Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 158 of 167
Found at i:52088030 original size:16 final size:16
Alignment explanation
Indices: 52088011--52088048 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52088001 AATAAAAGTA
52088011 TAATAGAATAGA-GCTG
1 TAATAGAATAGAGGC-G
*
52088027 TAATGGAATAGAGGCG
1 TAATAGAATAGAGGCG
52088043 TAATAG
1 TAATAG
52088049 TAATTCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (16 bp):
TAATAGAATAGAGGCG
Found at i:52088076 original size:45 final size:44
Alignment explanation
Indices: 52088025--52088120 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
52088015 AGAATAGAGC
52088025 TGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAA
*
52088070 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
*
52088114 TGGAATG
1 TGTAATG
52088121 ATGTTGTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:52088394 original size:120 final size:121
Alignment explanation
Indices: 52088253--52088474 Score: 410
Period size: 120 Copynumber: 1.8 Consensus size: 121
52088243 AAATAATTTA
*
52088253 AAATATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
1 AAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
*
52088318 TTAATATTAAATATTCTTATATGAATTTTCT-AAAATCATAATATATAATACTATT
66 TTAATATTAAATATTCTTATATGAATTTACTGAAAATCATAATATATAATACTATT
*
52088373 AAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAATTTC
1 AAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
52088438 TTAATATTAAATATTCTTATATGAATTTACTGAAAAT
66 TTAATATTAAATATTCTTATATGAATTTACTGAAAAT
52088475 GGCTTTTGGA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 93 0.95
121 5 0.05
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.45
Consensus pattern (121 bp):
AAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
TTAATATTAAATATTCTTATATGAATTTACTGAAAATCATAATATATAATACTATT
Found at i:52088719 original size:14 final size:14
Alignment explanation
Indices: 52088677--52088719 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 14
52088667 CACTTTCTTG
*
52088677 AAAA-TATTTCAAA
1 AAAACTATTTAAAA
52088690 AAAACTATTTTAAAAA
1 AAAACTA-TTT-AAAA
52088706 AAAACTATTTAAAA
1 AAAACTATTTAAAA
52088720 TGAAACAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.15
14 6 0.23
15 6 0.23
16 10 0.38
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAACTATTTAAAA
Found at i:52088725 original size:15 final size:16
Alignment explanation
Indices: 52088687--52088719 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52088677 AAAATATTTC
52088687 AAAAAAACTATTTTAA
1 AAAAAAACTATTTTAA
52088703 AAAAAAACTA-TTTAA
1 AAAAAAACTATTTTAA
52088718 AA
1 AA
52088720 TGAAACAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAAAACTATTTTAA
Found at i:52090170 original size:12 final size:12
Alignment explanation
Indices: 52090153--52090188 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
52090143 CAACCCAAGG
52090153 GGAAGGGGAAGA
1 GGAAGGGGAAGA
52090165 GGAAGGGGAAGA
1 GGAAGGGGAAGA
* *
52090177 GAAAAGGGAAGA
1 GGAAGGGGAAGA
52090189 AAATTTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GGAAGGGGAAGA
Found at i:52092072 original size:19 final size:19
Alignment explanation
Indices: 52092048--52092087 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52092038 TGTGTCATCA
*
52092048 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
52092067 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
52092086 TA
1 TA
52092088 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:52093784 original size:35 final size:34
Alignment explanation
Indices: 52093725--52093807 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 34
52093715 TATTTGTTTT
* *
52093725 TATTATATAATTAATGATATTTAAA-TATAATTTA
1 TATTATATAATTAATGATAATTAAATTATAA-TGA
*
52093759 TATTATATGAATTTATGATAATTAAATTATAATGA
1 TATTATAT-AATTAATGATAATTAAATTATAATGA
*
52093794 TATTATATTATTAA
1 TATTATATAATTAA
52093808 ATAAATCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 12 0.29
35 25 0.60
36 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (34 bp):
TATTATATAATTAATGATAATTAAATTATAATGA
Found at i:52093793 original size:25 final size:23
Alignment explanation
Indices: 52093725--52093809 Score: 61
Period size: 24 Copynumber: 3.7 Consensus size: 23
52093715 TATTTGTTTT
* *
52093725 TATTATATAATT-AATGATAT-T
1 TATTATATAATTAAATTATATGA
* *
52093746 TA-AATATAATTTATATTATATGA
1 TATTATATAA-TTAAATTATATGA
52093769 -ATTTATGATAATTAAATTATAATGA
1 TA-TTAT-ATAATTAAATTAT-ATGA
*
52093794 TATTATATTATTAAAT
1 TATTATATAATTAAAT
52093810 AAATCAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
20 6 0.12
21 4 0.08
22 7 0.14
24 19 0.39
25 12 0.24
26 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
TATTATATAATTAAATTATATGA
Found at i:52094909 original size:45 final size:45
Alignment explanation
Indices: 52094843--52094941 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
52094833 CTTTTACCAT
* *
52094843 TACTGTTACCGATTAGACACTTTGTGTGTTGAATACTGTTACCGC
1 TACTGTTACAGATCAGACACTTTGTGTGTTGAATACTGTTACCGC
* * *
52094888 TACTGTTACAGATCCAG-CACTTTGTGTGTTGAATATTGTTACTGT
1 TACTGTTACAGAT-CAGACACTTTGTGTGTTGAATACTGTTACCGC
52094933 TACTGTTAC
1 TACTGTTAC
52094942 TGCTACTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 46 0.96
46 2 0.04
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (45 bp):
TACTGTTACAGATCAGACACTTTGTGTGTTGAATACTGTTACCGC
Found at i:52094935 original size:6 final size:6
Alignment explanation
Indices: 52094924--52094964 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
52094914 TGTTGAATAT
*
52094924 TGTTAC TGTTAC TGTTAC TGCTAC TGTTAC TGATTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TG-TTAC TGTT
52094965 TAGGTACTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TGTTAC
Found at i:52096398 original size:28 final size:29
Alignment explanation
Indices: 52096367--52096481 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
52096357 TACATACATG
* *
52096367 CATATGGCCCACTGGGCCCA-ATCTTATT
1 CATATGGCCCACTAGGCCCAGATCATATT
* * *
52096395 CATATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCACTAGGCCCAGATCATATT
* * * *
52096424 CTTATGGCCCACTAGGCCTA-ATTCACATA
1 CATATGGCCCACTAGGCCCAGA-TCATATT
* * *
52096453 CATATGGCCTATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAGATCATATT
52096482 ATACTCATGC
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 18 0.27
29 48 0.72
30 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAGATCATATT
Found at i:52096471 original size:58 final size:57
Alignment explanation
Indices: 52096369--52096481 Score: 136
Period size: 58 Copynumber: 2.0 Consensus size: 57
52096359 CATACATGCA
* ** * * **
52096369 TATGGCCCACTGGGCCCAATCTTATTCATATGGCCCATTTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATACATATGGCCCATTAGGCCCAAATCATATTCT
* *
52096426 TATGGCCCACTAGGCCTAATTCACATACATATGGCCTATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATACATATGGCCCATTAGGCCCAAATCATATT
52096482 ATACTCATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 17 0.37
58 29 0.63
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATACATATGGCCCATTAGGCCCAAATCATATTCT
Found at i:52096587 original size:19 final size:18
Alignment explanation
Indices: 52096554--52096590 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
52096544 TGGGCCCAAC
52096554 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
52096572 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
52096591 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:52096599 original size:19 final size:19
Alignment explanation
Indices: 52096563--52096599 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52096553 CAGCCCATCA
*
52096563 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
52096582 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
52096600 TCAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:52096737 original size:16 final size:16
Alignment explanation
Indices: 52096701--52096754 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
52096691 CCAACTTTTA
* *
52096701 GCTTTTTGACAATTCG
1 GCTTTTCGACATTTCG
* * * *
52096717 ACTTTTCGGCTTTTTG
1 GCTTTTCGACATTTCG
52096733 GCTTTTCGACATTTCG
1 GCTTTTCGACATTTCG
52096749 GCTTTT
1 GCTTTT
52096755 GCTGATTCAT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (16 bp):
GCTTTTCGACATTTCG
Found at i:52100074 original size:118 final size:117
Alignment explanation
Indices: 52099854--52100068 Score: 263
Period size: 119 Copynumber: 1.8 Consensus size: 117
52099844 AATTTCTTAT
* * * * *
52099854 AAAAACCCGAATAATTTTCTATAAAATCCCAAGTTTTTCTCTTTTACTGGGGAAAAATAAAATTA
1 AAAAACCCAAATAATTCTCTATAAAATCCCAAGTTTTTCTCTTTTACTGAGAAAAAATAAAACTA
*
52099919 ATTCTAAAAAGGGAAAAAATAAAGAAAATAAAGAAAAATAGTTTTTCCTATAAA
66 ATTCTAAAAAGGAAAAAAATAAAGAAAAT--AGAAAAATAGTTTTTCCTATAAA
* * *
52099973 AAAAACCCAAATAGTTCTCTATAAAATCCGATGTTTTT-TCCTTTTACT-AGAAAAAATAAAACT
1 AAAAACCCAAATAATTCTCTATAAAATCCCAAGTTTTTCT-CTTTTACTGAGAAAAAATAAAACT
* *
52100036 AATTTTAAAAGAGGAAATAATAATAAAGGAAAT
65 AATTCTAAAA-AGGAAA-AA-AATAAAGAAAAT
52100069 TAAAAAGATA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 22 0.27
119 46 0.57
120 2 0.02
121 11 0.14
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (117 bp):
AAAAACCCAAATAATTCTCTATAAAATCCCAAGTTTTTCTCTTTTACTGAGAAAAAATAAAACTA
ATTCTAAAAAGGAAAAAAATAAAGAAAATAGAAAAATAGTTTTTCCTATAAA
Found at i:52104586 original size:31 final size:28
Alignment explanation
Indices: 52104551--52104619 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
52104541 TATAAAAATA
*
52104551 TCATTAAATTATTATTTTTATTTTATTTTAG
1 TCATTAAATTATTA-ATTT-TTTTA-TTTAG
52104582 TCATTAAATTATTAATTTTTTTATTTAG
1 TCATTAAATTATTAATTTTTTTATTTAG
52104610 TCATTAAATT
1 TCATTAAATT
52104620 TTTTGAAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 15 0.41
29 5 0.14
30 3 0.08
31 14 0.38
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (28 bp):
TCATTAAATTATTAATTTTTTTATTTAG
Found at i:52109307 original size:44 final size:43
