Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 25 of 128
Found at i:7647407 original size:50 final size:50
Alignment explanation
Indices: 7646935--7647408 Score: 333
Period size: 50 Copynumber: 9.5 Consensus size: 50
7646925 GCAATTAAAA
* * ** ** *
7646935 AGATTGAAGCTACAACAGCGGATCTTACTCTCCTA-GCGTTGCAGTGGAGC
1 AGATTGAAGCTACAACAGCGAATCTTACT-TCCCAGGCAATGCAACGGAAC
* * * * *** *
7646985 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
* *
7647035 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAATGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
* * * * *** *
7647085 AGATTGAAGCTACAACGGCGAATCTCACTTCCC-GACATTGCAATTTAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
* ** * * *
7647134 AGATTGAAGCTACAACGGTAAATCTTATTTCCCAGGCAGTGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
* ** * * * ** *
7647184 AGATTGAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAACTCAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
* ** * * *
7647234 AGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCGATGCAGCGAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
** * ** * * ** *
7647284 AGATTGAAGCTATGACAGTGAATCTCGCTTCCCCGAC-ATCGCAACTCAAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAAT-GCAACGGAAC
* * ** * *
7647334 AGATTAAAGCCACAATGGCGAATCTTACTTCCCAGGCAATGCAGCAGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
* *
7647384 AGATTGAAGCTACGACAGTGAATCT
1 AGATTGAAGCTACAACAGCGAATCT
7647409 CGTTTCCCCG
Statistics
Matches: 329, Mismatches: 91, Indels: 8
0.77 0.21 0.02
Matches are distributed among these distances:
49 44 0.13
50 283 0.86
51 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCAATGCAACGGAAC
Found at i:7647438 original size:50 final size:49
Alignment explanation
Indices: 7646985--7647458 Score: 157
Period size: 50 Copynumber: 9.5 Consensus size: 49
7646975 GCAGTGGAGC
* * * ** * *
7646985 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCAAGT-AAA
* * ** * * * *
7647035 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGA-TGCAATGGAAC
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGAC-ATTGCAA-GTAAA
* * * * *
7647085 AGATTGAAGCTACAACGGCGAATCTCACTT-CCCGACATTGCAATTTAAA
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCAA-GTAAA
* * * ** *** * * * * * *
7647134 AGATTGAAGCTACAACGGTAAATCTTATTTCCCAGGCAGTGCAGCGGAAC
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCA-AGTAAA
* * * ** ** *
7647184 AGATTGAAGCCACAATGGCGAATCTTACTTCCCCGACATTGCAACTCAAA
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCAAGT-AAA
* * * ** ** * * *
7647234 AGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCGA-TGC-AGCGAAA
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGAC-ATTGCAAG-TAAA
* * * * *
7647283 CAGATTGAAGCTATGACAGTGAATCTCGCTTCCCCGACATCGCAACTCAAA
1 -AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCAAGT-AAA
* * ** ** * * * *
7647334 AGATTAAAGCCACAATGGCGAATCTTACTTCCCAGGCAATGCAGCAG-AAC
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCA--AGTAAA
* * *
7647384 AGATTGAAGCTACGACAGTGAATCTCGTTTCCCCGACATTGCAAGTAAA
1 AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCAAGTAAA
*
7647433 TAGATTAAAGCTACGACTGCGAATCT
1 -AGATTAAAGCTACGACAGCGAATCT
7647459 TACTTCCTGA
Statistics
Matches: 324, Mismatches: 84, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
48 3 0.01
49 45 0.14
50 269 0.83
51 6 0.02
52 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (49 bp):
AGATTAAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGCAAGTAAA
Found at i:7647946 original size:132 final size:132
Alignment explanation
Indices: 7647709--7647956 Score: 469
Period size: 132 Copynumber: 1.9 Consensus size: 132
7647699 AGCTACGAAT
*
7647709 CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATAC
1 CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
* *
7647774 AGTGGAGAATCAGATTTAAGCCATTTGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGAT
66 AGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGAT
7647839 TG
131 TG
7647841 CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
1 CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
7647906 AGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
66 AGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
7647957 GAATCTTATC
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 113 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (132 bp):
CAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATAC
AGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGAT
TG
Found at i:7650812 original size:218 final size:218
Alignment explanation
Indices: 7650553--7650988 Score: 872
Period size: 218 Copynumber: 2.0 Consensus size: 218
7650543 TCAACAATTA
7650553 GGACTCTCAATTTATCCTAGTTTTCGCCTATAAAAGGCAATGCATGCCCCCTATGTATATGATTT
1 GGACTCTCAATTTATCCTAGTTTTCGCCTATAAAAGGCAATGCATGCCCCCTATGTATATGATTT
7650618 AGTTTCATTCTTTTATGAATAAAAACTCCTAGAGTTTTCTCTCTTTGCAAAATTTTTTTCTTGTA
66 AGTTTCATTCTTTTATGAATAAAAACTCCTAGAGTTTTCTCTCTTTGCAAAATTTTTTTCTTGTA
7650683 TTTTTTAGAAGTACTTGCAACTCGGTTTCTTTTCAAGAATCAAGGTTGTTGTTTTTCACACTTCG
131 TTTTTTAGAAGTACTTGCAACTCGGTTTCTTTTCAAGAATCAAGGTTGTTGTTTTTCACACTTCG
7650748 GTTTGCTAAGAAACTTTTTTTGG
196 GTTTGCTAAGAAACTTTTTTTGG
7650771 GGACTCTCAATTTATCCTAGTTTTCGCCTATAAAAGGCAATGCATGCCCCCTATGTATATGATTT
1 GGACTCTCAATTTATCCTAGTTTTCGCCTATAAAAGGCAATGCATGCCCCCTATGTATATGATTT
7650836 AGTTTCATTCTTTTATGAATAAAAACTCCTAGAGTTTTCTCTCTTTGCAAAATTTTTTTCTTGTA
66 AGTTTCATTCTTTTATGAATAAAAACTCCTAGAGTTTTCTCTCTTTGCAAAATTTTTTTCTTGTA
7650901 TTTTTTAGAAGTACTTGCAACTCGGTTTCTTTTCAAGAATCAAGGTTGTTGTTTTTCACACTTCG
131 TTTTTTAGAAGTACTTGCAACTCGGTTTCTTTTCAAGAATCAAGGTTGTTGTTTTTCACACTTCG
7650966 GTTTGCTAAGAAACTTTTTTTGG
196 GTTTGCTAAGAAACTTTTTTTGG
7650989 AGGGTTGGCT
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 218 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (218 bp):
GGACTCTCAATTTATCCTAGTTTTCGCCTATAAAAGGCAATGCATGCCCCCTATGTATATGATTT
AGTTTCATTCTTTTATGAATAAAAACTCCTAGAGTTTTCTCTCTTTGCAAAATTTTTTTCTTGTA
TTTTTTAGAAGTACTTGCAACTCGGTTTCTTTTCAAGAATCAAGGTTGTTGTTTTTCACACTTCG
GTTTGCTAAGAAACTTTTTTTGG
Found at i:7659805 original size:20 final size:20
Alignment explanation
Indices: 7659782--7659831 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
7659772 AAAACACCGT
*
7659782 AGTGAAAACAAAGGCACCAA
1 AGTGCAAACAAAGGCACCAA
* *
7659802 AGTGCAAACAGAGGCATCAA
1 AGTGCAAACAAAGGCACCAA
7659822 AGTGCAAACA
1 AGTGCAAACA
7659832 TGTACAAGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.20, G:0.22, T:0.08
Consensus pattern (20 bp):
AGTGCAAACAAAGGCACCAA
Found at i:7664463 original size:2 final size:2
Alignment explanation
Indices: 7664456--7664483 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7664446 ACATACATGC
7664456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7664484 TTTGTGTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7671439 original size:16 final size:16
Alignment explanation
Indices: 7671420--7671450 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7671410 TTTAATTAAA
7671420 TAAATTATTAAAAAAT
1 TAAATTATTAAAAAAT
*
7671436 TAAATTTTTAAAAAA
1 TAAATTATTAAAAAA
7671451 AAAAATTTAA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTATTAAAAAAT
Found at i:7674863 original size:21 final size:21
Alignment explanation
Indices: 7674837--7674887 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
7674827 GAAACCACAG
*
7674837 ATTTAAAATATAGATGTATGT
1 ATTTAAAATACAGATGTATGT
7674858 ATTTAAAATACAGATGTATGT
1 ATTTAAAATACAGATGTATGT
*
7674879 -TTAAAAATA
1 ATTTAAAATA
7674888 ACATGTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (21 bp):
ATTTAAAATACAGATGTATGT
Found at i:7674893 original size:19 final size:21
Alignment explanation
Indices: 7674841--7674894 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
7674831 CCACAGATTT
* * *
7674841 AAAATATAGATGTATGTATTT
1 AAAATACACATGTATGTATTA
*
7674862 AAAATACAGATGTATGT-TTA
1 AAAATACACATGTATGTATTA
7674882 AAAATA-ACATGTA
1 AAAATACACATGTA
7674895 ATAATTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 6 0.20
20 8 0.27
21 16 0.53
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (21 bp):
AAAATACACATGTATGTATTA
Found at i:7675013 original size:124 final size:122
Alignment explanation
Indices: 7674869--7675105 Score: 325
Period size: 123 Copynumber: 1.9 Consensus size: 122
7674859 TTTAAAATAC
* **
7674869 AGATGTATGTTTAAAAATAACATGTAATAATTAATAAAAAC-ATATGGTTTGAAACTAATTAATC
1 AGATGTATATTTAAAAATAACATACAATAATTAAT--AAACTATATGGTTTGAAACTAATTAATC
*
7674933 ATAATAACACAT-AATATATGTACAATATTAAAATAAAAAAATAGATTAAATTATTATTAT
64 ATAATAACAAATGAA-ATATGTACAATATTAAAAT-AAAAAATAGATTAAATTATTATTAT
* * * * *
7674993 AGATGTTTATTTAAAGATAACATACAATAATTAATGAACTGTATGGTTTGAAGCTAATTAATCAT
1 AGATGTATATTTAAAAATAACATACAATAATTAATAAACTATATGGTTTGAAACTAATTAATCAT
* *
7675058 AATAATAAATGAAATATGTACAATATTAAAATAAAAAATATATTAAAT
66 AATAACAAATGAAATATGTACAATATTAAAATAAAAAATAGATTAAAT
7675106 AATGAATAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
122 18 0.18
123 50 0.50
124 32 0.32
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (122 bp):
AGATGTATATTTAAAAATAACATACAATAATTAATAAACTATATGGTTTGAAACTAATTAATCAT
AATAACAAATGAAATATGTACAATATTAAAATAAAAAATAGATTAAATTATTATTAT
Found at i:7676932 original size:19 final size:19
Alignment explanation
Indices: 7676881--7676932 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
7676871 AAAATATCTA
7676881 TTAATTATATTTTAATAAAT
1 TTAATTATA-TTTAATAAAT
** * *
7676901 GAAATAATTTTTAATAAAT
1 TTAATTATATTTAATAAAT
7676920 TTAATTATATTTA
1 TTAATTATATTTA
7676933 TAATTTTTTT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAATTATATTTAATAAAT
Found at i:7684595 original size:107 final size:107
Alignment explanation
Indices: 7684467--7684696 Score: 460
Period size: 107 Copynumber: 2.1 Consensus size: 107
7684457 ATAAGTATAT
7684467 TAATTTTTATAATATATACCATGGACACGTAAATAAGTTATGTTCTTACTTTTTGGCCATAACTT
1 TAATTTTTATAATATATACCATGGACACGTAAATAAGTTATGTTCTTACTTTTTGGCCATAACTT
7684532 TTTATAAATAAGTAAATTATAACAATTTTATAACACGTAAAC
66 TTTATAAATAAGTAAATTATAACAATTTTATAACACGTAAAC
7684574 TAATTTTTATAATATATACCATGGACACGTAAATAAGTTATGTTCTTACTTTTTGGCCATAACTT
1 TAATTTTTATAATATATACCATGGACACGTAAATAAGTTATGTTCTTACTTTTTGGCCATAACTT
7684639 TTTATAAATAAGTAAATTATAACAATTTTATAACACGTAAAC
66 TTTATAAATAAGTAAATTATAACAATTTTATAACACGTAAAC
7684681 TAATTTTTATAATATA
1 TAATTTTTATAATATA
7684697 CTTTTTGACA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 123 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (107 bp):
TAATTTTTATAATATATACCATGGACACGTAAATAAGTTATGTTCTTACTTTTTGGCCATAACTT
TTTATAAATAAGTAAATTATAACAATTTTATAACACGTAAAC
Found at i:7694322 original size:18 final size:18
Alignment explanation
Indices: 7694296--7694332 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7694286 GTGCATTTCC
*
7694296 TAACTCTTATATGTATCA
1 TAACCCTTATATGTATCA
7694314 TAACCCTTATATGTATCA
1 TAACCCTTATATGTATCA
7694332 T
1 T
7694333 TTTCCAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (18 bp):
