATATCTTTAAA
Found at i:2804943 original size:13 final size:14
Alignment explanation
Indices: 2804916--2804950 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2804906 AAAAATATTT
2804916 AATCTTAATTAATA
1 AATCTTAATTAATA
2804930 AATCTTAA-TAATA
1 AATCTTAATTAATA
*
2804943 AATATTAA
1 AATCTTAA
2804951 CCTATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
AATCTTAATTAATA
Found at i:2806498 original size:27 final size:27
Alignment explanation
Indices: 2806467--2806556 Score: 153
Period size: 27 Copynumber: 3.3 Consensus size: 27
2806457 AGATGTTGGA
2806467 TTTAGGGTTATAAATAGAGGTTTAAAG
1 TTTAGGGTTATAAATAGAGGTTTAAAG
*
2806494 TTTAGGGTTATAAACAGAGGTTTAAAG
1 TTTAGGGTTATAAATAGAGGTTTAAAG
* *
2806521 TTTAGGGTAATAAATAAAGGTTTAAAG
1 TTTAGGGTTATAAATAGAGGTTTAAAG
2806548 TTTAGGGTT
1 TTTAGGGTT
2806557 TATATATTGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.37
Consensus pattern (27 bp):
TTTAGGGTTATAAATAGAGGTTTAAAG
Found at i:2807053 original size:21 final size:23
Alignment explanation
Indices: 2807024--2807065 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2807014 TCAGCTGTTA
*
2807024 TAACTCCCT-GAATTATATCATG
1 TAACTCCCTGGAATTAAATCATG
2807046 TAAC-CCCTGGAATTAAATCA
1 TAACTCCCTGGAATTAAATCA
2807066 AATCACTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (23 bp):
TAACTCCCTGGAATTAAATCATG
Found at i:2807810 original size:2 final size:2
Alignment explanation
Indices: 2807737--2807797 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
2807727 GATGTGTAAA
2807737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2807779 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
2807798 CAAAAGTATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2814352 original size:6 final size:6
Alignment explanation
Indices: 2814341--2814365 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2814331 GACACGTATT
2814341 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
2814366 GCCGAGCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2816708 original size:12 final size:12
Alignment explanation
Indices: 2816693--2816718 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2816683 TTTGTAATAT
2816693 ATTATTTTTTAA
1 ATTATTTTTTAA
2816705 ATTATTTTTTAA
1 ATTATTTTTTAA
2816717 AT
1 AT
2816719 AAAATTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTATTTTTTAA
Found at i:2823462 original size:25 final size:25
Alignment explanation
Indices: 2823431--2823490 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
2823421 GGAGTTTGAG
2823431 GGAGGAAGAATGAAAAAGAGATGGA
1 GGAGGAAGAATGAAAAAGAGATGGA
2823456 GGAGGAAGAATGAAAAAGAGATGGA
1 GGAGGAAGAATGAAAAAGAGATGGA
*
2823481 GAAGGAAGAA
1 GGAGGAAGAA
2823491 AATATTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.40, T:0.07
Consensus pattern (25 bp):
GGAGGAAGAATGAAAAAGAGATGGA
Found at i:2825612 original size:19 final size:19
Alignment explanation
Indices: 2825588--2825631 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
2825578 ATTTCAACTG
2825588 TGGTTGAATATAGTTAAAT
1 TGGTTGAATATAGTTAAAT
2825607 TGGTTGAATATAGTTAAAT
1 TGGTTGAATATAGTTAAAT
2825626 TGGTTG
1 TGGTTG
2825632 GATACAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (19 bp):
TGGTTGAATATAGTTAAAT
Found at i:2826673 original size:21 final size:21
Alignment explanation
Indices: 2826649--2826691 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2826639 GGTGTACATT
* * *
2826649 CCACATCCATTTCAGATGACA
1 CCACAGCCATATCAAATGACA
2826670 CCACAGCCATATCAAATGACA
1 CCACAGCCATATCAAATGACA
2826691 C
1 C
2826692 TGAAGTCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.35, G:0.09, T:0.19
Consensus pattern (21 bp):
CCACAGCCATATCAAATGACA
Found at i:2827281 original size:15 final size:16
Alignment explanation
Indices: 2827254--2827291 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2827244 AATTATGGAC
2827254 TTTT-ATTTATTTATT
1 TTTTAATTTATTTATT