Alignment explanation
Indices: 52109237--52109523 Score: 266
Period size: 43 Copynumber: 6.7 Consensus size: 43
52109227 ATGTGTTTTC
* *
52109237 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGA-TTATGATTTAT
* *
52109281 GTGTAAGACCATGTCTAGGATATTGGCATCGTATT-TGATTT-T
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-ATTATGATTTAT
* * * *
52109323 GTGTAAGACCCTGTCTGGGACAGTGGCATC-AATATTCGA-TTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATTA-T-GATTTAT
* * *
52109366 ATGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGA-TTATGATTTAT
* *
52109410 GTGTAAGACCATGTCTAGGATATTGGCATCGTATT-TGATTT-T
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-ATTATGATTTAT
* * * *
52109452 GTGTAAGACCCTGTCTGGGACAGTGGCATC-AATATTCGA-TTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATTA-T-GATTTAT
* * *
52109495 ATGTAAGACCACGTCTGGGACTTTGGCAT
1 GTGTAAGACCATGTCTGGGACATTGGCAT
52109524 TGTACGAGCT
Statistics
Matches: 197, Mismatches: 33, Indels: 27
0.77 0.13 0.11
Matches are distributed among these distances:
40 4 0.02
42 60 0.30
43 67 0.34
44 62 0.31
45 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATTATGATTTAT
Found at i:52109454 original size:129 final size:129
Alignment explanation
Indices: 52109238--52109523 Score: 563
Period size: 129 Copynumber: 2.2 Consensus size: 129
52109228 TGTGTTTTCG
52109238 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTATGTGTAAGACCATGTCTAGGATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTATGTGTAAGACCATGTCTAGGATA
52109303 TTGGCATCGTATTTGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTCGATTACA
66 TTGGCATCGTATTTGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTCGATTACA
52109367 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTATGTGTAAGACCATGTCTAGGATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTATGTGTAAGACCATGTCTAGGATA
52109432 TTGGCATCGTATTTGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTCGATTACA
66 TTGGCATCGTATTTGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTCGATTACA
*
52109496 TGTAAGACCACGTCTGGGACTTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
52109524 TGTACGAGCT
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 156 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (129 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTATGTGTAAGACCATGTCTAGGATA
TTGGCATCGTATTTGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTCGATTACA
Found at i:52115210 original size:42 final size:43
Alignment explanation
Indices: 52115114--52115309 Score: 279
Period size: 43 Copynumber: 4.6 Consensus size: 43
52115104 TTTATTTGAA
*
52115114 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
52115157 AAATGCTGCTAAAGATCA-GTACCTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGATCATG-ACCTTTAGCGGCGCTTTTCCCAC
*
52115199 CAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
52115242 AAACGCCACTAAAGATCATGACCTTTAGCAGCTCTTTTCTCAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
*
52115285 AAACGCCGCTAAAAATCATGACCTT
1 AAACGCCGCTAAAGATCATGACCTT
52115310 GAAAAAAATT
Statistics
Matches: 136, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.28
43 98 0.72
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:52115219 original size:85 final size:86
Alignment explanation
Indices: 52115112--52115309 Score: 283
Period size: 85 Copynumber: 2.3 Consensus size: 86
52115102 CATTTATTTG
* * **
52115112 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCTGCTAAAGATCA-G
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCATG
*
52115176 TACCTTTAGCGGCGC-TTTCCC
66 -ACCTTTAGCAGCGCTTTTCCC
**
52115197 ACCAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCATG
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCATG
* *
52115262 ACCTTTAGCAGCTCTTTTCTC
66 ACCTTTAGCAGCGCTTTTCCC
*
52115283 AAAAACGCCGCTAAAAATCATGACCTT
1 AAAAACGCCGCTAAAGATCATGACCTT
52115310 GAAAAAAATT
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
85 69 0.70
86 30 0.30
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (86 bp):
AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCATG
ACCTTTAGCAGCGCTTTTCCC
Found at i:52116781 original size:15 final size:16
Alignment explanation
Indices: 52116755--52116785 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
52116745 TCTCTCTTGC
52116755 TTTTAGATCATATATA
1 TTTTAGATCATATATA
52116771 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
52116786 AGACAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:52119226 original size:43 final size:43
Alignment explanation
Indices: 52119142--52119408 Score: 340
Period size: 43 Copynumber: 6.2 Consensus size: 43
52119132 CTATATGTAG
*
52119142 CGCCGCTAAAGACCAGGACTTTTAGCGACGCTTATATAAAAAA
1 CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATATAAAAAA
* *
52119185 CGCCGC-AAAGACTAGGACTTATAGCGGCGCTTATATAAAAAA
1 CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATATAAAAAA
* * * *
52119227 CGCCTCTAAAGACCAGGACTTTTAGTGGCGCTTTTCTAAAAAA
1 CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATATAAAAAA
* *
52119270 CGCTGCTAAAGACCAGGACTTTTAGTGGCGCTTATAT-AAAAA
1 CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATATAAAAAA
* * * * *
52119312 CGCCGCTAAAGACCAGGACTTATAGTGGCGTTTTTTTCAACAAAA
1 CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATAT-AA-AAAA
* * *
52119357 CGCCGCTAAAGACCAGGACTTTTAGCGGCACTTTTTTAAAAAA
1 CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATATAAAAAA
*
52119400 GGCCGCTAA
1 CGCCGCTAA
52119409 TTTGCCCAGT
Statistics
Matches: 197, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
42 75 0.38
43 82 0.42
44 3 0.02
45 37 0.19
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTATATAAAAAA
Found at i:52119246 original size:85 final size:86
Alignment explanation
Indices: 52119142--52119408 Score: 358
Period size: 85 Copynumber: 3.1 Consensus size: 86
52119132 CTATATGTAG
* * * * *
52119142 CGCCGCTAAAGACCAGGACTTTTAGCGACGCTTATATAAAAAACGCCGC-AAAGACTAGGACTTA
1 CGCCGCTAAAGACCAGGACTTTTAGTGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACTTT
52119206 TAGCGGCGCTTATATAAAAAA
66 TAGCGGCGCTTATATAAAAAA
* * *
52119227 CGCCTCTAAAGACCAGGACTTTTAGTGGCGCTTTTCTAAAAAACGCTGCTAAAGACCAGGACTTT
1 CGCCGCTAAAGACCAGGACTTTTAGTGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACTTT
*
52119292 TAGTGGCGCTTATAT-AAAAA
66 TAGCGGCGCTTATATAAAAAA
* * *
52119312 CGCCGCTAAAGACCAGGACTTATAGTGGCGTTTTTTTCAACAAAACGCCGCTAAAGACCAGGACT
1 CGCCGCTAAAGACCAGGACTTTTAGTGGCGCTTTTAT-AA-AAAACGCCGCTAAAGACCAGGACT
* * *
52119377 TTTAGCGGCACTTTTTTAAAAAA
64 TTTAGCGGCGCTTATATAAAAAA
*
52119400 GGCCGCTAA
1 CGCCGCTAA
52119409 TTTGCCCAGT
Statistics
Matches: 159, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
85 81 0.51
86 29 0.18
87 36 0.23
88 13 0.08
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAGACCAGGACTTTTAGTGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACTTT
TAGCGGCGCTTATATAAAAAA
Found at i:52125326 original size:39 final size:38
Alignment explanation
Indices: 52125294--52125445 Score: 197
Period size: 39 Copynumber: 4.1 Consensus size: 38
52125284 TATGTAGGTT
52125294 GTTATGT-ACGTTATGT-G-AGTTATGTAAATTATGTAA
1 GTTATGTGA-GTTATGTAGTAGTTATGTAAATTATGTAA
*
52125330 GTTATGTGAGTTATGTAAGTTGTTATGTAAATTATGTAA
1 GTTATGTGAGTTATGT-AGTAGTTATGTAAATTATGTAA
*
52125369 GTTATGTGAGTTATGTAAGTTGTTATGTAAATTATGTAA
1 GTTATGTGAGTTATGT-AGTAGTTATGTAAATTATGTAA
* * *
52125408 GTTATATGAGTTATGTA--AGTTATGTAATTTATTTAA
1 GTTATGTGAGTTATGTAGTAGTTATGTAAATTATGTAA
52125444 GT
1 GT
52125446 AATGATCAAT
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
36 32 0.30
37 1 0.01
38 2 0.02
39 72 0.67
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (38 bp):
GTTATGTGAGTTATGTAGTAGTTATGTAAATTATGTAA
Found at i:52125355 original size:57 final size:56
Alignment explanation
Indices: 52125279--52125445 Score: 185
Period size: 57 Copynumber: 2.9 Consensus size: 56
52125269 ATGTATTAGT
* *
52125279 TAAGTTATGTAGGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTA-GTTATGTAAGTTATGTAAATTATGTAAGTTATG
* * * *
52125336 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGT-AGTTATGTAAGTTATGTAAATTATGTAA---GTTATG
* * * *
52125396 TAAATTATGTAAGTT-ATATG-AGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAGTTATGTAAGTTATGTAAATTATGTAAGT
52125446 AATGATCAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
54 2 0.02
57 67 0.72
58 1 0.01
59 4 0.04
60 19 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (56 bp):
TAAGTTATGTAAGTTGTTATGTAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
Found at i:52125434 original size:9 final size:9
Alignment explanation
Indices: 52125294--52125445 Score: 151
Period size: 9 Copynumber: 16.2 Consensus size: 9
52125284 TATGTAGGTT
*
52125294 GTTATGTAC
1 GTTATGTAA
*
52125303 GTTATGTGA
1 GTTATGTAA
52125312 GTTATGTAA
1 GTTATGTAA
*
52125321 ATTATGTAA
1 GTTATGTAA
*
52125330 GTTATGTGA
1 GTTATGTAA
52125339 GTTATGTAA
1 GTTATGTAA
52125348 GTTGTTATGTAA
1 ---GTTATGTAA
*
52125360 ATTATGTAA
1 GTTATGTAA
*
52125369 GTTATGTGA
1 GTTATGTAA
52125378 GTTATGTAA
1 GTTATGTAA
52125387 GTTGTTATGTAA
1 ---GTTATGTAA
*
52125399 ATTATGTAA
1 GTTATGTAA
* *
52125408 GTTATATGA
1 GTTATGTAA
52125417 GTTATGTAA
1 GTTATGTAA
52125426 GTTATGTAA
1 GTTATGTAA
* *
52125435 TTTATTTAA
1 GTTATGTAA
52125444 GT
1 GT
52125446 AATGATCAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
9 99 0.85
12 18 0.15
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
GTTATGTAA
Found at i:52125434 original size:48 final size:48
Alignment explanation
Indices: 52125279--52125434 Score: 179
Period size: 48 Copynumber: 3.2 Consensus size: 48
52125269 ATGTATTAGT
* * * *
52125279 TAAGTTATGTAGGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
52125327 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * *
52125375 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
52125423 TAAGTTATGTAA
1 TAAGTTATGTAA