TAACCCTTATATGTATCA
Found at i:7694800 original size:45 final size:45
Alignment explanation
Indices: 7694751--7694838 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
7694741 ATATTTTGAA
* * *
7694751 TATTTTGATATTATTTTATGTAATAAAATAGAAATTTTTTTGAGT
1 TATTTCGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
7694796 TATTTCGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTCGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
7694839 TGTAATAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.50
Consensus pattern (45 bp):
TATTTCGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:7694842 original size:70 final size:67
Alignment explanation
Indices: 7694761--7694888 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
7694751 TATTTTGATA
* *** *
7694761 TTATTTTATGTAATAAAATAGAAATTTTTTTGAGTTATTTCGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATA-AAA-AAATTT-AGTTATTTCGATATTATTTAATGTAATAAAATA
7694826 GAAGT
63 GAAGT
* *
7694831 TTATTTGATGTAATAAACTAAAAAAATTTAGTTATTTTGATATTATTTAATGTAATAA
1 TTATTTGATGTAATAAAATAAAAAAATTTAGTTATTTCGATATTATTTAATGTAATAA
7694889 CATGAGCTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
67 27 0.53
68 3 0.06
69 3 0.06
70 18 0.35
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.47
Consensus pattern (67 bp):
TTATTTGATGTAATAAAATAAAAAAATTTAGTTATTTCGATATTATTTAATGTAATAAAATAGAA
GT
Found at i:7697540 original size:125 final size:125
Alignment explanation
Indices: 7697294--7697714 Score: 585
Period size: 125 Copynumber: 3.4 Consensus size: 125
7697284 CAAACATGCT
*
7697294 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCTTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* *
7697359 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGACCA
* * * * * **
7697419 ACTGTAGCAAAAGCGCGTCCACGAGGGGGCAATTTCAGAAATGCTTCTCA-AATAGCATCCTACT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGGT
* * * * *
7697483 TGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATAATTT-TTTCAGGACCT
65 AGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGACCA
*
7697544 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* *
7697609 GAAGCGATTTTATACTATTTGCTCAGAAACGTAAAATCGAAATTATTTCTTTCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGACCA
* *** * * *
7697669 ACTCTAGCAAAATTACGTCCAGGAGGGTGCGATTTCACAAATTCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTT
7697715 TGCGTCCACG
Statistics
Matches: 254, Mismatches: 38, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
124 39 0.15
125 175 0.69
126 40 0.16
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGACCA
Found at i:7698337 original size:88 final size:85
Alignment explanation
Indices: 7698131--7698350 Score: 230
Period size: 87 Copynumber: 2.5 Consensus size: 85
7698121 TATTTTTTTG
* * * * * *
7698131 TTTTT-ACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAATGTCTTCAAACTATTTCAAA
1 TTTTTCACTCAATT-GGTACTTGAACTTT-AAAATGTATCAAAAAGGCCCTCAAAATATTTCAAA
* *
7698195 AAAAAGCAATTAAGCCCCTTTT
64 AAAAAGAAATTAAGCCCCTATT
* * * *
7698217 TTTTTCTCTCAATTAGGTAATTGAACTTTTAAAATGTATAAAAAAGGCCCTCAAAATTTTTCAAA
1 TTTTTCACTCAATT-GGTACTTGAAC-TTTAAAATGTATCAAAAAGGCCCTCAAAATATTTCAAA
7698282 AAAAA-AAATTAAGCCCCTACATT
64 AAAAAGAAATTAAGCCCCT--ATT
*
7698305 TTTTTCACTCAATTGCGTACTTGAACTGTT-AAATTTATCAAAAAGG
1 TTTTTCACTCAATTG-GTACTTGAACT-TTAAAATGTATCAAAAAGG
7698351 TCATTTGATC
Statistics
Matches: 111, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
86 17 0.15
87 65 0.59
88 29 0.26
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (85 bp):
TTTTTCACTCAATTGGTACTTGAACTTTAAAATGTATCAAAAAGGCCCTCAAAATATTTCAAAAA
AAAGAAATTAAGCCCCTATT
Found at i:7698997 original size:10 final size:11
Alignment explanation
Indices: 7698971--7699016 Score: 55
Period size: 9 Copynumber: 4.5 Consensus size: 11
7698961 ATATATTTTT
7698971 AATTTTTAATA
1 AATTTTTAATA
7698982 AATTTTTAAT-
1 AATTTTTAATA
*
7698992 -ATTTTTTATA
1 AATTTTTAATA
7699002 AA--TTTAATA
1 AATTTTTAATA
7699011 AATTTT
1 AATTTT
7699017 ATCATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
9 16 0.55
11 13 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:7699015 original size:20 final size:19
Alignment explanation
Indices: 7698971--7699016 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
7698961 ATATATTTTT
*
7698971 AATTTTTAATAAATTTTTA
1 AATTTTTAATAAATTTATA
*
7698990 ATATTTTTTATAAATTTAATA
1 A-ATTTTTAATAAATTT-ATA
7699011 AATTTT
1 AATTTT
7699017 ATCATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTTAATAAATTTATA
Found at i:7701330 original size:233 final size:233
Alignment explanation
Indices: 7700923--7701388 Score: 932
Period size: 233 Copynumber: 2.0 Consensus size: 233
7700913 GTAGAGAACA
7700923 AAAGCACCTCAAACCCTTTCGGGTGAGGCTCATTTGGTCAGGCACAAGCCTGGAGCACCTACACA
1 AAAGCACCTCAAACCCTTTCGGGTGAGGCTCATTTGGTCAGGCACAAGCCTGGAGCACCTACACA
7700988 CTTTTCCTGTAATGCAATAGTTATAAAAAAACAGCCTGCCTAACCTAACTTCTGTTTTATTTCAT
66 CTTTTCCTGTAATGCAATAGTTATAAAAAAACAGCCTGCCTAACCTAACTTCTGTTTTATTTCAT
7701053 CCATTTTTCACCTTTTTCTTAGATATACCTTTACTTTAAAGAAAGGGATAGTATCAAACTCTATA
131 CCATTTTTCACCTTTTTCTTAGATATACCTTTACTTTAAAGAAAGGGATAGTATCAAACTCTATA
7701118 CTTCTCAATATTCAAGGATTCAACCATAAGGAAGTCGT
196 CTTCTCAATATTCAAGGATTCAACCATAAGGAAGTCGT
7701156 AAAGCACCTCAAACCCTTTCGGGTGAGGCTCATTTGGTCAGGCACAAGCCTGGAGCACCTACACA
1 AAAGCACCTCAAACCCTTTCGGGTGAGGCTCATTTGGTCAGGCACAAGCCTGGAGCACCTACACA
7701221 CTTTTCCTGTAATGCAATAGTTATAAAAAAACAGCCTGCCTAACCTAACTTCTGTTTTATTTCAT
66 CTTTTCCTGTAATGCAATAGTTATAAAAAAACAGCCTGCCTAACCTAACTTCTGTTTTATTTCAT
7701286 CCATTTTTCACCTTTTTCTTAGATATACCTTTACTTTAAAGAAAGGGATAGTATCAAACTCTATA
131 CCATTTTTCACCTTTTTCTTAGATATACCTTTACTTTAAAGAAAGGGATAGTATCAAACTCTATA
7701351 CTTCTCAATATTCAAGGATTCAACCATAAGGAAGTCGT
196 CTTCTCAATATTCAAGGATTCAACCATAAGGAAGTCGT
7701389 GCATATTGAC
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 233 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (233 bp):
AAAGCACCTCAAACCCTTTCGGGTGAGGCTCATTTGGTCAGGCACAAGCCTGGAGCACCTACACA
CTTTTCCTGTAATGCAATAGTTATAAAAAAACAGCCTGCCTAACCTAACTTCTGTTTTATTTCAT
CCATTTTTCACCTTTTTCTTAGATATACCTTTACTTTAAAGAAAGGGATAGTATCAAACTCTATA
CTTCTCAATATTCAAGGATTCAACCATAAGGAAGTCGT
Found at i:7705951 original size:3 final size:3
Alignment explanation
Indices: 7705943--7705984 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7705933 CCATTTTTTC
7705943 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
7705985 ATTGCATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:7708464 original size:28 final size:28
Alignment explanation
Indices: 7708410--7708465 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
7708400 TGAAAATGTG
* *
7708410 TGAAAATGGAAGCCTTTATGGTAATCTA
1 TGAAAATGGAAGCATTTATGGCAATCTA
* * *
7708438 TGAAAATGGAGGCATTTTTGGCGATCTA
1 TGAAAATGGAAGCATTTATGGCAATCTA
7708466 AGGAAAAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
TGAAAATGGAAGCATTTATGGCAATCTA
Found at i:7728087 original size:16 final size:16
Alignment explanation
Indices: 7728066--7728099 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7728056 AATTGTATTA
7728066 AATTATTGAAGTGATT
1 AATTATTGAAGTGATT
7728082 AATTATTGAAGTGATT
1 AATTATTGAAGTGATT
7728098 AA
1 AA
7728100 AGTTATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
AATTATTGAAGTGATT
Found at i:7728907 original size:55 final size:55
Alignment explanation
Indices: 7728823--7728936 Score: 228
Period size: 55 Copynumber: 2.1 Consensus size: 55
7728813 TGTTTCTCTC
7728823 TAAATAAGAACTATGAGTTAACATATTAGCTAACCTTTCTAGCACCGATATTCTA
1 TAAATAAGAACTATGAGTTAACATATTAGCTAACCTTTCTAGCACCGATATTCTA
7728878 TAAATAAGAACTATGAGTTAACATATTAGCTAACCTTTCTAGCACCGATATTCTA
1 TAAATAAGAACTATGAGTTAACATATTAGCTAACCTTTCTAGCACCGATATTCTA
7728933 TAAA
1 TAAA
7728937 AAGTGAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (55 bp):
TAAATAAGAACTATGAGTTAACATATTAGCTAACCTTTCTAGCACCGATATTCTA
Found at i:7737307 original size:93 final size:93
Alignment explanation
Indices: 7737141--7737422 Score: 449
Period size: 93 Copynumber: 3.0 Consensus size: 93
7737131 ATTTTGGTAT
* *
7737141 CACTAAGACTTATGACATCTTACATGAGCAATTTTTTTTACCTAACATGTATAAATTAGTACAAG
1 CACTAAGACTTATGACATCTTACATGAGCAA--TTTTTTACCTAACATGCATAAATTAGTACGAG
7737206 AAAATTTGCTCTACTTGTATTCCTTGTAAA
64 AAAATTTGCTCTACTTGTATTCCTTGTAAA
*
7737236 CACTAAGACTTATGACATCTTACATGAGCAATTTTTTACCTAACATGCACAAATTAGTACGAGAA
1 CACTAAGACTTATGACATCTTACATGAGCAATTTTTTACCTAACATGCATAAATTAGTACGAGAA
7737301 AATTTGCTCTACTTGTATTCCTTGTAAA
66 AATTTGCTCTACTTGTATTCCTTGTAAA
* * *
7737329 CACTAAGGCTTATGACATCTTACATGAGCAATTTTTTACCTAACATGCTTAAATTAGTA-GAGCA
1 CACTAAGACTTATGACATCTTACATGAGCAATTTTTTACCTAACATGCATAAATTAGTACGAGAA
* * * *
7737393 AATTTGCTGTGCTTGTATTTCATGTAAA
66 AATTTGCTCTACTTGTATTCCTTGTAAA
7737421 CA
1 CA
7737423 GGATAAGTCC
Statistics
Matches: 176, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
92 30 0.17
93 115 0.65
95 31 0.18
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (93 bp):
CACTAAGACTTATGACATCTTACATGAGCAATTTTTTACCTAACATGCATAAATTAGTACGAGAA
AATTTGCTCTACTTGTATTCCTTGTAAA
Found at i:7738335 original size:73 final size:73
Alignment explanation
Indices: 7738257--7738403 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
7738247 ATTTAAATTC
* *
7738257 ATTTTTTACTTATTAGCATAAAACAAATAATTACAAAATCGTTAAGGTTCTAAGCCTTTATGTAC
1 ATTTTTTACTTATTAGCATAAAACAAATAATTACAAAATCCTCAAGGTTCTAAGCCTTTATGTAC
7738322 ATGCCATT
66 ATGCCATT
*
7738330 ATTTTTTACTTATTAGCATAAAACAAATAATTACAAAATCCTCAAGGTTCTAAGTCTTTATGTAC
1 ATTTTTTACTTATTAGCATAAAACAAATAATTACAAAATCCTCAAGGTTCTAAGCCTTTATGTAC
7738395 ATGCCATT
66 ATGCCATT
7738403 A
1 A
7738404 CTAACATATT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (73 bp):
ATTTTTTACTTATTAGCATAAAACAAATAATTACAAAATCCTCAAGGTTCTAAGCCTTTATGTAC
ATGCCATT
Found at i:7742535 original size:11 final size:12
Alignment explanation
Indices: 7742509--7742539 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
7742499 TCTGAGGTTA
7742509 TATTTGAATCTG
1 TATTTGAATCTG
7742521 TATTTGAAT-TG
1 TATTTGAATCTG
7742532 TATTTGAA
1 TATTTGAA
7742540 AACATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (12 bp):
TATTTGAATCTG
Found at i:7747287 original size:14 final size:14
Alignment explanation
Indices: 7747268--7747294 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7747258 GTGGGAGGTG
7747268 CTACTAGAGCACTA
1 CTACTAGAGCACTA
7747282 CTACTAGAGCACT
1 CTACTAGAGCACT
7747295 TTCAAACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (14 bp):
CTACTAGAGCACTA
Found at i:7747576 original size:13 final size:14
Alignment explanation
Indices: 7747558--7747599 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
7747548 ATTGAGTCCG
7747558 TTAATA-TTATTAA
1 TTAATATTTATTAA
*
7747571 TTAATATTTATTAT
1 TTAATATTTATTAA
7747585 TTAATTATGTTATTA
1 TTAA-TAT-TTATTA
7747600 TATTGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 10 0.40
15 3 0.12
16 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TTAATATTTATTAA
Found at i:7756114 original size:5 final size:5