2827269 TTTTAATTT-TTTATT
1 TTTTAATTTATTTATT
*
2827284 ATTTAATT
1 TTTTAATT
2827292 GTTCGAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTAATTTATTTATT
Found at i:2834959 original size:23 final size:23
Alignment explanation
Indices: 2834916--2834997 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 23
2834906 ATAGGGCAGA
* *
2834916 GGGAATCGATACCCCC-ATGAAG
1 GGGAACCGATACCCCCTTTGAAG
* *
2834938 GGGAACCGATTCCCCCTTTGAAA
1 GGGAACCGATACCCCCTTTGAAG
* *
2834961 GGGAACCGAT-TCCCCTTT-TAG
1 GGGAACCGATACCCCCTTTGAAG
*
2834982 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
2834998 CAAGGGTTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.20
22 25 0.51
23 14 0.29
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (23 bp):
GGGAACCGATACCCCCTTTGAAG
Found at i:2842611 original size:31 final size:31
Alignment explanation
Indices: 2842576--2842639 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
2842566 TGAAGAAATA
* *
2842576 AATGAAAAATACTTTAATAAAAAAATTTAAT
1 AATGAAAAAAACCTTAATAAAAAAATTTAAT
* *
2842607 AATGAAAAAAACCTTAATAGAAAATTTTAAT
1 AATGAAAAAAACCTTAATAAAAAAATTTAAT
2842638 AA
1 AA
2842640 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (31 bp):
AATGAAAAAAACCTTAATAAAAAAATTTAAT
Found at i:2847233 original size:19 final size:20
Alignment explanation
Indices: 2847206--2847257 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
2847196 ATACTCAAAA
* *
2847206 TAATTTTATTTTATGTA-TT
1 TAATATTATTTTATATATTT
*
2847225 TAATATTATTATA-ATATTT
1 TAATATTATTTTATATATTT
*
2847244 TAATATCATTTTAT
1 TAATATTATTTTAT
2847258 TAAAATATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TAATATTATTTTATATATTT
Found at i:2847326 original size:24 final size:24
Alignment explanation
Indices: 2847285--2847388 Score: 92
Period size: 23 Copynumber: 4.5 Consensus size: 24
2847275 AAATATTAAA
*
2847285 AATAT-ATTTAATAATTTTATAAT
1 AATATAATATAATAATTTTATAAT
* *
2847308 AATATAATATAAT-ATTTTTTTA-
1 AATATAATATAATAATTTTATAAT
* * *
2847330 AATATACT-CAATAATATTATAAT
1 AATATAATATAATAATTTTATAAT
**
2847353 AATATAATATAATATATTTTATTTT
1 AATATAATATAATA-ATTTTATAAT
2847378 AATAT-ATATAA
1 AATATAATATAA
2847389 CAAATTATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
21 3 0.05
22 13 0.21
23 19 0.30
24 16 0.25
25 12 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATAATATAATAATTTTATAAT
Found at i:2847385 original size:50 final size:45
Alignment explanation
Indices: 2847284--2847372 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
2847274 AAAATATTAA
* * *
2847284 AAATATATTTAATAATTTTATAATAATATAATATAATATTTTTTT
1 AAATATACTCAATAATATTATAATAATATAATATAATATTTTTTT
*
2847329 AAATATACTCAATAATATTATAATAATATAATATAATATATTTT
1 AAATATACTCAATAATATTATAATAATATAATATAATATTTTTT
2847373 ATTTTAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (45 bp):
AAATATACTCAATAATATTATAATAATATAATATAATATTTTTTT
Found at i:2847401 original size:45 final size:49
Alignment explanation
Indices: 2847306--2847401 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 49
2847296 TAATTTTATA
*
2847306 ATAATATAATATAATATTTTTTTAAATATACTCAATAATATTATAATAAT
1 ATAATATAATATAATATTTTTTTAAATATACTCAACAATATTAT-ATAAT
2847356 ATAATATAATAT-AT-TTTATTTTAATATATA-T-AACAA-ATTAT-TAAT
1 ATAATATAATATAATATTT-TTTTAA-ATATACTCAACAATATTATATAAT
2847401 A
1 A
2847402 AATTTATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
45 5 0.12
47 5 0.12
48 7 0.16
49 9 0.21
50 17 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (49 bp):
ATAATATAATATAATATTTTTTTAAATATACTCAACAATATTATATAAT
Found at i:2848134 original size:24 final size:24
Alignment explanation
Indices: 2848098--2848201 Score: 61
Period size: 25 Copynumber: 4.1 Consensus size: 24
2848088 TATCTCAGTG
* * *
2848098 TATAAATACTTAAATTCATAATATT
1 TATATATA-TTAAATTAAAAATATT
*
2848123 TATATATATTAACTTAAAAATATT
1 TATATATATTAAATTAAAAATATT
*
2848147 T-T-TATATTAACTTATTAAATATATT
