Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 131 of 352
Found at i:42334045 original size:30 final size:30
Alignment explanation
Indices: 42334004--42334061 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42333994 TTTTATTATT
*
42334004 AATTTTATTATTATTTTAAAGGCATTTGTA
1 AATTTTATTATTATTTTAAAGACATTTGTA
* *
42334034 AATTTTGTTATTATTTTAGAGACATTTG
1 AATTTTATTATTATTTTAAAGACATTTG
42334062 CTTGTTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (30 bp):
AATTTTATTATTATTTTAAAGACATTTGTA
Found at i:42337302 original size:16 final size:16
Alignment explanation
Indices: 42337283--42337317 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
42337273 TAGTACTTTT
42337283 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
42337299 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
42337315 AAT
1 AAT
42337318 TATAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:42337375 original size:92 final size:91
Alignment explanation
Indices: 42337237--42337432 Score: 315
Period size: 92 Copynumber: 2.2 Consensus size: 91
42337227 ATTATTAAGC
** * *
42337237 TTGATTATTAAATAAGGTTATTTGTAAAGTAATTTTTAGTACTTTTAATGTTAAAGGACTAAAAT
1 TTGATTATTAAATAAGACTATTTGTAAAGTAATCTTTAGTAATTTTAATGTTAAAGGACTAAAAT
42337302 GTTAAAGTGATAAAATTATAAGGACT
66 GTTAAAGTGATAAAATTATAAGGACT
*
42337328 TTGATTGTTAAATAAGACTATTTAGTAAAGTAATCTTTAGTAATTTTAATGTTAAAGGACTAAAA
1 TTGATTATTAAATAAGACTATTT-GTAAAGTAATCTTTAGTAATTTTAATGTTAAAGGACTAAAA
42337393 TGTTAAAGTGATAAAATTATAAGGAC-
65 TGTTAAAGTGATAAAATTATAAGGACT
*
42337419 TTGA-TATGAAATAA
1 TTGATTATTAAATAA
42337433 TTGCAATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
90 8 0.08
91 24 0.25
92 65 0.67
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.39
Consensus pattern (91 bp):
TTGATTATTAAATAAGACTATTTGTAAAGTAATCTTTAGTAATTTTAATGTTAAAGGACTAAAAT
GTTAAAGTGATAAAATTATAAGGACT
Found at i:42337394 original size:16 final size:16
Alignment explanation
Indices: 42337375--42337409 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
42337365 TAGTAATTTT
42337375 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
42337391 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
42337407 AAT
1 AAT
42337410 TATAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:42338233 original size:39 final size:40
Alignment explanation
Indices: 42338162--42338239 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
42338152 CAATTGTATC
*
42338162 TATCGAGCTTAATGCCTAGCAGGATTTGTGCC-GTGTAAT
1 TATCGAGCTTAATGACTAGCAGGATTTGTGCCGGTGTAAT
* * *
42338201 TATCGGGCTTAGTGACTAGCAGGCTTCT-TGCCGGTGTAA
1 TATCGAGCTTAATGACTAGCAGGATT-TGTGCCGGTGTAA
42338240 CAATTCATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 26 0.79
40 7 0.21
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (40 bp):
TATCGAGCTTAATGACTAGCAGGATTTGTGCCGGTGTAAT
Found at i:42339416 original size:54 final size:54
Alignment explanation
Indices: 42339334--42339438 Score: 201
Period size: 54 Copynumber: 1.9 Consensus size: 54
42339324 TGTACTTTGA
*
42339334 CTTAGACCTAGGAATCGTCTTGATCTATCTCTATAGATTTTGACTCCTAATTGG
1 CTTAGACCTAGGAATCGTCTTAATCTATCTCTATAGATTTTGACTCCTAATTGG
42339388 CTTAGACCTAGGAATCGTCTTAATCTATCTCTATAGATTTTGACTCCTAAT
1 CTTAGACCTAGGAATCGTCTTAATCTATCTCTATAGATTTTGACTCCTAAT
42339439 ATGTATGTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (54 bp):
CTTAGACCTAGGAATCGTCTTAATCTATCTCTATAGATTTTGACTCCTAATTGG
Found at i:42340409 original size:58 final size:58
Alignment explanation
Indices: 42340319--42340437 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
42340309 TTTCTTTGAG
42340319 TTCAATTTTTCTACCACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTT
1 TTCAATTTTTCTACCACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTT
42340377 TTCAATTTTTCTACCACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTT
1 TTCAATTTTTCTACCACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTT
42340435 TTC
1 TTC
42340438 TGAGCAACAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (58 bp):
TTCAATTTTTCTACCACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTT
Found at i:42340453 original size:58 final size:58
Alignment explanation
Indices: 42340333--42340453 Score: 163
Period size: 58 Copynumber: 2.1 Consensus size: 58
42340323 ATTTTTCTAC
**** * *
42340333 CACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTTTTCAATTTTTCTAC
1 CACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTTTTCAATGCAACAAA
*
42340391 CACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTTTTCTGA-GCAACAAA
1 CACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTTTTC-AATGCAACAAA
42340449 CACTT
1 CACTT
42340454 TGTTCTCAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 54 0.98
59 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (58 bp):
CACTTCCTTTTCTAGAGACAAATACACTCTCAAGGAAGACTCTTTTCAATGCAACAAA
Found at i:42340909 original size:56 final size:56
Alignment explanation
Indices: 42340823--42340936 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
42340813 AAAGACTAAA
42340823 TTGGAAATAGAAATAATTAAAAGATGATAAATGATTAAAATAGAATTAATATCATT
1 TTGGAAATAGAAATAATTAAAAGATGATAAATGATTAAAATAGAATTAATATCATT
42340879 TTGGAAATAGAAATAATTAAAAGATGATAAATGATTAAAATAGAATTAATATCATT
1 TTGGAAATAGAAATAATTAAAAGATGATAAATGATTAAAATAGAATTAATATCATT
42340935 TT
1 TT
42340937 ATATCATCTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (56 bp):
TTGGAAATAGAAATAATTAAAAGATGATAAATGATTAAAATAGAATTAATATCATT
Found at i:42346832 original size:27 final size:27
Alignment explanation
Indices: 42346770--42346879 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
42346760 CATGGCTACT
* * *
42346770 AGAA-CAGATAATGTGACAGAGTCACT
1 AGAATCAGATAATGTGGCAGAGCCACC
*
42346796 AG-ATACAGATAATCGTGGCAGATCCACC
1 AGAAT-CAGATAAT-GTGGCAGAGCCACC
* *
42346824 AGAAT-AGATATATGCGGCAGAGCCGCC
1 AGAATCAGATA-ATGTGGCAGAGCCACC
*
42346851 A-AATCAGATAATTGTGGCATAGCCACC
1 AGAATCAGATAA-TGTGGCAGAGCCACC
42346878 AG
1 AG
42346880 GACACTTCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
25 1 0.02
26 6 0.09
27 43 0.65
28 14 0.21
29 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
AGAATCAGATAATGTGGCAGAGCCACC
Found at i:42354466 original size:28 final size:27
Alignment explanation
Indices: 42354416--42354505 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
42354406 GGCTACCAAA
* *
42354416 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
42354443 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
* *
42354470 ACAGATATATGCGGAAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
42354498 -CAGATAAT
1 ACAGATAAT
42354506 TATGGCATAG
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.04
27 37 0.66
28 17 0.30
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:42354517 original size:27 final size:27
Alignment explanation
Indices: 42354429--42354518 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
42354419 GATAATGTGA
* **
42354429 CAGAGTCACCAGATACAGATAATCGTGG
1 CAGAGCCACCAGAT-CAGATAATTATGG
*
42354457 CAGAGCCACCAGAACAGAT-A-TATGCGG
1 CAGAGCCACCAGATCAGATAATTAT--GG
*
42354484 AAGAGCCACCAGATCAGATAATTATGG
1 CAGAGCCACCAGATCAGATAATTATGG
*
42354511 CATAGCCA
1 CAGAGCCA
42354519 TCAGGACGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 32 0.64
28 13 0.26
29 3 0.06
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CAGAGCCACCAGATCAGATAATTATGG
Found at i:42355736 original size:16 final size:16
Alignment explanation
Indices: 42355711--42355743 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42355701 CTAAAAGAAA
42355711 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
42355727 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
42355743 A
1 A
42355744 GAGTTCAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:42361160 original size:26 final size:27
Alignment explanation
Indices: 42361087--42361169 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
42361077 AACAATCACC
42361087 TTACCACATAAGGGCAAAATAGTTATT
1 TTACCACATAAGGGCAAAATAGTTATT
*
42361114 TTACCACATAAGGGCAAAATAGTCATT
1 TTACCACATAAGGGCAAAATAGTTATT
*
42361141 TTACCACAT-AGGGAAAAATAGTTATT
1 TTACCACATAAGGGCAAAATAGTTATT
42361167 TTA
1 TTA
42361170 TCAATTTGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 18 0.34
27 35 0.66
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (27 bp):
TTACCACATAAGGGCAAAATAGTTATT
Found at i:42371224 original size:25 final size:25
Alignment explanation
Indices: 42371196--42371244 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
42371186 TTATAATATG
* * *
42371196 AAAAATGACTATTTTACCCCTAGGT
1 AAAAAGGACCATTATACCCCTAGGT
42371221 AAAAAGGACCATTATACCCCTAGG
1 AAAAAGGACCATTATACCCCTAGG
42371245 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (25 bp):
AAAAAGGACCATTATACCCCTAGGT
Found at i:42371414 original size:25 final size:25
Alignment explanation
Indices: 42371355--42371424 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
42371345 GAGGAAGTGC
* * *
42371355 AAAAGGGCTATACCCCAATTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
42371380 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
42371405 AAAAGGGCTTTGACCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
42371425 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:42371437 original size:24 final size:25
Alignment explanation
Indices: 42371380--42371437 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
42371370 CAATTTACCA
*
42371380 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGACCCAGTTTATC
*
42371404 AAAA-AGGGCTTTGACCCAG-TTATT
1 AAAAGA-GGCTTTGACCCAGTTTATC
42371428 AAAAGAGGCT
1 AAAAGAGGCT
42371438 AGGCCTCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGAGGCTTTGACCCAGTTTATC
Found at i:42371681 original size:31 final size:31
Alignment explanation
Indices: 42371646--42371720 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
42371636 CGTTTACAGT
42371646 AAAGGCTTCGGCCCAGTGATATGAATAATAA
1 AAAGGCTTCGGCCCAGTGATATGAATAATAA
* * *
42371677 AAAGGCTTCGACCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATAA
42371708 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
42371721 TAGTAATCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATAA
Found at i:42376347 original size:6 final size:6
Alignment explanation
Indices: 42376329--42376391 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
42376319 AAGAAACATT
* *
42376329 ATCAGA A-CTAGA ATCAGA ATCTGA ATCTGA ATCAGA ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
42376378 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