Alignment explanation
Indices: 7756100--7756144 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
7756090 AAATGCTCAT
7756100 AAAA- AAAAG AAAAG -AAA- AAAAG AAAAG AAAAG AAAA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
7756145 AGAAGAGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
4 14 0.38
5 23 0.62
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7756127 original size:18 final size:19
Alignment explanation
Indices: 7756100--7756144 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
7756090 AAATGCTCAT
7756100 AAAA-AAAAGAAAAG-AAA
1 AAAAGAAAAGAAAAGAAAA
7756117 AAAAGAAAAGAAAAGAAAA
1 AAAAGAAAAGAAAAGAAAA
7756136 AAAAGAAAA
1 AAAAGAAAA
7756145 AGAAGAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 4 0.15
18 10 0.38
19 12 0.46
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGAAAAGAAAA
Found at i:7756150 original size:18 final size:19
Alignment explanation
Indices: 7756103--7756153 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
7756093 TGCTCATAAA
*
7756103 AAAAAGAAAAGAAAAAAAG
1 AAAAAGAAGAGAAAAAAAG
*
7756122 -AAAAGAAAAGAAAAAAAAG
1 AAAAAGAAGAG-AAAAAAAG
7756141 AAAAAGAAGAGAA
1 AAAAAGAAGAGAA
7756154 GAGCATACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.34
19 10 0.34
20 9 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAGAAGAGAAAAAAAG
Found at i:7756892 original size:10 final size:10
Alignment explanation
Indices: 7756843--7756894 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
7756833 ATTAACATGT
*
7756843 TTAATTTTAA
1 TTAATTTTGA
7756853 TTAATTTT-A
1 TTAATTTTGA
7756862 TAATAAATTTTGA
1 T--T-AATTTTGA
7756875 TTAATTTTGA
1 TTAATTTTGA
*
7756885 TTATTTTTGA
1 TTAATTTTGA
7756895 CAGATTTGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.05
10 25 0.68
11 2 0.05
12 6 0.16
13 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
TTAATTTTGA
Found at i:7758024 original size:13 final size:13
Alignment explanation
Indices: 7758006--7758058 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
7757996 AATTTGGCAA
7758006 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
7758019 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*** *
7758032 TGAGGTGGAAAAG
1 TGCTTTTGAAAAG
7758045 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
7758058 T
1 T
7758059 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:7761158 original size:17 final size:17
Alignment explanation
Indices: 7761136--7761170 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7761126 GGATGGCTAA
*
7761136 TAATTTTTTATTGTTAT
1 TAATTTGTTATTGTTAT
*
7761153 TAATTTGTTATTTTTAT
1 TAATTTGTTATTGTTAT
7761170 T
1 T
7761171 TTAGTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TAATTTGTTATTGTTAT
Found at i:7762715 original size:14 final size:14
Alignment explanation
Indices: 7762692--7762723 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7762682 TTTGGGATCA
7762692 TTTTAGTTTTGGAT
1 TTTTAGTTTTGGAT
*
7762706 TTTTATTTTTGGAT
1 TTTTAGTTTTGGAT
7762720 TTTT
1 TTTT
7762724 GGCATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (14 bp):
TTTTAGTTTTGGAT
Found at i:7769657 original size:6 final size:6
Alignment explanation
Indices: 7769646--7769684 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
7769636 CAAGTCTAAG
7769646 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
7769685 CAAATGGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:7771353 original size:32 final size:31
Alignment explanation
Indices: 7771317--7771377 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
7771307 TAGTAAAACT
*
7771317 AATAAA-AATAAAATAATATTAATAAAGAAATA
1 AATAAAGAA-AAAATAATAATAAT-AAGAAATA
*
7771349 AATAAAGAAATAATAATAATAATAAGAAA
1 AATAAAGAAAAAATAATAATAATAAGAAA
7771378 AAGAAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 6 0.23
32 18 0.69
33 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (31 bp):
AATAAAGAAAAAATAATAATAATAAGAAATA
Found at i:7771354 original size:12 final size:12
Alignment explanation
Indices: 7771337--7771361 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7771327 AAATAATATT
7771337 AATAAAGAAATA
1 AATAAAGAAATA
7771349 AATAAAGAAATA
1 AATAAAGAAATA
7771361 A
1 A
7771362 TAATAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AATAAAGAAATA
Found at i:7771598 original size:141 final size:142
Alignment explanation
Indices: 7771344--7771626 Score: 559
Period size: 141 Copynumber: 2.0 Consensus size: 142
7771334 ATTAATAAAG
7771344 AAATAAATAAAGAAATAATAATAATAATAAGAAAAAGAAATAGAAAAAGAACAAGGGGAGAAAAA
1 AAATAAATAAAGAAATAATAATAATAATAAGAAAAAGAAATAGAAAAAGAACAAGGGGAGAAAAA
7771409 AGAGGACCGATGGTAGCGGTGGTGGGGGTGGGGGCGCGACGGGCAACAAGTGTGGGTGGGTCGGT
66 AGAGGACCGATGGTAGCGGTGGTGGGGGTGGGGGCGCGACGGGCAACAAGTGTGGGTGGGTCGGT
7771474 TGTGGGGTTGGT
131 TGTGGGGTTGGT
7771486 AAATAAAT-AAGAAATAATAATAATAATAAGAAAAAGAAATAGAAAAAGAACAAGGGGAGAAAAA
1 AAATAAATAAAGAAATAATAATAATAATAAGAAAAAGAAATAGAAAAAGAACAAGGGGAGAAAAA
7771550 AGAGGACCGATGGTAGCGGTGGTGGGGGTGGGGGCGCGACGGGCAACAAGTGTGGGTGGGTCGGT
66 AGAGGACCGATGGTAGCGGTGGTGGGGGTGGGGGCGCGACGGGCAACAAGTGTGGGTGGGTCGGT
7771615 TGTGGGGTTGGT
131 TGTGGGGTTGGT
7771627 CTGACGGCTT
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 133 0.94
142 8 0.06
ACGTcount: A:0.39, C:0.07, G:0.37, T:0.16
Consensus pattern (142 bp):
AAATAAATAAAGAAATAATAATAATAATAAGAAAAAGAAATAGAAAAAGAACAAGGGGAGAAAAA
AGAGGACCGATGGTAGCGGTGGTGGGGGTGGGGGCGCGACGGGCAACAAGTGTGGGTGGGTCGGT
TGTGGGGTTGGT
Found at i:7776136 original size:21 final size:21
Alignment explanation
Indices: 7776083--7776141 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
7776073 TCAGTATACA
* *
7776083 ACATATAAGTGCCTGAAATGAC
1 ACATA-AAGTGCCTGATACGAC
** *
7776105 ACACGAGGTGCCTGATACGAC
1 ACATAAAGTGCCTGATACGAC
7776126 ACATAAAGTGCCTGAT
1 ACATAAAGTGCCTGAT
7776142 CGGCAAAGCC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (21 bp):
ACATAAAGTGCCTGATACGAC
Found at i:7776885 original size:5 final size:5
Alignment explanation
Indices: 7776877--7776926 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
7776867 TATTTAATTT
* *
7776877 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATATA
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
7776927 TAAAACATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 28 0.76
7 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:7776906 original size:27 final size:25
Alignment explanation
Indices: 7776875--7776927 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
7776865 TCTATTTAAT
7776875 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
7776902 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
7776927 T
1 T
7776928 AAAACATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:7779815 original size:3 final size:3
Alignment explanation
Indices: 7779807--7779859 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
7779797 GGATGGTTGG
7779807 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7779855 TTA TT
1 TTA TT
7779860 GGGAATGAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7780242 original size:3 final size:3
Alignment explanation
Indices: 7780234--7780270 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
7780224 TCGACTCATG
*
7780234 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7780271 TTAGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:7788003 original size:20 final size:20
Alignment explanation
Indices: 7787978--7788020 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
7787968 CAGTGCATAG
7787978 CACGACTTAGCCAACCATCA
1 CACGACTTAGCCAACCATCA
7787998 CACGACTTAGCCAACCATCA
1 CACGACTTAGCCAACCATCA
7788018 CAC
1 CAC
7788021 CAAATATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.42, G:0.09, T:0.14
Consensus pattern (20 bp):
CACGACTTAGCCAACCATCA
Found at i:7789521 original size:12 final size:13
Alignment explanation
Indices: 7789493--7789546 Score: 60
Period size: 12 Copynumber: 4.3 Consensus size: 13
7789483 ATCTTGTTGA
*
7789493 ATAATAATTAATA
1 ATAATAATTAATG
7789506 ATAATAA-TAATG
1 ATAATAATTAATG
*
7789518 ATAATGA-TAATG
1 ATAATAATTAATG
7789530 ATAA-AACTTAATG
1 ATAATAA-TTAATG
7789543 ATAA
1 ATAA
7789547 AAAATACACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 1 0.03
12 19 0.53
13 16 0.44
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (13 bp):
ATAATAATTAATG
Found at i:7794263 original size:30 final size:30
Alignment explanation
Indices: 7794214--7794286 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
7794204 TACAATAGAT
7794214 AATCTAAA-TGAGCCTATAATCCTGTAAAAG
1 AATC-AAAGTGAGCCTATAATCCTGTAAAAG
* *
7794244 AATCAAAGTGAGTCTATAATCTTGTAAAAG
1 AATCAAAGTGAGCCTATAATCCTGTAAAAG
*
7794274 AGTCAAAGTGAGC
1 AATCAAAGTGAGC
7794287 ATTTTATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 3 0.08
30 35 0.92
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (30 bp):
AATCAAAGTGAGCCTATAATCCTGTAAAAG
Found at i:7801380 original size:45 final size:45
Alignment explanation
Indices: 7801330--7801458 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 45
7801320 TGTACTTTCA
* * *
7801330 CATGATTTCATAGCATTTTTCAGCCATGGTCTTACTCAT-TTCTAT
1 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCATATT-TAT
* * *
7801375 CATGATGTCATAGAATCTTTCAACTAAGGTCTTACTCATATTTAT
1 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCATATTTAT
* *
7801420 CATGATGTCGTAGCATCTTTCAGTTATGGTCTTACTCAT
1 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCAT
7801459 CTTAGCATAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 70 0.97
46 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (45 bp):
CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTCATATTTAT
Found at i:7806972 original size:23 final size:24
Alignment explanation
Indices: 7806928--7806972 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
7806918 TATATGGGAT
*
7806928 AATAGGGAAATCAAAATCACATCA
1 AATAGGGAAATCAAAATAACATCA
* *
7806952 AATA-GGAACTCATAATAACAT
1 AATAGGGAAATCAAAATAACAT
7806973 TAAACATGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.20
Consensus pattern (24 bp):
AATAGGGAAATCAAAATAACATCA
Found at i:7811276 original size:2 final size:2
Alignment explanation
Indices: 7811269--7811293 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7811259 GGTAGCCGAA
7811269 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
7811294 AAGGGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7812831 original size:55 final size:56
Alignment explanation
Indices: 7812710--7812834 Score: 175
Period size: 55 Copynumber: 2.3 Consensus size: 56
7812700 TTTTACACTA
*
7812710 GGGGAAAGCAAAAGGAAAAAAATTTGGGGGGGTTTGAGGGAAGTAAAAGTTATTTT
1 GGGGAAAGTAAAAGGAAAAAAATTTGGGGGGGTTTGAGGGAAGTAAAAGTTATTTT
** * *
7812766 GGGG-GGGTAAAAGGAAAAAAGTTT-GGGGGGTTTGAGGAGAAGTAAAA-TTTTTTT
1 GGGGAAAGTAAAAGGAAAAAAATTTGGGGGGGTTTGAGG-GAAGTAAAAGTTATTTT
7812820 GGGGAAAGTAAAAGG
1 GGGGAAAGTAAAAGG
7812835 GTTTGAGGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
54 23 0.38
55 33 0.55
56 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.38, T:0.23