1 TATATATATTAA---ATTAAAAATATT
*
2848172 T-TATTATTAACTTAATTTAAAAATATT
1 TATA-TA-T-A-TTAAATTAAAAATATT
2848199 TAT
1 TAT
2848202 TTTCATTTAG
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
22 8 0.13
23 1 0.02
24 14 0.23
25 19 0.31
27 13 0.21
28 2 0.03
29 1 0.02
30 4 0.06
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (24 bp):
TATATATATTAAATTAAAAATATT
Found at i:2848155 original size:22 final size:22
Alignment explanation
Indices: 2848117--2848186 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 22
2848107 TTAAATTCAT
2848117 AATATTTATATATATTAACTTAAA
1 AATATTT-T-TATATTAACTTAAA
*
2848141 AATATTTTTATATTAACTTATTA
1 AATATTTTTATATTAACTTA-AA
2848164 AATATATTTTATTATTAACTTAA
1 AATAT-TTTTA-TATTAACTTAA
2848187 TTTAAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.29
23 7 0.17
24 12 0.29
25 10 0.24
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTTTTATATTAACTTAAA
Found at i:2848170 original size:25 final size:24
Alignment explanation
Indices: 2848117--2848199 Score: 82
Period size: 22 Copynumber: 3.3 Consensus size: 24
2848107 TTAAATTCAT
2848117 AATATTTATATATATTAACTTA--AA
1 AATATTT-T-TATATTAACTTATTAA
2848141 AATATTTTTATATTAACTTATT-A
1 AATATTTTTATATTAACTTATTAA
2848164 AATATATTTTATTATTAACTTAATTTAAA
1 AATAT-TTTTA-TATTAACTT-A-TT-AA
2848193 AATATTT
1 AATATTT
2848200 ATTTTCATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
22 12 0.24
23 7 0.14
24 12 0.24
25 9 0.18
26 1 0.02
27 2 0.04
28 2 0.04
29 6 0.12
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
AATATTTTTATATTAACTTATTAA
Found at i:2848215 original size:20 final size:20
Alignment explanation
Indices: 2848186--2848233 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2848176 TATTAACTTA
*
2848186 ATTTAAAAATATTTATTTTC
1 ATTTAAAAATATATATTTTC
*
2848206 ATTTAGAAATATATATTTT-
1 ATTTAAAAATATATATTTTC
2848225 ATGTTAAAA
1 AT-TTAAAA
2848234 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
ATTTAAAAATATATATTTTC
Found at i:2848922 original size:29 final size:29
Alignment explanation
Indices: 2848877--2848934 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2848867 GTGTTGGCCG
2848877 TAGGTCGCAATGCCTTCCGGGCGACCTAC
1 TAGGTCGCAATGCCTTCCGGGCGACCTAC
* * *
2848906 TAGGTCGCCATGTCTTCCGGGCGAGCTAC
1 TAGGTCGCAATGCCTTCCGGGCGACCTAC
2848935 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.33, G:0.29, T:0.22
Consensus pattern (29 bp):
TAGGTCGCAATGCCTTCCGGGCGACCTAC
Found at i:2848998 original size:14 final size:14
Alignment explanation
Indices: 2848979--2849043 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 14
2848969 ATGGGCATCT
2848979 GAGGCCATCCGACC
1 GAGGCCATCCGACC
2848993 GAGGCCATCCGAGAGCATCC
1 GAGGCCATCC----G-A-CC
2849013 GAGGCCATCCGACC
1 GAGGCCATCCGACC
*
2849027 GAGGCCATCCGAAC
1 GAGGCCATCCGACC
2849041 GAG
1 GAG
2849044 CTATGCGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 28 0.64
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 12 0.27
ACGTcount: A:0.25, C:0.37, G:0.31, T:0.08
Consensus pattern (14 bp):
GAGGCCATCCGACC
Found at i:2849011 original size:34 final size:34
Alignment explanation
Indices: 2848973--2849061 Score: 124
Period size: 34 Copynumber: 2.5 Consensus size: 34
2848963 AACACGATGG
*
2848973 GCATCTGAGGCCATCCGACCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
2849007 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCG-A-GA
* *
2849043 GCTATGCGAGGGCATCCGA
1 GC-ATCCGAGGCCATCCGA
2849062 GGGCAACCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
34 30 0.61
35 1 0.02
36 4 0.08
37 14 0.29
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (34 bp):
GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
Found at i:2849038 original size:10 final size:10
Alignment explanation
Indices: 2848991--2849024 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2848981 GGCCATCCGA
2848991 CCGAGGCCAT
1 CCGAGGCCAT
