Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold318
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: 411206
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 3 of 3
Found at i:319749 original size:13 final size:13
Alignment explanation
Indices: 319731--319755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
319721 ACATAAGTGT
319731 TGTATCGATACAA
1 TGTATCGATACAA
319744 TGTATCGATACA
1 TGTATCGATACA
319756 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:319835 original size:13 final size:13
Alignment explanation
Indices: 319817--319841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
319807 ATTACTCAAA
319817 TGTATCGATACAT
1 TGTATCGATACAT
319830 TGTATCGATACA
1 TGTATCGATACA
319842 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:323313 original size:19 final size:18
Alignment explanation
Indices: 323291--323328 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
323281 GTTGAGACCT
323291 AAAAAGAAAAAAGAGAAAA
1 AAAAAGAAAAAAGA-AAAA
*
323310 AAAAAGCAAAAAGAAAAA
1 AAAAAGAAAAAAGAAAAA
323328 A
1 A
323329 GGGAATGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAGAAAAA
Found at i:327134 original size:24 final size:24
Alignment explanation
Indices: 327097--327170 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
327087 CACTGTATCG
* * * *
327097 ATACATAAATAGTGATGAATAGTG
1 ATACATGAACAGTGATGAACAGTA
*
327121 ATACATGAGCAGTGATGAACAGTA
1 ATACATGAACAGTGATGAACAGTA
*
327145 ATACATGAACCGTGATGAACAGTA
1 ATACATGAACAGTGATGAACAGTA
327169 AT
1 AT
327171 GAATAGTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (24 bp):
ATACATGAACAGTGATGAACAGTA
Found at i:331912 original size:20 final size:20
Alignment explanation
Indices: 331889--331947 Score: 100
Period size: 20 Copynumber: 2.9 Consensus size: 20
331879 CAAAGCAATA
*
331889 TGTATCGATACTTCTAGGCT
1 TGTATTGATACTTCTAGGCT
331909 TGTATTGATACTTCTAGGCT
1 TGTATTGATACTTCTAGGCT
331929 TGTATTGATACTTTCTAGG
1 TGTATTGATAC-TTCTAGG
331948 GTTTTGACCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 30 0.81
21 7 0.19
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (20 bp):
TGTATTGATACTTCTAGGCT
Found at i:332374 original size:67 final size:67
Alignment explanation
Indices: 332266--332399 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
332256 AATATGATGG
332266 GGTAATAAAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAA-ATATCAATTTA
1 GGTAATAAAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAAGA-ATCAATTTA
332330 AAA
65 AAA
* * *
332333 GGTAATAAAAAAAGAAAGAAAAATGAATAAATTTCTTAAGTTAAAACCCAAAAGAATCAATTTAA
1 GGTAATAAAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAAGAATCAATTTAA
332398 AA
66 AA
332400 CAAACTCAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 62 0.98
68 1 0.02
ACGTcount: A:0.60, C:0.09, G:0.10, T:0.22
Consensus pattern (67 bp):
GGTAATAAAAAAAGAAAGAAAAATCAATAAAGTTCTCAAGTTAAAACCCAAAAGAATCAATTTAA
AA
Found at i:333718 original size:56 final size:55
Alignment explanation
Indices: 333560--333820 Score: 179
Period size: 56 Copynumber: 4.7 Consensus size: 55
333550 AACTTCATAA
* * * * *
333560 GAGAAAGCCTAAAAGTAACTAGTAAGGATAGCTCTAATTGAAATTGGCACCTAAAT
1 GAGAAA-CCAAAAAGTAGCTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
* * * * * * *
333616 AAGAAAGCATAATAGTAGCTAGTAAAGATATCTCGAGTTTAAATTAGCATCTAAAT
1 GAGAAACCA-AAAAGTAGCTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
* * * *
333672 GAGAAATCCAAAAAGTAGCTAGTAGGGATAGCTTTAGTTGATATTAGCATATAAAT
1 GAGAAA-CCAAAAAGTAGCTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
* * * * * * *
333728 GAGAAAGCCCAAGAGTAGCGT-GT-AGGAATAACTCCA-TTGGAAATTGGCGTTTAAAT
1 GAGAAA-CCAAAAAGTAGC-TAGTAAGG-ATAGCTCTAGTT-GAAATTAGCATCTAAAT
* * *
333784 GAGGAAGCCCAAAAGTAGCTAATTAA-GATAGCTCTAG
1 GA-GAAACCAAAAAGTAGCT-AGTAAGGATAGCTCTAG
333821 ATAAACTTCG
Statistics
Matches: 156, Mismatches: 39, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
55 6 0.04
56 141 0.90
57 8 0.05
58 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (55 bp):
GAGAAACCAAAAAGTAGCTAGTAAGGATAGCTCTAGTTGAAATTAGCATCTAAAT
Found at i:334067 original size:105 final size:104
Alignment explanation
Indices: 333904--334123 Score: 298
Period size: 105 Copynumber: 2.1 Consensus size: 104
333894 GAGTTACAAG
* * *
333904 TAAAGACAAGTCTAGCAAAGTTAGAAAGCTTTTAGTATAGCTTGGCTAGTTAAAGACAAACCTAG
1 TAAAGACAAGCCTAGCAAAGTTAGAAAGCTTTTAGTATAGCCTAGCTAGTTAAAGACAAACCTAG
*
333969 CAAGGTTAGATTTTTAGAATTTATGCCTA-TGTAGCTAGC
66 CAAGGTTAGACTTTTAGAATTTA-GCCTAGTGTAGCTAGC
* * * * * *
334008 TAAACACAAGCCTAGCAAAGTTAGAGAGCCTTTTAGTCTAGCCTAGTTGGTTAAAGACAAGCCTA
1 TAAAGACAAGCCTAGCAAAGTTAGAAAG-CTTTTAGTATAGCCTAGCTAGTTAAAGACAAACCTA
* * *
334073 GCAAGGTTAGACTTTTAGATTTTAGGCTAGTGTAGCTAGT
65 GCAAGGTTAGACTTTTAGAATTTAGCCTAGTGTAGCTAGC
334113 TAAAGACAAGC
1 TAAAGACAAGC
334124 TTACAAAAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
104 29 0.29
105 71 0.71
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (104 bp):
TAAAGACAAGCCTAGCAAAGTTAGAAAGCTTTTAGTATAGCCTAGCTAGTTAAAGACAAACCTAG
CAAGGTTAGACTTTTAGAATTTAGCCTAGTGTAGCTAGC
Found at i:334120 original size:54 final size:53
Alignment explanation
Indices: 333948--334123 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 53
333938 GTATAGCTTG
* *
333948 GCTAGTTAAAGACAAACCTAGCAAGGTTAGATTTTTAGAATTTATGCCTA-TGTA
1 GCTAGTTAAAGACAAGCCTAGCAAGGTTAGA-TTTTAGATTTTA-GCCTAGTGTA
* * * * * * **
334002 GCTAGCTAAACACAAGCCTAGCAAAGTTAGA---GAGCCTTTTAGTCTAGCCTA
1 GCTAGTTAAAGACAAGCCTAGCAAGGTTAGATTTTAG-ATTTTAGCCTAGTGTA
* * *
334053 GTTGGTTAAAGACAAGCCTAGCAAGGTTAGACTTTTAGATTTTAGGCTAGTGTA
1 GCTAGTTAAAGACAAGCCTAGCAAGGTTAGA-TTTTAGATTTTAGCCTAGTGTA
334107 GCTAGTTAAAGACAAGC
1 GCTAGTTAAAGACAAGC
334124 TTACAAAAAT
Statistics
Matches: 94, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
50 6 0.06
51 32 0.34
54 54 0.57
55 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (53 bp):
GCTAGTTAAAGACAAGCCTAGCAAGGTTAGATTTTAGATTTTAGCCTAGTGTA
Found at i:339533 original size:32 final size:32
Alignment explanation
Indices: 339487--339634 Score: 149
Period size: 32 Copynumber: 4.7 Consensus size: 32
339477 TGGTGATTTG
* * * *
339487 AAAAAGGTTTCCACTGACTTGCGTGGGCTTTA
1 AAAAAAGTTGCCACTAACTTGTGTGGGCTTTA
339519 AAAAAA-TGTGCCACTAACTTGTGTGGGCTTTA
1 AAAAAAGT-TGCCACTAACTTGTGTGGGCTTTA
* *
339551 AAAAGAGTTGCCACCAACTTGTGTGGGCTTTA
1 AAAAAAGTTGCCACTAACTTGTGTGGGCTTTA
** * *
339583 AAAGGAGTTGCCACCAACTTGTGTAGGCTTT-
1 AAAAAAGTTGCCACTAACTTGTGTGGGCTTTA
* * *
339614 -GAAAGGGTGCCACTAACTTGT
1 AAAAAAGTTGCCACTAACTTGT
339635 AGGCTTTGAA
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
30 15 0.15
31 1 0.01
32 83 0.83
33 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (32 bp):
AAAAAAGTTGCCACTAACTTGTGTGGGCTTTA
Found at i:339644 original size:28 final size:28
Alignment explanation
Indices: 339572--340629 Score: 1026
Period size: 28 Copynumber: 37.1 Consensus size: 28
339562 CACCAACTTG
* **
339572 TGTGGGCTTTAAAAGGAGTTGCCACCAACT
1 TGTGGGCTTTGAAAGGA--TGCCACTGACT
* *
339602 TGTGTAGGCTTTGAAAGGGTGCCACTAACT
1 TGTG--GGCTTTGAAAGGATGCCACTGACT
* * * *
339632 TGTAGGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* * * * *
339662 CGT---CTTTGAATGGGTGCTACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
339687 TGTGGGCTTTGAAAGGATATGCCACTGACT
1 TGTGGGCTTTGAAAGG--ATGCCACTGACT
* * *
339717 TGTGGGTTTTGAAATGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
339745 TATAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
339773 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
339801 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
339829 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
339857 TGTGGGCTTTGAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
339885 TGTGGGTTTTGAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
339913 TGCGGTCTTTGAAAGAATGCCACTTG-CT
1 TGTGGGCTTTGAAAGGATGCCAC-TGACT
* * *
339941 TATGGGCTTTGAAATGG-TGGCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * * *
339969 TATAGGCTTTGAAAATAGTTACCACCGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
* * **
339999 CGTGTGGGCTTTAAAAGGGTGCCACCAACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
*
340029 CGTGTGGGCTTTGAAA-GAGTGCCACCGACT
1 --TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
340059 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
340087 TGTGGGCTTTGAAATGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
340115 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
340143 TGTTGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
340171 TGTGGGCTTTGAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
340199 TGTGGGCTTTGAAAGGATGCCACTGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
340227 TGTGGGCTTTGAAATGG-TGGCATTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
** * * *
340255 TGTATGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* *
340285 CGCGTGGGCTTTGAAAGGGTGCCA-TCGACT
1 --TGTGGGCTTTGAAAGGATGCCACT-GACT
* *
340315 CGTGTGGGCTTTGAAAGGGTGCCACCGACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
* *
340345 CGTGTGGGCTTTGAAATGG-TGCCAGTAACT
1 --TGTGGGCTTTGAAA-GGATGCCACTGACT
*
340375 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
340403 TGTGAGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
340431 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
340459 TGGGGGCTTGGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
340487 TGTGGGTTTTGAAAGGGTACCACTGA-T
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
340514 TCATGGGCTTTGAAAAGGATG-CACTTACT
1 T-GTGGGCTTTG-AAAGGATGCCACTGACT
*
340543 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
340571 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
340599 TGT-GGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
340626 TGTG
1 TGTG
340630 AATTTAAAAA
Statistics
Matches: 871, Mismatches: 122, Indels: 72
0.82 0.11 0.07
Matches are distributed among these distances:
25 12 0.01
26 3 0.00
27 45 0.05
28 582 0.67
29 33 0.04
30 160 0.18
31 9 0.01
32 27 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:340645 original size:27 final size:27
Alignment explanation
Indices: 340558--340647 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
340548 GCTTTGAAAT
* ** * *
340558 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GATGCCACTAACTTGT-GAATTTAAAAA
* ** * *
340586 GATGCCACTGACTTGTGGCTTTGAAAT
1 GATGCCACTAACTTGTGAATTTAAAAA
340613 GATGCCACTAACTTGTGAATTTAAAAA
1 GATGCCACTAACTTGTGAATTTAAAAA
*
340640 GTTGCCAC
1 GATGCCAC