52125435 TTTATTTAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:52126030 original size:23 final size:23
Alignment explanation
Indices: 52126004--52126053 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
52125994 GTTCAAGTTT
52126004 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
52126027 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
52126050 ATTT
1 ATTT
52126054 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:52128614 original size:19 final size:20
Alignment explanation
Indices: 52128575--52128626 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
52128565 TTTCGATTTT
*
52128575 GATTCGGGGAAATATTTAGG
1 GATTCGGGGAAATAGTTAGG
52128595 GATTCGGGGAAA-AGTTAGG
1 GATTCGGGGAAATAGTTAGG
*
52128614 GATTTGGGGAAAT
1 GATTCGGGGAAAT
52128627 TTGGGTGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.31, C:0.04, G:0.38, T:0.27
Consensus pattern (20 bp):
GATTCGGGGAAATAGTTAGG
Found at i:52129741 original size:14 final size:15
Alignment explanation
Indices: 52129709--52129745 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
52129699 GAAATTTATT
52129709 TTTAGGGTTTACAAA
1 TTTAGGGTTTACAAA
*
52129724 TTTAGGGTTTA-TAA
1 TTTAGGGTTTACAAA
52129738 TTTAGGGT
1 TTTAGGGT
52129746 ATAAGGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTACAAA
Found at i:52129794 original size:37 final size:36
Alignment explanation
Indices: 52129708--52129796 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 36
52129698 TGAAATTTAT
* *
52129708 TTTTAGGGTTTACAAATTTAGGGTTTATAATTTAGGG
1 TTTTAGGGTTTA-AAATTTAGGGTTTAGAATTTAGAG
* * * ** *
52129745 TATAAGGTTTTAAAGATTTAGTTTTTAGAGTTTAGAG
1 TTTTAGGGTTTAAA-ATTTAGGGTTTAGAATTTAGAG
52129782 TTTTAGGGTTTAAAA
1 TTTTAGGGTTTAAAA
52129797 GGTTTATAGG
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
36 3 0.08
37 37 0.93
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.46
Consensus pattern (36 bp):
TTTTAGGGTTTAAAATTTAGGGTTTAGAATTTAGAG
Found at i:52129949 original size:29 final size:29
Alignment explanation
Indices: 52129916--52129973 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
52129906 TTAGAGTTTA
*
52129916 GATCATGGGTTATGATTTAGGGGTTAGGC
1 GATCATGGGTTATGATTTAAGGGTTAGGC
52129945 GATCATGGGTTATGATTTAAGGGTTAGGC
1 GATCATGGGTTATGATTTAAGGGTTAGGC
52129974 TTGTAACACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.36, T:0.34
Consensus pattern (29 bp):
GATCATGGGTTATGATTTAAGGGTTAGGC
Found at i:52130928 original size:27 final size:27
Alignment explanation
Indices: 52130893--52131301 Score: 714
Period size: 27 Copynumber: 15.1 Consensus size: 27
52130883 AGCATGGCTG
* * * *
52130893 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCATAGCCA
* *
52130919 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCATAGCCA
* *
52130947 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCATAGCCA
52130974 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131001 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131028 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131055 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131082 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131109 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131136 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131163 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131190 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131217 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131244 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131271 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCATAGCCA
52131298 CCAG
1 CCAG
52131302 GACGCTTCCT
Statistics
Matches: 371, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
26 8 0.02
27 345 0.93
28 18 0.05
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCATAGCCA
Found at i:52135642 original size:40 final size:40
Alignment explanation
Indices: 52135587--52135693 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
52135577 ATGATAACCA
52135587 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-TCCG
* * *
52135627 GGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG
*
52135667 GGCTAAGTCCCGAAGGCATTTGAGCTA
1 GGCTAAGTCCCGAAGGCATTTGTGCTA
52135694 TATCCGGCTA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 59 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG
Found at i:52139654 original size:27 final size:26
Alignment explanation
Indices: 52139619--52139730 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
52139609 AGCATGGCTG
* *
52139619 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
52139645 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
52139673 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
52139700 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
52139727 CCAG
1 CCAG
52139731 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52139711 original size:54 final size:54
Alignment explanation
Indices: 52139619--52139730 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
52139609 AGCATGGCTG
* *
52139619 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
52139673 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
52139727 CCAG
1 CCAG
52139731 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:52142239 original size:41 final size:41
Alignment explanation
Indices: 52142194--52142349 Score: 215
Period size: 41 Copynumber: 3.8 Consensus size: 41
52142184 GGACCTAAAG
* *
52142194 CGCCACTATAT-CTCAGTTTTTTGCGGCGTTTTTCATGAAAA
1 CGCCACTAT-TGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
*
52142235 CGCCACTATTACTCAGTTTTTAGCGGCGTTTTGCATGAAAA
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
* * ** *
52142276 CGCCGCTGTTGCTCAGTTTTTAATGGCGTTTTGCACGAAAA
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
*
52142317 TGCCACTATTGCTCAGTTTTTAGCGGCGTTTTG
1 CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTG
52142350 TTTCAAACGC
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 100 0.99
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (41 bp):
CGCCACTATTGCTCAGTTTTTAGCGGCGTTTTGCATGAAAA
Found at i:52143861 original size:19 final size:17
Alignment explanation
Indices: 52143829--52143868 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
52143819 TATTATTTAA
52143829 TTTTAAATTTTTTTCAT
1 TTTTAAATTTTTTTCAT
*
52143846 TTTTAACATATTTTTTTAT
1 TTTTAA-AT-TTTTTTCAT
52143865 TTTT
1 TTTT
52143869 TTCTTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTAAATTTTTTTCAT
Found at i:52144000 original size:22 final size:22
Alignment explanation
Indices: 52143975--52144016 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52143965 ATATTAAATA
* *
52143975 TTTAAATTTTTTATTTTTTATT
1 TTTAAAATTTTTAATTTTTATT
52143997 TTTAAAATTTTTAATTTTTA
1 TTTAAAATTTTTAATTTTTA
52144017 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTAAAATTTTTAATTTTTATT
Found at i:52144007 original size:15 final size:15
Alignment explanation
Indices: 52143968--52144023 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
52143958 ATATTAAATA
*
52143968 TTAAATATTTAAATTT
1 TTAAAT-TTTTAATTT
* *
52143984 TT-TATTTTTTATTT
1 TTAAATTTTTAATTT
52143998 TTAAAATTTTTAATTT
1 TT-AAATTTTTAATTT
52144014 TTAAATTTTT
1 TTAAATTTTT
52144024 TTGAAGATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 9 0.27
15 10 0.30
16 14 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:52144022 original size:29 final size:30
Alignment explanation
Indices: 52143995--52144049 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
52143985 TTATTTTTTA
52143995 TTTTT-AA-AATTTT-TAATTTTTAAA-TT
1 TTTTTGAAGAATTTTATAATTTTTAAATTT
*
52144021 TTTTTGAAGATTTTTATAATTTTTAAATT
1 TTTTTGAAGAATTTTATAATTTTTAAATT
52144050 AACATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 2 0.08
28 5 0.21
29 11 0.46
30 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (30 bp):
TTTTTGAAGAATTTTATAATTTTTAAATTT
Found at i:52144023 original size:8 final size:8
Alignment explanation
Indices: 52143968--52144049 Score: 62
Period size: 7 Copynumber: 9.9 Consensus size: 8
52143958 ATATTAAATA
*
52143968 TTAAATAT
1 TTAAATTT
52143976 TTAAATTT
1 TTAAATTT
*
52143984 TT-TATTT
1 TTAAATTT
*
52143991 TT-TATTT
1 TTAAATTT
52143998 TTAAAATTT
1 TT-AAATTT
52144007 TT-AATTT
1 TTAAATTT
52144014 TTAAATTTTT
1 TTAAA--TTT
52144024 TTGAAGATTT
1 TT-AA-ATTT
52144034 TTATAATTT
1 TTA-AATTT
52144043 TTAAATT
1 TTAAATT
52144050 AACATATAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
7 20 0.32
8 15 0.24
9 14 0.22
10 11 0.17
11 2 0.03
12 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:52144810 original size:21 final size:21
Alignment explanation
Indices: 52144796--52144842 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
52144786 CCTAACACTT
52144796 AACCCCTAACCCCTAAGCCTTA
1 AACCCC-AACCCCTAAGCCTTA
* * *
52144818 AACCCCAACCCTTAAACCATA
1 AACCCCAACCCCTAAGCCTTA
52144839 AACC
1 AACC
52144843 ATAATCCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.38, C:0.45, G:0.02, T:0.15
Consensus pattern (21 bp):
AACCCCAACCCCTAAGCCTTA
Found at i:52144820 original size:56 final size:56
Alignment explanation
Indices: 52144715--52144820 Score: 122
Period size: 56 Copynumber: 1.9 Consensus size: 56
52144705 CATTAATTAA
* ** * * *
52144715 TCTAAGCCTTAAACTCCTAACCCCTACCCCCTAAACCCTAAATCATAAACATAATC
1 TCTAAACCTTAAAAACCTAACACCTAACCCCTAAACCCTAAACCATAAACATAATC
* * * *
52144771 TCTAAACCTTAAAAACCTAACACTTAACCCCTAACCCCTAAGCCTTAAAC
1 TCTAAACCTTAAAAACCTAACACCTAACCCCTAAACCCTAAACCATAAAC
52144821 CCCAACCCTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
56 40 1.00
ACGTcount: A:0.39, C:0.37, G:0.02, T:0.23
Consensus pattern (56 bp):
TCTAAACCTTAAAAACCTAACACCTAACCCCTAAACCCTAAACCATAAACATAATC
Found at i:52144863 original size:14 final size:14
Alignment explanation
Indices: 52144795--52144860 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
52144785 ACCTAACACT
* *
52144795 TAACCCCTAACCCC
1 TAACCCATAAACCC
* *
52144809 TAAGCCTTAAACCC