2849001 CCGAGAG-CAT
1 CCGAG-GCCAT
2849011 CCGAGGCCAT
1 CCGAGGCCAT
2849021 CCGA
1 CCGA
2849025 CCGAGGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.05
10 20 0.91
11 1 0.05
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:2849077 original size:33 final size:33
Alignment explanation
Indices: 2849025--2849109 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
2849015 GGCCATCCGA
* * * *
2849025 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
2849058 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
2849091 CCGAGGG-AAGCCGAGCGAG
1 CCGAGGGCAA-CCGAGCGAG
2849110 GGTAGGTCGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 2 0.04
33 45 0.96
ACGTcount: A:0.26, C:0.27, G:0.39, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:2849159 original size:29 final size:29
Alignment explanation
Indices: 2849113--2849168 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
2849103 GAGCGAGGGT
* *
2849113 AGGTCGCCCGGAGTGCATGGTGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
2849142 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
2849169 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.38, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:2849784 original size:17 final size:17
Alignment explanation
Indices: 2849762--2849796 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2849752 TTATGAAACA
2849762 TTATATATGAAGTTTTT
1 TTATATATGAAGTTTTT
* *
2849779 TTATATGTGGAGTTTTT
1 TTATATATGAAGTTTTT
2849796 T
1 T
2849797 AGAATGATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (17 bp):
TTATATATGAAGTTTTT
Found at i:2851197 original size:32 final size:32
Alignment explanation
Indices: 2851161--2851274 Score: 120
Period size: 32 Copynumber: 3.6 Consensus size: 32
2851151 GACACTCTTG
2851161 TGCATTATCTAAATGCAACACTAACTTTGATA
1 TGCATTATCTAAATGCAACACTAACTTTGATA
* ** * *
2851193 TGCATTATCTGAATGCAATTCTAACTATGCTA
1 TGCATTATCTAAATGCAACACTAACTTTGATA
* * * *
2851225 TGCATTATCTAAATGTAGCACTTACTTTGTTA
1 TGCATTATCTAAATGCAACACTAACTTTGATA
* * *
2851257 TGTATTATATGAATGCAA
1 TGCATTATCTAAATGCAA
2851275 TACTGATACT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (32 bp):
TGCATTATCTAAATGCAACACTAACTTTGATA
Found at i:2851290 original size:64 final size:63
Alignment explanation
Indices: 2851161--2851293 Score: 169
Period size: 64 Copynumber: 2.1 Consensus size: 63
2851151 GACACTCTTG
* *
2851161 TGCATTATCTAAATGCAACACTAACTTTGATATGCATTATCTGAATGCAATTCTAACTATGCTA
1 TGCATTATCTAAATGCAACACTAACTTTGATATGCATTATATGAATGCAATACTAACTA-GCTA
* * * * *
2851225 TGCATTATCTAAATGTAGCACTTACTTTGTTATGTATTATATGAATGCAATACTGATACTA-CTA
1 TGCATTATCTAAATGCAACACTAACTTTGATATGCATTATATGAATGCAATACT-A-ACTAGCTA
2851289 TGCAT
1 TGCAT
2851294 CACACAAGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
64 55 0.92
65 1 0.02
66 4 0.07
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (63 bp):
TGCATTATCTAAATGCAACACTAACTTTGATATGCATTATATGAATGCAATACTAACTAGCTA
Found at i:2854081 original size:25 final size:26
Alignment explanation
Indices: 2854033--2854082 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
2854023 AATATTATAA
* * *
2854033 TAATATAATATAATATATTTTTAATT
1 TAATATAATATAACAAATTATTAATT
2854059 TAATAT-ATATAACAAATTATTAAT
1 TAATATAATATAACAAATTATTAAT
2854083 AAATTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATATAATATAACAAATTATTAATT
Found at i:2854836 original size:22 final size:24
Alignment explanation
Indices: 2854802--2854864 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 24
2854792 CATAATATAT
* *
2854802 ATATATATATATATTAGCTTA-AAA
1 ATATAT-TTTATATTAACTTATAAA
*
2854826 ATAT-TTTTATATTAACTTATTAA
1 ATATATTTTATATTAACTTATAAA
2854849 ATATATTTTATTATTA
1 ATATATTTTA-TATTA
2854865 TGTTAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 12 0.36
23 7 0.21
24 9 0.27
25 5 0.15
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATATTTTATATTAACTTATAAA
Found at i:2854892 original size:27 final size:27
Alignment explanation
Indices: 2854845--2854922 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
2854835 TATTAACTTA
* *
2854845 TTAAATATATTT-TATTATTATGTTAAT
1 TTAAAAATATTTAT-TTTTTATGTTAAT
* *
2854872 TTAAAAATATTTATTTTTTATTTTCAT
1 TTAAAAATATTTATTTTTTATGTTAAT
* *
2854899 TTAGAAATA--TATATTTTATGTTAA
1 TTAAAAATATTTATTTTTTATGTTAA
2854923 AATTTATTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
25 12 0.29
27 29 0.69
28 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (27 bp):
TTAAAAATATTTATTTTTTATGTTAAT
Found at i:2855856 original size:17 final size:17
Alignment explanation
Indices: 2855834--2855868 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2855824 TTATGAAACA
2855834 TTATATATGAAGTTTTT
1 TTATATATGAAGTTTTT
* *
2855851 TTATATGTGGAGTTTTT
1 TTATATATGAAGTTTTT
2855868 T
1 T
2855869 AGAATGATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (17 bp):
TTATATATGAAGTTTTT
Found at i:2857336 original size:32 final size:31
Alignment explanation
Indices: 2857195--2857348 Score: 132
Period size: 32 Copynumber: 4.8 Consensus size: 31
2857185 ATCTGTTGCA
* * *
2857195 CATTGTCTAAATTCTATACTGACACTCT-TATG
1 CATTATCTAAATGCAATACT-A-ACTCTCTATG
*
2857227 CATTATCTAAATG-ATATACTAACACTCTTATG
1 CATTATCTAAATGCA-ATACTAACTCTC-TATG
* * * * *
2857259 CATTATCAAAATACAACACTAACTTTACTATA
1 CATTATCTAAATGCAATACTAACTCT-CTATG
*
2857291 CATTATCTGAATGCAATACTAACTCTGCTATG
1 CATTATCTAAATGCAATACTAACTCT-CTATG
* *
2857323 CATTATCTAAATGCAGTACTGACTCT
1 CATTATCTAAATGCAATACTAACTCT
2857349 ATTTTGTATT
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
30 4 0.04
31 1 0.01
32 90 0.93
33 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (31 bp):
CATTATCTAAATGCAATACTAACTCTCTATG
Found at i:2857368 original size:32 final size:32
Alignment explanation
Indices: 2857210--2857389 Score: 125
Period size: 32 Copynumber: 5.6 Consensus size: 32
2857200 TCTAAATTCT
* *
2857210 ATACTGACACT-CTTATGCATTATCTAAATG-A
1 ATACTGACTCTAC-TATGCATTATCTGAATGCA
* * ** *
2857241 TATACTAACACT-CTTATGCATTATCAAAATACA
1 -ATACTGACTCTAC-TATGCATTATCTGAATGCA
* * * *
2857274 ACACTAACTTTACTATACATTATCTGAATGCA
1 ATACTGACTCTACTATGCATTATCTGAATGCA
* * *
2857306 ATACTAACTCTGCTATGCATTATCTAAATGCA
1 ATACTGACTCTACTATGCATTATCTGAATGCA
* * * * *
2857338 GTACTGACTCTATTTTGTATTGTCTGAATGCA
1 ATACTGACTCTACTATGCATTATCTGAATGCA
2857370 ATACTGA-TACTACTATGCAT
1 ATACTGACT-CTACTATGCAT
2857390 CACACAAGTT
Statistics
Matches: 118, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
31 1 0.01
32 115 0.97
33 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (32 bp):
ATACTGACTCTACTATGCATTATCTGAATGCA
Found at i:2858626 original size:21 final size:20
Alignment explanation
Indices: 2858593--2858633 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2858583 TTTAGCCCCA
2858593 ATTCAACCAGTATCGATACT
1 ATTCAACCAGTATCGATACT
*
2858613 ATTCATCCTAGTATCGATACT
1 ATTCAACC-AGTATCGATACT
2858634 TGAACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (20 bp):
ATTCAACCAGTATCGATACT
Found at i:2883328 original size:23 final size:24
Alignment explanation
Indices: 2883300--2883346 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2883290 TATTACATGA
*
2883300 TTTATTTTGTGTCATTGA-TATGT
1 TTTATTTTGTATCATTGATTATGT
*
2883323 TTTATTTTGTATTATTGATTATGT
1 TTTATTTTGTATCATTGATTATGT
2883347 CTTACTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.64
Consensus pattern (24 bp):
TTTATTTTGTATCATTGATTATGT
Found at i:2883861 original size:15 final size:15
Alignment explanation
Indices: 2883824--2883864 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
2883814 TTTTTAGTAA
2883824 TTTT-ATATTTGATT
1 TTTTAATATTTGATT
2883838 TTTTGAATATTTGATT
1 TTTT-AATATTTGATT
2883854 TTTTAATATTT
1 TTTTAATATTT
2883865 AAAATCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 14 0.56