340648 AGAGTTGACT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 39 0.71
28 16 0.29
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (27 bp):
GATGCCACTAACTTGTGAATTTAAAAA
Found at i:340752 original size:27 final size:27
Alignment explanation
Indices: 340654--341155 Score: 554
Period size: 27 Copynumber: 18.4 Consensus size: 27
340644 CCACAGAGTT
* *
340654 GACTTAAAAGGGTGCCATGGAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
340681 GACTTTAAAAGGGTGCCACGGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
*
340709 GACTTTAAAAGGGTGCCACGGAGTAGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * * *
340737 GACCTAAAAGGGTGCCACGGAGCTATA
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
340764 GACTTAAAAGGGTGCCACGAAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
340791 GACTTAAAAGTGTGCTACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
340818 GACTTAAAAGGATGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
340845 GACTTAAAAGGATGCCACGGAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
340872 GACTTTAAAAGGGTGCCACGAAGTTATG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * * *
340900 GACTTTAAAGGGTGCCATGAAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
**
340927 GACTTAAAAGGGTGCCACAAAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * ***
340954 GGCTTAAAAGGATGCCATAAAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
340981 GACTTAAAAGGGTACCACAGAGTTGTA
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
341008 GACTTAAAAGGATGCCACAGAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
341035 GACTTTAAAAGGGTGCTACAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* *
341063 GACTTTAAAGGGTGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
341090 AACTTAAAAGGATGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* ** *
341117 GACTTTAAAAGGGTGTCACAAAGTTATG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
341145 GACTTTAAAAG
1 GAC-TTAAAAG
341156 AAAAGGCTTC
Statistics
Matches: 413, Mismatches: 58, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
27 283 0.69
28 130 0.31
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (27 bp):
GACTTAAAAGGGTGCCACGGAGTTGTG
Found at i:340881 original size:136 final size:136
Alignment explanation
Indices: 340654--341155 Score: 625
Period size: 136 Copynumber: 3.7 Consensus size: 136
340644 CCACAGAGTT
* * *
340654 GACTTAAAAGGGTGCCATGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAA
* * * *
340719 GGGTGCCACGGAG-TAGTGGACCTAAAAGGGTGCCACGGAGCTATAGACTTAAAAGGGTGCCACG
65 GGGTGCCACAGAGTTA-TGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
340783 AAGTTATG
129 AAGTTATG
* *
340791 GACTTAAAAGTGTGCTACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAG
* * * * *
340855 GATGCCACGGAGTTATGGACTTTAAAAGGGTGCCACGAAGTTATGGACTTTAAAGGGTGCCATGA
66 GGTGCCACAGAGTTATGGAC-TTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGA
340920 AGTTATG
130 AGTTATG
** * ***
340927 GACTTAAAAGGGTGCCACAAAGTTGTGGGCTTAAAAGGATGCCATAAAGTTGTGGAC-TTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAG
* * * * * *
340991 GGTACCACAGAGTTGTAGACTTAAAAGGATGCCACAGAGTTATGGACTTTAAAAGGGTGCTAC-A
66 GGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGGTGCCACGA
*
341055 GAGTTGTG
130 -AGTTATG
* * * *
341063 GACTTTAAAGGGTGCCATGGAGTTGTGAACTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAG
* *
341128 GGTGTCACAAAGTTATGGACTTTAAAAG
66 GGTGCCACAGAGTTATGGAC-TTAAAAG
341156 AAAAGGCTTC
Statistics
Matches: 314, Mismatches: 45, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
135 48 0.15
136 211 0.67
137 48 0.15
138 7 0.02
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (136 bp):
GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAG
GGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGAA
GTTATG
Found at i:340933 original size:163 final size:163
Alignment explanation
Indices: 340654--341155 Score: 632
Period size: 163 Copynumber: 3.1 Consensus size: 163
340644 CCACAGAGTT
* * * *
340654 GACTTAAAAGGGTGCCATGGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTATGGACTTTAAAA
* * * * * *
340719 GGGTGCCACGGAG-TAGTGGACCTAAAAGGGTGCCACGGAGCTATAGACTTAAAAGGGTGCCACG
65 GGGTGCCACGAAGTTA-TGGACTTTAAAGGGTGCCATGGAGTTATGGACTTAAAAGGGTGCCACG
* * **
340783 AAGTTATGGACTTAAAAGTG-TGCTACGGAGTTGTG
129 AAGTTGTGGACTTAAAAG-GATGCCACAAAGTTGTG
*
340818 GACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGACTTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGACTTTAAAAG
* *
340883 GGTGCCACGAAGTTATGGACTTTAAAGGGTGCCATGAAGTTATGGACTTAAAAGGGTGCCACAAA
66 GGTGCCACGAAGTTATGGACTTTAAAGGGTGCCATGGAGTTATGGACTTAAAAGGGTGCCACGAA
* *
340948 GTTGTGGGCTTAAAAGGATGCCATAAAGTTGTG
131 GTTGTGGACTTAAAAGGATGCCACAAAGTTGTG
* * * *
340981 GACTTAAAAGGGTACCACAGAGTTGTAGACTTAAAAGGATGCCACAGAGTTATGGACTTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGACTTTAAAAG
* * * * * * *
341046 GGTGCTAC-AGAGTTGTGGACTTTAAAGGGTGCCATGGAGTTGTGAACTTAAAAGGATGCCATGG
66 GGTGCCACGA-AGTTATGGACTTTAAAGGGTGCCATGGAGTTATGGACTTAAAAGGGTGCCACGA
* * *
341110 AGTTGTGGACTTTAAAAGGGTGTCACAAAGTTATG
130 AGTTGTGGAC-TTAAAAGGATGCCACAAAGTTGTG
341145 GACTTTAAAAG
1 GAC-TTAAAAG
341156 AAAAGGCTTC
Statistics
Matches: 295, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
162 2 0.01
163 234 0.79
164 52 0.18
165 7 0.02
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (163 bp):
GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGACTTTAAAAG
GGTGCCACGAAGTTATGGACTTTAAAGGGTGCCATGGAGTTATGGACTTAAAAGGGTGCCACGAA
GTTGTGGACTTAAAAGGATGCCACAAAGTTGTG
Found at i:341160 original size:33 final size:33
Alignment explanation
Indices: 341123--341226 Score: 104
Period size: 33 Copynumber: 3.1 Consensus size: 33
341113 TGTGGACTTT
* *
341123 AAAAGGGTGTCACAAAGTTATGGACTTTAAAAG
1 AAAAGGCTGTCACAGAGTTATGGACTTTAAAAG
*
341156 AAAAGGCT-TC-CATGGAGTTCTGGACTTTAAAAG
1 AAAAGGCTGTCACA--GAGTTATGGACTTTAAAAG
* * *
341189 AAAAAGGTTGCCACGGAGTTATGGACTTTGAAAAG
1 -AAAAGGCTGTCACAGAGTTATGGACTTT-AAAAG
341224 AAA
1 AAA
341227 TGCCACTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
31 2 0.03
32 2 0.03
33 24 0.41
34 23 0.40
35 6 0.10
36 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (33 bp):
AAAAGGCTGTCACAGAGTTATGGACTTTAAAAG
Found at i:341207 original size:34 final size:34
Alignment explanation
Indices: 341138--341226 Score: 128
Period size: 34 Copynumber: 2.6 Consensus size: 34
341128 GGTGTCACAA
*
341138 AGTTATGGACTTTAAAAG-AAAAGGCTTCCATGG
1 AGTTATGGACTTTAAAAGAAAAAGGCTTCCACGG
*
341171 AGTTCTGGACTTTAAAAGAAAAAGG-TTGCCACGG
1 AGTTATGGACTTTAAAAGAAAAAGGCTT-CCACGG
341205 AGTTATGGACTTTGAAAAGAAA
1 AGTTATGGACTTT-AAAAGAAA
341227 TGCCACTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 19 0.38
34 23 0.46
35 8 0.16
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (34 bp):
AGTTATGGACTTTAAAAGAAAAAGGCTTCCACGG
Found at i:345602 original size:79 final size:80
Alignment explanation
Indices: 345466--345670 Score: 193
Period size: 79 Copynumber: 2.6 Consensus size: 80
345456 TACATCTCCC
* * * * * * * *
345466 GATGAAAAATTTAATATTTTGGAGATAAAA-ACCAGGTCGGAGCAACCTCTCAAAAATAGCAGGA
1 GATGAAAAA-TTGATATTTTGGAAATAAAACA-GAGGTTGGAGTATCCTATCAAAAATAACAGGA
*
345530 TTAGAGTATCCTC-AAT
64 TTAGAGTATCCCCGAAT
* * *
345546 GATGAAAAATTGATGTTTTGGAAATAAAACAGAGGTTGGAGTATCCTATCAGAAATAACAGGGTT
1 GATGAAAAATTGATATTTTGGAAATAAAACAGAGGTTGGAGTATCCTATCAAAAATAACAGGATT
* *
345611 GGAGTATCCCCGATT
66 AGAGTATCCCCGAAT
* * * *
345626 G-TGGAAGATCGATATTTTGGAAATAAAATCAG-GGCTGGAGTATCC
1 GATGAAAAATTGATATTTTGGAAATAAAA-CAGAGGTTGGAGTATCC
345671 CTGATTGTGA
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 87 0.84
80 16 0.16
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (80 bp):
GATGAAAAATTGATATTTTGGAAATAAAACAGAGGTTGGAGTATCCTATCAAAAATAACAGGATT
AGAGTATCCCCGAAT
Found at i:345745 original size:50 final size:51
Alignment explanation
Indices: 345606--345772 Score: 237
Period size: 51 Copynumber: 3.3 Consensus size: 51
345596 AGAAATAACA
* * * *
345606 GGGTTGGAGTATCCCCGATTGTGGAAGATCGATATTTTGGAAATAAAATCA
1 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAATCG
* * * *
345657 GGGCTGGAGTATCCCTGATTGTGAAAAATCGGTGTTTTGGAAATAAAACCG
1 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAATCG
* *
345708 GGGTTGGAGTAT-CCTGATTATGGAAAATCGATGTTTTGGAAATAAAATTG
1 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAATCG
345758 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
345773 CTCAAAAATA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 45 0.45
51 56 0.55
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAATCG
Found at i:345842 original size:79 final size:78
Alignment explanation
Indices: 345709--346038 Score: 376
Period size: 79 Copynumber: 4.2 Consensus size: 78
345699 ATAAAACCGG
* * * ***
345709 GGTTGGAGTAT-CCTGATTATGGAAAATCGATGTTTTGGAAATAAAATTGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATCG-TGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
* *
345773 CTCAAAAATAATGA
65 CTCGAAAATAACGA
* * * *
345787 GGTTGAAGTATCCCTGATTGTGAAAAATCAGTGTTTTAGAAATAAAACCAAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATC-GTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
*
345852 CTCGAAAATAA-TA
65 CTCGAAAATAACGA
* * * *
345865 GGGTTGGTGTATCCCCGATTATGAAAAATTGGTGCTTTGGAAATAAAACCAGGGTTGGAGTATCC
1 -GGTTGGAGTATCCCCGATTATGAAAAA-TCGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCC
* *
345930 TCTCGAAAATAACGG
64 CCTCGAAAATAACGA
* * * * * *
345945 GGTTGGTGTATCCCCGATTGTGAAAAATTTGTGTTTTAAAAATAAAACCGGGGTTGAAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAA-TCGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
346010 CTCGAAAATAACGA
65 CTCGAAAATAACGA
346024 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
346039 TCGAAAATAA
Statistics
Matches: 216, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
78 11 0.05
79 203 0.94
80 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGATTATGAAAAATCGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
TCGAAAATAACGA
Found at i:345920 original size:158 final size:157
Alignment explanation
Indices: 345708--346038 Score: 430
Period size: 158 Copynumber: 2.1 Consensus size: 157
345698 AATAAAACCG
* * * ***
345708 GGGTTGGAGTAT-CCTGATTATGGAAAATCGATGTTTTGGAAATAAAATTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTGGAAATAAAACCAGGGTTGGAGTATCC
* * *
345772 CCTCAAAAATAATGAGGTTGAAGTATCCCTGATTGTGAAAAATCAGTGTTTTAGAAATAAAACCA
66 CCTCAAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAACCA
*
345837 AGGTTGGAGTATCCCCTCGAAAATAATA