1 TAACCCATAAACCC
* * *
52144823 CAACCCTTAAACCA
1 TAACCCATAAACCC
* *
52144837 TAAACCATAATCCC
1 TAACCCATAAACCC
52144851 TAACCCATAA
1 TAACCCATAA
52144861 TCCATAAACC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.18
Consensus pattern (14 bp):
TAACCCATAAACCC
Found at i:52145106 original size:38 final size:38
Alignment explanation
Indices: 52145061--52145133 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
52145051 CCATAAATCC
* * *
52145061 TAAAACATAAACCTTGAACCATGAACCCCTAACCCGTA
1 TAAAACATAAACCCTGAACCATAAACCACTAACCCGTA
*
52145099 TAAAACATAAACCCTGAACCCTAAACCACTAACCC
1 TAAAACATAAACCCTGAACCATAAACCACTAACCC
52145134 TTAAACCCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.44, C:0.34, G:0.05, T:0.16
Consensus pattern (38 bp):
TAAAACATAAACCCTGAACCATAAACCACTAACCCGTA
Found at i:52145125 original size:14 final size:13
Alignment explanation
Indices: 52145106--52145153 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 13
52145096 GTATAAAACA
52145106 TAAACCCTGAACCC
1 TAAACCCT-AACCC
52145120 TAAACCACTAACCC
1 TAAACC-CTAACCC
52145134 TTAAACCCTAACACC
1 -TAAACCCTAAC-CC
52145149 TAAAC
1 TAAAC
52145154 GTAAAACCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 21 0.68
15 10 0.32
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.17
Consensus pattern (13 bp):
TAAACCCTAACCC
Found at i:52145205 original size:15 final size:15
Alignment explanation
Indices: 52145181--52145214 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52145171 AAACCACCTT
*
52145181 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
52145195 TAAACCCATAATCCA
1 TAAACCCATAATCCA
52145210 TAAAC
1 TAAAC
52145215 ATTAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:52145570 original size:40 final size:41
Alignment explanation
Indices: 52145526--52145603 Score: 99
Period size: 40 Copynumber: 1.9 Consensus size: 41
52145516 AAAAAAAGTC
*
52145526 GCTAAAGATCG-AGCAT-TAGCGGCGTTT-TTCAAAAAGCGCT
1 GCTAAAGAT-GTA-CATATAGCGGCGTTTCTTAAAAAAGCGCT
*
52145566 GCTAAAGGTGTACATATAGCGGCGTTTCTTAAAAAAGC
1 GCTAAAGATGTACATATAGCGGCGTTTCTTAAAAAAGC
52145604 ACCCCTAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 4 0.12
40 20 0.61
41 9 0.27
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (41 bp):
GCTAAAGATGTACATATAGCGGCGTTTCTTAAAAAAGCGCT
Found at i:52145800 original size:40 final size:40
Alignment explanation
Indices: 52145702--52145824 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
52145692 CAGCGTTTTT
* * * * *
52145702 TAAAGGTGTACATATAGCGACGTTTTTCAAAAAGCGCCGT
1 TAAAAGTGTACTTATAGCGGCGTTTTTTAAAAAGCGCCGC
52145742 TAAAAGTGTACTTATAGCGGCGTTTTTTAAAAAGCGCCGC
1 TAAAAGTGTACTTATAGCGGCGTTTTTTAAAAAGCGCCGC
* * *
52145782 TAATACT-TGATCTT-TAGCGGC-ATTTTTAAAAAGCGCCGC
1 TAAAAGTGT-A-CTTATAGCGGCGTTTTTTAAAAAGCGCCGC
52145821 TAAA
1 TAAA
52145825 GCCACTAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.29
40 48 0.67
41 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (40 bp):
TAAAAGTGTACTTATAGCGGCGTTTTTTAAAAAGCGCCGC
Found at i:52145981 original size:40 final size:40
Alignment explanation
Indices: 52145904--52145987 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
52145894 GTACATATAG
* *
52145904 CGGCGTTTTTAAAAAAGTGCCGCTAATACTTGATCTTTAA
1 CGGCATTTTTAAAAAAGTGCCGCTAATACTTCATCTTTAA
* * *
52145944 CGGCATTTTTTAAAAAGTGCCGCTAATGC-TCATTCTTTAG
1 CGGCATTTTTAAAAAAGTGCCGCTAATACTTCA-TCTTTAA
52145984 CGGC
1 CGGC
52145988 GCTTTTCATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (40 bp):
CGGCATTTTTAAAAAAGTGCCGCTAATACTTCATCTTTAA
Found at i:52148424 original size:55 final size:54
Alignment explanation
Indices: 52148316--52148523 Score: 224
Period size: 55 Copynumber: 3.8 Consensus size: 54
52148306 ATTAGGGTTT
* * *
52148316 AAGGATACCATGTAAGACCATGCCAAGGCATGTCAATTGGTAACGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * * *
52148371 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * ** * *
52148426 AAAGG-TCCCATGTAAGACCGTGCCAAGGTATGGCATTGGTGAGTTC-ATAAGTC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* *
52148479 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
52148524 TCAAAAGGAT
Statistics
Matches: 125, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
52 4 0.03
53 42 0.34
54 8 0.06
55 67 0.54
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:52148522 original size:108 final size:110
Alignment explanation
Indices: 52148323--52148523 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
52148313 TTTAAGGATA
* *
52148323 CCATGTAAGACCATGCCAAGGCATGTCAATTGGTAACGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAACCATGTAAGA
*
52148388 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * * *
52148433 CCATGTAAGACCGTGCCAAGGTATGGC-ATTGGTGA-G-TTCATAAGTCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTC-TAAGGCAAGGAAACCATGTAAG
*
52148495 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
52148524 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:52148665 original size:23 final size:24
Alignment explanation
Indices: 52148639--52148686 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
52148629 AAGGTAAGGT
*
52148639 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
*
52148662 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATACTAAA
52148686 A
1 A
52148687 GAGCAAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:52148783 original size:16 final size:16
Alignment explanation
Indices: 52148762--52148792 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52148752 ATAAATTTGA
52148762 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
52148778 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
52148793 AAGTGAAGGA
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:52157886 original size:13 final size:13
Alignment explanation
Indices: 52157870--52157912 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
52157860 GAGAGATTTT
52157870 AGGGATTTGGCAG
1 AGGGATTTGGCAG
*
52157883 AGGGAATTGG-AG
1 AGGGATTTGGCAG
52157895 AGGGGATTTCGGCAG
1 A-GGGATTT-GGCAG
52157910 AGG
1 AGG
52157913 AGTATTAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 3 0.12
13 15 0.60
14 4 0.16
15 3 0.12
ACGTcount: A:0.26, C:0.07, G:0.49, T:0.19
Consensus pattern (13 bp):
AGGGATTTGGCAG
Found at i:52159118 original size:25 final size:25
Alignment explanation
Indices: 52159089--52159136 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
52159079 TTATAATATG
** *
52159089 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
52159114 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
52159137 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:52159295 original size:25 final size:25
Alignment explanation
Indices: 52159267--52159361 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
52159257 GAGGAAGTGC
*
52159267 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
52159292 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * * *
52159317 AAAAGGGCTTTACCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
52159342 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
52159362 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:52159374 original size:24 final size:23
Alignment explanation
Indices: 52159266--52159388 Score: 102
Period size: 25 Copynumber: 5.0 Consensus size: 23
52159256 GGAGGAAGTG
* *
52159266 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAG-TTAT
*
52159290 CGAAAAGGGCTTTGCCCCAGTTTAC
1 C-AAAAGGGCTTTGCCCCAG-TTAT
* *
52159315 CGAAAAGGGCTTTACCCCAATTTAT
1 C-AAAAGGGCTTTGCCCC-AGTTAT
52159340 CAAAAAGGGCTTTGCCCCAGTTAT
1 C-AAAAGGGCTTTGCCCCAGTTAT
* **
52159364 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAG-GGCTTTGCC-CCAGTTAT
52159389 ATGATAAAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.06
24 13 0.15
25 66 0.78
26 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CAAAAGGGCTTTGCCCCAGTTAT
Found at i:52159618 original size:31 final size:31
Alignment explanation
Indices: 52159583--52159661 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
52159573 CGTTTGCAGT
* *
52159583 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGACATGAATAACGA
* *
52159614 AAAGGCTTCGGCCCAGTGACATGGATAACGT
1 AAAGGCTTCGGCCCAGTGACATGAATAACGA
52159645 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
52159662 ATCTGCTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGACATGAATAACGA
Found at i:52162723 original size:40 final size:40
Alignment explanation
Indices: 52162670--52162748 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
52162660 CTTAGAGCCA
* * *
52162670 CATAAAGCTGAAGCTAT-TCGAATTTGCACACTAAGTGCTG
1 CATAAAGCCGAAGCTATCTCGAA-ATGCACACTAAATGCTG
*
52162710 CATATAGCCGAAGCTATCTCGAAATGCACACTAAATGCT
1 CATAAAGCCGAAGCTATCTCGAAATGCACACTAAATGCT
52162749 AAATATAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 29 0.85
41 5 0.15
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (40 bp):
CATAAAGCCGAAGCTATCTCGAAATGCACACTAAATGCTG
Found at i:52162755 original size:40 final size:40
Alignment explanation
Indices: 52162679--52162756 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
52162669 ACATAAAGCT
* * **
52162679 GAAGCTATTCGAATTTGCACACTAAGTGCTGCATATAGCC
1 GAAGCTATTCGAATATGCACACTAAATGCTAAATATAGCC
52162719 GAAGCTATCTCGAA-ATGCACACTAAATGCTAAATATAG
1 GAAGCTAT-TCGAATATGCACACTAAATGCTAAATATAG
52162757 TAGATTTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 28 0.85
41 5 0.15
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (40 bp):
GAAGCTATTCGAATATGCACACTAAATGCTAAATATAGCC
Found at i:52166104 original size:40 final size:40
Alignment explanation
Indices: 52166049--52166269 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
52166039 TATTCGGATG
52166049 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACT
*
52166089 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACT
* *
52166129 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACT
** *
52166169 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACT
** * *
52166209 ATATCCGGGCTAAAACCCGAAGGCATTTGTGTGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACT
*
52166249 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
52166270 ATACTTGGGT
Statistics
Matches: 166, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACT
Found at i:52179953 original size:40 final size:40
Alignment explanation
Indices: 52179894--52180121 Score: 393
Period size: 40 Copynumber: 5.7 Consensus size: 40
52179884 GAGCATTGGA
*
52179894 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52179934 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52179974 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52180014 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52180054 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52180094 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
52180122 ATGTGTTTGC
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:52189340 original size:45 final size:45
Alignment explanation
Indices: 52189289--52189374 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
52189279 ATGTAACCTA
* * *
52189289 AACTCATTGAA-TTGTGGTTTGAGTTCATGATATATGTGACATCCG
1 AACTCATT-AAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
*
52189334 AACTCATTAAGTTCTGGTCTGAGTTCGTAATATATGTGACA
1 AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACA
52189375 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (45 bp):
AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
Found at i:52193858 original size:19 final size:20
Alignment explanation
Indices: 52193827--52193865 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
52193817 CGTCAGTTGA
52193827 TTGGAAGAAAGAAGAAAAAT
1 TTGGAAGAAAGAAGAAAAAT
*
52193847 TTGGAA-AAAGAATAAAAAT
1 TTGGAAGAAAGAAGAAAAAT
52193866 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (20 bp):
TTGGAAGAAAGAAGAAAAAT
Found at i:52195069 original size:26 final size:27
Alignment explanation
Indices: 52195040--52195092 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
52195030 CATAACGTAG
52195040 AAAAGG-ATTTAAAATGAA-TAATATAT
1 AAAAGGAATTTAAAAT-AACTAATATAT
52195066 AAAAGGAAATTTAAAATAACTAATATA
1 AAAAGG-AATTTAAAATAACTAATATA
52195093 CAAACAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 2 0.08
28 16 0.67
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAAGGAATTTAAAATAACTAATATAT
Found at i:52196110 original size:16 final size:16
Alignment explanation
Indices: 52196085--52196123 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
52196075 AGTTTCATAT
*
52196085 AAAAAT-TAAAATAGA
1 AAAAATATAAAATAAA
52196100 AAAAATATAAAATAAA
1 AAAAATATAAAATAAA
52196116 ATAAAATA
1 A-AAAATA
52196124 AACCCGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATATAAAATAAA
Found at i:52196913 original size:49 final size:49
Alignment explanation
Indices: 52196765--52196980 Score: 160
Period size: 49 Copynumber: 4.5 Consensus size: 49
52196755 TATGTGTACT
* * * * *
52196765 AGTGTAAGACATGCCTGAGACAT-GCATCGGCCAC-AT-TATG-GAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
* * * * * **
52196810 AGTGTAAGACATGTCTGGGATAT-ACATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
* *
52196858 AATGTAAGACGTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGATAGATGAGAGCC
* * * * * **
52196907 AGTGTAAGACCTGTCTAGGACATGGCATCAACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
*
52196954 AGTGTAATACCATGTCTGGGACATGGC
1 AGTGTAAGA-CATGTCTGGGACATGGC
52196981 GTCAGCATCT
Statistics
Matches: 136, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
45 29 0.21
46 2 0.01
47 18 0.13
48 38 0.28
49 48 0.35
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAGAGCC
Found at i:52198933 original size:22 final size:22
Alignment explanation
Indices: 52198908--52198954 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
52198898 CACATGGGCT
*
52198908 TGTCCCTATGTCCACACAGGCG
1 TGTCCCTATGTCCACACAAGCG
*
52198930 TGTCCTTATGTCCACACAAGCG
1 TGTCCCTATGTCCACACAAGCG
52198952 TGT
1 TGT
52198955 GACCCTATTT
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:0.19, C:0.32, G:0.21, T:0.28
Consensus pattern (22 bp):
TGTCCCTATGTCCACACAAGCG
Found at i:52200087 original size:28 final size:29
Alignment explanation
Indices: 52200027--52200087 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
52200017 TTACATGGAC
*
52200027 TGATTATTTAACTAATAAACGAAGTACAA
1 TGATTATTTAACTAAAAAACGAAGTACAA
*
52200056 -GATTATTTAACTATAAAAAC-AA-TATAA
1 TGATTATTTAACTA-AAAAACGAAGTACAA
52200083 TGATT
1 TGATT
52200088 TTGTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 4 0.14
28 19 0.68
29 5 0.18
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (29 bp):
TGATTATTTAACTAAAAAACGAAGTACAA
Found at i:52200110 original size:21 final size:21
Alignment explanation
Indices: 52200080--52200122 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
52200070 AAAAACAATA
52200080 TAATGATTTTG-TATTTTAACT
1 TAATGATTTTGAT-TTTTAACT
*
52200101 TAATGGTTTTGATTTTTAACT
1 TAATGATTTTGATTTTTAACT
52200122 T
1 T
52200123 TAAAAAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (21 bp):
TAATGATTTTGATTTTTAACT
Found at i:52202069 original size:22 final size:23
Alignment explanation
Indices: 52202022--52202069 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
52202012 TTTATCTTCG
* **
52202022 TTAATTAATTAGTTTGAGTTTTT
1 TTAAGTAATTAGTTTGAGTTAAT
52202045 TTAAGTAA-TAGTTTGAGTTAAT
1 TTAAGTAATTAGTTTGAGTTAAT
52202067 TTA
1 TTA
52202070 GTTTTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (23 bp):
TTAAGTAATTAGTTTGAGTTAAT
Found at i:52204125 original size:43 final size:40
Alignment explanation
Indices: 52204044--52204164 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 40
52204034 GTTAAGATTA
** *
52204044 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
1 CGTGTAAGACCATAT-TGGGATATGGCATTGATATGAGA-TC
*
52204086 CGTGTAAGACCATAGTTGGGTTATTGGCATTGATATGAGATC
1 CGTGTAAGACCATA-TTGGGATA-TGGCATTGATATGAGATC
* * *
52204128 CTATGTAAGACTATATTTGGGATATGGCATTGGTATG
1 C-GTGTAAGACCATA-TTGGGATATGGCATTGATATG
52204165 GTACTATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 34 0.51
43 33 0.49
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (40 bp):
CGTGTAAGACCATATTGGGATATGGCATTGATATGAGATC
Found at i:52205045 original size:40 final size:42
Alignment explanation
Indices: 52205001--52205080 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
52204991 TATTTTTGCC
* *
52205001 CACATGGGTAG-AC-ATGGGTGTGT-GTCTAGGCCGTGTGTGA
1 CACATGGCTAGCACTATGGGTGTGTAATC-AGGCCGTGTGTGA
*
52205041 CACATGGCTAGCCCTATGGGTGTGTAATCAGGCCGTGTGT
1 CACATGGCTAGCACTATGGGTGTGTAATCAGGCCGTGTGT
52205081 CCCTTGCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.29
41 1 0.03
42 21 0.62
43 2 0.06
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (42 bp):
CACATGGCTAGCACTATGGGTGTGTAATCAGGCCGTGTGTGA
Found at i:52211058 original size:21 final size:21
Alignment explanation
Indices: 52211032--52211077 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
52211022 TTACCCCAAG
52211032 GAAGTCGATTGATCCATCTCA
1 GAAGTCGATTGATCCATCTCA
52211053 GAAGTCGATTGATCCATCTCA
1 GAAGTCGATTGATCCATCTCA
52211074 GAAG
1 GAAG
52211078 CCGAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
GAAGTCGATTGATCCATCTCA
Found at i:52211091 original size:21 final size:21
Alignment explanation
Indices: 52211032--52211088 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
52211022 TTACCCCAAG
* *
52211032 GAAGTCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
* *
52211053 GAAGTCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
52211074 GAAGCCGAATTCATC
1 GAAGCCG-ATTCATC
52211089 ATCAAGACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (21 bp):
GAAGCCGATTCATCCATCTCA
Found at i:52213752 original size:43 final size:42
Alignment explanation
Indices: 52213663--52213774 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
52213653 TGAGATTACG
* * * *
52213663 TGTAAGACCATA-TCTAGGATATGACATCGATATGAGACTTCG
1 TGTAAGACCATAGT-TGGGATATGGCATCGATATGAGACTCCA
*
52213705 TGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATAGTTGGGATA-TGGCATCGATATGAGACT-CCA
*
52213748 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATAGTTGGGATATGGCAT
52213775 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGTTGGGATATGGCATCGATATGAGACTCCA
Found at i:52216303 original size:52 final size:52
Alignment explanation
Indices: 52216246--52217081 Score: 1645
Period size: 52 Copynumber: 16.1 Consensus size: 52
52216236 TGATACAAAT
52216246 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216298 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216350 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216402 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216454 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216506 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216558 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216610 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216662 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216714 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216766 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216818 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216870 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216922 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52216974 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
* * *
52217026 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
52217078 TGAT
1 TGAT
52217082 GGGAATTTCA
Statistics
Matches: 781, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 781 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCTA
Found at i:52217961 original size:43 final size:43
Alignment explanation
Indices: 52217912--52217999 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
52217902 AGATATATGA
*
52217912 GTCTATTTTCAGGGAAAATTAACGGAACTTGATTTGGAGTTTC