42376392 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
5 3 0.06
6 39 0.81
7 4 0.08
8 2 0.04
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:42376551 original size:27 final size:26
Alignment explanation
Indices: 42376511--42376569 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
42376501 AGCATGGCTG
* * *
42376511 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAAATATTATGACAGAGCCA
*
42376537 CCAGATACAAATATTATGGCAGAGCCA
1 CCAGA-ACAAATATTATGACAGAGCCA
42376564 CCAGAA
1 CCAGAA
42376570 ACAGATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (26 bp):
CCAGAACAAATATTATGACAGAGCCA
Found at i:42376778 original size:22 final size:22
Alignment explanation
Indices: 42376750--42376813 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
42376740 GCAAATACGT
*
42376750 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
42376772 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
42376794 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
42376814 AAATAATTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:42377431 original size:27 final size:27
Alignment explanation
Indices: 42377203--42377451 Score: 259
Period size: 27 Copynumber: 9.2 Consensus size: 27
42377193 GGGCAAAATA
* * * * *
42377203 ATAATTTTACCCCACAAGGATATCTCG
1 ATAATTCTACCCTACAGGGGTATTTCG
*
42377230 GTAATTCTACCCTACAGGGGTATTTCG
1 ATAATTCTACCCTACAGGGGTATTTCG
* * * *
42377257 GTAATTCTACCTTACAGGGGTACTTGG
1 ATAATTCTACCCTACAGGGGTATTTCG
*
42377284 ATAATTCTACCCTATAGGGGTATTTCG
1 ATAATTCTACCCTACAGGGGTATTTCG
* * *
42377311 GTAATTTTACCCTATAGGGGTATTTC-
1 ATAATTCTACCCTACAGGGGTATTTCG
*
42377337 AGTAATTCTATCCTACAGGGGTATTTCG
1 A-TAATTCTACCCTACAGGGGTATTTCG
* * * * *
42377365 GTAATTCTATCCTATAAGGTTATTTC-
1 ATAATTCTACCCTACAGGGGTATTTCG
* *
42377391 AGTATTTCTACCCTACAAGGGTATTTCG
1 A-TAATTCTACCCTACAGGGGTATTTCG
*
42377419 ATAATTCTACCCTACAGGGGTATTTCA
1 ATAATTCTACCCTACAGGGGTATTTCG
42377446 ATAATT
1 ATAATT
42377452 TTGTAAATCG
Statistics
Matches: 186, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
27 185 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
ATAATTCTACCCTACAGGGGTATTTCG
Found at i:42377451 original size:81 final size:82
Alignment explanation
Indices: 42377203--42377451 Score: 290
Period size: 81 Copynumber: 3.1 Consensus size: 82
42377193 GGGCAAAATA
* * * * * * *
42377203 ATAATTTTACCCCACAAGGATATCTCGGTAA-TTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 ATAATTCTACCCTATAAGGGTATTTCAGTAATTTCTACCCTACAGGGGTATTTCGATAATTCTAC
* * *
42377267 CTTACAGGGGTACTTGG
66 CCTACAGGGGTATTTCG
* * *
42377284 ATAATTCTACCCTATAGGGGTATTTCGGTAATTT-TACCCTATAGGGGTATTTC-AGTAATTCTA
1 ATAATTCTACCCTATAAGGGTATTTCAGTAATTTCTACCCTACAGGGGTATTTCGA-TAATTCTA
*
42377347 TCCTACAGGGGTATTTCG
65 CCCTACAGGGGTATTTCG
* * * *
42377365 GTAATTCTATCCTATAAGGTTATTTCAGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTAC
1 ATAATTCTACCCTATAAGGGTATTTCAGTAATTTCTACCCTACAGGGGTATTTCGATAATTCTAC
*
42377429 CCTACAGGGGTATTTCA
66 CCTACAGGGGTATTTCG
42377446 ATAATT
1 ATAATT
42377452 TTGTAAATCG
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
80 4 0.03
81 135 0.95
82 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (82 bp):
ATAATTCTACCCTATAAGGGTATTTCAGTAATTTCTACCCTACAGGGGTATTTCGATAATTCTAC
CCTACAGGGGTATTTCG
Found at i:42377466 original size:27 final size:27
Alignment explanation
Indices: 42377436--42377766 Score: 224
Period size: 27 Copynumber: 12.3 Consensus size: 27
42377426 TACCCTACAG
* **
42377436 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*** * * ** *
42377463 GGGTAAAACGGTAATTCTGTAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
42377490 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
42377517 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
42377544 GGGTATTTCAGTAATTTTACAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
* * *
42377571 GGGTATTTCAATAATTTTGCAAA-CTGT
1 GGGTATTTCAGTAATTTTACAAATC-GA
*
42377598 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
42377625 GAGTATTTTAGTAATTTTACAAATTG-
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** * * * * *
42377651 GAGTATTTTGGTGATTTAATAAACCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
42377678 GGGTA-TTCTAGTAATTTTACAAA-CCA
1 GGGTATTTC-AGTAATTTTACAAATCGA
** ** * *
42377704 GTGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTCAGTAATTTTACAAATCGA
** * *
42377732 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
42377759 GGGTATTT
1 GGGTATTT
42377767 TGGTGATTTG
Statistics
Matches: 246, Mismatches: 49, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
26 28 0.11
27 212 0.86
28 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:42377558 original size:81 final size:80
Alignment explanation
Indices: 42377436--42377766 Score: 256
Period size: 81 Copynumber: 4.1 Consensus size: 80
42377426 TACCCTACAG
* ** *** * * * *
42377436 GGGTATTTCAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGGGGGTACTTTGG
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTTGG
*
42377501 TAATTTTACAAGTCGA
66 TAATTTTACAA-ACGA
** **
42377517 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAA-CTGAGGGTATTTCA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATC-GAGGGTATTTTG
* * *
42377581 ATAATTTTGCAAACTGT
65 GTAATTTTACAAAC-GA
* * * ** * *
42377598 GGGTATTTCGGTAATTTTACAAATCGAGAGTATTTTAGTAATTTTACAAATTG-GAGTATTTTGG
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTTGG
* * * *
42377662 TGATTTAATAAACCAA
66 TAATTTTACAAA-CGA
* ** * *
42377678 GGGTA-TTCTAGTAATTTTACAAA-CCAGTGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 GGGTATTTC-AGTAATTTTACAAATCGAG-GGTATTTCAGTAATTTTGTAAATCGAGGGTATTTT
*
42377741 GGTAATTTTACAAACCAA
64 GGTAATTTTACAAA-CGA
42377759 GGGTATTT
1 GGGTATTT
42377767 TGGTGATTTG
Statistics
Matches: 197, Mismatches: 45, Indels: 15
0.77 0.18 0.06
Matches are distributed among these distances:
79 6 0.03
80 53 0.27
81 136 0.69
82 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTTGG
TAATTTTACAAACGA
Found at i:42377767 original size:27 final size:27
Alignment explanation
Indices: 42377490--42377775 Score: 252
Period size: 27 Copynumber: 10.6 Consensus size: 27
42377480 TGTAAATCGG
* **
42377490 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
** *
42377517 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
** *
42377544 GGGTATTTCAGTAATTTTACAAACTGA
1 GGGTATTTTGGTAATTTTACAAACCGA
*** * * *
42377571 GGGTATTTCAATAATTTTGCAAACTGT
1 GGGTATTTTGGTAATTTTACAAACCGA
* *
42377598 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
* * **
42377625 GAGTATTTTAGTAATTTTACAAATTG-
1 GGGTATTTTGGTAATTTTACAAACCGA
* * * * *
42377651 GAGTATTTTGGTGATTTAATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGA
* *
42377678 GGGTATTCTAGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCGA
** *
42377704 GTGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTACAAACCGA
*
42377732 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGA
*
42377759 GGGTATTTTGGTGATTT
1 GGGTATTTTGGTAATTT
42377776 GGTAAACTAA
Statistics
Matches: 217, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.10
27 194 0.89
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCGA
Found at i:42377790 original size:134 final size:134
Alignment explanation
Indices: 42377543--42377791 Score: 286
Period size: 134 Copynumber: 1.9 Consensus size: 134
42377533 TTACAAATCG
* ***
42377543 AGGGTATTTCAGTAATTTTACAAACTGAGGGTATTTCAATAATTTTGCAAACTGTGGGTATTTCG
1 AGGGTATTTCAGTAATTTTACAAACTCAGGGTATTTCAATAATTTTGCAAACCAAGGGTATTTCG
* * * * **
42377608 GTAATTTTACAAATCGAGAGTATTTTAGTAATTTTACAAATTGGAGTATTTTGGTGATTTAATAA
66 GTAATTTTACAAACCAAGAGTATTTTAGTAATTTGACAAACTAAAGTATTTTGGTGATTTAATAA
42377673 ACCA
131 ACCA
*** *
42377677 AGGGTA-TTCTAGTAATTTTACAAAC-CAGTGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 AGGGTATTTC-AGTAATTTTACAAACTCAG-GGTATTTCAATAATTTTGCAAACCAAGGGTATTT
* * * * **
42377740 TGGTAATTTTACAAACCAAGGGTATTTTGGTGATTTGGTAAACTAAAGTATT
64 CGGTAATTTTACAAACCAAGAGTATTTTAGTAATTTGACAAACTAAAGTATT
42377792 CTAAATAGGG
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
133 5 0.05
134 88 0.95
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (134 bp):
AGGGTATTTCAGTAATTTTACAAACTCAGGGTATTTCAATAATTTTGCAAACCAAGGGTATTTCG
GTAATTTTACAAACCAAGAGTATTTTAGTAATTTGACAAACTAAAGTATTTTGGTGATTTAATAA
ACCA
Found at i:42377791 original size:107 final size:107
Alignment explanation
Indices: 42377582--42377794 Score: 243
Period size: 107 Copynumber: 2.0 Consensus size: 107
42377572 GGTATTTCAA
* * * *
42377582 TAATTTTGCAAACTGTGGGTATTTCGGTAATTTTACAAATCGAGAGTATTTTAGTAATTTTACAA
1 TAATTTTACAAACAGTGGGTATTTCGGTAATTTTACAAACCAAGAGTATTTTAGTAATTTTACAA
** *
42377647 ATTGGAGTATTTTGGTGATTTAATAAACCAAGGGTATTCTAG
66 AAAGGAGTATTTTGGTGATTTAATAAACCAAGAGTATTCTAG
* ** * *
42377689 TAATTTTACAAACCAGT-GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACA
1 TAATTTTACAAA-CAGTGGGTATTTCGGTAATTTTACAAACCAAGAGTATTTTAGTAATTTTACA
** *
42377753 AACCAAGG-GTATTTTGGTGATTTGGTAAACTAA-AGTATTCTA
65 AA--AAGGAGTATTTTGGTGATTTAATAAACCAAGAGTATTCTA
42377795 AATAGGGATA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
107 61 0.69
108 25 0.28
109 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (107 bp):
TAATTTTACAAACAGTGGGTATTTCGGTAATTTTACAAACCAAGAGTATTTTAGTAATTTTACAA
AAAGGAGTATTTTGGTGATTTAATAAACCAAGAGTATTCTAG
Found at i:42382870 original size:21 final size:21
Alignment explanation
Indices: 42382846--42382887 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
42382836 TTGTAATTAA
42382846 GCACTAAATTGACAAAATTTT
1 GCACTAAATTGACAAAATTTT
42382867 GCACTAAATTGACAAAATTTT
1 GCACTAAATTGACAAAATTTT
42382888 CTTATCAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
GCACTAAATTGACAAAATTTT
Found at i:42389540 original size:37 final size:37
Alignment explanation
Indices: 42389479--42389557 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
42389469 TTATTACGAA
* * * *
42389479 GTCTCACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
42389516 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
42389553 GTCTT
1 GTCTT
42389558 TAAAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:42389758 original size:47 final size:47
Alignment explanation
Indices: 42389722--42389944 Score: 410
Period size: 47 Copynumber: 4.7 Consensus size: 47
42389712 CTCGGCCCTG
42389722 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
42389769 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
42389816 TCACATATATACACTTTCACATTCATCACCTCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