131 AGGTTGAAGTATCCCCTCGAAAATAA-A
* * *
345865 GGGTTGGTGTATCCCCGATTATGAAAAATTGGTGCTTTGGAAATAAAACCAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTGGAAATAAAACCAGGGTTGGAGTATCC
* * * ** ** *
345930 TCTCGAAAATAACGGGGTTGGTGTATCCCCGATTGTGAAAAATTTGTGTTTTAAAAATAAAACCG
66 CCTCAAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAACCA
* *
345995 GGGTTGAAGTATCCCCTCGAAAATAAC
131 AGGTTGAAGTATCCCCTCGAAAATAAA
346022 GAGGTTGGAGTATCCCC
1 G-GGTTGGAGTATCCCC
346039 TCGAAAATAA
Statistics
Matches: 148, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
157 12 0.08
158 136 0.92
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (157 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTGGAAATAAAACCAGGGTTGGAGTATCC
CCTCAAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAACCA
AGGTTGAAGTATCCCCTCGAAAATAAA
Found at i:346029 original size:107 final size:107
Alignment explanation
Indices: 345917--346146 Score: 298
Period size: 107 Copynumber: 2.1 Consensus size: 107
345907 ATAAAACCAG
* * * * **
345917 GGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGTGTATCCCCGATTGTGAAAAATTTGTGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTT
* *
345982 AAAAATAAAACCGGGGTTGAAGTATCCCCTCGAAAATAACGA
66 AAAAATAAAACCAGAGTTGAAGTATCCCCTCGAAAATAACGA
* *
346024 GGTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCTCTGATTATGAAAAATCGGTGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTT
** * * * * * *
346089 GGAAATAAAACTAGAGTTGGAGTATCTCCTTGGAAATAACGG
66 AAAAATAAAACCAGAGTTGAAGTATCCCCTCGAAAATAACGA
346131 GGTTGGAGTATCCCCT
1 GGTTGGAGTATCCCCT
346147 ATTGTGGAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (107 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTT
AAAAATAAAACCAGAGTTGAAGTATCCCCTCGAAAATAACGA
Found at i:346033 original size:28 final size:27
Alignment explanation
Indices: 345995--346063 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
345985 AATAAAACCG
*
345995 GGGTTGAAGTATCCCCTCGAAAATAAC
1 GGGTTGGAGTATCCCCTCGAAAATAAC
346022 GAGGTTGGAGTATCCCCTCGAAAATAAC
1 G-GGTTGGAGTATCCCCTCGAAAATAAC
346050 GGAGTTGGAGTATC
1 GG-GTTGGAGTATC
346064 TCTGATTATG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTCGAAAATAAC
Found at i:346076 original size:186 final size:186
Alignment explanation
Indices: 345837--346206 Score: 503
Period size: 186 Copynumber: 2.0 Consensus size: 186
345827 AATAAAACCA
* *
345837 AGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGTGTATCCCCGATTATGAAAAATTGGTGCTT
1 AGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGCTT
* *
345902 TGGAAATAAAACCAGGGTTGGAGTATC-CTCTCGAAAATAACGGGGTTGGTGTATCCCCGATTGT
66 TGGAAATAAAACCAGAGTTGGAGTATCTC-CTCGAAAATAACGGGGTTGGAGTATCCCCGATTGT
** * * *
345966 GAAAAATTTGTGTTTTAAAAATAAAACCGGGGTT-GAAGTATCCCCTCGAAAATAACG
130 GAAAAATCGGTGCTCTAAAAATAAAACCAGGGTTAG-AGTATCCCCTCGAAAATAACG
* * * *
346023 AGGTTGGAGTATCCCCTCGAAAATAA-CGGAGTTGGAGTATCTCTGATTATGAAAAATCGGTGTT
1 AGGTTGGAGTATCCCCTCGAAAATAATAGG-GTTGGAGTATCCCCGATTATGAAAAATCGGTGCT
* * * *
346087 TTGGAAATAAAACTAGAGTTGGAGTATCTCCTTGGAAATAACGGGGTTGGAGTATCCCCTATTGT
65 TTGGAAATAAAACCAGAGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGT
* * * *
346152 GGAAAATCGGTGCTCTGAAAATGAAATCAGGGTTAGAGTATCCCCTCGAAAATAA
130 GAAAAATCGGTGCTCTAAAAATAAAACCAGGGTTAGAGTATCCCCTCGAAAATAA
346207 AAATATGAAT
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
185 2 0.01
186 156 0.98
187 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (186 bp):
AGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTATGAAAAATCGGTGCTT
TGGAAATAAAACCAGAGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTG
AAAAATCGGTGCTCTAAAAATAAAACCAGGGTTAGAGTATCCCCTCGAAAATAACG
Found at i:346108 original size:79 final size:79
Alignment explanation
Indices: 346025--346206 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
346015 AAATAACGAG
* * *
346025 GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTAT-CTCTGATTATGAAAAATCGGTGTTTT
1 GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCT-ATTATGAAAAATCGGTGCTCT
*
346089 GGAAATAAAA-CTAGA
65 GAAAATAAAATC-AGA
* * * * * *
346104 GTTGGAGTATCTCCTTGGAAATAACGGGGTTGGAGTATCCCCTATTGTGGAAAATCGGTGCTCTG
1 GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCTATTATGAAAAATCGGTGCTCTG
* *
346169 AAAATGAAATCAGG
66 AAAATAAAATCAGA
*
346183 GTTAGAGTATCCCCTCGAAAATAA
1 GTTGGAGTATCCCCTCGAAAATAA
346207 AAATATGAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 81 0.95
80 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGGAGTTGGAGTATCCCCTATTATGAAAAATCGGTGCTCTG
AAAATAAAATCAGA
Found at i:348613 original size:50 final size:50
Alignment explanation
Indices: 348559--348694 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 50
348549 AAAAATGCCT
* * *
348559 GAATGTATCGATACATTGAGA-AATGTATCGATACATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGA-ACAATGTATCGATACAACTAGGTAAAACCCA
*
348609 GAATGTATCGATACAAAGAACAATGTATCGATACAACTAGGTAAAACCCA
1 GAATGTATCGATACAATGAACAATGTATCGATACAACTAGGTAAAACCCA
* *
348659 TAATGTATCGATACAATGAACAATGTATCGACACAA
1 GAATGTATCGATACAATGAACAATGTATCGATACAA
348695 ATTATGGAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
49 1 0.01
50 77 0.99
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (50 bp):
GAATGTATCGATACAATGAACAATGTATCGATACAACTAGGTAAAACCCA
Found at i:354456 original size:79 final size:79
Alignment explanation
Indices: 354363--354519 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 79
354353 TTGGTGTCTA
* * * * *
354363 CAAAAATAATGGGGTTGGAGTATCCTCT-ATGGTGGAAAATTGATGTT-TTAGAAATAAAACCGG
1 CAAAAATAACGGGGTTGGAGTATCC-CTGATGATGAAAAATTAATGTTGTCA-AAATAAAACCGG
*
354426 GGTTAAAGTATCCCCT
64 GATTAAAGTATCCCCT
**
354442 CAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTGTCAAAATAAAATTGGGA
1 CAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTGTCAAAATAAAACCGGGA
*
354507 TTGAAGTATCCCC
66 TTAAAGTATCCCC
354520 GATGGTGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 2 0.03
79 63 0.94
80 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
CAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTGTCAAAATAAAACCGGGA
TTAAAGTATCCCCT
Found at i:354517 original size:51 final size:51
Alignment explanation
Indices: 354454--354570 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
354444 AAAATAACGG
* * *
354454 GGTTGGAGTATCCCTGATGATGAAAAATTAATGTTGTCA-AAATAAAATTG-
1 GGTTGAAGTATCCCTGATGATGAAAAATCAATGTT-TCAGAAATAAAATCGA
* * *
354504 GGATTGAAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAATCGA
1 GG-TTGAAGTATCCCTGATGATGAAAAATCAATGTTTCAGAAATAAAATCGA
*
354556 GGTTGGAGTATCCCT
1 GGTTGAAGTATCCCT
354571 TTGAAAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.07
51 50 0.89
52 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (51 bp):
GGTTGAAGTATCCCTGATGATGAAAAATCAATGTTTCAGAAATAAAATCGA
Found at i:354586 original size:79 final size:81
Alignment explanation
Indices: 354503--354727 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 81
354493 AAATAAAATT
* *
354503 GGGATTGAAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATC
1 GGGATTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATC
354568 CCTTT-GAAAATAAC-
66 CCTTTCGAAAATAACA
** * * *
354582 GGGATTGGAGTATCCCTAATGGTAAAAAATCGATATTTTAGAAATAAAAT-TAGGGTTGGAGTAT
1 GGGATTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGA-GGTTGGAGTAT
*
354646 -CTTTTCGAAAATAACA
65 CCCTTTCGAAAATAACA
** * * * *
354662 GGG-TTGGAGTATCCCCGATAATGGAAAAATTGATGTTTTAGGAATAAAATCGGGGTTAGAGTAT
1 GGGATTGGAGTATCCCCGATGGT-GAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
354726 CC
65 CC
354728 TCAATAATGG
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
78 5 0.04
79 79 0.65
80 36 0.30
81 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (81 bp):
GGGATTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTATC
CCTTTCGAAAATAACA
Found at i:354627 original size:130 final size:129
Alignment explanation
Indices: 354374--354646 Score: 323
Period size: 130 Copynumber: 2.1 Consensus size: 129
354364 AAAAATAATG
* * * ** *
354374 GGGTTGGAGTATCCTCTATGGTGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTAAAGTATCC
1 GGGTTGGAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACCGAGGTTAAAGTATCC
* * * * *
354439 CCTCAAAAATAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTGTCAAAATAAAATT
66 CCTCAAAAATAACGGGATTGGAGTATCCCTAATGATAAAAAATCAATATTGTCAAAATAAAATT
* * **
354503 GGGATTGAAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATC
1 GGG-TTGGAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACCGAGGTTAAAGTATC
* ** * * *
354568 CCTTTGAAAATAACGGGATTGGAGTATCCCTAATGGTAAAAAATCGATATT-TTAGAAATAAAAT
65 CCCTCAAAAATAACGGGATTGGAGTATCCCTAATGATAAAAAATCAATATTGTCA-AAATAAAAT
354632 T
129 T
354633 AGGGTTGGAGTATC
1 -GGGTTGGAGTATC
354647 TTTTCGAAAA
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
129 5 0.04
130 111 0.93
131 3 0.03
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (129 bp):
GGGTTGGAGTATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAACCGAGGTTAAAGTATCC
CCTCAAAAATAACGGGATTGGAGTATCCCTAATGATAAAAAATCAATATTGTCAAAATAAAATT
Found at i:354735 original size:52 final size:52
Alignment explanation
Indices: 354662--354781 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
354652 GAAAATAACA
* *
354662 GGGTTGGAGTATCCCCGATAATGGAAAAATTGATGTTTTAGGAATAAAATCG
1 GGGTTGGAGTATCCCCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCG
* *
354714 GGGTTAGAGTATCCTCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCG
1 GGGTTGGAGTATCCCCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCG
354766 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
354782 TCAAAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (52 bp):
GGGTTGGAGTATCCCCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCG
Found at i:354823 original size:211 final size:208
Alignment explanation
Indices: 354383--354891 Score: 524
Period size: 211 Copynumber: 2.4 Consensus size: 208
354373 GGGGTTGGAG
* * * ** *
354383 TATCCTCTATGGTGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTAAAGTATCCCCTCAAAAA
1 TATCCTCAATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCTC-AAAA
* * * *
354448 TAACGGGGTTGGAGTATCCCTGATGATGAAAAATTAATGTTGTCAAAATAAAATTGGGATTGAAG
65 TAACAGGGTTGGAGTATCCCCGATAATGAAAAATTAATGTTGTCAAAATAAAATCGGGATTGAAG
* ** * **
354513 TATCCCCGATGGTGAAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCTTTGAAAA
130 TATCCCCAATAATGAAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAA
* * *
354578 TAACGGGATTGGAG