1 GTCTATTTTCAGGGAAAATTAACGAAACTTGATTTGGAGTTTC
52217955 GTCTATTTTCAGGGAAAATTAACGAAACTTGATTTGGAGTTTC
1 GTCTATTTTCAGGGAAAATTAACGAAACTTGATTTGGAGTTTC
52217998 GT
1 GT
52218000 AGCTCCAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (43 bp):
GTCTATTTTCAGGGAAAATTAACGAAACTTGATTTGGAGTTTC
Found at i:52224143 original size:40 final size:40
Alignment explanation
Indices: 52224088--52225065 Score: 1476
Period size: 40 Copynumber: 24.5 Consensus size: 40
52224078 AGTGACTAGT
52224088 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
52224128 TCCGGGCTAAGTCCCGAAGGCATTTGTTCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
52224168 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
52224208 TCCGGGCTAAGTTCTGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224248 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224288 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224328 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224368 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224408 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224448 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224488 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224528 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224568 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224608 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224648 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224688 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224728 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224768 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224808 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224848 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224888 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
52224928 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
52224968 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * *
52225008 TTCGGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
* *
52225047 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
52225066 TACTTGGTTT
Statistics
Matches: 843, Mismatches: 94, Indels: 4
0.90 0.10 0.00
Matches are distributed among these distances:
38 15 0.02
39 13 0.02
40 815 0.97
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:52224227 original size:80 final size:80
Alignment explanation
Indices: 52224088--52225065 Score: 1773
Period size: 80 Copynumber: 12.2 Consensus size: 80
52224078 AGTGACTAGT
* * *
52224088 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
* *
52224153 GTTCGAGTTACTATA
66 GTGCGAGCTACTATA
* *
52224168 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCTGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224233 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224248 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224313 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224328 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224393 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224408 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224473 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224488 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224553 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224568 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224633 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224648 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224713 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224728 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224793 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224808 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224873 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
52224888 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
52224953 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
* * * * * *
52224968 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATTCGGGCTATGTCCCGAAGGCA-TT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
* *
52225032 GAGCAAG-TAGCTATA
66 GTGCGAGCTA-CTATA
* *
52225047 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
52225066 TACTTGGTTT
Statistics
Matches: 878, Mismatches: 19, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
78 16 0.02
79 15 0.02
80 847 0.96
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTTCCGAAGGCATTT
GTGCGAGCTACTATA
Found at i:52233979 original size:59 final size:59
Alignment explanation
Indices: 52233912--52234028 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
52233902 CGGTCGCCAG
* *
52233912 TGTTGGAAATGATCGTTGAGACAGAACGGAGTGTCAGTATTGTGGTAAATGGCACTCGC
1 TGTTGGAAATGATCCTCGAGACAGAACGGAGTGTCAGTATTGTGGTAAATGGCACTCGC
52233971 TGTTGGAAATGATCCTCGAGACAGAACGGAGTGTCAGTATTGTGGTAAATGGCACTCG
1 TGTTGGAAATGATCCTCGAGACAGAACGGAGTGTCAGTATTGTGGTAAATGGCACTCG
52234029 GGGAGTTGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (59 bp):
TGTTGGAAATGATCCTCGAGACAGAACGGAGTGTCAGTATTGTGGTAAATGGCACTCGC
Found at i:52238455 original size:40 final size:40
Alignment explanation
Indices: 52238400--52238696 Score: 377
Period size: 40 Copynumber: 7.5 Consensus size: 40
52238390 CGGATGATAA
* ** * *
52238400 CCGGGCTAAGCCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
52238440 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52238480 CCGGGCTAAGTCCCGAAGGCATTTGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52238520 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
52238560 CCGGGCTAAGTTCTGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52238600 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
52238640 CCCGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
52238679 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
52238697 TACTTGGCTT
Statistics
Matches: 227, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
38 15 0.07
39 15 0.07
40 197 0.87
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52240174 original size:26 final size:26
Alignment explanation
Indices: 52240145--52240252 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
52240135 TGATACAAAT
52240145 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
52240171 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
52240197 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52240223 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52240249 TGAT
1 TGAT
52240253 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52250206 original size:13 final size:13
Alignment explanation
Indices: 52250183--52250217 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
52250173 GTGTTATTTG
52250183 GTATGATATTGATT
1 GTAT-ATATTGATT
52250197 GTATATATTGATT
1 GTATATATTGATT
52250210 GTATATAT
1 GTATATAT
52250218 AGCATGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (13 bp):
GTATATATTGATT
Found at i:52255846 original size:21 final size:18
Alignment explanation
Indices: 52255820--52255861 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
52255810 ACGATTCTAG
52255820 TTAAAATTCAATTTTGTCAAT
1 TTAAAATTC-ATTTT-TC-AT
52255841 TTAAAATTCATTTTTCAT
1 TTAAAATTCATTTTTCAT
52255859 TTA
1 TTA
52255862 GATTGGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 5 0.24
21 9 0.43
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (18 bp):
TTAAAATTCATTTTTCAT
Found at i:52259043 original size:42 final size:43
Alignment explanation
Indices: 52258957--52259046 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
52258947 TAGAAATCTG
* * *
52258957 AGTTCGTGATATATGTGAGAATCTGAACTTGTTGAGTGGTCCA
1 AGTTCGTGATATATGTGAGAATCTCAACTTGTTAAGAGGTCCA
* *
52259000 AGTTCGTGATCTATGTG-GCAT-TCAAGCTTGTTAAGAGGTCCA
1 AGTTCGTGATATATGTGAGAATCTCAA-CTTGTTAAGAGGTCCA
52259042 AGTTC
1 AGTTC
52259047 ATTATGGATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.07
42 22 0.54
43 16 0.39
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
AGTTCGTGATATATGTGAGAATCTCAACTTGTTAAGAGGTCCA
Found at i:52264904 original size:6 final size:6
Alignment explanation
Indices: 52264874--52265010 Score: 93
Period size: 6 Copynumber: 22.3 Consensus size: 6
52264864 AAGAAACATT
* * * * *
52264874 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAAA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * *
52264923 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
52264972 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
52265011 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 22
0.70 0.14 0.15
Matches are distributed among these distances:
5 5 0.05
6 84 0.84
7 8 0.08
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:52264966 original size:31 final size:31
Alignment explanation
Indices: 52264919--52265010 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
52264909 AATTCGGTGA
52264919 CAGAATCA-G-AATCAGAATCAGAATCAGAAT
1 CAGAATCAGGTAA-CAGAATCAGAATCAGAAT
* * *
52264949 CAGAATTAGGTGACAGAATTAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAATCAGAAT
* *
52264980 CAGTATCAGGTAACAGAATCAAAATCAGAAT
1 CAGAATCAGGTAACAGAATCAGAATCAGAAT
52265011 GTGAATGCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
30 7 0.13
31 44 0.85
32 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGGTAACAGAATCAGAATCAGAAT
Found at i:52264976 original size:43 final size:43
Alignment explanation
Indices: 52264876--52264988 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
52264866 GAAACATTAT
* * * *
52264876 CAGAACTAGAATCAAAATAAGAATCAGAATCAAAATTCGGTGA
1 CAGAATTAGAATCAGAATCAGAATCAGAATCAAAATTAGGTGA
* *
52264919 CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATTAGAATCAGAATCAGAATCAGAATCAAAATTAGGTGA
*
52264962 CAGAATTAGAATCAGAATCAGTATCAG
1 CAGAATTAGAATCAGAATCAGAATCAG
52264989 GTAACAGAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (43 bp):
CAGAATTAGAATCAGAATCAGAATCAGAATCAAAATTAGGTGA
Found at i:52265177 original size:27 final size:26