Consensus pattern (56 bp):
GGGGAAAGTAAAAGGAAAAAAATTTGGGGGGGTTTGAGGGAAGTAAAAGTTATTTT
Found at i:7826730 original size:19 final size:19
Alignment explanation
Indices: 7826706--7826759 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
7826696 AATCATATCT
7826706 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
7826725 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
*
7826744 TCTAAGATTGCATATC
1 TCTAAGATTGTATATC
7826760 CCTGGAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:7829618 original size:2 final size:2
Alignment explanation
Indices: 7829611--7829643 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7829601 GTTTTACACT
7829611 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7829644 TACTTCAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7833294 original size:12 final size:12
Alignment explanation
Indices: 7833277--7833303 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7833267 ACCTAAGCGA
7833277 TTTTTTTATTTT
1 TTTTTTTATTTT
7833289 TTTTTTTATTTT
1 TTTTTTTATTTT
7833301 TTT
1 TTT
7833304 CTTTCACTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:7833744 original size:17 final size:18
Alignment explanation
Indices: 7833713--7833746 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7833703 TATTATATTT
*
7833713 ATCTATATATGCATATGC
1 ATCTATATATACATATGC
7833731 ATCT-TATATACATATG
1 ATCTATATATACATATG
7833747 TTACATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (18 bp):
ATCTATATATACATATGC
Found at i:7835283 original size:16 final size:16
Alignment explanation
Indices: 7835262--7835292 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7835252 ACAATGACCC
*
7835262 AATACCTAAACAACCT
1 AATACCCAAACAACCT
7835278 AATACCCAAACAACC
1 AATACCCAAACAACC
7835293 CAACTAAACC
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:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (16 bp):
AATACCCAAACAACCT
Found at i:7835304 original size:10 final size:10
Alignment explanation
Indices: 7835289--7835313 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7835279 ATACCCAAAC
7835289 AACCCAACTA
1 AACCCAACTA
7835299 AACCCAACTA
1 AACCCAACTA
7835309 AACCC
1 AACCC
7835314 TAGCCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.44, G:0.00, T:0.08
Consensus pattern (10 bp):
AACCCAACTA
Found at i:7835636 original size:6 final size:6
Alignment explanation
Indices: 7835625--7835671 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
7835615 AAGGTAGTTG
*
7835625 TTTTAT TTTTAT TTATT-T TTTTCGT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TT-TTAT TTTT-AT TTTTAT TTTTAT TTTTAT TTTT
7835672 TTAAAGCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
5 2 0.05
6 28 0.76
7 7 0.19
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:7836433 original size:25 final size:25
Alignment explanation
Indices: 7836386--7836470 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
7836376 AACTATTTAC
7836386 TTATTTATTTTAAA--CTT-TA-TA
1 TTATTTATTTTAAATTCTTCTATTA
*
7836407 TTATTTATTTTAAATTGTTCTATTA
1 TTATTTATTTTAAATTCTTCTATTA
* *
7836432 TTATTTATTTTAAGTTTTTC-ATATA
1 TTATTTATTTTAAATTCTTCTAT-TA
**
7836457 TTATCCATTTTAAA
1 TTATTTATTTTAAA
7836471 CTATTAAATG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.26
23 2 0.04
24 4 0.08
25 33 0.62
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (25 bp):
TTATTTATTTTAAATTCTTCTATTA
Found at i:7836838 original size:16 final size:17
Alignment explanation
Indices: 7836819--7836851 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7836809 TGTGCGGTCC
7836819 CTATTTT-CATTTTATT
1 CTATTTTACATTTTATT
*
7836835 CTATTTTACGTTTTATT
1 CTATTTTACATTTTATT
7836852 GTTACAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.67
Consensus pattern (17 bp):
CTATTTTACATTTTATT
Found at i:7840328 original size:115 final size:113
Alignment explanation
Indices: 7840062--7840329 Score: 268
Period size: 115 Copynumber: 2.3 Consensus size: 113
7840052 TTCGGCCTCG
* * * * * *
7840062 ATGTATAGTAGAATTAGTGGGGCTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGCTTGGA
1 ATGTATACTAAAATTAGTGGCGCTTTGTGAAACGCCGCTAAAGCATAGTATTAGCGGCGATTGGA
* * * *
7840127 TAAAAGCGCCACCAAATATCTGAACCAAAACGCATCGTTTTGGTCTTG
66 TAAAAGCGCCACCAAATACCTGAAACAAAACGCAACGTTTTGGTCTTA
** * * * *
7840175 ATGTATACTTGATTTAGTGGCGATTTCGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTT
1 ATGTATACTAAAATTAGTGGCGCTTT--GTGAAACGCCGCTAAAGCATAGTATTAGCGGCGATTG
* *** * * *
7840240 GTTGCTAGCGCCGCGACATACCAT-AAACAAAACGCAACGTTTTGGTCTTA
64 GATAAAAGCGCCACCAAATACC-TGAAACAAAACGCAACGTTTTGGTCTTA
*
7840290 ATTTATACTAAAATTAGTGGCGCTTTGTTGAAAGCGCCGC
1 ATGTATACTAAAATTAGTGGCGCTTTG-TGAAA-CGCCGC
7840330 AAAATATCTT
Statistics
Matches: 123, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
113 21 0.17
114 4 0.03
115 97 0.79
116 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (113 bp):
ATGTATACTAAAATTAGTGGCGCTTTGTGAAACGCCGCTAAAGCATAGTATTAGCGGCGATTGGA
TAAAAGCGCCACCAAATACCTGAAACAAAACGCAACGTTTTGGTCTTA
Found at i:7840520 original size:8 final size:7
Alignment explanation
Indices: 7840479--7840605 Score: 57
Period size: 7 Copynumber: 18.0 Consensus size: 7
7840469 AAAGTTTAAA
7840479 GTTTAGG
1 GTTTAGG
*
7840486 GTTTACG
1 GTTTAGG
* *
7840493 ATGTA-G
1 GTTTAGG
7840499 GTTTAGG
1 GTTTAGG
7840506 G-TTAGG
1 GTTTAGG
7840512 GTATTAGG
1 GT-TTAGG
7840520 GTGTTA--
1 GT-TTAGG
*
7840526 ATTTAGG
1 GTTTAGG
7840533 G-TTAGG
1 GTTTAGG
7840539 GTATTAGGG
1 GT-TTA-GG
*
7840548 TGTTTTGG
1 -GTTTAGG
*
7840556 GTTTAAG
1 GTTTAGG
7840563 GTTTAGG
1 GTTTAGG
* *
7840570 AGTCTGGG
1 -GTTTAGG
* *
7840578 GTATAAG
1 GTTTAGG
*
7840585 GTTTAAG
1 GTTTAGG
*
7840592 GTTTGGG
1 GTTTAGG
7840599 GTTTAGG
1 GTTTAGG
7840606 CTACTTTACT
Statistics
Matches: 89, Mismatches: 21, Indels: 20
0.68 0.16 0.15
Matches are distributed among these distances:
5 3 0.03
6 17 0.19
7 43 0.48
8 20 0.22
9 4 0.04
10 2 0.02
ACGTcount: A:0.19, C:0.02, G:0.39, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:7840533 original size:27 final size:27
Alignment explanation
Indices: 7840500--7840551 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
7840490 ACGATGTAGG
7840500 TTTAGGGTTAGGGTATTAGGGTGTTAA
1 TTTAGGGTTAGGGTATTAGGGTGTTAA
7840527 TTTAGGGTTAGGGTATTAGGGTGTT
1 TTTAGGGTTAGGGTATTAGGGTGTT
7840552 TTGGGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (27 bp):
TTTAGGGTTAGGGTATTAGGGTGTTAA
Found at i:7840676 original size:7 final size:7
Alignment explanation
Indices: 7840666--7840742 Score: 55
Period size: 7 Copynumber: 10.3 Consensus size: 7
7840656 GGTTGTTGGT
7840666 TTTAGGG
1 TTTAGGG
7840673 TTTAGGG
1 TTTAGGG
7840680 TTTAGGG
1 TTTAGGG
* *
7840687 TTTAACGA
1 TTT-AGGG
*
7840695 TTTAGTAGC
1 TTTAG--GG
* **
7840704 TTAAGAT
1 TTTAGGG
7840711 TTTAGGG
1 TTTAGGG
7840718 TTTAGAGG
1 TTTAG-GG
7840726 TTTAGAGG
1 TTTAG-GG
7840734 TTTAGGG
1 TTTAGGG
7840741 TT
1 TT
7840743 AAATCCCAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
7 31 0.55
8 20 0.36
9 5 0.09
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:7840681 original size:15 final size:15
Alignment explanation
Indices: 7840663--7840742 Score: 56
Period size: 16 Copynumber: 5.3 Consensus size: 15
7840653 TCTGGTTGTT
7840663 GGTTTTAGGGTTTAG
1 GGTTTTAGGGTTTAG
*
7840678 GG-TTTAGGGTTTAA
1 GGTTTTAGGGTTTAG
* * * * *
7840692 CGATTTAGTAGCTTAA
1 GGTTTTAG-GGTTTAG
*
7840708 GATTTTAGGGTTTAG
1 GGTTTTAGGGTTTAG
7840723 AGG-TTTAGAGGTTTAG
1 -GGTTTTAG-GGTTTAG
7840739 GGTT
1 GGTT
7840743 AAATCCCAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
14 12 0.24
15 18 0.37
16 19 0.39
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.42
Consensus pattern (15 bp):
GGTTTTAGGGTTTAG
Found at i:7841760 original size:22 final size:22
Alignment explanation
Indices: 7841732--7841778 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
7841722 ACTATTCCGA
* *
7841732 TTAAATATGTAAGGTGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
7841754 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
7841776 TTA
1 TTA
7841779 TTACAGCCAN
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:7857522 original size:42 final size:42
Alignment explanation
Indices: 7857473--7857828 Score: 411
Period size: 42 Copynumber: 8.4 Consensus size: 42
7857463 GCGTTTGTGA
7857473 AATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTT
* * * * *
7857515 AATAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCACTTTCTTC
1 AATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGC-GTTT-TTT
* *
7857559 CA-AAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
*
7857600 CCA-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 -AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
** *
7857642 CCTAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
*
7857684 TATAAGCGCCGCTAAAGAACATGATCTTTAAG-GGCGTTTCTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTT-AGCGGCGTTT-TTT
* *
7857727 -CTAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
**
7857768 TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT
* *
7857811 ATGTAAGCGCCGCAAAAG
1 A-ATAAGCGCCGCTAAAG
7857829 TTAGTGACGT
Statistics
Matches: 279, Mismatches: 23, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
41 9 0.03
42 212 0.76
43 40 0.14
44 18 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
Found at i:7865959 original size:19 final size:19
Alignment explanation
Indices: 7865937--7865990 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
7865927 TAAACATGAT
7865937 TAAAAATCATAAAAAATAA
1 TAAAAATCATAAAAAATAA
* * * *
7865956 TAAAAATGATATAAACTTA
1 TAAAAATCATAAAAAATAA
* *
7865975 TTAAAATTATAAAAAA
1 TAAAAATCATAAAAAA
7865991 ATATAAATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAATCATAAAAAATAA
Found at i:7866070 original size:46 final size:45
Alignment explanation
Indices: 7865964--7866129 Score: 112
Period size: 46 Copynumber: 3.6 Consensus size: 45
7865954 AATAAAAATG
* *
7865964 ATAT-AAACTTATTA-AAATTATAAAAAAATATAAATATTGTAATA
1 ATATAAAAATTATTATAAATTATAAAATAATA-AAATATTGTAATA
*
7866008 ATATAAAAATTCTTATAAATTATAAAATTAATAAAAGTTATT-TAA-A
1 ATATAAAAATTATTATAAATTATAAAA-TAATAAAA--TATTGTAATA
* * * *
7866054 ATA-AAAAATGTATTAT-AATTCTTAAAAATAATAAAAAATTATAAAA
1 ATATAAAAAT-TATTATAAATT-AT-AAAATAATAAAATATTGTAATA
*
7866100 ATACATTAAAATTGA-TATAAACTTATAAAA
1 AT--ATAAAAATT-ATTATAAA-TTATAAAA
7866130 AATTGAACTG
Statistics
Matches: 98, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
44 7 0.07
45 21 0.21
46 35 0.36
47 11 0.11
48 13 0.13
49 9 0.09
50 2 0.02
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (45 bp):
ATATAAAAATTATTATAAATTATAAAATAATAAAATATTGTAATA
Found at i:7866098 original size:19 final size:20
Alignment explanation
Indices: 7866076--7866135 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
7866066 TTATAATTCT
7866076 TAAAAATAATAAAAAATT-A
1 TAAAAATAATAAAAAATTGA
*
7866095 TAAAAATACAT-TAAAATTGA
1 TAAAAATA-ATAAAAAATTGA
* *
7866115 TATAAACTTATAAAAAATTGA
1 TA-AAAATAATAAAAAATTGA