195 TAACAGGATTAGAA
* * *** * *
354592 TATCC-CTAATGGTAAAAAATCGATATTTTAGAAATAAAATTAGGGTTGGAGTATCTTTTCGAAA
1 TATCCTC-AATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCTC-AAA
* * * *
354656 ATAACAGGGTTGGAGTATCCCCGATAATGGAAAAATTGATGTT-TTAGGAATAAAATCGGGGTT-
64 ATAACAGGGTTGGAGTATCCCCGATAAT-GAAAAATTAATGTTGTCA-AAATAAAATCGGGATTG
* * * *
354719 AGAGTATCCTCAATAATGGAAAAATCGATGTTTTAGGAATAAAATCGGGGTTGGAGTATCCCCTC
127 A-AGTATCCCCAATAAT-GAAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTC
354784 AAAAATAACAAGGA-TAGAA
190 AAAAATAAC-AGGATTAGAA
* * * * *
354803 TATCCTCGATGGTGAAAAATC-AGTGTTTTAGAAATAAAAGCGGGGCTGGAGTGTCCTGTCAGAA
1 TATCCTCAATGGTGAAAAATCGA-TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCTCA-AA
* *
354867 ATAACAAGGTTGGAGTATCCTCGAT
64 ATAACAGGGTTGGAGTATCCCCGAT
354892 GGTGGATGTC
Statistics
Matches: 244, Mismatches: 47, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
208 1 0.00
209 76 0.31
210 39 0.16
211 124 0.51
212 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (208 bp):
TATCCTCAATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCTCAAAAT
AACAGGGTTGGAGTATCCCCGATAATGAAAAATTAATGTTGTCAAAATAAAATCGGGATTGAAGT
ATCCCCAATAATGAAAAATCAATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAAT
AACAGGATTAGAA
Found at i:354869 original size:79 final size:79
Alignment explanation
Indices: 354737--354895 Score: 212
Period size: 79 Copynumber: 2.0 Consensus size: 79
354727 CTCAATAATG
* * *
354737 GAAAAATCGATGTTTTAGGAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACAAGGATAGA
1 GAAAAATCGATGTTTTAGAAATAAAAGCGGGGCTGGAGTATCCCCTCAAAAATAACAAGGATAGA
354802 ATATCCTCGATGGT
66 ATATCCTCGATGGT
* ** * * *
354816 GAAAAATC-AGTGTTTTAGAAATAAAAGCGGGGCTGGAGTGTCCTGTCAGAAATAACAAGGTTGG
1 GAAAAATCGA-TGTTTTAGAAATAAAAGCGGGGCTGGAGTATCCCCTCAAAAATAACAAGGATAG
*
354880 AGTATCCTCGATGGT
65 AATATCCTCGATGGT
354895 G
1 G
354896 GATGTCACGA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
78 1 0.01
79 68 0.99
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.25
Consensus pattern (79 bp):
GAAAAATCGATGTTTTAGAAATAAAAGCGGGGCTGGAGTATCCCCTCAAAAATAACAAGGATAGA
ATATCCTCGATGGT
Found at i:358168 original size:60 final size:60
Alignment explanation
Indices: 358061--358174 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
358051 TTTTAACTAG
* **
358061 ATGTATCGATACATTGAACAATGTATCGATACATTGAAGACTATATCGACACATTGAAGA
1 ATGTATCGATACATTCAACAATGTATCGATACATTGAAGAAAATATCGACACATTGAAGA
* *
358121 ATGTATCGATACATTCATGC-ATGTATCGATACATTGAA-AAAAGTATCGATACAT
1 ATGTATCGATACATTCA-ACAATGTATCGATACATTGAAGAAAA-TATCGACACAT
358175 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 2 0.04
60 44 0.94
61 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (60 bp):
ATGTATCGATACATTCAACAATGTATCGATACATTGAAGAAAATATCGACACATTGAAGA
Found at i:358238 original size:24 final size:20
Alignment explanation
Indices: 358061--358225 Score: 132
Period size: 20 Copynumber: 7.7 Consensus size: 20
358051 TTTTAACTAG
*
358061 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAAAA
*
358081 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
358101 CTATATCGACACATTGAAGA
1 ATGTATCGATACATTGAAAA
* ***
358121 ATGTATCGATACATTCATGC
1 ATGTATCGATACATTGAAAA
358141 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
358161 AAGTATCGATACATCTGGGTAAAAAAACAGA
1 ATGTATCGATACAT-T--G------AA-A-A
358192 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
358212 ATGTATCGATACAT
1 ATGTATCGATACAT
358226 CTGGGTAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
20 94 0.80
21 2 0.02
22 2 0.02
23 1 0.01
28 1 0.01
29 2 0.02
30 2 0.02
31 14 0.12
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:363102 original size:28 final size:28
Alignment explanation
Indices: 363068--363912 Score: 461
Period size: 28 Copynumber: 30.5 Consensus size: 28
363058 CACCCACTTG
363068 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* ** *
363096 CGTGGGCTTTGGAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
** **
363124 CATGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
363152 CGTGGGCTTTGGAAA-GATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* *
363180 CGTGGGCTTT-GAAGAGATGCCACTGACT
1 TGTGGGCTTTAAAAG-GATGCCACTGACT
*
363208 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
363236 CGTGGGCTTTGAAAATG-TGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
*
363264 TGTGGGCTTGGAAAA-GATGCCACTGACT
1 TGTGGGCTT-TAAAAGGATGCCACTGACT
* * *
363292 TGTGGGTTTTGAAAGGGTGCCACTGA-T
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
363319 TCATGGGCTTTGAAAAGGATACCACTTACT
1 T-GTGGGCTTT-AAAAGGATGCCACTGACT
* *
363349 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
363377 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
363404 TATGGAC-ATAAAATGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
363431 TATGGGCTTTAAAATGATGCCAC-GAAGT
1 TGTGGGCTTTAAAAGGATGCCACTG-ACT
* * * * *
363459 TGTGGACTTAAAAAGGGCTGCCACAGAGT
1 TGTGGGCTTTAAAA-GGATGCCACTGACT
* * * *
363488 TGTGGAC-TTAAAAGGGTACCAC-GATGT
1 TGTGGGCTTTAAAAGGATGCCACTGA-CT
* * * * *
363515 TGTAGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * **
363543 TATGGACTTTAAAAGG-TGCCA-TGGTGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * *
363570 TGTGGACTTT-AAAGGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
363597 TTTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* ** * * *
363625 TTTGAACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
** * * *
363653 TGTGAACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
363681 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
363708 TGTGGAC-TTAAAAGGGTGTCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * ** *
363735 TGCGGACTTTAAAAGGTTGCCACAAAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
363763 TATGGAC-TTAAAA-GAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGA-TGCCACTGACT
* * * * *
363790 TGTGGAC-TTAAAAGGGTGTCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * ** *
363817 TGTGGACTTTAAAAGGTTGCCACAAAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
363845 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
363872 TGT-GGCTTTTAAAAGGATGCCACAGAGT
1 TGTGGGC-TTTAAAAGGATGCCACTGACT
* *
363900 TATGGACTTTAAA
1 TGTGGGCTTTAAA
363913 GGGTTCCACG
Statistics
Matches: 691, Mismatches: 97, Indels: 58
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.02
27 213 0.31
28 412 0.60
29 51 0.07
30 3 0.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGATGCCACTGACT
Found at i:363409 original size:27 final size:27
Alignment explanation
Indices: 363366--363995 Score: 627
Period size: 27 Copynumber: 22.9 Consensus size: 27
363356 TTTGAAATGA
* *
363366 TGCCACTGACTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
363393 TGCCACGGAGTTATGGACATAAAATGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * * * *
363420 TGCCACTGACTTATGGGCTTTAAAATGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
363448 TGCCACGAAGTTGTGGACTTAAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
*
363476 CTGCCACAGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
363504 TACCAC-GATGTTGTAGACTTTAAAAGGG
1 TGCCACGGA-GTTGTGGAC-TTAAAAGGG
* *
363532 TGCCACAGAGTTATGGACTTTAAAA-GG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * *
363559 TGCCATGGTGTTGTGGACTTTAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
363586 TGCCACAGAGTTTTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
363614 TGCCACGGAGTTTTGAACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
363642 TGCCACGGAGTTGTGAACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
363670 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
363697 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
363724 TGTCACGGAGTTGCGGACTTTAAAAGGT
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
** * *
363752 TGCCACAAAGTTATGGACTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
363779 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
363806 TGTCACGGAGTTGTGGACTTTAAAAGGT
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
** *
363834 TGCCACAAAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
363861 TGCCACGGAGTTGTGG-CTTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC--TTAAAAGGG
* * *
363889 TGCCACAGAGTTATGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * * * *
363916 TTCCACGAAGCTATGGACTTAACAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
363943 TGCCACGGAGCTGTGGACTTAATAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
363970 TGCCATGGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAG
363996 AAAAAGGTTG
Statistics
Matches: 506, Mismatches: 83, Indels: 27
0.82 0.13 0.04
Matches are distributed among these distances:
26 8 0.02
27 268 0.53
28 209 0.41
29 21 0.04
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:363446 original size:82 final size:83
Alignment explanation
Indices: 363167--363995 Score: 648
Period size: 82 Copynumber: 10.0 Consensus size: 83
363157 GCTTTGGAAA
* * * * * * * * *
363167 GATGCCACTGACTCGTGGGCTTT-GAAGAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
1 GATGCCACTGAGTTGTGGACTTTAAAAG-GATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
* * * * *
363231 TGACTCGTGGGCTTTGAAAAT
64 GGAGTTGTGGACTTT-AAAAG
* * * * * ** *
363252 G-TGCCACTGACTTGTGGGCTTGGAAAA-GATGCCACTGACTTGTGGGTTTTGAAAGGGTGCCAC
1 GATGCCACTGAGTTGTGGACTT-TAAAAGGATGCCACGGAGTTGT-GGACTTAAAAGGGTGCCAC
* * *
363315 TGA-TTCATGGGCTTTGAAAAG
64 GGAGTT-GTGGACTTT-AAAAG
* * * * * * * *
363336 GATACCACTTACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGGGTGCCACGG
1 GATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
363401 AGTTATGGAC-ATAAAAT
66 AGTTGTGGACTTTAAAAG
* * * * *
363418 GATGCCACTGACTTATGGGCTTTAAAATGATGCCACGAAGTTGTGGACTTAAAAAGGGCTGCCAC
1 GATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGG-TGCCAC
*
363483 AGAGTTGTGGAC-TTAAAAG
64 GGAGTTGTGGACTTTAAAAG
* * * * * * *
363502 GGTACCAC-GATGTTGTAGACTTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAA-GGTGCCAT
1 GATGCCACTGA-GTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
*
363565 GGTGTTGTGGACTTT-AAAG
64 GGAGTTGTGGACTTTAAAAG
* * * *
363584 GATGCCACAGAGTTTTGGACTTTAAAAGGATGCCACGGAGTTTTGAACTTTAAAAGGGTGCCACG
1 GATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
*
363649 GAGTTGTGAACTTTAAAAG
65 GAGTTGTGGACTTTAAAAG
* * * *
363668 GGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGG
1 GATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
363732 AGTTGCGGACTTTAAAAG