42389863 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
42389910 TCACATATATATACACTTTCACATTCATCACATCG
1 TCAC--ATATATACACTTTCACATTCATCACATCG
42389945 AATCCTAAAT
Statistics
Matches: 171, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 142 0.83
49 29 0.17
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:42394882 original size:19 final size:19
Alignment explanation
Indices: 42394848--42394887 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42394838 TTTCTTTAAG
* *
42394848 TTTTTAAGTTTTATTTATT
1 TTTTTAAGATTCATTTATT
*
42394867 TTTTTAAGATTCATTTGTT
1 TTTTTAAGATTCATTTATT
42394886 TT
1 TT
42394888 CCTTTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTAAGATTCATTTATT
Found at i:42398535 original size:48 final size:48
Alignment explanation
Indices: 42398471--42398609 Score: 269
Period size: 48 Copynumber: 2.9 Consensus size: 48
42398461 AATATATATG
42398471 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
42398519 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
42398567 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
42398610 GTGTGTATAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
Found at i:42398858 original size:37 final size:37
Alignment explanation
Indices: 42398750--42398858 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
42398740 GGAAATATAT
*
42398750 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
42398787 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
42398824 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
42398859 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:42402333 original size:16 final size:16
Alignment explanation
Indices: 42402314--42402344 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42402304 CTTCTTCACT
42402314 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42402330 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42402345 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42402350 original size:20 final size:20
Alignment explanation
Indices: 42402311--42402350 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42402301 AAACTTCTTC
* *
42402311 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
42402331 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
42402351 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:42402665 original size:53 final size:54
Alignment explanation
Indices: 42402536--42402790 Score: 238
Period size: 55 Copynumber: 4.8 Consensus size: 54
42402526 ACACGGGTAC
* * * * *
42402536 CTTACCATTGCCATGACTTGTCATGGTCTTACCTAGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
42402585 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
42402638 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
** * * ** *
42402693 CTTATTAATTCCATGTCTTGACATGGTCTTACATTATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
42402746 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
42402791 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.30
54 9 0.05
55 66 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:42404864 original size:41 final size:41
Alignment explanation
Indices: 42404807--42404885 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
42404797 ATTATGCCTC
42404807 ACATAGTTACTTCAAAATAGAAGGAATAGTAAGTTAAGCTT
1 ACATAGTTACTTCAAAATAGAAGGAATAGTAAGTTAAGCTT
*
42404848 ACATAGTTACTTCAAAATAGAAGGAATGGTAAGTTAAG
1 ACATAGTTACTTCAAAATAGAAGGAATAGTAAGTTAAG
42404886 TACCATGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (41 bp):
ACATAGTTACTTCAAAATAGAAGGAATAGTAAGTTAAGCTT
Found at i:42412389 original size:48 final size:48
Alignment explanation
Indices: 42412270--42412498 Score: 194
Period size: 48 Copynumber: 4.8 Consensus size: 48
42412260 CATTAAGGGA
* * * * * *
42412270 TACATTGATTTGACTTCGGGCCATGGTATTGGCACTTTGGGTACGAGCTT
1 TACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCGGGTGCGAG--T
* *** *
42412320 TACA--GATTTGTCTTCAAGCCATGATATTAGCACTT-GAGGTGCGAGA
1 TACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCG-GGTGCGAGT
* * *** *
42412366 TGCATTGATTTCGCTTTGGGCCATGATGCCAACACTTCGGGTGCGAGT
1 TACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCGGGTGCGAGT
* * *
42412414 TACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGTGAGT
1 TACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCGGGTGCGAGT
* * * *
42412462 TATATTAAGTTGGCTTTGGGCCATGATATTGGCACTT
1 TACATTGATTTGGCTTTGGGCCATGATATTAGCACTT
42412499 AGTGTATGAG
Statistics
Matches: 142, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
46 3 0.02
47 1 0.01
48 133 0.94
49 1 0.01
50 4 0.03
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (48 bp):
TACATTGATTTGGCTTTGGGCCATGATATTAGCACTTCGGGTGCGAGT
Found at i:42421931 original size:46 final size:45
Alignment explanation
Indices: 42421751--42422013 Score: 189
Period size: 46 Copynumber: 5.6 Consensus size: 45
42421741 TTATTTGTGT
* * *
42421751 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATG-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCTACGA-GATGTA-A
* * ***
42421797 GCTAGTGTAAGAACATGTCTAGGACATGGCATCAGC-ATTGAGACAAAA
1 GCTAGTGTAAG-ACATGTCTGGGACAT-GCATC-GCTA-CGAGATGTAA
*
42421845 GCTAGTGTAAGACATGTTTGGGACATGCATCGACCT-CGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG--CTACGAGATGTAA
* *
42421891 GCTAGCGTAAGACATGTCTGGGACATGCATCGTCTACGAGA--TAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-CTACGAGATGTAA
* * *
42421935 G-TCAGTGTAAGACCATTTCTGGGACATGGCATCGGTACTGATATGTGACA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGCTAC-GAGATGT-A-A
*
42421985 GCGAGTGTAAGAACATGTCTGGGACATGC
1 GCTAGTGTAAG-ACATGTCTGGGACATGC
42422014 CGTTGGCCTC
Statistics
Matches: 176, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
43 1 0.01
44 11 0.06
45 19 0.11
46 66 0.38
47 30 0.17
48 21 0.12
49 5 0.03
50 22 0.12
51 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCTACGAGATGTAA
Found at i:42423223 original size:20 final size:21
Alignment explanation
Indices: 42423184--42423223 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42423174 GTCATAATGG
42423184 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
* *
42423205 CCACATGGGTGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
42423224 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:42427176 original size:32 final size:34
Alignment explanation
Indices: 42427140--42427204 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
42427130 TAACAGTGGT
*
42427140 ACTGGG-CTAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCT-GAGCCCCTTATTCAGATAACAATAA
42427172 ACTGGGCCTGAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCTGAGCCCCTTATTCAGATAACAATA
42427205 TGGCCCATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 9 0.31
33 7 0.24
34 13 0.45
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (34 bp):
ACTGGGCCTGAGCCCCTTATTCAGATAACAATAA
Found at i:42427549 original size:24 final size:25
Alignment explanation
Indices: 42427513--42427560 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
42427503 TCAAACATGC
42427513 ATTTAGGTCAATTTAACCCTAGGGT
1 ATTTAGGTCAATTTAACCCTAGGGT
* * *
42427538 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
42427561 GAAAACTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:42429066 original size:26 final size:26
Alignment explanation
Indices: 42429037--42429094 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
42429027 CATGAAATTC
42429037 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
42429063 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
42429089 TTATCA
1 TTATCA
42429095 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:42433372 original size:26 final size:26
Alignment explanation
Indices: 42433336--42433445 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
42433326 CATGAAATTC
42433336 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
42433362 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
42433388 TTGTCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
42433414 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
42433440 TTATCA
1 TTATCA
42433446 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:42437884 original size:44 final size:42
Alignment explanation
Indices: 42437786--42437925 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 42
42437776 AGACTATGTT
* *
42437786 TGGCACTTAGTGTGCGTATCGAGATAGCTTTAGCTATATAAA
1 TGGCACTTAGTGTGCGAATCGAGATAGCTTCAGCTATATAAA
* *
42437828 --GCACTTAATGTGCGAATCG-GAATAGCTTCGGCTATATATATA
1 TGGCACTTAGTGTGCGAATCGAG-ATAGCTTCAGCTATATA-A-A
* * *
42437870 TGGCACTTAGTGTGCGAGA-CTGAGATATCTTCGGCTAT-GAAA
1 TGGCACTTAGTGTGCGA-ATC-GAGATAGCTTCAGCTATATAAA
42437912 -GGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
42437926 AAGACTATGA
Statistics
Matches: 83, Mismatches: 7, Indels: 17
0.78 0.07 0.16
Matches are distributed among these distances:
39 1 0.01
40 32 0.39
41 15 0.18
42 2 0.02
43 1 0.01
44 16 0.19
45 15 0.18
46 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TGGCACTTAGTGTGCGAATCGAGATAGCTTCAGCTATATAAA
Found at i:42437922 original size:41 final size:41
Alignment explanation
Indices: 42437871--42437990 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
42437861 ATATATATAT
* * *
42437871 GGCACTTAGTGTGCGAGACTGA-GATATCTTCGGCTATGAAA
1 GGCACTTAGTGTGCAAGACT-ATGATAGCTTCGACTATGAAA
42437912 GGCACTTAGTGTGCAAGACTATGATAGCTTCGACTATGAAA
1 GGCACTTAGTGTGCAAGACTATGATAGCTTCGACTATGAAA
* * ** *
42437953 GGCATTTAGTGTGCAAGATTACAATGGCTTCGACTATG
1 GGCACTTAGTGTGCAAGACTATGATAGCTTCGACTATG
42437991 CTTTAGCACT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 69 0.99
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (41 bp):
GGCACTTAGTGTGCAAGACTATGATAGCTTCGACTATGAAA
Found at i:42439358 original size:23 final size:22
Alignment explanation
Indices: 42439319--42439367 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
42439309 GTAATTCATA
* *
42439319 TGAATGGATTTTGATTATGTTTG
1 TGAATGAATTTTGATTAAG-TTG
42439342 TGAATGAATGTTT-ATTAAGTTG
1 TGAATGAAT-TTTGATTAAGTTG
42439364 TGAA
1 TGAA
42439368 ATGTTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 13 0.57
24 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (22 bp):
TGAATGAATTTTGATTAAGTTG
Found at i:42448930 original size:31 final size:31
Alignment explanation
Indices: 42448840--42448934 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
42448830 CCTTTTCATA
* *
42448840 TTTCATATTTCATAACACCAGGTCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
*