7866136 ACTGGACTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 14 0.42
20 7 0.21
21 12 0.36
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (20 bp):
TAAAAATAATAAAAAATTGA
Found at i:7866109 original size:30 final size:29
Alignment explanation
Indices: 7866053--7866130 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
7866043 AGTTATTTAA
* * *
7866053 AATAAAAAATGTATTATAATTCTTAAAAAT
1 AATAAAAAAT-TATAAAAATACTTAAAAAT
*
7866083 AATAAAAAATTATAAAAATACATTAAAATT
1 AATAAAAAATTATAAAAATAC-TTAAAAAT
* * *
7866113 GATATAAACTTATAAAAA
1 AATAAAAAATTATAAAAA
7866131 ATTGAACTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.20
30 32 0.80
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (29 bp):
AATAAAAAATTATAAAAATACTTAAAAAT
Found at i:7866535 original size:10 final size:10
Alignment explanation
Indices: 7866522--7866681 Score: 83
Period size: 10 Copynumber: 16.7 Consensus size: 10
7866512 GTTTTTATCT
7866522 ATTTTTAATA
1 ATTTTTAATA
7866532 ATTTTT-ATA
1 ATTTTTAATA
* * *
7866541 AGTTTAAATC
1 ATTTTTAATA
*
7866551 ACTTTTAATA
1 ATTTTTAATA
*
7866561 CTTTTT-ATA
1 ATTTTTAATA
* * *
7866570 TTTTTTCATG
1 ATTTTTAATA
*
7866580 ATTTTTATTGA
1 ATTTTTAAT-A
7866591 A-TTTTAATA
1 ATTTTTAATA
7866600 CATTTTT-A-A
1 -ATTTTTAATA
*
7866609 ATTTTAAAT-
1 ATTTTTAATA
*
7866618 ATGTTTTATTA
1 AT-TTTTAATA
7866629 A-TTTT-ATA
1 ATTTTTAATA
*
7866637 ATTTATT-A-G
1 ATTT-TTAATA
7866646 ATTTTT-ATA
1 ATTTTTAATA
7866655 ATTTTT-ATA
1 ATTTTTAATA
7866664 ACTTTTTAATA
1 A-TTTTTAATA
7866675 ATTTTTA
1 ATTTTTA
7866682 TAAGTTCATA
Statistics
Matches: 115, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
8 11 0.10
9 40 0.35
10 54 0.47
11 10 0.09
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:7866604 original size:21 final size:19
Alignment explanation
Indices: 7866580--7866634 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
7866570 TTTTTTCATG
7866580 ATTTTTATTGAATTTTAATAC
1 ATTTTTATT-AATTTTAA-AC
*
7866601 ATTTTTA--AATTTTAAAT
1 ATTTTTATTAATTTTAAAC
7866618 ATGTTTTATTAATTTTA
1 AT-TTTTATTAATTTTA
7866635 TAATTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.10
18 13 0.43
20 7 0.23
21 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTTATTAATTTTAAAC
Found at i:7866613 original size:18 final size:18
Alignment explanation
Indices: 7866553--7866684 Score: 92
Period size: 20 Copynumber: 7.0 Consensus size: 18
7866543 TTTAAATCAC
* *
7866553 TTTTAATACTTTTTATATT
1 TTTTAATAATTTTTATA-A
* *
7866572 TTTTCATGATTTTTATTGAA
1 TTTTAATAATTTTTA-T-AA
7866592 TTTTAATACATTTTTA-AA
1 TTTTAATA-ATTTTTATAA
7866610 TTTTAA-ATATGTTTTATTAA
1 TTTTAATA-AT-TTTTA-TAA
*
7866630 TTTT-ATAATTTATTA-GA
1 TTTTAATAATTT-TTATAA
*
7866647 TTTTTATAATTTTTATAA
1 TTTTAATAATTTTTATAA
7866665 CTTTTTAATAATTTTTATAA
1 --TTTTAATAATTTTTATAA
7866685 GTTCATATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
17 11 0.12
18 23 0.25
19 18 0.20
20 31 0.34
21 8 0.09
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAATAATTTTTATAA
Found at i:7866670 original size:20 final size:20
Alignment explanation
Indices: 7866553--7866684 Score: 72
Period size: 19 Copynumber: 6.9 Consensus size: 20
7866543 TTTAAATCAC
* *
7866553 TTTTAATACTTTTTAT-ATT
1 TTTTAATAATTTTTATAACT
* *
7866572 TTTTCATGATTTTTATTGAA--
1 TTTTAATAATTTTTA-T-AACT
7866592 TTTTAATACATTTTTA-AA-T
1 TTTTAATA-ATTTTTATAACT
*
7866611 TTTAAAT-ATGTTTTATTAA--
1 TTTTAATAAT-TTTTA-TAACT
*
7866630 TTTT-ATAATTTATTA-GA-T
1 TTTTAATAATTT-TTATAACT
7866648 TTTT-ATAATTTTTATAACT
1 TTTTAATAATTTTTATAACT
7866667 TTTTAATAATTTTTATAA
1 TTTTAATAATTTTTATAA
7866685 GTTCATATCA
Statistics
Matches: 90, Mismatches: 9, Indels: 27
0.71 0.07 0.21
Matches are distributed among these distances:
17 6 0.07
18 23 0.26
19 31 0.34
20 22 0.24
21 7 0.08
22 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTAATAATTTTTATAACT
Found at i:7866682 original size:29 final size:28
Alignment explanation
Indices: 7866513--7866684 Score: 120
Period size: 29 Copynumber: 6.0 Consensus size: 28
7866503 CCTGTTTAAG
*
7866513 TTTTTATCTATTTTTAATAATTTTTATAA
1 TTTTTAT-AATTTTTAATAATTTTTATAA
** * * * *
7866542 GTTTAAATCACTTTTAATACTTTTTATAT
1 -TTTTTATAATTTTTAATAATTTTTATAA
* * *
7866571 TTTTTCATGATTTTTATTGAATTTTAATACA
1 TTTTT-ATAATTTTTAAT-AATTTTTATA-A
*
7866602 TTTTTA-AATTTTAAAT-ATGTTTTATTAA
1 TTTTTATAATTTTTAATAAT-TTTTA-TAA
*
7866630 -TTTTATAATTTATT-A-GATTTTTATAA
1 TTTTTATAATTT-TTAATAATTTTTATAA
7866656 TTTTTATAACTTTTTAATAATTTTTATAA
1 TTTTTATAA-TTTTTAATAATTTTTATAA
7866685 GTTCATATCA
Statistics
Matches: 110, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
26 3 0.03
27 22 0.20
28 20 0.18
29 46 0.42
30 14 0.13
31 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTTATAATTTTTAATAATTTTTATAA
Found at i:7871311 original size:43 final size:43
Alignment explanation
Indices: 7871250--7871408 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
7871240 AAAACTCGTA
* *
7871250 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT
7871293 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATAT
* * * *
7871334 CAATGCCGATGTCCCAGACATGGTCTTACACGTAAACACAA-AT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCA-AATAT
* * *
7871377 CGATGCCAACATCCCAGATGTGGTCTTACACG
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG
7871409 AAAACACGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 27 0.28
42 16 0.16
43 54 0.55
44 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT
Found at i:7871350 original size:41 final size:41
Alignment explanation
Indices: 7871248--7871368 Score: 147
Period size: 41 Copynumber: 2.9 Consensus size: 41
7871238 AGAAAACTCG
* * *
7871248 TACAATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCATA
1 TACAATGCC-ATGTCCCAGACAG-GGTCTTACACGTAATCAAA
7871290 TATCAATGCCACTGTCCCAGACAGGGTCTTACACG-AATCAAA
1 TA-CAATGCCA-TGTCCCAGACAGGGTCTTACACGTAATCAAA
*
7871332 TACAATGCCGATGTCCCAGACATGGTCTTACACGTAA
1 TACAATGCC-ATGTCCCAGACAGGGTCTTACACGTAA
7871369 ACACAAATCG
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
41 29 0.41
42 14 0.20
43 26 0.37
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
TACAATGCCATGTCCCAGACAGGGTCTTACACGTAATCAAA
Found at i:7871392 original size:84 final size:84
Alignment explanation
Indices: 7871248--7871410 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 84
7871238 AGAAAACTCG
* * * * * *
7871248 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATATCAATGCCACTGTCCCAGACA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCAATGCCACTATCCCAGA-A
7871313 G-GGTCTTACACGAATCAAA
65 GTGGTCTTACACGAATCAAA
* * * *
7871332 TACAATGCCGATGTCCCAGACATGGTCTTACACGTAAACACAAATCGATGCCAAC-ATCCCAGAT
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCAATGCC-ACTATCCCAGAA
7871396 GTGGTCTTACACGAA
65 GTGGTCTTACACGAA
7871411 AACACGTACC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 64 0.96
85 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (84 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAATCAATGCCACTATCCCAGAAG
TGGTCTTACACGAATCAAA
Found at i:7872572 original size:91 final size:90
Alignment explanation
Indices: 7872421--7872585 Score: 269
Period size: 91 Copynumber: 1.8 Consensus size: 90
7872411 CATTCAAACC
*
7872421 ACATTTATTGACATCTAAACAACAATTTTCTGCTGCATTAATACACCAAACAGCAGCCCTTAAAA
1 ACATTAATTGACATCTAAACAACAATTTTCTGCTGCATTAATACACCAAACAGCAGCCCTTAAAA
7872486 CAATATAAATACAGTCACTTAGACA
66 CAATATAAATACAGTCACTTAGACA
* * *
7872511 ACATTAATTGACGA-CTAAACAAGAATTTTTTTGCTGCATTAATACACCAAACATCAGCCCTTAA
1 ACATTAATTGAC-ATCTAAACAACAA-TTTTCTGCTGCATTAATACACCAAACAGCAGCCCTTAA
7872575 AACAATATAAA
64 AACAATATAAA
7872586 CAGTGTCACT
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
90 21 0.30
91 48 0.70
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (90 bp):
ACATTAATTGACATCTAAACAACAATTTTCTGCTGCATTAATACACCAAACAGCAGCCCTTAAAA
CAATATAAATACAGTCACTTAGACA
Found at i:7873961 original size:62 final size:62
Alignment explanation
Indices: 7873864--7873989 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
7873854 TGGTCCTCCG
* **
7873864 TTGTCGCGTGCGCGTTCAAGTGGGTCCTTTCTTTTTAAATTTATTCTAAATCTGCCCCATTT
1 TTGTCGCGCGCGCGTTCAAGTGGGTCCTTTCTTTTTAAATTTATTCTAAATCCACCCCATTT
7873926 TTGTCGCGCGCGCGTTCAAGTGGGTCCTTTCTTTTTAAATTTATTCTAAATCCACCCCATTT
1 TTGTCGCGCGCGCGTTCAAGTGGGTCCTTTCTTTTTAAATTTATTCTAAATCCACCCCATTT
7873988 TT
1 TT
7873990 TCCGTTTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (62 bp):
TTGTCGCGCGCGCGTTCAAGTGGGTCCTTTCTTTTTAAATTTATTCTAAATCCACCCCATTT
Found at i:7874081 original size:6 final size:6
Alignment explanation
Indices: 7874047--7874100 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
7874037 TGCTATACCC
* **
7874047 TTATT- TTATT- TTATT- TTATTTA TTGTTA TTATTA TTAACA TTATTA
1 TTATTA TTATTA TTATTA TTA-TTA TTATTA TTATTA TTATTA TTATTA
7874093 TTATTA TT
1 TTATTA TT
7874101 TCATTCACAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
5 13 0.32
6 26 0.63
7 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (6 bp):
TTATTA
Found at i:7874098 original size:9 final size:9
Alignment explanation
Indices: 7874047--7874100 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
7874037 TGCTATACCC
7874047 TTATT-TTA
1 TTATTATTA
7874055 TT-TTATT-
1 TTATTATTA
*
7874062 TTATTTATTG
1 TTA-TTATTA
7874072 TTATTATTA
1 TTATTATTA
**
7874081 TTAACATTA
1 TTATTATTA
7874090 TTATTATTA
1 TTATTATTA
7874099 TT
1 TT
7874101 TCATTCACAC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 4 0.11
8 4 0.11
9 26 0.70
10 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTATTATTA
Found at i:7874154 original size:24 final size:22
Alignment explanation
Indices: 7874109--7874154 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
7874099 TTTCATTCAC
* *
7874109 ACATACACATATTTTATGTATA
1 ACATACACATATTTAATATATA
7874131 ACATACATGCATATTTAATATATA
1 ACATACA--CATATTTAATATATA
7874155 TTTTAAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (22 bp):
ACATACACATATTTAATATATA
Found at i:7875993 original size:44 final size:44
Alignment explanation
Indices: 7875941--7876126 Score: 153
Period size: 44 Copynumber: 4.2 Consensus size: 44
7875931 TTTCCCTGGA
7875941 CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG
1 CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG
* ** * ** * * * *
7875985 CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGATG
1 CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-AAG
** * * * * **
7876030 TTGCAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGG
1 CAGCAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCTAAG
7876073 CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG
1 CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG
*
7876117 CAGTAGTGGA
1 CAGCAGTGGA
7876127 GCAGATCGAA
Statistics
Matches: 102, Mismatches: 34, Indels: 12
0.69 0.23 0.08
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 20 0.20
44 59 0.58
45 18 0.18
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAG
Found at i:7876081 original size:43 final size:42
Alignment explanation