66 AGTTGTGGACTTTAAAAG
* ** * *
363750 GTTGCCACAAAGTTATGGAC-TTAAAA-GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACG
1 GATGCCACTGAGTTGTGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
363813 GAGTTGTGGACTTTAAAAG
65 GAGTTGTGGACTTTAAAAG
* ** * * *
363832 GTTGCCACAAAGTTATGGAC-TTAAAAGGGTGCCACGGAGTTGTGG-CTTTTAAAAGGATGCCAC
1 GATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC--TTAAAAGGGTGCCAC
* *
363895 AGAGTTATGGACTTT-AAAG
64 GGAGTTGTGGACTTTAAAAG
* * * * * * * * * *
363914 GGTTCCAC-GAAGCTATGGAC-TTAACAGGTTGCCACGGAGCTGTGGACTTAATAGGTTGCCATG
1 GATGCCACTG-AGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
363977 GAGTTGTGGACTTTAAAAG
65 GAGTTGTGGACTTTAAAAG
363996 AAAAAGGTTG
Statistics
Matches: 634, Mismatches: 88, Indels: 47
0.82 0.11 0.06
Matches are distributed among these distances:
81 27 0.04
82 303 0.48
83 89 0.14
84 172 0.27
85 41 0.06
86 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (83 bp):
GATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTTAAAAG
Found at i:363465 original size:55 final size:55
Alignment explanation
Indices: 363366--363995 Score: 639
Period size: 55 Copynumber: 11.5 Consensus size: 55
363356 TTTGAAATGA
* * * * * *
363366 TGCCACTGACTTGTGGAC-TTAAAAGGGTGCCACGGAGTTATGGACATAAAATGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * * * * *
363420 TGCCACTGACTTATGGGCTTTAAAATGATGCCACGAAGTTGTGGACTTAAAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGG
* *
363476 CTGCCACAGAGTTGTGGAC-TTAAAAGGGTACCAC-GATGTTGTAGACTTTAAAAGGG
1 -TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGA-GTTGTGGAC-TTAAAAGGG
* * * * *
363532 TGCCACAGAGTTATGGACTTTAAAA-GGTGCCATGGTGTTGTGGACTTTAAAGGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
363586 TGCCACAGAGTTTTGGACTTTAAAAGGATGCCACGGAGTTTTGAACTTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
363642 TGCCACGGAGTTGTGAACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
363697 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGTCACGGAGTTGCGGACTTTAAAAGGT
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
363752 TGCCACAAAGTTATGGAC-TTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * ** *
363806 TGTCACGGAGTTGTGGACTTTAAAAGGTTGCCACAAAGTTATGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * * *
363861 TGCCACGGAGTTGTGG-CTTTTAAAAGGATGCCACAGAGTTATGGACTTTAAAGGG
1 TGCCACAGAGTTGTGGAC-TTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * * * * * *
363916 TTCCAC-GAAGCTATGGAC-TTAACAGGTTGCCACGGAGCTGTGGACTTAATAGGT
1 TGCCACAG-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
**
363970 TGCCATGGAGTTGTGGACTTTAAAAG
1 TGCCACAGAGTTGTGGACTTTAAAAG
363996 AAAAAGGTTG
Statistics
Matches: 481, Mismatches: 79, Indels: 31
0.81 0.13 0.05
Matches are distributed among these distances:
54 136 0.28
55 242 0.50
56 87 0.18
57 16 0.03
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (55 bp):
TGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:371124 original size:19 final size:18
Alignment explanation
Indices: 371100--371160 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 18
371090 AAAAGGTGAT
371100 AAAAAAAAACAAACAAACA
1 AAAAAAAAACAAACAAA-A
*
371119 AAAAAAAAACACACAAAA
1 AAAAAAAAACAAACAAAA
371137 AAAAACAAAA-AAACAAAA
1 AAAAA-AAAACAAACAAAA
371155 AAAAAA
1 AAAAAA
371161 CACAGAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.03
18 18 0.46
19 20 0.51
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAACAAAA
Found at i:371126 original size:33 final size:33
Alignment explanation
Indices: 371100--371172 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
371090 AAAAGGTGAT
*
371100 AAAAAAAAACAAACAAACAAAAAAAAAACACAC
1 AAAAAAAAACAAAAAAACAAAAAAAAAACACAC
*
371133 AAAAAAAAACAAAAAAACAAAAAAAAAACACAG
1 AAAAAAAAACAAAAAAACAAAAAAAAAACACAC
371166 AAAAAAA
1 AAAAAAA
371173 GTGCAAAGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (33 bp):
AAAAAAAAACAAAAAAACAAAAAAAAAACACAC
Found at i:371136 original size:11 final size:10
Alignment explanation
Indices: 371122--371171 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
371112 ACAAACAAAA
371122 AAAAAACACAC
1 AAAAAA-ACAC
*
371133 AAAAAAAAAC
1 AAAAAAACAC
*
371143 AAAAAAACAAA
1 AAAAAAAC-AC
371154 AAAAAAACAC
1 AAAAAAACAC
371164 AGAAAAAA
1 A-AAAAAA
371172 AGTGCAAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 12 0.36
11 21 0.64
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:371161 original size:19 final size:19
Alignment explanation
Indices: 371102--371162 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
371092 AAGGTGATAA
371102 AAAAAAACAAACAAACAAAA-
1 AAAAAAACAAA-AAA-AAAAC
371122 AAAAAACACACAAAAAAAAAC
1 AAAAAA-ACA-AAAAAAAAAC
371143 AAAAAAACAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
371162 A
1 A
371163 CAGAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.29
20 13 0.34
21 12 0.32
22 2 0.05
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAC
Found at i:371172 original size:1 final size:1
Alignment explanation
Indices: 371100--371160 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
371090 AAAAGGTGAT
* * * * * * * *
371100 AAAAAAAAACAAACAAACAAAAAAAAAACACACAAAAAAAAACAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
371161 CACAGAAAAA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:371426 original size:12 final size:12
Alignment explanation
Indices: 371409--371442 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
371399 TGTTCTTTTC
371409 CAAAAAAAAAAA
1 CAAAAAAAAAAA
371421 CAAAAAAAAAAA
1 CAAAAAAAAAAA
*
371433 GAAAAAAAAA
1 CAAAAAAAAA
371443 GAAGAACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:371428 original size:13 final size:13
Alignment explanation
Indices: 371410--371448 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
371400 GTTCTTTTCC
*
371410 AAAAAAAAAAA-C
1 AAAAAAAAAAAGA
371422 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
*
371435 AAAAAAAAGAAGA
1 AAAAAAAAAAAGA
371448 A
1 A
371449 CAACCCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.90, C:0.03, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:372487 original size:30 final size:30
Alignment explanation
Indices: 372378--372663 Score: 344
Period size: 30 Copynumber: 9.2 Consensus size: 30
372368 AATTCTTCAA
* *
372378 ATCTCTTCTCAAAATCCACGACTCAGTGGC
1 ATCTTTTCTCAAAGTCCACGACTCAGTGGC
*
372408 AATCTCTTCTCAAAGTCCACGACTCAGTGGC
1 -ATCTTTTCTCAAAGTCCACGACTCAGTGGC
*
372439 ATCTTTTACTTTAAAGTCCACGACTCAGTGGC
1 ATCTTTT-C-TCAAAGTCCACGACTCAGTGGC
372471 AT-TTTGTCTCAAAGTCCACGACTCAGTGGC
1 ATCTTT-TCTCAAAGTCCACGACTCAGTGGC
* *
372501 ATCTTTTCCTTTAAAGTCCACAACTCAGTGGC
1 ATCTTTT-C-TCAAAGTCCACGACTCAGTGGC
372533 AT-TTTGTCTCAAAGTCCACGACTCAGTGGC
1 ATCTTT-TCTCAAAGTCCACGACTCAGTGGC
372563 ATCTTTTCCTTCAAAGTCCACGACTCAGTGGC
1 ATCTTTT-C-TCAAAGTCCACGACTCAGTGGC
*
372595 AT-TTTGTCTCAAAGTCCACGACTCAGTGAC
1 ATCTTT-TCTCAAAGTCCACGACTCAGTGGC
* * * *
372625 ATTTTTTCTTCAAAGCCCACAACTCTGTGGC
1 ATCTTTTC-TCAAAGTCCACGACTCAGTGGC
372656 ACTCTTTT
1 A-TCTTTT
372664 TCCCTTTTCA
Statistics
Matches: 227, Mismatches: 14, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
30 78 0.34
31 72 0.32
32 77 0.34
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (30 bp):
ATCTTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:372493 original size:62 final size:62
Alignment explanation
Indices: 372386--372656 Score: 411
Period size: 62 Copynumber: 4.4 Consensus size: 62
372376 AAATCTCTTC
* * *
372386 TCAAAATCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTTTTACT
1 TCAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
*
372449 TTAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
* *
372511 TTAAAGTCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
* *
372573 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGACAT-TTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
* * *
372634 TCAAAGCCCACAACTCTGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
372657 CTCTTTTTCC
Statistics
Matches: 195, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
61 28 0.14
62 147 0.75
63 20 0.10
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (62 bp):
TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
Found at i:372665 original size:33 final size:33
Alignment explanation
Indices: 372417--373706 Score: 1232
Period size: 33 Copynumber: 38.9 Consensus size: 33
372407 CAATCTCTTC
* * * *
372417 TCAAAGTCCACGACTCAGTGGCA-TCTTTTACT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * * *
372449 TTAAAGTCCACGACTCAGTGGCA-T-TTTGTC-
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
372479 TCAAAGTCCACGACTCAGTGGCA-TCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
372511 TTAAAGTCCACAACTCAGTGGCA-T-TTTGTC-
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
372541 TCAAAGTCCACGACTCAGTGGCA-TCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
372573 TCAAAGTCCACGACTCAGTGGCA-T-TTTGTC-
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
372603 TCAAAGTCCACGACTCAGTGACA-T-TTTTTCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
372634 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--C--T
372671 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT-T
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
372702 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * *
372734 TAAAAGCCCACAACTCTGTGGCACACTTTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC--T
* * *
372769 TTAAAGCCCACAACTCTGTGGCACCCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--C--T
*
372806 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
372839 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * *
372872 TCTAAGCCCACAACTCCGTGGCACTATTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTT-TCT
* * *
372906 TTAAAGCCCACAACTCTGTGGCACCCTTTTTCCCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT--C--T
*
372943 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
372976 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
373009 TCTAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
373042 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
373075 TCTAAGCCCACAACTCCGTGGCATTCTTTTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
* * * *
373109 TTAAAGCCCACAACTCTGTGGCACACTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
373142 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
373175 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
373208 TCTAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