Alignment explanation
Indices: 52265129--52265188 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
52265119 GCGAAGCTGC
* *
52265129 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
52265156 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
52265182 CAGATAT
1 CAGATAT
52265189 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:52265275 original size:27 final size:26
Alignment explanation
Indices: 52265227--52265286 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
52265217 GCGAGGCTGC
* *
52265227 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
52265254 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
52265280 CAGATAT
1 CAGATAT
52265287 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:52265282 original size:98 final size:98
Alignment explanation
Indices: 52265113--52265372 Score: 486
Period size: 98 Copynumber: 2.7 Consensus size: 98
52265103 CACCATAGAA
*
52265113 ATTGCAGCGAAGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
52265178 AAAACAGATATATATATGTGGCGAAGCCATCAG
66 AAAACAGATATATATATGTGGCGAAGCCATCAG
52265211 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
52265276 AAAACAGATATATATATGTGGCGAAGCCATCAG
66 AAAACAGATATATATATGTGGCGAAGCCATCAG
*
52265309 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCCAC
52265373 TAGATTGCAG
Statistics
Matches: 159, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
97 8 0.05
98 151 0.95
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (98 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
AAAACAGATATATATATGTGGCGAAGCCATCAG
Found at i:52265347 original size:71 final size:67
Alignment explanation
Indices: 52265254--52265393 Score: 174
Period size: 67 Copynumber: 2.0 Consensus size: 67
52265244 TCACCAGATA
* * *
52265254 CAGATATTGTGGCTAGGCCACCAAAACAGATATATATATGTGGCGAAGCCA-TCAGATTGCAGCG
1 CAGATATTGTGACGAAGCCACCAAAACAG----ATATATGTGGCGAAGCCACT-AGATTGCAGCG
52265318 AGGCTGC
61 AGGCTGC
* * *
52265325 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACTAGATTGCAGCGAGGCT
52265390 GC
66 GC
52265392 CA
1 CA
52265394 AAACGCTTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
67 37 0.60
68 1 0.02
71 24 0.39
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACTAGATTGCAGCGAGGCT
GC
Found at i:52265664 original size:27 final size:27
Alignment explanation
Indices: 52265632--52265863 Score: 275
Period size: 27 Copynumber: 8.6 Consensus size: 27
52265622 TACTGCACAA
* * *
52265632 GGGTATCTCGGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* **
52265659 GAGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
52265686 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
52265713 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
** *
52265740 GGGTATTTTAGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
52265767 GGGTATTTCGGTATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
52265794 GGGCATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
52265821 GGGTATTTCGGCATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
52265848 AGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
52265864 TTATAAACTG
Statistics
Matches: 174, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:52265746 original size:81 final size:81
Alignment explanation
Indices: 52265628--52265860 Score: 304
Period size: 81 Copynumber: 2.9 Consensus size: 81
52265618 ATTTTACTGC
* * * * *
52265628 ACAAGGGTATCTCGGTAATTCTACCTTATAGGAGTATTTCAATAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
*
52265693 TTGGTATTTCTACCCT
66 TCGGTATTTCTACCCT
* * *
52265709 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
52265774 TCGGTATTTCTACCCT
66 TCGGTATTTCTACCCT
* * * * *** * *
52265790 ACAGGGGCATTTCGGTATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAAGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
52265855 TCGGTA
66 TCGGTA
52265861 ATTTTATAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 133 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATT
TCGGTATTTCTACCCT
Found at i:52265931 original size:27 final size:26
Alignment explanation
Indices: 52265895--52266188 Score: 148
Period size: 27 Copynumber: 10.9 Consensus size: 26
52265885 GTAATTCTGT
* *
52265895 AAATCAAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTAC
* *
52265922 AAGTCGAGGGTATTTCAATAATTTTAC
1 AAATCGAGGGTATTT-AGTAATTTTAC
** *
52265949 AGGTCGAGGGTATTTCAGTAATTTCAC
1 AAATCGAGGGTATTT-AGTAATTTTAC
*
52265976 AAATC-AGGGGTATTTTAATAATTTTAC
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* * *
52266003 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTAC
* *
52266030 AAAT-TAGGGGTATTTTAGTAATTTTAT
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* * **
52266057 AAA-CCAGGGGTATTTTGGTAATTTTGT
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* *
52266084 AAA-CAAAGGGTATTTTGGTAATTTTAC
1 AAATC-GAGGGTA-TTTAGTAATTTTAC
* * * *
52266111 AAA-CTAGGGGTATTTTGGTGATTTTAT
1 AAATCGA-GGGTA-TTTAGTAATTTTAC
* * *
52266138 AAACCAAGGGTATTTTATTAATTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTAC
* * *
52266165 AAACCAAGGGTATTTTGGTAATTT
1 AAATCGAGGGTA-TTTAGTAATTT
52266189 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.03
27 211 0.94
28 7 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (26 bp):
AAATCGAGGGTATTTAGTAATTTTAC
Found at i:52265980 original size:81 final size:81
Alignment explanation
Indices: 52265895--52266179 Score: 250
Period size: 81 Copynumber: 3.5 Consensus size: 81
52265885 GTAATTCTGT
* * ** * **
52265895 AAATCAAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGA-GGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAAT-GAGGGG
52265959 TATTTCAGTAATTTCAC
65 TATTTCAGTAATTTCAC
** *** *
52265976 AAATCAGGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATTAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAATGAGGGGT
* * *
52266041 ATTTTAGTAATTTTAT
66 ATTTCAGTAATTTCAC
* ** * ***
52266057 AAACCAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACT-AGGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAA-TGAGGGG
** * * *
52266121 TATTTTGGTGATTTTAT
65 TATTTCAGTAATTTCAC
* * **
52266138 AAACCAAGGGTATTTTATTAATTTTACAAACCAAGGGTATTT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
52266180 TGGTAATTTG
Statistics
Matches: 172, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 170 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAATGAGGGGT
ATTTCAGTAATTTCAC
Found at i:52266195 original size:27 final size:27
Alignment explanation
Indices: 52265955--52266188 Score: 252
Period size: 27 Copynumber: 8.7 Consensus size: 27
52265945 TTACAGGTCG
** * * *
52265955 AGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* ** *
52265982 GGGGTATTTTAATAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* **
52266009 AGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
52266036 GGGGTATTTTAGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
52266063 GGGGTATTTTGGTAATTTTGTAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
52266090 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
52266117 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
** *
52266144 AGGGTATTTTATTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
52266171 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
52266189 GGTAAACTAA
Statistics
Matches: 174, Mismatches: 33, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:52266195 original size:54 final size:54
Alignment explanation
Indices: 52265899--52266188 Score: 287
Period size: 54 Copynumber: 5.4 Consensus size: 54
52265889 TTCTGTAAAT
* * * * * * ***
52265899 CAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTATAA-ACAAAGGGTATTTTAGTAATTTTACAAAC
* ** * * * *
52265953 CGAGGGTATTTCAGTAATTTCACAAATC-AGGGGTATTTTAATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAAAC
* ** * *
52266007 CAAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
* * *
52266061 CAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
* * * * *
52266115 TAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTATTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
52266169 CAAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
52266189 GGTAAACTAA
Statistics
Matches: 198, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
54 198 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
Found at i:52266197 original size:81 final size:81
Alignment explanation
Indices: 52265956--52266188 Score: 331
Period size: 81 Copynumber: 2.9 Consensus size: 81
52265946 TACAGGTCGA
* * * * *
52265956 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
*
52266021 TAATTTTACAAATTAG
66 TAATTTTACAAACTAG
* ** ** *
52266037 GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
52266102 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
* * *
52266118 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTATTAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
52266183 TAATTT
66 TAATTT
52266189 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 134 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGG
TAATTTTACAAACTAG
Found at i:52268195 original size:6 final size:6
Alignment explanation
Indices: 52268165--52268272 Score: 78
Period size: 6 Copynumber: 17.7 Consensus size: 6
52268155 ACGAAACATT
* * * *
52268165 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * *
52268214 ATCAGA ATCAGA ATCAGA ATCAGA ATGAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
52268263 ATCAGT ATCA
1 ATCAGA ATCA
52268273 AGTAACGGAA
Statistics
Matches: 79, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
5 3 0.04
6 68 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:52268227 original size:37 final size:37
Alignment explanation
Indices: 52268174--52268272 Score: 144
Period size: 37 Copynumber: 2.7 Consensus size: 37
52268164 TATCAGAACT
* * **
52268174 AGAATCAAAATGAGAATCAGAATCAGAATTCGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