Indices: 7875902--7876213 Score: 130
Period size: 44 Copynumber: 7.2 Consensus size: 42
7875892 CCTGAGGTTA
* *
7875902 CAGTGGAGTACATTGAAGCAGTAATTCTATTTCCCTGGACAG
1 CAGTGGAGTACATTGAAGCAGTAATTCTATCTCCCTGGGCAG
* * * * **
7875944 CAGTGGAATAGATTGAAG-ATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTACATTGAAGCAGTA-A-TTC-TATCTCCCTGGGCAG
* * * * ** * * * **
7875988 TAGTGGAGCAGATCGAAG-ATGGCGGATTTTACCTCCCTGATGTTG
1 CAGTGGAGTACATTGAAGCA--G-TAATTCTATCTCCCTG-GGCAG
7876033 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAGTACATTGAAG-CAGTAATTCTATCTCCCTGGGCAG
* * * * **
7876076 CAGTGGAATAGATTGAAG-ATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTACATTGAAGCAGTA-A-TTC-TATCTCCCTGGGCAG
* * * * * * * *
7876120 TAGTGGAGCAGATCGAAG-ATGGCGAATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTACATTGAAGCA--G-TAATTCTATCTCCCTG-GG-CAG
* *
7876165 CAGTGGAGTACATTGAAGCAGTAATTCTATTTCCCTGGACAG
1 CAGTGGAGTACATTGAAGCAGTAATTCTATCTCCCTGGGCAG
7876207 CAGTGGA
1 CAGTGGA
7876214 ATAGACTGAA
Statistics
Matches: 190, Mismatches: 61, Indels: 38
0.66 0.21 0.13
Matches are distributed among these distances:
41 7 0.04
42 26 0.14
43 34 0.18
44 83 0.44
45 34 0.18
46 4 0.02
47 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (42 bp):
CAGTGGAGTACATTGAAGCAGTAATTCTATCTCCCTGGGCAG
Found at i:7876121 original size:132 final size:132
Alignment explanation
Indices: 7875779--7877113 Score: 1979
Period size: 132 Copynumber: 10.2 Consensus size: 132
7875769 GAGCAGGTTG
* * *
7875779 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACACTGGAATAGATTGAAGATTATAAG-TCTT
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTT
* * *
7875843 ATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATTTTACCTCCCTGAGGTTACAGTGG
65 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGG
7875908 AGT
130 AGT
* * *
7875911 ACATTGAAG-CAGTAATTCTATTTCCCTGGACAGCAGTGGAATAGATTGAAGATTACAGATCTTA
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
* *
7875975 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGATGTTGCAGTGGA
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7876040 GT
131 GT
*
7876042 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTA
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
*
7876107 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGAGGTTACAGTGGA
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7876172 GT
131 GT
* * * * *
7876174 ACATTGAAG-CAGTAATTCTATTTCCCTGGACAGCAGTGGAATAGACTGAAGATTTTAGATCTTG
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
* * * * *
7876238 CCTTCCT--GCA-TAGACAGCGAAGCAGATCGTAGACGGCGGATTTTACCTCCCTGAGGTTACAG
66 TCTCCCTAAGCAGTAG--TG-G-AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAG
7876300 TGGAG-
127 TGGAGT
* * * *
7876305 ACATTGAAGCTAGTAATTCTATCTCCATGAGCAACAGTGGAATAGATTGAAGATTTCAGATCTTA
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
* *
7876370 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAATGGA
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7876435 GT
131 GT
*
7876437 --A-T----CCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
* * * *
7876495 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCTCTGTGGTTACAGTGGA
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7876560 GT
131 GT
* *
7876562 ATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTG
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
* * *
7876627 TCTCCCTAAGCAGTAGTAGAGCAGATC-AAGGATGGCGGATTTTACCTCCCTAAGGTTATAGTGG
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCGGATTTTACCTCCCTGAGGTTACAGTGG
7876691 AGT
130 AGT
* *
7876694 ACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
* *
7876759 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGAGGTTACAATGGA
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7876824 GT
131 GT
* * * *
7876826 ATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTG
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
7876891 TCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATGGCGGATTTTACCTCCCTGAGGTTACAGTGG
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCGGATTTTACCTCCCTGAGGTTACAGTGG
7876955 AG-
130 AGT
** * *
7876957 ACA-TGAAGCCAGTAATTCTATCTCTAT-AGCAACAGTGGAATAGATTGAAGATTTCAGATCTTA
1 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
* * *
7877020 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGA
66 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7877085 GT
131 GT
*
7877087 ATATTGAAGCCAGTAATTCTATCTCCC
1 ACATTGAAGCCAGTAATTCTATCTCCC
7877114 CAGTCGGCAG
Statistics
Matches: 1088, Mismatches: 91, Indels: 49
0.89 0.07 0.04
Matches are distributed among these distances:
125 112 0.10
127 1 0.00
128 4 0.00
129 97 0.09
130 31 0.03
131 251 0.23
132 583 0.54
133 3 0.00
134 3 0.00
135 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTA
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
GT
Found at i:7876388 original size:44 final size:44
Alignment explanation
Indices: 7876340--7876778 Score: 151
Period size: 44 Copynumber: 10.1 Consensus size: 44
7876330 CATGAGCAAC
*
7876340 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
** * * * *
7876384 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT--G-AG-
1 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
* * * * ** *
7876424 -GT----TACAATGGAG-TATCCAGTAAT-TCTATCTCCCTGGGCAGC
1 AGTGGAATAGATTGAAGAT-TGCAG--ATCT-TATCTCCCTAAGCAGT
7876465 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
** ** * * * * **
7876509 AGTGGAGCAGATCAAAGATGGC-GAATTTTACCTCTCT--GTGGTT
1 AGTGGAATAGATTGAAGATTGCAG-ATCTTATCTCCCTAAGCAG-T
* * *** * ** *
7876552 ACAGTGGAGTATATTGAAGCCAGTA-AT-TCTATCTCCCTGGGCAGC
1 --AGTGGAATAGATTGAAGATTGCAGATCT-TATCTCCCTAAGCAGT
* *
7876597 AGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
* ** * * * * * *
7876641 AGTAGAGCAGA-TCAAGGATGGCGGATTTTACCTCCCTAAGGTTA-T
1 AGTGGAATAGATTGAA-GATTGCAGATCTTATCTCCCTAA-G-CAGT
* * *** * * ** *
7876686 AGTGGAGTACATTGAAGCCAGTAGTTC-TATCTCCCTGGGCAGC
1 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
7876729 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
7876773 AGTGGA
1 AGTGGA
7876779 GCAGATCGAA
Statistics
Matches: 271, Mismatches: 93, Indels: 62
0.64 0.22 0.15
Matches are distributed among these distances:
34 1 0.00
35 8 0.03
36 1 0.00
37 10 0.04
39 3 0.01
40 2 0.01
41 2 0.01
42 6 0.02
43 43 0.16
44 147 0.54
45 30 0.11
46 17 0.06
47 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
Found at i:7876790 original size:44 final size:44
Alignment explanation
Indices: 7876449--7877070 Score: 163
Period size: 44 Copynumber: 14.2 Consensus size: 44
7876439 CCAGTAATTC
** * *
7876449 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATCT
* ** * *
7876493 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGC-GAATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAG-ATCT
* * ** * *** *
7876537 TACCTCTCT--GTGGTTACAGTGGAGTATATTGAAGCCAGTA-AT-T
1 TATCTCCCTAAGCAG-T--AGTGGAGTAGATTGAAGATTGCAGATCT
** * * *
7876580 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATCT
* * * * * * *
7876625 TGTCTCCCTAAGCAGTAGTAGAGCAGA-TCAAGGATGGCGGATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAA-GATTGCAGATCT
* * * *** * *
7876669 TACCTCCCTAAGGTTA-TAGTGGAGTACATTGAAGCCAGTAGTTC-
1 TATCTCCCTAA-G-CAGTAGTGGAGTAGATTGAAGATTGCAGATCT
** * *
7876713 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATCT
* * * *
7876757 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGACGGATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTG-CAGATCT
* * * * *** *
7876801 TACCTCCCTGAG--GTTACAATGGAGTATATTGAAGCCAGTA-AT-T
1 TATCTCCCTAAGCAG-T--AGTGGAGTAGATTGAAGATTGCAGATCT
* ** * * * *
7876844 CTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATCT
* * * * * *
7876889 TGTCTCCCTAAGCAGTAGTGGAGCAGA-TCAAGGATGGCGGATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAA-GATTGCAGATCT
* * * *** *
7876933 TACCTCCCTGAG--GTTACAGTGGAG-ACA-TGAAGCCAGTA-AT-T
1 TATCTCCCTAAGCAG-T--AGTGGAGTAGATTGAAGATTGCAGATCT
** * *
7876974 CTATCT--CTATAGCAACAGTGGAATAGATTGAAGATTTCAGATCT
1 -TATCTCCCTA-AGCAGTAGTGGAGTAGATTGAAGATTGCAGATCT
* ** * *
7877018 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATCT
*
7877062 TACCTCCCT
1 TATCTCCCT
7877071 GAGGTTGCAG
Statistics
Matches: 392, Mismatches: 146, Indels: 80
0.63 0.24 0.13
Matches are distributed among these distances:
40 8 0.02
41 5 0.01
42 17 0.04
43 74 0.19
44 227 0.58
45 53 0.14
46 8 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATCT
Found at i:7876826 original size:264 final size:263
Alignment explanation
Indices: 7875781--7877113 Score: 1980
Period size: 263 Copynumber: 5.1 Consensus size: 263
7875771 GCAGGTTGAC
* * *
7875781 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAACACTGGAATAGATTGAAGATTATAAG-TCTTAT
1 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTAT
* *
7875845 CTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAG
65 CTCCCTAAGCAGTAGTGGAGCAGATC-AAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAG
* * *
7875910 TACATTGAAG-CAGTAATTCTATTTCCCTGGACAGCAGTGGAATAGATTGAAGATTACAGATCTT
129 TACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTT
* *
7875974 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGATGTTGCAGTGG
194 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGG
*
7876039 AGTAC
259 AGTAT
*
7876044 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
*
7876109 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGAGGTTACAGTGGAGT
66 TCCCTAAGCAGTAGTGGAGCAGATC-AAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGT
* * * ** *
7876174 ACATTGAAG-CAGTAATTCTATTTCCCTGGACAGCAGTGGAATAGACTGAAGATTTTAGATCTTG
130 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
* * * * *
7876238 CCTTCCT--GCA-TAGACAGCGAAGCAGATCGTAGACGGCGGATTTTACCTCCCTGAGGTTACAG
195 TCTCCCTAAGCAGTAG--TG-G-AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAG
*
7876300 TGGAG-AC
256 TGGAGTAT
* * * *
7876307 ATTGAAGCTAGTAATTCTATCTCCATGAGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
* *
7876372 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAATGGAGT
66 TCCCTAAGCAGTAGTGGAGCAGATC-AAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGT
7876437 --A-T----CCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
130 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
* * * *
7876495 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTTACCTCTCTGTGGTTACAGTGGA
195 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7876560 GTAT
260 GTAT
*
7876564 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
* * *
7876629 TCCCTAAGCAGTAGTAGAGCAGATCAAGGATGGCGGATTTTACCTCCCTAAGGTTATAGTGGAGT
66 TCCCTAAGCAGTAGTGGAGCAGATCAA-GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGT
*
7876694 ACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
130 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
* *
7876759 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGAGGTTACAATGGA
195 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7876824 GTAT
260 GTAT
* * *
7876828 ATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
7876893 TCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAG-
66 TCCCTAAGCAGTAGTGGAGCAGATCAA-GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGT
** * * *
7876957 ACA-TGAAGCCAGTAATTCTATCTCTAT-AGCAACAGTGGAATAGATTGAAGATTTCAGATCTTA
130 ACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTA
* * *
7877020 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGA
195 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGA
7877085 GTAT
260 GTAT
7877089 ATTGAAGCCAGTAATTCTATCTCCC
1 ATTGAAGCCAGTAATTCTATCTCCC
7877114 CAGTCGGCAG
Statistics
Matches: 975, Mismatches: 77, Indels: 38
0.89 0.07 0.03
Matches are distributed among these distances:
256 43 0.04
257 173 0.18
258 1 0.00
259 4 0.00
260 8 0.01
261 125 0.13
262 24 0.02
263 312 0.32
264 285 0.29
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (263 bp):
ATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATC
TCCCTAAGCAGTAGTGGAGCAGATCAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTA
CATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTAT
CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAG
TAT
Found at i:7878906 original size:132 final size:132
Alignment explanation
Indices: 7878017--7878840 Score: 1648
Period size: 132 Copynumber: 6.2 Consensus size: 132
7878007 NNNNNNNNNN
7878017 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
7878082 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
7878147 AG
131 AG
7878149 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
7878214 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
7878279 AG
131 AG
7878281 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
7878346 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
7878411 AG
131 AG
7878413 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
7878478 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
7878543 AG
131 AG
7878545 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
7878610 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
7878675 AG
131 AG
7878677 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
7878742 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
7878807 AG
131 AG
7878809 TGGAGTATATTGAAGCCAGTAATTCTATCTCC
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCC
7878841 CCAGTCGGCA
Statistics
Matches: 692, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 692 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
AG
Found at i:7879072 original size:396 final size:396
Alignment explanation
Indices: 7878017--7879079 Score: 1057
Period size: 396 Copynumber: 2.7 Consensus size: 396
7878007 NNNNNNNNNN
** * **
7878017 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCACAGGCAGCAGTAGAATAGATCGAAGAAGTCAG
* * ** * *
7878082 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGGAGTGAAGCAGATCAAAGAAAGCAGATTTTACCTCCCTGAGCTAGC
* * * * * * * * ** **
7878147 AGTGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTC
131 AGTGAAGTAGATCGAAGACAGCAAGTCTATCTCCATGAGCAGCAGTAGAACAGACAGAAGATACC
*** * * * * *** * *
7878212 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
196 AGATCCAATATCCCTAAGCAGCAATAGAGCAGATCAAAGACCACAGATCTCACCTCCCTGAGGTT
7878277 GCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATT
261 GCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATT
7878342 TCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGG
326 TCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGG
7878407 TTGCAG
391 TTGCAG
** * **
7878413 TGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTCAG
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCACAGGCAGCAGTAGAATAGATCGAAGAAGTCAG
* * ** * *
7878478 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
66 ATCTTGTCTCCCTAAGCAGGAGTGAAGCAGATCAAAGAAAGCAGATTTTACCTCCCTGAGCTAGC
* * * * * * * * ** **
7878543 AGTGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATTTC
131 AGTGAAGTAGATCGAAGACAGCAAGTCTATCTCCATGAGCAGCAGTAGAACAGACAGAAGATACC
*** * * * * *** * *
7878608 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTT
196 AGATCCAATATCCCTAAGCAGCAATAGAGCAGATCAAAGACCACAGATCTCACCTCCCTGAGGTT
7878673 GCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATT
261 GCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATT
7878738 TCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGG
326 TCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGG
7878803 TTGCAG
391 TTGCAG
* * * * *
7878809 TGGAGTATATTGAAGCCAGTAATTCTATCTCCCCAGTCGGCAGTGGAATCGATCGAAGAAAGT-A
1 TGGAGTATATTGAAGCCAGTAATTCTATCTCCACAGGCAGCAGTAGAATAGATCGAAG-AAGTCA
* * * * * * * *
7878873 GATCTTGTCT-TC-ATGTATTGGCGTGAAGTAGATCGAAGAAAGCATATATTGT-CTTCCCAT-A
65 GATCTTGTCTCCCTAAGCA--GGAGTGAAGCAGATCAAAGAAAGCAGAT-TT-TACCTCCC-TGA
** * * ** * *
7878934 -CTAGTGGTGAAGTAGATCGAAGATA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAG
125 GCTAGCAGTGAAGTAGATCGAAGACAGCAAGTC-TATCTCCATG-AGCAGCAGTAGAACAGACAG
* ** ** * *
7878997 AAG-TAACCA-ATCCAATATCCTTGAAGTTGCAATAGAGTGGAT-TAAGACCACAGATCTCATCT
188 AAGAT-ACCAGATCCAATATCCCT-AAGCAGCAATAGAGCAGATCAAAGACCACAGATCTCACCT
* * *
7879059 CTCTGAAGTTGCAGTAGAGTA
251 CCCTGAGGTTGCAGTGGAGTA
7879080 GATCGCATCA
Statistics
Matches: 591, Mismatches: 66, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
394 3 0.01
395 5 0.01
396 542 0.92
397 39 0.07
398 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (396 bp):
TGGAGTATATTGAAGCCAGTAATTCTATCTCCACAGGCAGCAGTAGAATAGATCGAAGAAGTCAG
ATCTTGTCTCCCTAAGCAGGAGTGAAGCAGATCAAAGAAAGCAGATTTTACCTCCCTGAGCTAGC
AGTGAAGTAGATCGAAGACAGCAAGTCTATCTCCATGAGCAGCAGTAGAACAGACAGAAGATACC
AGATCCAATATCCCTAAGCAGCAATAGAGCAGATCAAAGACCACAGATCTCACCTCCCTGAGGTT
GCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCATGGGCAGCAGTAGAATAGATTGAAGATT
TCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGG
TTGCAG
Found at i:7880598 original size:24 final size:25
Alignment explanation
Indices: 7880550--7880598 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
7880540 TTATTCCATT
* *
7880550 CATACATACGCATATTTTATGTATAA
1 CATACATA-GCATATTTAATATATAA
7880576 CATACAT-GCATATTTAATATATA
1 CATACATAGCATATTTAATATATA
7880599 TTTTAAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (25 bp):
CATACATAGCATATTTAATATATAA
Found at i:7881170 original size:14 final size:14
Alignment explanation
Indices: 7881151--7881189 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7881141 TGGTACATTG
7881151 TATTTGTATATATA
1 TATTTGTATATATA
* *
7881165 TATTTGTAAATATT
1 TATTTGTATATATA
*
7881179 TATTCGTATAT
1 TATTTGTATAT
7881190 GCTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:7890941 original size:12 final size:12
Alignment explanation
Indices: 7890926--7890961 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7890916 GTTTTTTATT
*
7890926 TTTTATTTTTAG
1 TTTTAGTTTTAG
7890938 TTTTAGTTTTAG
1 TTTTAGTTTTAG
7890950 TTTTAGTTTTAG
1 TTTTAGTTTTAG
7890962 AATTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (12 bp):
TTTTAGTTTTAG
Found at i:7890947 original size:18 final size:18
Alignment explanation
Indices: 7890926--7890961 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7890916 GTTTTTTATT
*
7890926 TTTTATTTTTAGTTTTAG
1 TTTTAGTTTTAGTTTTAG
7890944 TTTTAGTTTTAGTTTTAG
1 TTTTAGTTTTAGTTTTAG
7890962 AATTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (18 bp):
TTTTAGTTTTAGTTTTAG
Found at i:7891018 original size:13 final size:13
Alignment explanation
Indices: 7891002--7891026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7890992 AATTTTTATG
7891002 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
7891015 ATTGGGTTGGGT
1 ATTGGGTTGGGT
7891027 TGAATACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:7894628 original size:35 final size:34
Alignment explanation
Indices: 7894587--7894680 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
7894577 ACTGAAGACT
*
7894587 TAAAATTTCCATTAATAAAACCAAAATCAAAGAAG
1 TAAAATTTCCATTAATAAAACCAAAAT-AAAGAAC
* * * *
7894622 TAAAATTTCCATGAATAAAACGAAAAATGAAGACC
1 TAAAATTTCCATTAATAAAAC-CAAAATAAAGAAC
* *
7894657 TAAATTTTCCATTAATAAAGCCAA
1 TAAAATTTCCATTAATAAAACCAA
7894681 GTCAAGACTA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.04
35 42 0.86
36 5 0.10
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.24
Consensus pattern (34 bp):
TAAAATTTCCATTAATAAAACCAAAATAAAGAAC
Found at i:7895265 original size:25 final size:25
Alignment explanation
Indices: 7895231--7895281 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
7895221 ATATTTATGG
7895231 AAAGCCAAAGATA-TGTGTATCAAAT
1 AAAGCCAAAGATATTG-GTATCAAAT
*
7895256 AAAGTCAAAGATATTGGTATCAAAT
1 AAAGCCAAAGATATTGGTATCAAAT
7895281 A
1 A
7895282 TTGAAAAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (25 bp):
AAAGCCAAAGATATTGGTATCAAAT
Found at i:7895292 original size:30 final size:31
Alignment explanation
Indices: 7895256--7895315 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
7895246 TGTATCAAAT
*
7895256 AAAGTCAAAGATATTGGTATC-AAATATTGA
1 AAAGTCAAAGATATGGGTATCGAAATATTGA
*
7895286 AAAGTCAAAGATATGGGTATCGAGATATTG
1 AAAGTCAAAGATATGGGTATCGAAATATTG
7895316 GCATAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGTCAAAGATATGGGTATCGAAATATTGA
Found at i:7898599 original size:43 final size:42
Alignment explanation
Indices: 7898533--7898825 Score: 313
Period size: 43 Copynumber: 6.9 Consensus size: 42
7898523 TTGTGGAAAT
* *
7898533 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTCCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-CTCAC
* * *
7898576 AAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTT-TCCAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCT-CAC
* * *
7898618 AAACGCCGCTATAGTTCAGGATCTTTAGCGGCGCTTT-TACAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCT-C-AC
* * *
7898661 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGATTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCT-CAC
* *
7898704 AAACGCCGCTGTAGATCAAGACCTTTAGCGGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTC-AC
* * * *
7898747 AAACGCCACTATAGATCAAGACCTTTAGCGGTGCTTTTATCAGA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTCTCA-C
* * *
7898791 AAACGCCGCTATAGAACAA-ACGTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTT
7898826 CTTGCAAAAA
Statistics
Matches: 217, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.00
42 41 0.19
43 151 0.70
44 24 0.11
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTCAC
Found at i:7902825 original size:176 final size:176
Alignment explanation
Indices: 7902475--7902804 Score: 517
Period size: 176 Copynumber: 1.9 Consensus size: 176
7902465 TAAAAACGCC
***
7902475 GCAAAATTGTTTTTATTTTAAACAAAACTACGCCGTTTTGCTATTCTAAAAAATTTTTATTTTGT
1 GCAAAATTGTTTTTATTTTAAACAAAACTACGCCGTTTTGCTATTCTAAAAAAAAATTATTTTGT
*** * *
7902540 TTTTTATAAATTGATATATTTTTGCGGCGTTTTTTCATTTTGATCAAAATGACGCCGTTTTGCTA
66 TTTTTATAAATTGATATATAAATGC-GCGTTATTTCATTTTGAACAAAATGACGCCGTTTTGCTA