373241 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
373274 TCTAAGCCCACAACTCCGTGGCATTCTTTTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
* *
373308 TTAAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * ** *
373341 TTAAAGCCCATAATTATGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
373374 TCTAAGCCCACAACTCCGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * *
373407 TTAAAGCCCACAATTACGTGGCACTCTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
373440 TCTAAGCCCACAACTCCGTGGCATTCTTTTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
* * * *
373474 TTAAAGCCCACAACTCTGTGGCACACTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
373507 TCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT-CT
*
373541 TCTAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT-CT
* *
373575 TCTAAGCCCACAACTTCGTGGCACTCTTTTTCCT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTT-CT
*
373609 TCTAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTT
1 TCAAAGCCCACAACTCCGTGGCACTC-TTTTT--C-T
* *
373646 TTAAAGCCCACAACTCCGTGGCACT-TTGTTCTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
** * *
373679 TTTAAGTCCACAACTTCGTGGCA-TCTTT
1 TCAAAGCCCACAACTCCGTGGCACTCTTT
373707 CACCCTTTCT
Statistics
Matches: 1089, Mismatches: 139, Indels: 59
0.85 0.11 0.05
Matches are distributed among these distances:
30 73 0.07
31 70 0.06
32 94 0.09
33 492 0.45
34 203 0.19
35 42 0.04
36 8 0.01
37 107 0.10
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
TCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
Found at i:373184 original size:166 final size:167
Alignment explanation
Indices: 372424--373706 Score: 1374
Period size: 166 Copynumber: 7.7 Consensus size: 167
372414 TTCTCAAAGT
* * * * * * *
372424 CCACGACTCAGTGGCA-TCTTTTAC-TTTAAAGTCCACGACTCAGTGGCA-T-TTTGT-C-TCAA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCAA
* * * * *
372483 AGTCCACGACTCAGTGGCA-TCTTTTCCTTTAAAGTCCACAACTCAGTGGCA-T-TTTGT-C-TC
66 AGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTT-TCCTTC
* * * * * *
372543 AAAGTCCACGACTCAGTGGCA-TCTTTTCCTTCAAAGT
130 TAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGC
* * * * * * * *
372580 CCACGACTCAGTGGCA-T-TTTGTC--TCAAAGTCCACGACTCAGTGACA-T-TTTTT-CTTCAA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCAA
* *
372638 AGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT-T
66 AGCCCACAACTCCGTGGCACTC-TTTT-CC-TTT-AAAGCCCACAACTCCGTGGCACTCTTTTCC
* ** **
372701 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTTTTTAAAAGC
127 TTCTAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGC
* * * *
372741 CCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTTTCCCTTT
1 CCACAACTCCGTGGCACTCTTTTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CC--T
* *
372806 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCC
62 TCAAAGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTCC
* * *
372871 TTCTAAGCCCACAACTCCGTGGCACTATTTTCTTTTTAAAGC
127 TTCTAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT-AAGC
* *
372913 CCACAACTCTGTGGCACCCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-TTTTCCTT
1 CCACAACTCCGTGGCACTCTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
* * *
372977 TAAAGCCCACAATTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTCC
63 CAAAGCCCACAACTCCGTGGCACTCTTTTCCTT-TAAAGCCCACAACTCCGTGGCACTCTTTTCC
* *
373041 TT-TAAAGCCCACAATTACGTGGCACTCTTTTCCTTCTAAGC
127 TTCT-AAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGC
* * *
373082 CCACAACTCCGTGGCATTCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACAC-TTTTCCTTCAA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCAA
* *
373146 AGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAATTACGTGGCACTCTTTTCCTTCT
66 AGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
373211 AAGCCCACAACTCCGTGGCACTCTTTTCCTT-TAAAGC
131 AAGCCCACAACTCCGTGGCACTCTTTTCCTTCT-AAGC
* * * * * * *
373248 CCACAATTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCATTCTTTTTCTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCAA
* * **
373312 AGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCATAATTATGTGGCACTCTTTTCCTTCT
66 AGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
373377 AAGCCCACAACTCCGTGGCACTCTTTTCCTT-TAAAGC
131 AAGCCCACAACTCCGTGGCACTCTTTTCCTTCT-AAGC
* * * * * * *
373414 CCACAATTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCATTCTTTTTCTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCAA
* *
373478 AGCCCACAACTCTGTGGCACACTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTT
66 AGCCCACAACTCCGTGGCACTCTTTTCCTT-TAAAGCCCACAACTCCGTGGCACTC-TTTTCCTT
373542 CTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
129 CTAAGCCCACAACTCCGTGGCACTC-TTTTCCTTCTAAGC
* *
373582 CCACAACTTCGTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCTT
1 CCACAACTCCGTGGCACTCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTT-CC-T
* * * * *
373646 TTAAAGCCCACAACTCCGTGGCACT-TTGTTCTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
62 TCAAAGCCCACAACTCCGTGGCACTCTT-TTCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
373707 CACCCTTTCT
Statistics
Matches: 993, Mismatches: 90, Indels: 74
0.86 0.08 0.06
Matches are distributed among these distances:
154 27 0.03
155 24 0.02
156 19 0.02
157 4 0.00
158 2 0.00
159 3 0.00
160 20 0.02
161 48 0.05
163 5 0.01
165 22 0.02
166 384 0.39
167 40 0.04
168 58 0.06
169 62 0.06
170 124 0.12
171 18 0.02
172 102 0.10
173 8 0.01
174 23 0.02
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (167 bp):
CCACAACTCCGTGGCACTCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCAA
AGCCCACAACTCCGTGGCACTCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
AAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGC
Found at i:373896 original size:49 final size:49
Alignment explanation
Indices: 373780--374555 Score: 916
Period size: 49 Copynumber: 15.8 Consensus size: 49
373770 GCAACCCCTC
* * *
373780 TAAGCCCAATATAGCTGGCCTTGAATTAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* * *
373832 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
373881 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
373933 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
373982 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
374031 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
374080 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
374129 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
374172 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
374220 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
374269 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
374318 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CATCTT
* *
374367 TAAGTCC-ATATAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
374409 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
374461 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T--TCATCTT
* * * * *
374517 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
374556 TCTTTATCAC
Statistics
Matches: 630, Mismatches: 68, Indels: 48
0.84 0.09 0.06
Matches are distributed among these distances:
42 37 0.06
43 38 0.06
44 1 0.00
45 1 0.00
48 40 0.06
49 348 0.55
50 5 0.01
51 2 0.00
52 116 0.18
53 2 0.00
55 3 0.00
56 36 0.06
57 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:374258 original size:189 final size:189
Alignment explanation
Indices: 373788--374501 Score: 947
Period size: 189 Copynumber: 3.7 Consensus size: 189
373778 TCTAAGCCCA
* * *
373788 ATATAGCTGGCCTTGAATTAGCATATTGGCACATTTTCCATCTTTAAGTCCAATGTAGCTGGCCT
1 ATATAGCTGGCCTTGAATCAGCATATTGGCAC-CTTT--ATCTTTAAGTCCAATATAGCTGGCCT
*
373853 TGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
63 TGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
*
373918 CACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTT
128 CA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTT
373983 AAGTCC
184 AAGTCC
* * *
373989 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTG
1 -ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTG
* *
374054 AATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
65 AATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
374119 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCC
130 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCC
*
374179 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
* * * *
374244 CTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-
66 ATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAT
* *
374308 CTTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACTTGCACCATTAAGTC
131 C-TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATT-G-----GCACCTTTAAGTC
374373 C
189 C
* *
374374 ATATAGCTGGCCTTGAATCAACACATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
* * * * * *
374433 ATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGA
66 ATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
374498 CATC
128 CATC
374502 CTTTTTCATC
Statistics
Matches: 466, Mismatches: 35, Indels: 31
0.88 0.07 0.06
Matches are distributed among these distances:
188 1 0.00
189 201 0.43
190 11 0.02
191 2 0.00
192 39 0.08
193 1 0.00
194 1 0.00
195 42 0.09
196 45 0.10
197 3 0.01
199 88 0.19
201 2 0.00
202 30 0.06
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (189 bp):
ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGA
ATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAT
CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCC
Found at i:374542 original size:56 final size:52
Alignment explanation
Indices: 374406--374544 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
374396 ACATTGGCAC
* *
374406 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
374458 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
374514 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
374545 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:375409 original size:33 final size:33
Alignment explanation
Indices: 375372--375438 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
375362 TTCAACGATT
375372 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
375405 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
375438 T
1 T
375439 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:375410 original size:13 final size:13
Alignment explanation
Indices: 375392--375416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
375382 CATAAAATGT