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (15 bp):
TTTTAATATTTGATT
Found at i:2887505 original size:23 final size:23
Alignment explanation
Indices: 2887464--2887507 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2887454 CAGTAGAACA
**
2887464 TTAAATGAACATGTTCACAAATG
1 TTAAATGAACATGCCCACAAATG
2887487 TTAAATGAACATGCCCACAAA
1 TTAAATGAACATGCCCACAAA
2887508 CGCTAAACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (23 bp):
TTAAATGAACATGCCCACAAATG
Found at i:2887514 original size:23 final size:23
Alignment explanation
Indices: 2887465--2887520 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
2887455 AGTAGAACAT
** * *
2887465 TAAATGAACATGTTCACAAATGT
1 TAAATGAACATGCCCACAAACGC
2887488 TAAATGAACATGCCCACAAACGC
1 TAAATGAACATGCCCACAAACGC
*
2887511 TAAACGAACA
1 TAAATGAACA
2887521 AATATGAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.20
Consensus pattern (23 bp):
TAAATGAACATGCCCACAAACGC
Found at i:2887612 original size:4 final size:4
Alignment explanation
Indices: 2887603--2887647 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
2887593 TTTGCACGTC
* * * *
2887603 TATA TATA TATA TATA TATA TATA TGTA TGTA TATG TAAA TATA T
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA T
2887648 CCTCAGATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (4 bp):
TATA
Found at i:2887614 original size:6 final size:6
Alignment explanation
Indices: 2887603--2887647 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
2887593 TTTGCACGTC
* * * *
2887603 TATATA TATATA TATATA TATATA TGTATG TATATG TAAATA TAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TAT
2887648 CCTCAGATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (6 bp):
TATATA
Found at i:2887618 original size:10 final size:10
Alignment explanation
Indices: 2887603--2887647 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
2887593 TTTGCACGTC
2887603 TATATATATA
1 TATATATATA
2887613 TATATATATA
1 TATATATATA
* *
2887623 TATATGTATG
1 TATATATATA
* *
2887633 TATATGTAAA
1 TATATATATA
2887643 TATAT
1 TATAT
2887648 CCTCAGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (10 bp):
TATATATATA
Found at i:2890892 original size:28 final size:28
Alignment explanation
Indices: 2890861--2890916 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
2890851 ATAAAAATTA
* *
2890861 ATTTTCTTT-TAAATTACAATAAATGAAT
1 ATTTT-TTTATAAACTACAATAAAGGAAT
*
2890889 ATTTTTTTATAAACTCCAATAAAGGAAT
1 ATTTTTTTATAAACTACAATAAAGGAAT
2890917 TCACTTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (28 bp):
ATTTTTTTATAAACTACAATAAAGGAAT
Found at i:2891071 original size:29 final size:29
Alignment explanation
Indices: 2890919--2891115 Score: 114
Period size: 29 Copynumber: 6.7 Consensus size: 29
2890909 AAAGGAATTC
* * * **
2890919 ACTTTTCATAAATTAC-ATACAGGACACC
1 ACTTTTCATAAATTACAATAAAGAATAAA
* * *
2890947 ACTTTTCATAAATTATAATAGAGGATAAA
1 ACTTTTCATAAATTACAATAAAGAATAAA
* *
2890976 ACTTTTCACAAATTACAAATATAA-AGTAAA
1 ACTTTTCATAAATTAC-AATA-AAGAATAAA
* * * * ***
2891006 ACTTTTAAAAAAATTAAAATGAGAGAATTTT
1 ACTTTT-CATAAATTACAAT-AAAGAATAAA
** *
2891037 TTTTTTCATAAATTACAATAAAGAACAAA
1 ACTTTTCATAAATTACAATAAAGAATAAA
* *
2891066 ACTTTTCGTAAATTACTATAAA-AAGTAAA
1 ACTTTTCATAAATTACAATAAAGAA-TAAA
2891095 ACTTCTT-ATAAATTACAATAA
1 ACTT-TTCATAAATTACAATAA
2891116 TGAGATATAC
Statistics
Matches: 126, Mismatches: 35, Indels: 15
0.72 0.20 0.09
Matches are distributed among these distances:
28 17 0.13
29 64 0.51
30 30 0.24
31 15 0.12
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.34
Consensus pattern (29 bp):
ACTTTTCATAAATTACAATAAAGAATAAA
Found at i:2891131 original size:90 final size:88
Alignment explanation
Indices: 2890949--2891145 Score: 195
Period size: 90 Copynumber: 2.2 Consensus size: 88
2890939 AGGACACCAC
* * * * *
2890949 TTTTCATAAATTATAATAGAGGATAAAACTTTTCACAAATTACAAATATAAAGTAAAACTTTTAA