52268211 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
* *
52268248 AGAATTAGAATCAGAATCAGTATCA
1 AGAATCAGAATCAGAATCAGAATCA
52268273 AGTAACGGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATGAGGTGAC
Found at i:52268462 original size:27 final size:26
Alignment explanation
Indices: 52268414--52268473 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
52268404 GCGAGGCTGC
* *
52268414 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
52268441 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
52268467 CAGATAT
1 CAGATAT
52268474 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:52268560 original size:27 final size:26
Alignment explanation
Indices: 52268512--52268571 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
52268502 GCGAGGCTGC
* *
52268512 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
52268539 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
52268565 CAGATAT
1 CAGATAT
52268572 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:52268565 original size:98 final size:98
Alignment explanation
Indices: 52268396--52268659 Score: 494
Period size: 98 Copynumber: 2.7 Consensus size: 98
52268386 CACACCATAG
52268396 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
52268461 CCAAAACAGATATATATATGTGGCGAAGCCACC
66 CCAAAACAGATATATATATGTGGCGAAGCCACC
52268494 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
52268559 CCAAAACAGATATATATATGTGGCGAAGCCACC
66 CCAAAACAGATATATATATGTGGCGAAGCCACC
* *
52268592 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTAGCGAGGCC
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCC
52268656 ACCA
65 ACCA
52268660 GATTGCAGCG
Statistics
Matches: 163, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
97 8 0.05
98 155 0.95
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (98 bp):
AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCA
CCAAAACAGATATATATATGTGGCGAAGCCACC
Found at i:52268939 original size:27 final size:27
Alignment explanation
Indices: 52268906--52269155 Score: 288
Period size: 27 Copynumber: 9.3 Consensus size: 27
52268896 GGGGTAAAAT
* * *
52268906 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52268933 GGAAATTCTACCTTA-TAGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
52268960 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52268987 GGTATTTCTACCCCACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52269014 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52269041 AGTAATTCTACCCTAC-AGCGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
52269068 AGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52269095 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
52269122 GGCATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52269149 GATAATT
1 GGTAATT
52269156 TTGTAAATTG
Statistics
Matches: 189, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 4 0.02
27 182 0.96
28 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:52269038 original size:81 final size:81
Alignment explanation
Indices: 52268910--52269149 Score: 329
Period size: 81 Copynumber: 3.0 Consensus size: 81
52268900 TAAAATGGTA
* * * * *
52268910 ATTT-TACCCCACAAGGGTATCTCGGAAATTCTACCTTATAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
52268974 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
*
52268990 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* *
52269055 ACAGCGGTATTTCAGT
66 ACAGGGGTATTTCGGT
* * * * * * *
52269071 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCT
1 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
52269136 ACAAGGGTATTTCG
66 ACAGGGGTATTTCG
52269150 ATAATTTTGT
Statistics
Matches: 140, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 4 0.03
81 136 0.97
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (81 bp):
ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:52269285 original size:81 final size:81
Alignment explanation
Indices: 52269176--52269507 Score: 371
Period size: 81 Copynumber: 4.1 Consensus size: 81
52269166 AGGGTAAAAC
** ** * * *
52269176 GGTAATTTTGTAAATCAAAGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTTTA
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAA-ACGAGGGGTATTTTAATAATTTTA
** * *
52269240 CAGGCCGAGGGTATTTC
65 CAAACCAAGGGTATTTT
* * * *
52269257 AGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTAC
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAATAATTTTAC
*
52269322 AAACCAGGGGTATTTT
66 AAACCAAGGGTATTTT
* * * * ** **
52269338 GGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTATAAACTAGGGGTACTTTGGTAATTTTGT
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAATAATTTTAC
52269403 AAACCAAGGGTATTTT
66 AAACCAAGGGTATTTT
* * * * *
52269419 GGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCGA-GGGTATTTTAGTACTTTTA
1 GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CGAGGGGTATTTTAATAATTTTA
52269483 CAAACCAAGGGTATTTT
65 CAAACCAAGGGTATTTT
52269500 GGTAATTT
1 GGTAATTT
52269508 GGTAAACTAA
Statistics
Matches: 215, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 211 0.98
82 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
GGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTTAATAATTTTAC
AAACCAAGGGTATTTT
Found at i:52269514 original size:27 final size:27
Alignment explanation
Indices: 52269195--52269507 Score: 335
Period size: 27 Copynumber: 11.6 Consensus size: 27
52269185 GTAAATCAAA
* **
52269195 GGTACTTTGGTAATTTTACAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
*** **
52269222 GGTATTTCAATAATTTTACAGGCC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
** * *
52269249 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
52269276 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
52269303 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
**
52269330 GGTATTTTGGTAATTTTACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
52269357 GGTATTTTGGTAATTTTATAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* ** *
52269384 GGTACTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
52269411 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
52269438 GGTATTTTGGTGATTTTATAAACC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
* * *
52269465 GGTATTTTAGTACTTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
52269492 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
52269508 GGTAAACTAA
Statistics
Matches: 243, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 241 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:52270856 original size:26 final size:26
Alignment explanation
Indices: 52270827--52270879 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
52270817 ATAGGCGAAA
52270827 AGCTAAAACCTTGTTAAAAATTATTT
1 AGCTAAAACCTTGTTAAAAATTATTT
*
52270853 AGCTAAAACTTTGTTAAAAATTATTT
1 AGCTAAAACCTTGTTAAAAATTATTT
52270879 A
1 A
52270880 AGTCCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (26 bp):
AGCTAAAACCTTGTTAAAAATTATTT
Found at i:52272790 original size:20 final size:20
Alignment explanation
Indices: 52272765--52272809 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
52272755 AGGGGCTAAA
* *
52272765 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
52272785 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
52272805 ATGAA
1 ATGAA
52272810 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:52275104 original size:27 final size:27
Alignment explanation
Indices: 52275074--52275251 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52275064 ATATTGAGTC
* * * *
52275074 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
52275101 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52275128 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
52275156 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52275183 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52275210 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52275237 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52275252 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:52275213 original size:82 final size:81
Alignment explanation
Indices: 52275095--52275250 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52275085 TGCTATATAA
* *
52275095 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
52275160 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
52275177 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52275241 CACTTAGTGC
65 CACTTAGTGC
52275251 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52280078 original size:43 final size:43
Alignment explanation
Indices: 52280031--52280113 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
52280021 GTCGACATCA
* * *
52280031 TATTTGATTTCGTGTAAG-ACCCTATCTGGGACAGTGGCATCGG
1 TATTTGATTACATGTAAGAACAC-ATCTGGGACAGTGGCATCGG
*
52280074 TATTTGATTACATGTAAGAACACATCTGGGACATTGGCAT
1 TATTTGATTACATGTAAGAACACATCTGGGACAGTGGCAT
52280114 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TATTTGATTACATGTAAGAACACATCTGGGACAGTGGCATCGG
Found at i:52290073 original size:24 final size:24
Alignment explanation
Indices: 52290038--52290093 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
52290028 AGTTGGCTAT
*
52290038 GGTCGTGATCGAGAAGGACATGAC
1 GGTCGTGGTCGAGAAGGACATGAC
*
52290062 GGTCGTGGTCGAGAAGGACATGGC
1 GGTCGTGGTCGAGAAGGACATGAC
*
52290086 AGTCGTGG
1 GGTCGTGG
52290094 AGAACCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.16, G:0.43, T:0.18
Consensus pattern (24 bp):
GGTCGTGGTCGAGAAGGACATGAC
Found at i:52297328 original size:13 final size:13
Alignment explanation
Indices: 52297310--52297349 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
52297300 GCTCGACAGG
52297310 GACACGCCCGTGT
1 GACACGCCCGTGT
52297323 GACACGCCCGTGT
1 GACACGCCCGTGT
52297336 GACACGCCCGTGT
1 GACACGCCCGTGT
52297349 G
1 G
52297350 CGATTACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.38, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Done.