42448871 TTTCATATTTCATAACACTAGGCTGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
42448902 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
42448933 TT
1 TT
42448935 ACTGTAAACG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:42449239 original size:26 final size:26
Alignment explanation
Indices: 42449156--42449250 Score: 117
Period size: 25 Copynumber: 3.8 Consensus size: 26
42449146 CTCTTTTACT
*
42449156 AACTGGGAC-AAAGCCC-TTTCGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
42449180 AACTGGGGCAAAAGCCCTTTT-AATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
42449205 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* *
42449231 AACTAGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
42449251 TGCACTTCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 8 0.13
25 41 0.66
26 13 0.21
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:42449408 original size:25 final size:25
Alignment explanation
Indices: 42449380--42449427 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
42449370 ATAATTAAAC
* *
42449380 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAATAGTCATTTTTA
42449405 CCTAGGGGTAAAATAGTCATTTT
1 CCTAGGGGTAAAATAGTCATTTT
42449428 CATAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGGGGTAAAATAGTCATTTTTA
Found at i:42467150 original size:44 final size:43
Alignment explanation
Indices: 42467043--42467174 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 43
42467033 GTAATTCAGT
* * * ** *
42467043 ATCGATGCCTCTGTCCCAGACAGGGTCTTATACGA-AAATAGAT
1 ATCGATGCCTGTGTCCCAGACACGGTCTTACAC-ATAAATTCAA
* *
42467086 AT-GATGCC-GATGTCCTAGACATGGTCTTACACATAAATTTCAA
1 ATCGATGCCTG-TGTCCCAGACACGGTCTTACACATAAA-TTCAA
42467129 ATCGATGCCTGTGTCCCAGACACGGTCTTACAC-TATAATTCAA
1 ATCGATGCCTGTGTCCCAGACACGGTCTTACACATA-AATTCAA
42467172 ATC
1 ATC
42467175 AATACCAACT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 28 0.38
43 16 0.22
44 28 0.38
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
ATCGATGCCTGTGTCCCAGACACGGTCTTACACATAAATTCAA
Found at i:42481499 original size:23 final size:25
Alignment explanation
Indices: 42481455--42481500 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
42481445 ACACAAGAAT
42481455 AACATGATAAAGACAAACATACACA
1 AACATGATAAAGACAAACATACACA
*
42481480 AACATGTTAAA-A-AAACATACA
1 AACATGATAAAGACAAACATACA
42481501 TGATATACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.61, C:0.17, G:0.07, T:0.15
Consensus pattern (25 bp):
AACATGATAAAGACAAACATACACA
Found at i:42486715 original size:10 final size:9
Alignment explanation
Indices: 42486691--42486758 Score: 50
Period size: 10 Copynumber: 7.3 Consensus size: 9
42486681 TTAAATTTCT
*
42486691 TAAAAATCA
1 TAAAAATTA
42486700 TAAAAATTA
1 TAAAAATTA
*
42486709 TAGAAAATTG
1 TA-AAAATTA
42486719 TACAAAA-TA
1 TA-AAAATTA
*
42486728 TAAAAA-AA
1 TAAAAATTA
*
42486736 TAAATATTAA
1 TAAAAATT-A
42486746 TAGAAAATTA
1 TA-AAAATTA
42486756 TAA
1 TAA
42486759 GAACTATATG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
8 10 0.21
9 14 0.30
10 18 0.38
11 5 0.11
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (9 bp):
TAAAAATTA
Found at i:42502465 original size:41 final size:41
Alignment explanation
Indices: 42502379--42502473 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
42502369 GAAACGTAAC
* * * *
42502379 GTTAT-TCGGGCTCTGTGCCTAGTAGGCTTAGTGCCGGTGT
1 GTTATATCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
* * *
42502419 ATTATATCAGGCTTTGTGCCTAGCAGGCTTTGTGCTAGTGT
1 GTTATATCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
*
42502460 GTTATATCAAGCTT
1 GTTATATCAGGCTT
42502474 CGAGGCTGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 4 0.09
41 41 0.91
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (41 bp):
GTTATATCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
Found at i:42509615 original size:30 final size:29
Alignment explanation
Indices: 42509579--42509653 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
42509569 TTTATAGCCT
*
42509579 TTAAAAATCAATTAAGCCATCTTAAAATAA
1 TTAAAAATCAATTAAGCCATCCTAAAA-AA
* * *
42509609 TTAAAAATCTATTAAACCCTCCTAAAAAA
1 TTAAAAATCAATTAAGCCATCCTAAAAAA
42509638 -TAAAATATCAATTAAG
1 TTAAAA-ATCAATTAAG
42509654 TTTTACCCGC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 5 0.13
29 10 0.26
30 23 0.61
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (29 bp):
TTAAAAATCAATTAAGCCATCCTAAAAAA
Found at i:42510278 original size:291 final size:291
Alignment explanation
Indices: 42509748--42510472 Score: 1281
Period size: 291 Copynumber: 2.5 Consensus size: 291
42509738 TGAATTTGAG
* *
42509748 ATCCAATTGAGTGTATATTTCAATTAGGACCCAAAT-AATTTTTGAATTATTTTCGGCTTCTATA
1 ATCCAATTGAGTGTATTTTTCAATTAGGACCC-AATCAATTTTTGAATTATTTTCGGCTTTTATA
*
42509812 GTACTTTATCGAAAATCTTTTAAATCGTTTTAGAAACTTTTAAGCTAAATAAGAGGGCCCTTTGT
65 GTACTTTATCGAAAATCTTTTAAATTGTTTTAGAAACTTTTAAGCTAAATAAGAGGGCCCTTTGT
42509877 AGTGTTTGAAAGTTATATGTCTTGAAACTGACAAATCTCGTCATTTGTTGTTGATGATGTGCTTC
130 AGTGTTTGAAAGTTATATGTCTTGAAACTGACAAATCTCGTCATTTGTTGTTGATGATGTGCTTC
* *
42509942 ATTGTTGTGAGATTTGAGAAAGTTAGCATTTCCTCTATTTTGTGATTAGCAAGAGGAATCAACGG
195 ATTATTGTGAGATTTGAGAAAGTTAGCATTTCCTCTATTTTGTGATTAGCAAGAGGAACCAACGG
*
42510007 CGTTTATATCAAATTTAATAATTAAATTTTAC
260 CGTTTATATCAAATTTAATAATAAAATTTTAC
* *
42510039 ATCCACTTGAGTGTATTTTTCAATTAGGACCCAATCAATTTTTGAATTAGTTTCGGCTTTTATAG
1 ATCCAATTGAGTGTATTTTTCAATTAGGACCCAATCAATTTTTGAATTATTTTCGGCTTTTATAG
*
42510104 TACTTTATCGAAAATCTTTTAAATTGTTTTAGAAACTTTTAAGCTAAATAAGAGGGCACTTTGTA
66 TACTTTATCGAAAATCTTTTAAATTGTTTTAGAAACTTTTAAGCTAAATAAGAGGGCCCTTTGTA
*
42510169 GTGTTTGAAAGTTATATGTCTTGAAACTGACAAATCTTGTCATTTGTTGTTGATGATGTGCTTCA
131 GTGTTTGAAAGTTATATGTCTTGAAACTGACAAATCTCGTCATTTGTTGTTGATGATGTGCTTCA
* * *
42510234 TTATTGTGAGATTTGAGAAAGTTAGCGTTTCCTCTATTTTGTGATTAGCAGGAGGGACCAACGGC
196 TTATTGTGAGATTTGAGAAAGTTAGCATTTCCTCTATTTTGTGATTAGCAAGAGGAACCAACGGC
*
42510299 GTTTATGTCAAATTTAATAATAAAATTTTAC
261 GTTTATATCAAATTTAATAATAAAATTTTAC
* *
42510330 ATCTAATTGAGTGTATTTTTCAATTAGGACCCAAACAATTTTTGAATTATTTTCGGCTTTTATAG
1 ATCCAATTGAGTGTATTTTTCAATTAGGACCCAATCAATTTTTGAATTATTTTCGGCTTTTATAG
*
42510395 TACTTTATTGAAAATCTTTTAAATTGTTTTAGAAACTTTTAAGCTAAATAAGAGGGCCCTTTGTA
66 TACTTTATCGAAAATCTTTTAAATTGTTTTAGAAACTTTTAAGCTAAATAAGAGGGCCCTTTGTA
42510460 GTGTTTGAAAGTT
131 GTGTTTGAAAGTT
42510473 GTCGTAACCA
Statistics
Matches: 413, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
290 3 0.01
291 410 0.99
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (291 bp):
ATCCAATTGAGTGTATTTTTCAATTAGGACCCAATCAATTTTTGAATTATTTTCGGCTTTTATAG
TACTTTATCGAAAATCTTTTAAATTGTTTTAGAAACTTTTAAGCTAAATAAGAGGGCCCTTTGTA
GTGTTTGAAAGTTATATGTCTTGAAACTGACAAATCTCGTCATTTGTTGTTGATGATGTGCTTCA
TTATTGTGAGATTTGAGAAAGTTAGCATTTCCTCTATTTTGTGATTAGCAAGAGGAACCAACGGC
GTTTATATCAAATTTAATAATAAAATTTTAC
Found at i:42511545 original size:25 final size:26
Alignment explanation
Indices: 42511496--42511550 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
42511486 AATAATGACG
42511496 AAAACAATAATAATAGCAATAGTA-T
1 AAAACAATAATAATAGCAATAGTATT
* *
42511521 AAAACGATAATAATA-CATATGGTATT
1 AAAACAATAATAATAGCA-ATAGTATT
42511547 AAAA
1 AAAA
42511551 TATATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 19 0.73
26 5 0.19
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.25
Consensus pattern (26 bp):
AAAACAATAATAATAGCAATAGTATT
Found at i:42514877 original size:47 final size:47
Alignment explanation
Indices: 42514795--42515069 Score: 489
Period size: 47 Copynumber: 5.9 Consensus size: 47
42514785 TTAGGATTCT
*
42514795 ATGTGATGGATGTGAAA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCG
*
42514841 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCG
*
42514888 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCG
* *
42514935 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCG
*
42514982 ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCG
42515029 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAA
1 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAA
42515070 GTGTATATAT
Statistics
Matches: 221, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
46 16 0.07
47 205 0.93
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCG
Found at i:42515077 original size:24 final size:24
Alignment explanation
Indices: 42515044--42515093 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
42515034 ATGAATGTGA
42515044 AAGTGCATATATGTGATAAGGCCT
1 AAGTGCATATATGTGATAAGGCCT
*
42515068 AAGTGTATATATGTGATAAGGCCT
1 AAGTGCATATATGTGATAAGGCCT
42515092 AA
1 AA
42515094 TGGCCGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (24 bp):
AAGTGCATATATGTGATAAGGCCT
Found at i:42515089 original size:165 final size:165
Alignment explanation
Indices: 42514903--42515228 Score: 544
Period size: 165 Copynumber: 2.0 Consensus size: 165
42514893 ATGAATGTGA
42514903 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATA
* * * *
42514968 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGACAAGGCCGAATGGCCAACGT
*
42515033 GATGAATGTGAAAGTGCATATATGTGATAAGGCCT
131 GATGAATGTGAAAGTGCATAAATGTGATAAGGCCT
*
42515068 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATA
* * * *
42515133 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGACAAGGCCGAATGGCCAACGT
* *
42515198 GATGGATGTGAAAGTGTATAAATGTGATAAG
131 GATGAATGTGAAAGTGCATAAATGTGATAAG
42515229 TCCCGAAGGG
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 149 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (165 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGACAAGGCCGAATGGCCAACGT
GATGAATGTGAAAGTGCATAAATGTGATAAGGCCT
Found at i:42515090 original size:118 final size:118
Alignment explanation
Indices: 42514950--42515177 Score: 420
Period size: 118 Copynumber: 1.9 Consensus size: 118
42514940 ATGAATGTGA
42514950 AAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGATA
1 AAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGATA
42515015 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCT
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCT
* * *
42515068 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGATA
*
42515133 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
42515178 CAGGGCCGAG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 106 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (118 bp):
AAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGAGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCT
Found at i:42515113 original size:71 final size:71
Alignment explanation