1 TTTTCATAAATTACAATAAAGAACAAAACTTTTCACAAATTACAAATAAAAAGTAAAACTTTT-A
* ***
2891014 AAAAATTAAAATGAGAGAATTTTTT
65 AAAAATTAAAATAAGAGAA-TACGT
** *
2891039 TTTTCATAAATTACAATAAAGAACAAAACTTTTCGTAAATTAC-TATAAAAAGTAAAACTTCTT-
1 TTTTCATAAATTACAATAAAGAACAAAACTTTTCACAAATTACAAATAAAAAGTAAAACTT-TTA
* *
2891102 ATAAATTACAATAATGAGATATACGT
65 AAAAATTAAAATAA-GAGA-ATACGT
2891128 TTTTC--AAATTACAATAAA
1 TTTTCATAAATTACAATAAA
2891146 AGTCCAATTT
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
87 13 0.14
88 11 0.12
89 26 0.29
90 40 0.44
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (88 bp):
TTTTCATAAATTACAATAAAGAACAAAACTTTTCACAAATTACAAATAAAAAGTAAAACTTTTAA
AAAATTAAAATAAGAGAATACGT
Found at i:2891666 original size:22 final size:21
Alignment explanation
Indices: 2891638--2891679 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
2891628 AAGATGGCGA
2891638 AGGTCGTGATCTACTGCAAGAG
1 AGGTCGTGATCTACT-CAAGAG
*
2891660 AGGTCGTGGTCTACTCAAGA
1 AGGTCGTGATCTACTCAAGA
2891680 TCAATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (21 bp):
AGGTCGTGATCTACTCAAGAG
Found at i:2893884 original size:31 final size:31
Alignment explanation
Indices: 2893841--2894006 Score: 235
Period size: 31 Copynumber: 5.2 Consensus size: 31
2893831 TCATGAGCTT
2893841 GACTCGACTCGAAAAGTTTAAAATTGAACTC
1 GACTCGACTCGAAAAGTTTAAAATTGAACTC
*
2893872 GACTGGACTCGAAAAGTTTAAAATTGAACTC
1 GACTCGACTCGAAAAGTTTAAAATTGAACTC
* *
2893903 GACTCGAATCAAAAAGTTTAAAATTGAATTTGACTC
1 GACTCGACTCGAAAAGTTTAAAATTG-A----ACTC
* *
2893939 GACTCGACTCAAAAAGTTTAAAATTGAA-TT
1 GACTCGACTCGAAAAGTTTAAAATTGAACTC
2893969 GACTCGACTCGAAAAGTTTAAAATTGAACTC
1 GACTCGACTCGAAAAGTTTAAAATTGAACTC
2894000 GACTCGA
1 GACTCGA
2894007 TTCGTAAGCT
Statistics
Matches: 121, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
30 28 0.23
31 62 0.51
32 1 0.01
35 1 0.01
36 29 0.24
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (31 bp):
GACTCGACTCGAAAAGTTTAAAATTGAACTC
Found at i:2893972 original size:25 final size:27
Alignment explanation
Indices: 2893950--2894006 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 27
2893940 ACTCGACTCA
2893950 AAAAGTTTAAAATTGAATTGACTCGACTC
1 AAAAGTTTAAAATTGAATTGACTCGA--C
*
2893979 GAAAAGTTTAAAATTGAACTCGACTCGA
1 -AAAAGTTTAAAATTGAA-TTGACTCGA
2894007 TTCGTAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (27 bp):
AAAAGTTTAAAATTGAATTGACTCGAC
Found at i:2902017 original size:16 final size:16
Alignment explanation
Indices: 2901992--2902025 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2901982 TAAAACTGGA
2901992 TTAAAATTAAATTAAT
1 TTAAAATTAAATTAAT
* *
2902008 TTAAATTTAAATTGAT
1 TTAAAATTAAATTAAT
2902024 TT
1 TT
2902026 TTTCTCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTAAAATTAAATTAAT
Found at i:2902624 original size:19 final size:20
Alignment explanation
Indices: 2902580--2902624 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2902570 ATTTGTTTTT
2902580 AATAAATTTTTATCTATTAA
1 AATAAATTTTTATCTATTAA
*
2902600 ATTAAATTTTTAT-T-TTCAA
1 AATAAATTTTTATCTATT-AA
2902619 AATAAA
1 AATAAA
2902625 ATATTAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 8 0.36
20 12 0.55
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAAATTTTTATCTATTAA
Found at i:2904723 original size:25 final size:26
Alignment explanation
Indices: 2904685--2904733 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
2904675 TTTACTATAA
2904685 AATTAGTAGATTAATAAATTAATAGT
1 AATTAGTAGATTAATAAATTAATAGT
* *
2904711 AATTATTA-ATTAATAATTTAATA
1 AATTAGTAGATTAATAAATTAATA
2904734 TCTTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (26 bp):
AATTAGTAGATTAATAAATTAATAGT
Found at i:2914515 original size:15 final size:15
Alignment explanation
Indices: 2914430--2914506 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
2914420 GTAGTATCTG
*
2914430 TACTATGAGTA-CAAA
1 TACTATGAGTATC-GA
**
2914445 TACTATGAGTGCCGA
1 TACTATGAGTATCGA