7902605 TGCTAAAATTTTTTAAATTTTTTATAAATCTTTAGCGGTGTTTTTAT
130 TGCTAAAATTTTTTAAATTTTTTATAAATCTTTAGCGGTGTTTTTAT
*
7902652 GCAAAATT-TTTTTATTTTGAACAAAACTACGCCGTTTTGCTATTCTAAAAAAAAATTATTTTGT
1 GCAAAATTGTTTTTATTTTAAACAAAACTACGCCGTTTTGCTATTCTAAAAAAAAATTATTTTGT
7902716 TTTTTATAAATTGATA-A-AAATGC-CGTTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAT
66 TTTTTATAAATTGATATATAAATGCGCGTTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAT
* *
7902778 GCT-AAATTTTTTTAAGTTTTTATAAAT
131 GCTAAAATTTTTTAAATTTTTTATAAAT
7902805 TGATTTTTTT
Statistics
Matches: 142, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
171 22 0.15
172 40 0.28
174 3 0.02
175 1 0.01
176 68 0.48
177 8 0.06
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (176 bp):
GCAAAATTGTTTTTATTTTAAACAAAACTACGCCGTTTTGCTATTCTAAAAAAAAATTATTTTGT
TTTTTATAAATTGATATATAAATGCGCGTTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAT
GCTAAAATTTTTTAAATTTTTTATAAATCTTTAGCGGTGTTTTTAT
Found at i:7903326 original size:22 final size:22
Alignment explanation
Indices: 7903277--7903326 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7903267 CATATCAATC
* * *
7903277 TATTACTTTTTTTAAACTTATT
1 TATTAATTTTTTTAAACTAATA
7903299 TATTAATTTTATTTAAACTAATA
1 TATTAATTTT-TTTAAACTAATA
7903322 T-TTAA
1 TATTAA
7903327 ATATATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTAATTTTTTTAAACTAATA
Found at i:7903733 original size:14 final size:14
Alignment explanation
Indices: 7903714--7903747 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7903704 AAATCCCAAC
7903714 CCCTAATCCATAAT
1 CCCTAATCCATAAT
*
7903728 CCCTAATCCATACT
1 CCCTAATCCATAAT
7903742 CCCTAA
1 CCCTAA
7903748 ACCGGCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:7904373 original size:114 final size:114
Alignment explanation
Indices: 7904023--7904789 Score: 1219
Period size: 114 Copynumber: 6.7 Consensus size: 114
7904013 AGCATTTTTG
* * ** *
7904023 GCCGCTAAAACCCCGAAAGCTCAGAAAACGATGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
* * *
7904088 TAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * * * *
7904137 GCCGCTAAATCCTCGAAAGCTCAAAAAATGGCATTGTTGGGCTTATGTTTTTTTTGCGGCACTTT
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATG-TTTTTTTGCGGCGCTTT
* * *
7904202 CTAAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAT
65 CTCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * *
7904252 GCTGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTGGGCTTATGTTTTTTTGCGGTGCTTTA
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
7904317 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* *
7904366 GCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGCTTCTGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
7904431 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* *
7904480 GCCGCTAAATCCCCGAAAGCTCACAAAACGGTGTCGTTGGGCTTATGTTTTTTTGCGGTGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
**
7904545 TCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * *
7904594 GCCGCTAAATCTCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTAGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
*
7904659 TCAAAAACACCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* *
7904708 GCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
*
7904773 TTAAAAACGCCGCTAAA
66 TCAAAAACGCCGCTAAA
7904790 TCCCCGAAAG
Statistics
Matches: 600, Mismatches: 52, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
114 496 0.83
115 104 0.17
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (114 bp):
GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
TCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAAC
Found at i:7904777 original size:73 final size:73
Alignment explanation
Indices: 7904689--7904906 Score: 332
Period size: 73 Copynumber: 3.0 Consensus size: 73
7904679 CTGAGCATTA
*
7904689 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGCTTAT
7904754 GTTTTTTT
66 GTTTTTTT
7904762 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAAC-AGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGA-CGTCGTTGGGCTTA
*
7904826 TGTCTTTTT
65 TGTTTTTTT
* * * * *
7904835 GCGGTGCTTTCTCAAAAATGCCGCTAAATCCCCGAAAGCCCGA-AAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTC-ACAAAACGACGTCGTTGGGCTTA
*
7904899 GGTTTTTT
65 TGTTTTTT
7904907 GAGGCCGCGA
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
72 1 0.01
73 131 0.98
74 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (73 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTCGTTGGGCTTAT
GTTTTTTT
Found at i:7905276 original size:23 final size:24
Alignment explanation
Indices: 7905220--7905278 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
7905210 ATTTAGGATT
7905220 AAATA-TATATATACAAAATTTAAA
1 AAATATTA-ATATACAAAATTTAAA
7905244 AAATAATTAATATA-AAAATTTCAAA
1 AAAT-ATTAATATACAAAATTT-AAA
*
7905269 CAAT-TTAATA
1 AAATATTAATA
7905279 ATGGGACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 6 0.19
24 11 0.35
25 12 0.39
26 2 0.06
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (24 bp):
AAATATTAATATACAAAATTTAAA
Found at i:7905326 original size:23 final size:25
Alignment explanation
Indices: 7905285--7905331 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
7905275 AATAATGGGA
*
7905285 CTAAAAATAAAATGTTAAGTAAATT
1 CTAAAAATAAAATGTTAAGAAAATT
*
7905310 CTAAAAA-AAATTG-TAAGAAAAT
1 CTAAAAATAAAATGTTAAGAAAAT
7905332 AAAAGTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 5 0.25
25 7 0.35
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (25 bp):
CTAAAAATAAAATGTTAAGAAAATT
Found at i:7908513 original size:12 final size:12
Alignment explanation
Indices: 7908496--7908529 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
7908486 GCCGAACAGA
7908496 GAAAAAGAAAAT
1 GAAAAAGAAAAT
7908508 GAAAAAGAAAAT
1 GAAAAAGAAAAT
*
7908520 GAAAATGAAA
1 GAAAAAGAAA
7908530 TCCCCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (12 bp):
GAAAAAGAAAAT
Found at i:7908518 original size:18 final size:18
Alignment explanation
Indices: 7908495--7908529 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7908485 AGCCGAACAG
7908495 AGAAAAAGAAAATGAAAA
1 AGAAAAAGAAAATGAAAA
*
7908513 AGAAAATGAAAATGAAA
1 AGAAAAAGAAAATGAAA
7908530 TCCCCCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (18 bp):
AGAAAAAGAAAATGAAAA
Found at i:7908530 original size:5 final size:6
Alignment explanation
Indices: 7908496--7908529 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7908486 GCCGAACAGA
* *
7908496 GAAAAA GAAAAT GAAAAA GAAAAT GAAAAT GAAA
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAA
7908530 TCCCCCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (6 bp):
GAAAAT
Found at i:7909450 original size:24 final size:24
Alignment explanation
Indices: 7909419--7909473 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
7909409 GTCTACGTAC
7909419 TCTT-TACAAATTTGTAATTTAAT
1 TCTTATACAAATTTGTAATTTAAT
7909442 TCTTATACAAATTTGTAATTTAAT
1 TCTTATACAAATTTGTAATTTAAT
7909466 TCTTATAC
1 TCTTATAC
7909474 TTTTATTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.51
Consensus pattern (24 bp):
TCTTATACAAATTTGTAATTTAAT
Found at i:7920108 original size:24 final size:24
Alignment explanation
Indices: 7920077--7920131 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
7920067 GTCTACGTAC
7920077 TCTT-TACAAATTTGTAATTTAAT
1 TCTTATACAAATTTGTAATTTAAT
7920100 TCTTATACAAATTTGTAATTTAAT
1 TCTTATACAAATTTGTAATTTAAT
7920124 TCTTATAC
1 TCTTATAC
7920132 TTTTATTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.51
Consensus pattern (24 bp):
TCTTATACAAATTTGTAATTTAAT
Found at i:7921001 original size:110 final size:111
Alignment explanation
Indices: 7920811--7921033 Score: 439
Period size: 110 Copynumber: 2.0 Consensus size: 111
7920801 ATTCATATAT
7920811 TTATATAATTTTTTAAAATAAAAAATTATTTATCTCAATGATGTTTTCACACATGGAAGCATTCC
1 TTATATAATTTTTTAAAATAAAAAATTATTTATCTCAATGATGTTTTCACACATGGAAGCATTCC
7920876 ACTTAGTTGAGGTTTTCTTATCAATTATGAACTTC-TTCTATAATA
66 ACTTAGTTGAGGTTTTCTTATCAATTATGAACTTCTTTCTATAATA
7920921 TTATATAATTTTTTAAAATAAAAAATTATTTATCTCAATGATGTTTTCACACATGGAAGCATTCC
1 TTATATAATTTTTTAAAATAAAAAATTATTTATCTCAATGATGTTTTCACACATGGAAGCATTCC
7920986 ACTTAGTTGAGGTTTTCTTATCAATTATGAACTTCTTTCTATAATA
66 ACTTAGTTGAGGTTTTCTTATCAATTATGAACTTCTTTCTATAATA
7921032 TT
1 TT
7921034 GTTATGTCAT
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 100 0.89
111 12 0.11
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (111 bp):
TTATATAATTTTTTAAAATAAAAAATTATTTATCTCAATGATGTTTTCACACATGGAAGCATTCC
ACTTAGTTGAGGTTTTCTTATCAATTATGAACTTCTTTCTATAATA
Found at i:7926829 original size:13 final size:13
Alignment explanation
Indices: 7926793--7926830 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7926783 TGAAAGTGTT
7926793 AAGAAAGAGAT-A
1 AAGAAAGAGATAA
7926805 AAGAATAG-GATAA
1 AAGAA-AGAGATAA
7926818 AAGAAAGAGATAA
1 AAGAAAGAGATAA
7926831 TCATGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.11
Consensus pattern (13 bp):
AAGAAAGAGATAA
Found at i:7931770 original size:49 final size:49
Alignment explanation
Indices: 7931711--7931840 Score: 226
Period size: 49 Copynumber: 2.6 Consensus size: 49
7931701 AATAATATCA
7931711 AAACTATTTTGTATTTTATTA-ATGAAAATAATATCAAAATATTCAAAAT
1 AAACTATTTTGTATTTTATTACAT-AAAATAATATCAAAATATTCAAAAT
*
7931760 AAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAAT
1 AAACTATTTTGTATTTTATTACATAAAATAATATCAAAATATTCAAAAT
7931809 AAACTATTTTGTATTTTATTACATCAAAATAA
1 AAACTATTTTGTATTTTATTACAT-AAAATAA
7931841 ACTGTTTTGT
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
49 69 0.90
50 8 0.10
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (49 bp):
AAACTATTTTGTATTTTATTACATAAAATAATATCAAAATATTCAAAAT
Found at i:7931975 original size:21 final size:21
Alignment explanation
Indices: 7931951--7931990 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7931941 TTGTCCAACT
* *
7931951 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGGGGATTCTGGTTGC
7931972 TCCGGCGGGGATTCTGGTT
1 TCCGGCGGGGATTCTGGTT
7931991 CATTCGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.20, G:0.47, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTCTGGTTGC
Found at i:7932285 original size:18 final size:18
Alignment explanation
Indices: 7932258--7932295 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7932248 GAAAAATGAA
* *
7932258 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
7932276 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
7932294 AC
1 AC
7932296 GCACTTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:7936003 original size:17 final size:17
Alignment explanation
Indices: 7935970--7936004 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7935960 ATGTGGCTCG
* *
7935970 ATAATGATTTTATTAAT
1 ATAATGATTTAAGTAAT
7935987 ATAATGATTTAAGTAAT
1 ATAATGATTTAAGTAAT
7936004 A
1 A
7936005 GTATATCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (17 bp):
ATAATGATTTAAGTAAT
Done.