Indices: 42514997--42515140 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 71
42514987 ATGAATGTGA
42514997 AAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATA
1 AAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATA
42515062 AGGCCT
66 AGGCCT
* * *
42515068 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATA
42515133 AGGCCT
66 AGGCCT
42515139 AA
1 AA
42515141 TGGCCGATGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (71 bp):
AAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATA
AGGCCT
Found at i:42515121 original size:47 final size:47
Alignment explanation
Indices: 42515068--42515228 Score: 250
Period size: 47 Copynumber: 3.4 Consensus size: 47
42515058 GATAAGGCCT
42515068 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
42515115 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
42515162 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
42515209 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
42515229 TCCCGAAGGG
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 104 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:42515403 original size:37 final size:37
Alignment explanation
Indices: 42515347--42515425 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
42515337 CCGAGCTCTA
* * * *
42515347 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42515384 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42515421 AAGAC
1 AAGAC
42515426 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42517683 original size:119 final size:118
Alignment explanation
Indices: 42517361--42517788 Score: 443
Period size: 119 Copynumber: 3.6 Consensus size: 118
42517351 ACTAATTCGG
* * * * * **
42517361 GCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGA-AGGCATTTGTGC
1 GCTAAGCCCGAAGAGCATTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAGA-GCATTCATGC
* *
42517424 GAGTTACTATAACCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGA
64 TAGTGACTATAACCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGA
* * * * * * **
42517479 GCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCAGGTTAAGTCCCGA-AGGCATTTGTGC
1 GCTAAGCCCGAAGAGCATTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAGA-GCATTCATGC
* * *
42517542 GAGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGG
64 TAGTGACTATAACCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTATCCGA
* *
42517598 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGAGCATTCATGCT
1 GCTAAG-CCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGAGCATTCATGCT
* * * * *
42517663 AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
65 AGTGACTATAACCGGGCTAAG-TCCGAAGAGCATTCATGCTAGTGATGTATCCGA
* * * * *
42517717 GCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGC
1 GCT-AAGCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG-AGAGCATTCATGC
*
42517782 TGGTGAC
64 TAGTGAC
42517789 GTGTATTCGG
Statistics
Matches: 275, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
118 85 0.31
119 121 0.44
120 55 0.20
121 14 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (118 bp):
GCTAAGCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGAGCATTCATGCTA
GTGACTATAACCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGA
Found at i:42517690 original size:159 final size:159
Alignment explanation
Indices: 42517331--42517787 Score: 491
Period size: 159 Copynumber: 2.9 Consensus size: 159
42517321 GGACTAAGAT
** * *
42517331 CCGAAGGCATTTGTGCGAGT-ACT-AATTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTCATGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
* * * * *
42517393 -AATCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATAACCGGGCTAAG-TCCGAAGAG
66 TAA-CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATATCCGGGCTAAGTTCCGAAGAG
42517455 CATTCATGCTAGTGATGTATCCGAGCTAAGC
129 CATTCATGCTAGTGATGTATCCGAGCTAAGC
** * * * *
42517486 CCGAAGGCATTGGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTCATGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
* *
42517551 TAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCA
66 TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCA
* *
42517616 TTCGTGCTAGTGATGTATCCGGGCTAAGTC
131 TTCATGCTAGTGATGTATCCGAGCTAAG-C
* ** * * *
42517646 CCG-AGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-
1 CCGAAG-GCATTCATGCGAGTGACTAAATCCGGGCTAAGTCCCGAAG-GCATTCGTGCGAGTTAC
* * ** * * * *
42517708 TATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAG
64 TATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAG
* *
42517773 CAATCATGCTGGTGA
129 CATTCATGCTAGTGA
42517788 CGTGTATTCG
Statistics
Matches: 254, Mismatches: 39, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
155 19 0.07
156 3 0.01
157 10 0.04
158 55 0.22
159 138 0.54
160 29 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (159 bp):
CCGAAGGCATTCATGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCA
TTCATGCTAGTGATGTATCCGAGCTAAGC
Found at i:42517771 original size:40 final size:40
Alignment explanation
Indices: 42517278--42517774 Score: 455
Period size: 40 Copynumber: 12.6 Consensus size: 40
42517268 TCGAATGATG
* *
42517278 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * *
42517318 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGT-ACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
42517356 TTCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
42517395 TCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
42517435 ACCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * * *
42517474 TCCGAGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
42517513 TCCAGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
42517553 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
42517593 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
42517633 TCCGGGCTAAGTCCCG-AGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
42517672 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
42517712 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
42517752 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
42517775 ATCATGCTGG
Statistics
Matches: 389, Mismatches: 56, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
37 19 0.05
38 26 0.07
39 84 0.22
40 240 0.62
41 20 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:42520734 original size:47 final size:47
Alignment explanation
Indices: 42520674--42521052 Score: 575
Period size: 47 Copynumber: 8.3 Consensus size: 47
42520664 GATGTGATGC
42520674 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
42520721 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
42520768 ATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
42520817 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
42520863 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
42520910 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
42520957 ATATA--TG-T---G---AATGGCCGATGTGATGAATGTGAAAGTG-
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * *
42520994 -TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
42521040 ATAAATGTGATAA
1 ATATATGTGATAA
42521053 TCCCGAAGGG
Statistics
Matches: 308, Mismatches: 10, Indels: 28
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.01
38 30 0.10
41 1 0.00
42 1 0.00
44 1 0.00
45 26 0.08
46 46 0.15
47 153 0.50
49 46 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:42520849 original size:22 final size:22
Alignment explanation
Indices: 42520821--42520895 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
42520811 GTGTATATAT
42520821 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ****
42520843 ATGTGATGAATGTGAAAGTGATAT
1 ATGTGAT-AAGGCCTAA-TGGCCG
42520867 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
42520889 ATGTGAT
1 ATGTGAT
42520896 GAATGTGAAA
Statistics
Matches: 35, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
22 16 0.46
23 10 0.29
24 9 0.26
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:42520913 original size:142 final size:140
Alignment explanation
Indices: 42520674--42521052 Score: 580
Period size: 142 Copynumber: 2.8 Consensus size: 140
42520664 GATGTGATGC
42520674 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCT
*
42520739 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAA
65 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
42520804 TGTGAAAGTGTAT
130 TGTGAAAGTG--T
42520817 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTA
42520882 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
42520947 GTGAAAGTGT
131 GTGAAAGTGT
* * *
42520957 ATATA--TG-T---G---AATGGCCGATGTGATGAATGTGAAAGTG-TATATGTGACAGGGCCGA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTA
* * * * *
42521012 GTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
42521053 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
130 51 0.22
131 28 0.12
134 1 0.00
137 1 0.00
138 2 0.01
140 6 0.03
142 92 0.41
143 46 0.20
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (140 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTGT
Found at i:42521040 original size:83 final size:84
Alignment explanation
Indices: 42520786--42521049 Score: 287
Period size: 83 Copynumber: 3.0 Consensus size: 84
42520776 GATAAGGCCT
* * * *
42520786 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGGCCGATGTGATGAATGTGAAAGTG---ATATATGTGACAAGGCCGAATGGCCAACGTGATG
**
42520851 AATGTGAAAGTGATATATGTGATAAGG
63 AATGTGAAAGTG-TATAAATG-T---G
* * * *
42520878 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 ---AATGGCCGATGTGATGAATGTGAAAGTG-ATATATGTGACAAGGCCGAATGGCCAACGTGAT
*
42520943 GAATGTGAAAGTGTATATATGTG
62 GAATGTGAAAGTGTATAAATGTG
* * *
42520966 AATGGCCGATGTGATGAATGTGAAAGTG-TATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 AATGGCCGATGTGATGAATGTGAAAGTGATATATGTGACAAGGCCGAATGGCCAACGTGATGAAT
42521030 GTGAAAGTGTATAAATGTG
66 GTGAAAGTGTATAAATGTG
42521049 A
1 A
42521050 TAATCCCGAA
Statistics
Matches: 160, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
83 48 0.30
85 28 0.17
88 1 0.01
91 1 0.01
92 7 0.04
93 47 0.29
95 28 0.17
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (84 bp):
AATGGCCGATGTGATGAATGTGAAAGTGATATATGTGACAAGGCCGAATGGCCAACGTGATGAAT
GTGAAAGTGTATAAATGTG
Found at i:42521227 original size:37 final size:37
Alignment explanation
Indices: 42521171--42521249 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
42521161 CCGAGCTCTA
* * *
42521171 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
42521208 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42521245 AAGAC