* * **
2914460 TATTGTGACAATCGA
1 TACTATGAGTATCGA
2914475 TACTATGAGTATCGA
1 TACTATGAGTATCGA
*
2914490 TACCATGAGTATCGA
1 TACTATGAGTATCGA
2914505 TA
1 TA
2914507 ATGTGAGTAC
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
15 47 0.98
16 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (15 bp):
TACTATGAGTATCGA
Found at i:2919823 original size:15 final size:15
Alignment explanation
Indices: 2919805--2919859 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
2919795 GTAGTATTTG
2919805 TACTATAAGTACCGA
1 TACTATAAGTACCGA
* *
2919820 TACTATGAGTATCGA
1 TACTATAAGTACCGA
* * * *
2919835 TACTGTGAGTGCTGA
1 TACTATAAGTACCGA
2919850 TACTATAAGT
1 TACTATAAGT
2919860 GCCAATACTG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (15 bp):
TACTATAAGTACCGA
Found at i:2937425 original size:80 final size:80
Alignment explanation
Indices: 2937292--2937457 Score: 314
Period size: 80 Copynumber: 2.1 Consensus size: 80
2937282 ACTTATTCAC
2937292 TAACTCTATTAGCTCACCAAATGTACATGTATGCATAAACAACAAATCACATAGCAATTAAGATT
1 TAACTCTATTAGCTCACCAAATGTACATGTATGCATAAACAACAAATCACATAGCAATTAAGATT
2937357 CACTTCTTAACATAG
66 CACTTCTTAACATAG
*
2937372 TAACTCTATTAGCTCACCAAATGTACATGTATGCGTAAACAACAAATCACATAGCAATTAAGATT
1 TAACTCTATTAGCTCACCAAATGTACATGTATGCATAAACAACAAATCACATAGCAATTAAGATT
*
2937437 CACTTCTTACCATAG
66 CACTTCTTAACATAG
2937452 TAACTC
1 TAACTC
2937458 AGTCACTGGC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (80 bp):
TAACTCTATTAGCTCACCAAATGTACATGTATGCATAAACAACAAATCACATAGCAATTAAGATT
CACTTCTTAACATAG
Found at i:2937929 original size:19 final size:20
Alignment explanation
Indices: 2937905--2937949 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
2937895 CAAAATGACA
*
2937905 CAATTTCA-CATTCTAACAT
1 CAATTTCAGCACTCTAACAT
*
2937924 CAATTTTAGCACTCTAACAT
1 CAATTTCAGCACTCTAACAT
2937944 -AATTTC
1 CAATTTC
2937950 CAGCCTAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (20 bp):
CAATTTCAGCACTCTAACAT
Found at i:2942750 original size:25 final size:25
Alignment explanation
Indices: 2942713--2942777 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
2942703 ATGCCAGCTC
* *
2942713 ATTTGTTTACATGCTTAATCTTTGAT
1 ATTT-TTTTCATGCTCAATCTTTGAT
2942739 ATTTTTTTCATGCTCAATCTTTGAT
1 ATTTTTTTCATGCTCAATCTTTGAT
2942764 ATTTTTTTCATGCT
1 ATTTTTTTCATGCT
2942778 GGTTTGCTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57
Consensus pattern (25 bp):
ATTTTTTTCATGCTCAATCTTTGAT
Found at i:2943284 original size:18 final size:20
Alignment explanation
Indices: 2943261--2943313 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
2943251 ATACTCAAAG
2943261 TAATATTATTTAT-ATA-TT
1 TAATATTATTTATAATATTT
*
2943279 TAATATTA-ATATAATATTT
1 TAATATTATTTATAATATTT
*
2943298 TAATATCATTT-TAATA
1 TAATATTATTTATAATA
2943314 AAAATATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.10
18 11 0.38
19 14 0.48
20 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATATTATTTATAATATTT
Found at i:2943527 original size:27 final size:24
Alignment explanation
Indices: 2943465--2943533 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 24
2943455 TAAATTATTG
*
2943465 ATAAAATTAATAATATTTATTAATTA
1 ATAAAA-TAATAATA-TTATTAATCA
2943491 A-AAAATAATAATATTATTGAATCA
1 ATAAAATAATAATATTATT-AATCA
2943515 ATAATAATAAATAATATTA
1 ATAA-AAT-AATAATATTA
2943534 GTTTATGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 5 0.13
24 13 0.34
25 6 0.16
26 4 0.11
27 10 0.26
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (24 bp):
ATAAAATAATAATATTATTAATCA
Found at i:2943740 original size:2 final size:2
Alignment explanation
Indices: 2943733--2943788 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2943723 TTTAGGTTAC
2943733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2943775 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2943789 TATCACATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.