1 AAGAC
42521250 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42523143 original size:38 final size:38
Alignment explanation
Indices: 42523075--42523179 Score: 99
Period size: 38 Copynumber: 2.7 Consensus size: 38
42523065 ATGATGTCCG
* *
42523075 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACC-ATATC-
1 GGCTAAG-ACCGAAGGCATTTGTGC-GAGTGACCAAT-TCT
* *
42523113 GGACTAAGATCGAAGGCATTTGTGCGAGTGACTAATTCT
1 GG-CTAAGACCGAAGGCATTTGTGCGAGTGACCAATTCT
* *
42523152 GGCTAAGCCCGAAGGCATTGGTGCGAGT
1 GGCTAAGACCGAAGGCATTTGTGCGAGT
42523180 TACTAAATCC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
38 40 0.71
39 16 0.29
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (38 bp):
GGCTAAGACCGAAGGCATTTGTGCGAGTGACCAATTCT
Found at i:42523288 original size:79 final size:81
Alignment explanation
Indices: 42523071--42523577 Score: 385
Period size: 79 Copynumber: 6.5 Consensus size: 81
42523061 TCGAATGATG
* * *
42523071 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCGGA-CTAAGAT--CGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGACTATATCCGAGCTAAG-TCCCGAAGAGC
*
42523130 ATTTGTGCGAGTGACTA-A
64 ATTCGTGCGAGTGA-TATA
* * * * * * * *
42523148 TTCTGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCG-A-AGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGAGCAT
* *
42523209 TTGTGCGAGTTACTATA
66 TCGTGCGAGTGA-TATA
* * *
42523226 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGAGCTAAG-CCCGAAG-GCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGAGCAT
* * *
42523288 TGGTGCGAGTTACTAAA
66 TCGTGCGAGTGA-TATA
* * * * * * *
42523305 TCCAGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGAGCAT
* *
42523369 TCATGCTAGTG--ATA
66 TCGTGCGAGTGATATA
* * * * *
42523383 TCTGGGCTAAGTTCCGAAGAGCAATTCGTGCTAGTGA-TGTATCCG-GGTAAGTCCCGATGAGCA
1 TCCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGAGCA
* * *
42523446 TTCATGCTAGTGATGTA
65 TTCGTGCGAGTGATATA
* * *
42523463 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATATCCGTGCTAA-ACCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGAGCAT
*
42523526 TCGTGCTG-GTGTTATA
66 TCGTGC-GAGTGATATA
* * * *
42523542 TCCGGGCTAGGT-CCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAC
42523578 GTGTATTCGG
Statistics
Matches: 346, Mismatches: 64, Indels: 38
0.77 0.14 0.08
Matches are distributed among these distances:
76 20 0.06
77 38 0.11
78 92 0.27
79 128 0.37
80 57 0.16
81 11 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGAGCAT
TCGTGCGAGTGATATA
Found at i:42523290 original size:118 final size:118
Alignment explanation
Indices: 42523153--42523531 Score: 473
Period size: 118 Copynumber: 3.2 Consensus size: 118
42523143 ACTAATTCTG
*
42523153 GCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGCATTTGTGCGA
1 GCTAAGCCCGAAGAGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGCATTTGTGCGA
42523217 GTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGA
66 GTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAT-TATCCGA
* *
42523271 GCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCG
1 GCTAAGCCCGAAGAGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAA-GCATTTGTGCG
* *
42523335 AGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATCTGG
65 AGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATTATCCGA
* * * ** **
42523388 GCTAAGTTCCGAAGAGCAATTCGTGCTAGTGA-TGTATCCGGG-TAAGTCCCGATGAGCATTCAT
1 GCTAAG-CCCGAAGAGC-ATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGA--AGCATTTGT
* * * * * * *
42523451 GCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
62 GCGAGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAT-TATCCGA
*
42523508 GCTAAACCCGAAGAGCATTCGTGC
1 GCTAAGCCCGAAGAGCATTCGTGC
42523532 TGGTGTTATA
Statistics
Matches: 231, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
117 11 0.05
118 111 0.48
119 87 0.38
120 22 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
GCTAAGCCCGAAGAGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGCATTTGTGCGA
GTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATTATCCGA
Found at i:42523454 original size:39 final size:40
Alignment explanation
Indices: 42523071--42523563 Score: 394
Period size: 39 Copynumber: 12.6 Consensus size: 40
42523061 TCGAATGATG
* *
42523071 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * *
42523111 T-CGGACTAAGAT--CGAAG-GCATTTGTGCGAGTGACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * * *
42523148 TTCTGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
42523187 TCCGGGTTAAGTCCCG-A-AGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
42523226 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * * *
42523266 TCCGAGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
42523305 TCCAGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
42523345 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG--ATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
42523383 TCTGGGCTAAGTTCCGAAGAGCAATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGTGATATA
* * *
42523424 TCCGGG-TAAGTCCCGATGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
42523463 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * *
42523503 TCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
42523542 TCCGGGCTAGGT-CCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
42523564 ATCATGCTGG
Statistics
Matches: 375, Mismatches: 60, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.01
38 77 0.21
39 153 0.41
40 112 0.30
41 31 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:42523532 original size:118 final size:119
Alignment explanation
Indices: 42523153--42523577 Score: 400
Period size: 118 Copynumber: 3.6 Consensus size: 119
42523143 ACTAATTCTG
* * * * * **
42523153 GCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCG-A-AGCATTTGTGC
1 GCTAAACCCGAAGAGCATTCGTGCTAGTGA-TATATCCGGG-TAAGTCCCGAAGAGCATTCATGC
* * *
42523215 GAGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGA
64 TAGTGACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGA
* * * * * * **
42523271 GCTAAGCCCGAAG-GCATTGGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAG-GCATTTGTGC
1 GCTAAACCCGAAGAGCATTCGTGCTAGTGA-TATATCC-GGGTAAGTCCCGAAGAGCATTCATGC
* * * *
42523334 GAGTTACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG--ATATCTGG
64 TAGTGACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGA
** * *
42523388 GCTAAGTTCCGAAGAGCAATTCGTGCTAGTGATGTATCCGGGTAAGTCCCGATGAGCATTCATGC
1 GCTAA-ACCCGAAGAGC-ATTCGTGCTAGTGATATATCCGGGTAAGTCCCGAAGAGCATTCATGC
* * * * *
42523453 TAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
64 TAGTGACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGA
* * * *
42523508 GCTAAACCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGT-CCGAAGAGCAATCATGCT
1 GCTAAACCCGAAGAGCATTCGTGCTAGTGATATATCCGGG-TAAGTCCCGAAGAGCATTCATGCT
*
42523572 GGTGAC
65 AGTGAC
42523578 GTGTATTCGG
Statistics
Matches: 264, Mismatches: 32, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
117 10 0.04
118 141 0.53
119 91 0.34
120 22 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
GCTAAACCCGAAGAGCATTCGTGCTAGTGATATATCCGGGTAAGTCCCGAAGAGCATTCATGCTA
GTGACTATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGA
Found at i:42526550 original size:47 final size:47
Alignment explanation
Indices: 42526410--42526819 Score: 619
Period size: 47 Copynumber: 8.7 Consensus size: 47
42526400 TTTAGATTCT
* *
42526410 ATGTGATGGATGTGAACA-TGCATTATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTA-TATATGTGATAAGGCCTAATGGCCG
42526458 ATGTGATGAATGTGAAAGTGTATTATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTA-TATATGTGATAAGGCCTAATGGCCG
* *
42526506 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
42526553 ATGTGATAAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
42526600 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAAGGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42526647 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
42526694 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
42526741 ATGTGA-GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG-CA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
42526786 ACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAA
42526820 TTCCCGAAGG
Statistics
Matches: 336, Mismatches: 24, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
45 6 0.02
46 56 0.17
47 208 0.62
48 66 0.20
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:42526628 original size:25 final size:25
Alignment explanation
Indices: 42526600--42526678 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
42526590 CTAATGGCCG
42526600 ATGTGATGAATGTGAAAGTGCATAT
1 ATGTGATGAATGTGAAAGTGCATAT
* *** * **
42526625 ATGTGAT-AAGGCCTAAGGGC--CG
1 ATGTGATGAATGTGAAAGTGCATAT
*
42526647 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGCATAT
42526672 ATGTGAT
1 ATGTGAT
42526679 AAGGCCTAAT
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 7 0.19
23 7 0.19
24 8 0.22
25 14 0.39
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGCATAT
Found at i:42527005 original size:35 final size:35
Alignment explanation
Indices: 42526939--42527014 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
42526929 CCGAGCTTAA
* *
42526939 AAGACCCGATGACTACGTGTGGGATTTTGTCCGGGT
1 AAGA-CCGATAACTACGTGTGGGATTATGTCCGGGT
*
42526975 AAGACCGATAACTTCG-GTGGAGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGG-GATTATGTCCGGGT
42527010 AAGAC
1 AAGAC
42527015 TTCGTATAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 4 0.11
35 28 0.78
36 4 0.11
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (35 bp):
AAGACCGATAACTACGTGTGGGATTATGTCCGGGT
Found at i:42529350 original size:16 final size:18
Alignment explanation
Indices: 42529318--42529351 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42529308 TTCATATAAA
42529318 TTTTGATTATAATTACTT
1 TTTTGATTATAATTACTT
42529336 TTTTGA-TATAA-TACTT
1 TTTTGATTATAATTACTT
42529352 AAAATTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTTGATTATAATTACTT
Found at i:42532074 original size:93 final size:93
Alignment explanation
Indices: 42531962--42532133 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42531952 CGCCCATAAG
* *
42531962 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42532027 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
42532055 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42532120 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42532134 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42532130 original size:46 final size:46
Alignment explanation
Indices: 42531955--42532130 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42531945 TGTAACCCGC
* * *
42531955 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42532001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42532051 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
42532094 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42532131 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42539564 original size:93 final size:93
Alignment explanation
Indices: 42539452--42539623 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42539442 CGCCCATAAG
* *
42539452 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42539517 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
42539545 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42539610 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42539624 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42539620 original size:46 final size:46
Alignment explanation
Indices: 42539445--42539620 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42539435 TGTAACCCGC
* * *
42539445 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42539491 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42539541 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
42539584 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42539621 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42548758 original size:18 final size:18
Alignment explanation
Indices: 42548719--42548754 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42548709 TATGTGGCCT
*
42548719 GCCCGTGTGAGCCCTCAC
1 GCCCGTGTGAGCCCACAC
42548737 GCCCGTGTG-GCCCACAC
1 GCCCGTGTGAGCCCACAC
42548754 G
1 G
42548755 GCCCAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.44, G:0.31, T:0.14
Consensus pattern (18 bp):
GCCCGTGTGAGCCCACAC
Found at i:42551762 original size:27 final size:27
Alignment explanation
Indices: 42551729--42551781 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
42551719 GAGACAACCC
42551729 AGGACTACCAAATTGAATTGGTCAACT
1 AGGACTACCAAATTGAATTGGTCAACT
42551756 AGGACTACCAAATTGAATTGGTCAAC
1 AGGACTACCAAATTGAATTGGTCAAC
42551782 CACCCTCTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AGGACTACCAAATTGAATTGGTCAACT
Found at i:42558037 original size:27 final size:25
Alignment explanation
Indices: 42558007--42558061 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 25
42557997 TTTAGTCATG
42558007 TGATATGG-TTTGGTATGGATGTGATTA
1 TGATATGGTTTTGGTAT--ATG-GATTA
42558034 TGATATGGTTTTGGTATATGGATTA
1 TGATATGGTTTTGGTATATGGATTA
42558059 TGA
1 TGA
42558062 GGCAATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 8 0.30
26 3 0.11
27 8 0.30
28 8 0.30
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (25 bp):
TGATATGGTTTTGGTATATGGATTA
Found at i:42564504 original size:48 final size:49
Alignment explanation
Indices: 42564434--42564555 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
42564424 TGAGACGAGG
* * *
42564434 GCTAGTGTAAGACATGTCTGGGACAT-GCATTAGCCTC-AGGATATACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGA-GATATAAAA
*
42564482 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATAAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGAGATATAAAA
* *
42564531 G-TCAGTGTAAGACCTATCTAGGACA
1 GCT-AGTGTAAGACCTGTCTGGGACA
42564556 CGACATCGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
48 26 0.40
49 38 0.58
50 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGAGATATAAAA
Found at i:42571854 original size:5 final size:5
Alignment explanation
Indices: 42571844--42571871 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
42571834 TATTTGACCA
42571844 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
42571872 GATGATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:42577615 original size:46 final size:46
Alignment explanation
Indices: 42577548--42577719 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
42577538 AACCCGCCCC
*
42577548 TAAGTGAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCACATCCA
*
42577594 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACATCCA
* * * * *
42577642 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
42577687 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
42577720 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 56 0.53
47 27 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
Found at i:42577666 original size:93 final size:93
Alignment explanation
Indices: 42577553--42577723 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
42577543 GCCCCTAAGT
* * *
42577553 GAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
42577617 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
42577646 GAACTCGGACTCAACTCAACGAGTTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
42577711 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42577724 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42578046 original size:23 final size:23
Alignment explanation
Indices: 42578017--42578065 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
42578007 AATATAAAGA
42578017 TTTTGCAATTTAGTCCACAATCT
1 TTTTGCAATTTAGTCCACAATCT
42578040 TTTTGCAATTTAGTCCACAATCT
1 TTTTGCAATTTAGTCCACAATCT
42578063 TTT
1 TTT
42578066 CTTTTCCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.47
Consensus pattern (23 bp):
TTTTGCAATTTAGTCCACAATCT
Found at i:42582695 original size:40 final size:40
Alignment explanation
Indices: 42582601--42582745 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
42582591 TACTTGAATG
* *
42582601 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTACCGAAGGCATTTGTGCT-AGCGACT
* *
42582642 ACATCCGGACTAAG-ATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTA-CCGAAGGCATTTGTGCTAGCGACT
* * *
42582682 ATATCCGGGCTAAGTACCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTACCGAAGGCATTTGTGCTAGCGACT
*
42582722 ATATCCGGGTTAAG-ACCCGAAGGC
1 ATATCCGGGCTAAGTA-CCGAAGGC
42582746 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 29 0.32
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTACCGAAGGCATTTGTGCTAGCGACT
Found at i:42587299 original size:38 final size:39
Alignment explanation
Indices: 42587135--42587358 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 39
42587125 GCTACTCGTT
* *
42587135 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
42587175 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
42587215 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
* *
42587255 CAAATGCCTTC-GGATCTTAGTCCGGATTAGT-ACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAACTCGCA
* * * *
42587293 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
42587334 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42587359 CATCATTCAA
Statistics
Matches: 168, Mismatches: 10, Indels: 12
0.88 0.05 0.06
Matches are distributed among these distances:
38 33 0.20
39 11 0.07
40 113 0.67
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:42587318 original size:118 final size:120
Alignment explanation
Indices: 42587135--42587358 Score: 287
Period size: 118 Copynumber: 1.9 Consensus size: 120
42587125 GCTACTCGTT
*
42587135 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
42587200 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * **
42587255 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGT-ACTCGTACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
42587316 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42587359 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
117 3 0.03
118 52 0.58
119 15 0.17
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42595200 original size:39 final size:40
Alignment explanation
Indices: 42595126--42595344 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
42595116 GCTACTCGTT
* *
42595126 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42595166 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42595205 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
42595245 CAAATGCCTTC-GG-CTT-AGCC-GA-TTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42595279 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42595320 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42595345 CATCATTCAA
Statistics
Matches: 160, Mismatches: 9, Indels: 20
0.85 0.05 0.11
Matches are distributed among these distances:
34 20 0.12
35 5 0.03
36 5 0.03
37 5 0.03
38 5 0.03
39 39 0.24
40 70 0.44
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42595229 original size:79 final size:77
Alignment explanation
Indices: 42595093--42595344 Score: 266
Period size: 79 Copynumber: 3.2 Consensus size: 77
42595083 AAATCACGTA
* ** *
42595093 CCTTCGGAATTTAA-CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGG-ACTTAACCCGGAT-TAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
42595157 TAACTCGCACAAATG
63 TAACTCGCACAAATG
*
42595172 CCTTCGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAG
1 CCTTCGGACTTAACCCGGA-TTAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAG
42595236 TAACTCGCACAAATG
63 TAACTCGCACAAATG
* * * * *
42595251 CCTTCGG-CTT-AGCC-GATTAGTACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 CCTTCGGACTTAACCCGGATTAGTACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
*
42595312 ACTTAGCACAAA-G
65 AC-TCGCACAAATG
*
42595325 CCTTCGGGACTTAGCCCGGA
1 CCTTC-GGACTTAACCCGGA
42595345 CATCATTCAA
Statistics
Matches: 148, Mismatches: 14, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
73 4 0.03
74 37 0.25
75 15 0.10
76 5 0.03
77 5 0.03
78 11 0.07
79 68 0.46
80 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CCTTCGGACTTAACCCGGATTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
CTCGCACAAATG
Found at i:42597752 original size:25 final size:24
Alignment explanation
Indices: 42597716--42597768 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
42597706 AAGTTCAAGC
42597716 GAGCCATATCAGGAA-GCTCATAAA
1 GAGCCATATCA-GAATGCTCATAAA
*
42597740 GAGCCTATATCAGAATGCTCATAGA
1 GAGCC-ATATCAGAATGCTCATAAA
42597765 GAGC
1 GAGC
42597769 TGCATTTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGAATGCTCATAAA
Found at i:42598300 original size:21 final size:21
Alignment explanation
Indices: 42598261--42598300 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42598251 TCAATTTAAC
* *
42598261 ATCATTTTAATCCATTTCATT
1 ATCAATTTAATCCAATTCATT
*
42598282 ATCAATTTAATTCAATTCA
1 ATCAATTTAATCCAATTCA
42598301 CACCCTAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (21 bp):
ATCAATTTAATCCAATTCATT
Found at i:42601323 original size:59 final size:60
Alignment explanation
Indices: 42601239--42601396 Score: 142
Period size: 60 Copynumber: 2.6 Consensus size: 60
42601229 TTGGTACATG
* * **
42601239 AACTTGACA-TTTTT-TTCTAGTTTGGTACCTAAACTTTTT-TTGGTCCAAATTGATACCCA
1 AACTTGACACTTTTTCTT-AAG-TTGGTACCTAATCTTTTTGGAGGTCCAAATTGATACCCA
** ** * * *
42601298 AACTTGACACTTTTTCTTAAGTTGGTATTTAATCTTTTTGGAGGTTTAATTTGGTACCTA
1 AACTTGACACTTTTTCTTAAGTTGGTACCTAATCTTTTTGGAGGTCCAAATTGATACCCA
* * * *
42601358 AACTTGACTCGTTTTCCTAATTTGGTACCTAATCTTTTT
1 AACTTGACACTTTTTCTTAAGTTGGTACCTAATCTTTTT
42601397 ATTGTTCGAT
Statistics
Matches: 79, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
59 24 0.30
60 53 0.67
61 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.47
Consensus pattern (60 bp):
AACTTGACACTTTTTCTTAAGTTGGTACCTAATCTTTTTGGAGGTCCAAATTGATACCCA
Found at i:42601628 original size:15 final size:15
Alignment explanation
Indices: 42601608--42601639 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42601598 TAAAACTCAT
*
42601608 GTGAGCTTAAAATGG
1 GTGAGCCTAAAATGG
42601623 GTGAGCCTAAAATGG
1 GTGAGCCTAAAATGG
42601638 GT
1 GT
42601640 TTGGGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.25
Consensus pattern (15 bp):
GTGAGCCTAAAATGG
Found at i:42611986 original size:40 final size:40
Alignment explanation
Indices: 42611901--42612084 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
42611891 GCTACTCGTT
* *
42611901 CAAATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
42611940 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
42611980 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
42612019 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
42612060 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42612085 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 51 0.41
40 59 0.47
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:42612011 original size:79 final size:81
Alignment explanation
Indices: 42611903--42612084 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
42611893 TACTCGTTCA
* * *
42611903 AATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
42611965 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
42611982 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
42612045 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
42612061 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42612085 CATCATTCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 7 0.08
79 65 0.74
80 16 0.18
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:42617085 original size:26 final size:26
Alignment explanation
Indices: 42617056--42617107 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
42617046 TTGCCATGTT
42617056 TTAAAATTCTTTCCTGTGAATTTCGA
1 TTAAAATTCTTTCCTGTGAATTTCGA
42617082 TTAAAATTCTTTCCTGTGAATTTCGA
1 TTAAAATTCTTTCCTGTGAATTTCGA
42617108 AGGCTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAAAATTCTTTCCTGTGAATTTCGA
Found at i:42622884 original size:118 final size:118
Alignment explanation
Indices: 42622676--42622914 Score: 460
Period size: 118 Copynumber: 2.0 Consensus size: 118
42622666 ACACAACCAG
42622676 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
1 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
*
42622741 CAATATTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
66 CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
42622794 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
1 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
*
42622859 CAATACTTCATTTCAAAGGTTCGAGGCCACAAACCTACATATTGAAGGTAAAA
66 CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
42622912 GAA
1 GAA
42622915 AAGCACCAAT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (118 bp):
GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
Found at i:42623295 original size:15 final size:16
Alignment explanation
Indices: 42623275--42623304 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42623265 TTGATTAATA
42623275 ATTAATTA-ATTTATC
1 ATTAATTATATTTATC
42623290 ATTAATTATATTTAT
1 ATTAATTATATTTAT
42623305 TTTTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATTATATTTATC
Found at i:42625346 original size:26 final size:26
Alignment explanation
Indices: 42625317--42625372 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
42625307 TGATACAAAT
42625317 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42625343 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42625369 TGAT
1 TGAT
42625373 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:42637111 original size:27 final size:26
Alignment explanation
Indices: 42637081--42637131 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
42637071 ACCACTACTG
42637081 ATCAGGATGCTCATAGAAACTATATAT
1 ATCAGGATGCTCA-AGAAACTATATAT
* *
42637108 ATCAGTATGCTCAAGAGACTATAT
1 ATCAGGATGCTCAAGAAACTATAT
42637132 CGAGATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (26 bp):
ATCAGGATGCTCAAGAAACTATATAT
Found at i:42639995 original size:29 final size:30
Alignment explanation
Indices: 42639941--42639999 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
42639931 GAATTAAATC
*
42639941 AAATTAAAATTTCATATATAAAATTGCACA
1 AAATTAAAATTTCATAAATAAAATTGCACA
*
42639971 AAATTAAAATTT-ATAAATACAATTGCACA
1 AAATTAAAATTTCATAAATAAAATTGCACA
42640000 TTAAATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATTAAAATTTCATAAATAAAATTGCACA
Found at i:42640435 original size:9 final size:9
Alignment explanation
Indices: 42640421--42640445 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42640411 GTGATAGATA
42640421 AAAAAAAAG
1 AAAAAAAAG
42640430 AAAAAAAAG
1 AAAAAAAAG
42640439 AAAAAAA
1 AAAAAAA
42640446 CAATGTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:42641037 original size:44 final size:44
Alignment explanation
Indices: 42640983--42641068 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
42640973 ATAATGATAA
* * * *
42640983 ATTAACTTATAATTATTTTTAAATGTGTACTTATCAAAACTTGT
1 ATTAAATTATAACTATTTTTAAATGTATAATTATCAAAACTTGT
*
42641027 ATTAAATTATAACTATTTTTAAATGTATAATTATCACAACTT
1 ATTAAATTATAACTATTTTTAAATGTATAATTATCAAAACTT
42641069 TCATTTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (44 bp):
ATTAAATTATAACTATTTTTAAATGTATAATTATCAAAACTTGT
Found at i:42644865 original size:24 final size:24
Alignment explanation
Indices: 42644833--42644880 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
42644823 ATTGAGCTAA
*
42644833 AACAGTAAGCTCTGACAAGTTGAG
1 AACAGTAAGCTCTGACAAGCTGAG
*
42644857 AACAGTAAGCTCTTACAAGCTGAG
1 AACAGTAAGCTCTGACAAGCTGAG
42644881 GTGAGTCCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
AACAGTAAGCTCTGACAAGCTGAG
Found at i:42645287 original size:13 final size:13
Alignment explanation
Indices: 42645269--42645334 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
42645259 AGTTTGGCAA
*
42645269 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
42645282 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
42645295 GGCTATGGAAAAG
1 TGCTTTTGAAAAG
42645308 TGCTTTT-AAGAAG
1 TGCTTTTGAA-AAG
42645321 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
42645334 T
1 T
42645335 TTAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:42649123 original size:18 final size:19
Alignment explanation
Indices: 42649100--42649135 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42649090 AACTTGGCAC
*
42649100 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
42649118 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
42649136 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:42649465 original size:30 final size:30
Alignment explanation
Indices: 42649431--42649491 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42649421 TCCTTAACTA
42649431 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
42649461 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
42649491 A
1 A
42649492 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:42653238 original size:48 final size:48
Alignment explanation
Indices: 42653167--42653731 Score: 878
Period size: 48 Copynumber: 11.8 Consensus size: 48
42653157 CAAGATAAAT
* * * * * * *
42653167 ATATATATGTGTGGTGAAGCCGAATAGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42653215 ATATGTGTATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42653263 ATTTGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
42653311 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42653359 ATATGTATATGTGGTAAAGCCAAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42653407 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42653455 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
42653503 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42653551 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATACGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42653599 TTATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42653647 ATATGTATATGTGGTAAAGTCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42653695 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
42653732 TGTTATAACA
Statistics
Matches: 469, Mismatches: 48, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 469 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:42653826 original size:37 final size:37
Alignment explanation
Indices: 42653776--42653878 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
42653766 GGAAATGTAT
42653776 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
42653813 TCCGGGTAAGACCCGATGACTACGTGCGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
42653850 TCCGGGTAAGATCCGATAACTACATGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
42653879 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:42657725 original size:49 final size:49
Alignment explanation
Indices: 42657662--42657794 Score: 169
Period size: 49 Copynumber: 2.7 Consensus size: 49
42657652 GCACATCAAA
* * *
42657662 GTCGATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATTGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GT
* * * *
42657711 GTCGATGCCGTGTCCCAGACAGGTCGTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
* *
42657760 GTCGTTGCCATGTCCTAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
42657795 ACACAACAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 70 0.99
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
Done.