375392 TGTATCGATACAA
1 TGTATCGATACAA
375405 TGTATCGATACA
1 TGTATCGATACA
375417 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:375497 original size:13 final size:13
Alignment explanation
Indices: 375479--375503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
375469 ATTACTCAAA
375479 TGTATCGATACAT
1 TGTATCGATACAT
375492 TGTATCGATACA
1 TGTATCGATACA
375504 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:375605 original size:52 final size:52
Alignment explanation
Indices: 375512--375639 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
375502 CACTGATCTT
*
375512 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
375563 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
375615 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
375640 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:382507 original size:13 final size:13
Alignment explanation
Indices: 382491--382520 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
382481 ATACATTGTC
*
382491 CATTGTATCGATA
1 CATTGTATCAATA
382504 CATTGTATCAATA
1 CATTGTATCAATA
382517 CATT
1 CATT
382521 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:382561 original size:20 final size:19
Alignment explanation
Indices: 382536--382643 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 19
382526 TTTACCTAGA
*
382536 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
382556 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-CTCAT
382576 TGTATCGAT--A---T-AT
1 TGTATCGATACATTCTCAT
382589 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-CTCAT
* * *
382609 TGTATCAATACATTTTACAA
1 TGTATCGATACATTCT-CAT
*
382629 TGTGTCGATACATTC
1 TGTATCGATACATTC
382644 AGGCATTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 11 0.15
14 1 0.01
15 1 0.01
18 1 0.01
19 2 0.03
20 55 0.76
21 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:382622 original size:13 final size:13
Alignment explanation
Indices: 382573--382603 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
382563 ATACATTGCT
382573 CATTGTATCGATA
1 CATTGTATCGATA
*
382586 TATTGTATCGATA
1 CATTGTATCGATA
382599 CATTG
1 CATTG
382604 CTCATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:385074 original size:50 final size:50
Alignment explanation
Indices: 384945--385109 Score: 172
Period size: 51 Copynumber: 3.3 Consensus size: 50
384935 TTTCATCTCA
* * * * *
384945 GGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCG
1 GGGATACTCCAACT-CCGATTT-ATTTCTAAAACACCAATTTTCCATAATCG
* *
384996 GGGATACTCCAACTCCGATTTTATTTCTAAAGCACCCATTTTCCATAATCG
1 GGGATACTCCAACTCCGA-TTTATTTCTAAAACACCAATTTTCCATAATCG
* * * *
385047 GGGATACTCCAACTCCGATTTATTTCTAAAATACTAAATTTT-TACAATCG
1 GGGATACTCCAACTCCGATTTATTTCTAAAACAC-CAATTTTCCATAATCG
*
385097 GGGATACTGCAAC
1 GGGATACTCCAAC
385110 CTTGTTATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
50 32 0.33
51 61 0.63
52 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (50 bp):
GGGATACTCCAACTCCGATTTATTTCTAAAACACCAATTTTCCATAATCG
Found at i:385254 original size:155 final size:157
Alignment explanation
Indices: 385065--385365 Score: 389
Period size: 155 Copynumber: 1.9 Consensus size: 157
385055 CCAACTCCGA
* * **
385065 TTTATTTCTAAAATACTAAATTTTTACAATCGGGGATACTGC-AACCTTGTTA-TTTCTGAGGGG
1 TTTATGTCTAAAATACTAAATTTTCACAATCGGGGATACT-CTAACCCCGTTATTTTC-GAGGGG
* *
385128 ACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTT-T-ATC-AGGGATACTCCAACCTCG
64 ACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTATAATCGA-GGATACTCCAACCCCG
*
385190 TTATTTTCGAGAGGATACCCCAACCTTGGC
128 TTATTTCCGAGAGGATACCCCAACCTTGGC
* *
385220 TTTATGTCTAAAATA-TTAATTTCTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGA
1 TTTATGTCTAAAATACTAAATTT-TCACAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGA
* * * *
385284 TACTCCAACCCCAGTTTTATTTCTAAAATATTAATTTTTCATAATCGAGGATACTCTAACCCCGT
65 CACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTT-ATAATCGAGGATACTCCAACCCCGT
*
385349 TATTTCCGAGGGGATAC
129 TATTTCCGAGAGGATAC
385366 TCTAACCCCA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
154 7 0.06
155 79 0.63
156 4 0.03
157 1 0.01
158 33 0.26
159 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (157 bp):
TTTATGTCTAAAATACTAAATTTTCACAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGAC
ACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTATAATCGAGGATACTCCAACCCCGTTA
TTTCCGAGAGGATACCCCAACCTTGGC
Found at i:385285 original size:79 final size:78
Alignment explanation
Indices: 385046--385374 Score: 362
Period size: 79 Copynumber: 4.2 Consensus size: 78
385036 TTCCATAATC
* * * * *
385046 GGGGATACTCCAACTCC-GATTTATTTCTAAAATACTAAATTTTTACAATCGGGGATACTGC-AA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATA-TTAATTTTCATAATCGGGGATACT-CTAA
**
385109 CCTTGTTA-TTTCTGA
64 CCCCGTTATTTTC-GA
* * * * * *
385124 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTT--TTATCAGGGATACTCCAACC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTCATAATCGGGGATACTCTAACC
*
385187 TCGTTATTTTCGA
66 CCGTTATTTTCGA
* * ** * *
385200 GAGGATACCCCAACCTTGGCTTTATGTCTAAAATATTAATTTCTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTT-TCATAATCGGGGATACTCTAAC
385265 CCCGTTATTTTCGA
65 CCCGTTATTTTCGA
* *
385279 GGGGATACTCCAACCCCAGTTTTATTTCTAAAATATTAATTTTTCATAATCGAGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAA-TTTTCATAATCGGGGATACTCTAAC
*
385344 CCCGTTATTTCCGA
65 CCCGTTATTTTCGA
*
385358 GGGGATACTCTAACCCC
1 GGGGATACTCCAACCCC
385375 AAAACATCAA
Statistics
Matches: 212, Mismatches: 32, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
75 1 0.00
76 55 0.26
77 5 0.02
78 22 0.10
79 126 0.59
80 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTCATAATCGGGGATACTCTAACC
CCGTTATTTTCGA
Found at i:385510 original size:145 final size:146
Alignment explanation
Indices: 385237--385520 Score: 394
Period size: 145 Copynumber: 2.0 Consensus size: 146
385227 CTAAAATATT
* *
385237 AATTTCTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTT
1 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTT
* * * *
385302 ATTTCTAAAATATTAATTTTTCATAATCGAGGATACTCTAACCCCGTTATTTCCGAGGGGATACT
66 ATTTCTAAAATATCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGAGATACT
*
385367 CTAACCCCAAAACATC
131 CCAACCCCAAAACATC
* * *
385383 AATTTTTCATAGTCGGGGATACTCCAACCCCGTTATTTCCGA-GGGATACTCCAATCCC-GATTT
1 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAG-TTT
* * * **
385446 TATTTCT-AAATCATCGATTTTTCACAGTCGGGGATACTCCAACCCCGTTATTTTTGAGGAGATA
65 TATTTCTAAAAT-ATCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGAGATA
385510 CTCCAACCCCA
129 CTCCAACCCCA
385521 TTATTATCTC
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
144 5 0.04
145 78 0.64
146 38 0.31
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (146 bp):
AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTT
ATTTCTAAAATATCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGAGATACT
CCAACCCCAAAACATC
Found at i:397900 original size:1 final size:1
Alignment explanation
Indices: 397896--397994 Score: 81
Period size: 1 Copynumber: 99.0 Consensus size: 1
397886 ATTCTTTTTC
* * * * * * * *
397896 AAAAAAAATAAAAAAAACAACAAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
397961 AAAAAAACAAAACAAAGAAAAAGAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
397995 GAAGAATCTT
Statistics
Matches: 72, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:397910 original size:8 final size:8
Alignment explanation
Indices: 397896--397981 Score: 97
Period size: 8 Copynumber: 10.8 Consensus size: 8
397886 ATTCTTTTTC
397896 AAAAAA-A
1 AAAAAACA
*
397903 ATAAAA-A
1 AAAAAACA
*
397910 AAACAACAA
1 AAAAAAC-A
397919 AAAAAACA
1 AAAAAACA
397927 AAAAAACA
1 AAAAAACA
397935 AAAAAACA
1 AAAAAACA
397943 AAAAAACAA
1 AAAAAAC-A
397952 AAAAAACA
1 AAAAAACA
397960 AAAAAA-A
1 AAAAAACA
*
397967 ACAAAACA
1 AAAAAACA
397975 AAGAAAA
1 AA-AAAA
397982 AGAGAAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
7 16 0.24
8 33 0.49
9 19 0.28
ACGTcount: A:0.87, C:0.10, G:0.01, T:0.01
Consensus pattern (8 bp):
AAAAAACA
Found at i:397982 original size:16 final size:15
Alignment explanation
Indices: 397895--397982 Score: 97
Period size: 15 Copynumber: 5.7 Consensus size: 15
397885 CATTCTTTTT
397895 CAAAAAAAATAAAAAA
1 CAAAAAAAA-AAAAAA
* *
397911 -AACAACAAAAAAAA
1 CAAAAAAAAAAAAAA
397925 CAAAAAAACAAAAAAA
1 CAAAAAAA-AAAAAAA
397941 CAAAAAAACAAAAAAAA
1 C-AAAAAA-AAAAAAAA
*
397958 CAAAAAAAAACAAAA
1 CAAAAAAAAAAAAAA
*
397973 CAAAGAAAAA
1 CAAAAAAAAA
397983 GAGAAAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
14 6 0.10
15 27 0.44
16 14 0.23
17 14 0.23
18 1 0.02
ACGTcount: A:0.86, C:0.11, G:0.01, T:0.01
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Found at i:397989 original size:24 final size:24
Alignment explanation
Indices: 397896--397993 Score: 98
Period size: 25 Copynumber: 4.2 Consensus size: 24
397886 ATTCTTTTTC
* *
397896 AAAA-AAAATAAAAAAAAC--AAC
1 AAAACAAAACAAAAAAAACAAAAA
397917 AAAA-AAAAC-AAAAAAACAAAAA
1 AAAACAAAACAAAAAAAACAAAAA
*
397939 AACAAAAAAACAAAAAAAACAAAAA
1 AA-AACAAAACAAAAAAAACAAAAA
*
397964 AAAACAAAACAAAGAAAAAGAGAAAA
1 AAAACAAAACAAA-AAAAACA-AAAA
397990 AAAA
1 AAAA
397994 AGAAGAATCT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.12
21 8 0.12
22 4 0.06
23 2 0.03
24 15 0.23
25 21 0.32
26 8 0.12
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (24 bp):
AAAACAAAACAAAAAAAACAAAAA
Found at i:397989 original size:25 final size:24
Alignment explanation
Indices: 397896--397994 Score: 92
Period size: 27 Copynumber: 3.8 Consensus size: 24
397886 ATTCTTTTTC
397896 AAAAAAAATAAAAAAAACAACAAAA-
1 AAAAAAAA-AAAAAAAA-AACAAAAC
397921 AAAACAAAAAAACAAAAAAACAAAAAAAC
1 AAAA-AAAAAAA-AAAAAAAC---AAAAC
*
397950 AAAAAAAACAAAAAAAAACAAAAC
1 AAAAAAAAAAAAAAAAAACAAAAC
397974 AAAGAAAAAGAGAAAAAAAAA
1 AAA-AAAAA-A-AAAAAAAAA
397995 GAAGAATCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
24 8 0.13
25 15 0.24
26 9 0.14
27 17 0.27
28 10 0.16
29 4 0.06
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAAACAAAAC
Found at i:399086 original size:55 final size:55
Alignment explanation
Indices: 398996--399450 Score: 464
Period size: 55 Copynumber: 8.0 Consensus size: 55
398986 GACGCCTTTT
* * ** *
398996 CCTTTCAAAGCCCACATAAGTTAGTGGCACCTTTCAGTCCTCAAAGAGTAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACG
* * *
399051 CCTTTCAAAACCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAAAGTAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACG
* * *
399106 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAACAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC-AGTCCTCAAAGAGCAGGACG
* * *
399161 CCTTTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACG
* * *
399216 CTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 C-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACG
* *
399277 CCTTTTCTTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACG
* * ** *
399337 CCTTTCAAAGCCCACACAAGTTAGTGGCA-TTTTCTAATCCTCAAAGAATAGGATGCTTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC-AGTCCTCAAAGAGCAGGA------CG
* * * **
399398 CCTTTCAAAGCCTACATAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGA
399451 TGCTCTCTCT
Statistics
Matches: 344, Mismatches: 36, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
54 9 0.03
55 175 0.51
56 9 0.03
59 4 0.01
60 50 0.15
61 94 0.27
62 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACG
Found at i:399126 original size:27 final size:27
Alignment explanation
Indices: 399042--399126 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
399032 GTCCTCAAAG
* *
399042 AGTAGGACGCCTTTCAAAACCCACACA
1 AGTAGGACGCCTTTTAAAGCCCACACA
* ** * ** *
399069 AGTTGGTGGCATTTTTCAGTCCTCA-AAA
1 AGTAGGACGCCTTTTAAAG-CC-CACACA
399097 AGTAGGACGCCTTTTAAAGCCCACACA
1 AGTAGGACGCCTTTTAAAGCCCACACA
399124 AGT
1 AGT
399127 TGGTGGCATT
Statistics
Matches: 39, Mismatches: 16, Indels: 6
0.64 0.26 0.10
Matches are distributed among these distances:
26 2 0.05
27 18 0.46
28 17 0.44
29 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (27 bp):
AGTAGGACGCCTTTTAAAGCCCACACA
Found at i:399138 original size:27 final size:28
Alignment explanation
Indices: 399061--399138 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
399051 CCTTTCAAAA
**
399061 CCCACACAAGTTGGTGGCATTTTTCAGT
1 CCCACACAAGTTGGTGGCATTTTAAAGT
* * ** *
399089 CCTCA-AAAAGTAGGACGCCTTTTAAAG-
1 CC-CACACAAGTTGGTGGCATTTTAAAGT
399116 CCCACACAAGTTGGTGGCATTTT
1 CCCACACAAGTTGGTGGCATTTT
399139 CTAGTCCTCA
Statistics
Matches: 36, Mismatches: 12, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
26 2 0.06
27 15 0.42
28 17 0.47
29 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (28 bp):
CCCACACAAGTTGGTGGCATTTTAAAGT
Found at i:399263 original size:116 final size:112
Alignment explanation
Indices: 398965--399450 Score: 507
Period size: 116 Copynumber: 4.2 Consensus size: 112
398955 CTCCTTTCAC
* * * *
398965 TTTT-CAGTCCTCAAAAAGTAGGACGCCTTTTCCTTTCAAAGCCCACATAAGTTAGTGGCACCTT
1 TTTTCCAGTCCTCAAAGAGCAGGACG-C--TT-CTTTCAAAGCCCACACAAGTTAGTGGCA-TTT
** * *
399029 T-CAGTCCTCAAAGAGTAGGACGCCTTTCAAAACCCACACAAGTTGGTGGCA
61 TCCAGTCCTCAAAGAACAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
399080 TTTTTCAGTCCTCAAAAAGTAGGACGC--CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAG
1 TTTTCCAGTCCTCAAAGAGCAGGACGCTTCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAG
*
399143 TCCTCAAAGAACAGGATGCCTTTCAAAGCCCATACAAGTTGGTGGCA
66 TCCTCAAAGAACAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
399190 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 TTTTCCAGTCCTCAAAGAGCAGGACGC---TTC-TTTCAAAGCCCACACAAGTTAGTGGCATTTT
* *
399255 CCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCA
62 CCAGTCCTCAAAGAACAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
* *
399311 TTTTCCAGTCCTCAAAGAGCAGGACGC--CTTTCAAAGCCCACACAAGTTAGTGGCATTTTCTAA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCTTCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAG
* * *
399374 TCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCTACATAAGTTGGTGGCA
66 TCCTCAAAGAACAGGATG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
399427 CTTCCCAGTCCTCAAAGAGCAGGA
1 TTTTCCAGTCCTCAAAGAGCAGGA
399451 TGCTCTCTCT
Statistics
Matches: 322, Mismatches: 30, Indels: 37
0.83 0.08 0.10
Matches are distributed among these distances:
109 3 0.01
110 92 0.29
115 53 0.16
116 117 0.36
117 4 0.01
120 4 0.01
121 49 0.15
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (112 bp):
TTTTCCAGTCCTCAAAGAGCAGGACGCTTCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAG
TCCTCAAAGAACAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:399350 original size:176 final size:170
Alignment explanation
Indices: 398996--399453 Score: 586
Period size: 176 Copynumber: 2.7 Consensus size: 170
398986 GACGCCTTTT
* * *
398996 CCTTTCAAAGCCCACATAAGTTAGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACGC----CTTT
1 CCTTTCAAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAAGAGTAGGATGCTTTTCTTT
* * * * *
399056 CAAAACCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAAAGTAGGACG-CCTTTTAAAGCCCA
65 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCCTTTTAAAGCCCA
* * *
399120 CACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAACAGGATG
130 CACAAATTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACG
* * *
399161 CCTTTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 CCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGC-TTTTC-TT
*
399226 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAA
64 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCC----CTTTTAAA
*
399291 GCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
125 GCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACG
* * *
399337 CCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCTAATCCTCAAAGAATAGGATGCTTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTT-T-CTT
* * * *
399402 TCAAAGCCTACATAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGC
64 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC
399454 TCTCTCTTTT
Statistics
Matches: 252, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
164 3 0.01
165 46 0.18
170 1 0.00
171 47 0.19
172 1 0.00
175 3 0.01
176 150 0.60
177 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (170 bp):
CCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTTCTTTC
AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCCTTTTAAAGCCCAC
ACAAATTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACG
Found at i:399557 original size:55 final size:55
Alignment explanation
Indices: 399479--399839 Score: 393
Period size: 55 Copynumber: 6.3 Consensus size: 55
399469 TTTAGACTTT
* * * *
399479 AAAGAGCAGGACGCGTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCATAGTCCTC
1 AAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC-CAGTCCTC
* *
399534 AAAGAGCAGGATGCCTTTCAAAGCCCATACAAGTTGGTGGCATTTTCTAGTCCTC
1 AAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
399589 AAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 AAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * *
399650 AAAGAGCAGGACGCCTTTTTTTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTC
1 AAAGAGCAGGATGCC-----TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * *
399710 AAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTTAGTGGCATTTTCCAGTCCTC
1 AAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
** *
399765 AAAGAATAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTC
1 AAAGAGCAGGATG------CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTC
399826 AAAGAGCAGGATGC
1 AAAGAGCAGGATGC
399840 TCTCTCTTTT
Statistics
Matches: 267, Mismatches: 21, Indels: 36
0.82 0.06 0.11
Matches are distributed among these distances:
55 107 0.40
56 5 0.02
60 60 0.22
61 95 0.36
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (55 bp):
AAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
Found at i:399648 original size:61 final size:60
Alignment explanation
Indices: 399494--399850 Score: 425
Period size: 61 Copynumber: 6.1 Consensus size: 60
399484 GCAGGACGCG
*
399494 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTCATAGTCCTCAAAGAGCAGGATGC----C-
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTC-CAGTCCTCAAAGAGCAGGATGCTTTTCT
* * *
399549 TTTCAAAGCCCATACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCT
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTTTCT
*
399610 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT-T
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTTCT
* *
399670 TTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC----C-
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
* * * ** *
399725 TTTCAAAGCCCACATAAGTTAGTGGCATTTTCCAGTCCTCAAAGAATAGGATGCTTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTT-TCT
* * *
399786 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCT
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGATGCT-TTTCT
399847 TTTT
1 TTTT
399851 GCCCTTTAGT
Statistics
Matches: 263, Mismatches: 22, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
55 94 0.36
56 4 0.02
59 1 0.00
60 59 0.22
61 103 0.39
62 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (60 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT
Found at i:399666 original size:116 final size:114
Alignment explanation
Indices: 399494--399850 Score: 400
Period size: 116 Copynumber: 3.0 Consensus size: 114
399484 GCAGGACGCG
* *
399494 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTCATAGTCCTCAAAGAGCAGGATGCCTTTCAAAGC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTC-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
*
399558 CCATACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCT
65 CCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGC--TTTCT
*
399610 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTA
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC-----TTTCA
* * *
399675 AAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC---C-
61 AAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTCT
* * * ** *
399725 TTTCAAAGCCCACATAAGTTAGTGGCATTTTCCAGTCCTCAAAGAATAGGATGCTTTCTCCTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------CGCCTTTC
* *
399790 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCT
60 AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCT-T-TCT
399847 TTTT
1 TTTT
399851 GCCCTTTAGT
Statistics
Matches: 203, Mismatches: 20, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
115 46 0.23
116 97 0.48
117 4 0.02
121 53 0.26
122 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (114 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
CACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTCT
Found at i:399796 original size:176 final size:176
Alignment explanation
Indices: 399494--399836 Score: 537
Period size: 176 Copynumber: 1.9 Consensus size: 176
399484 GCAGGACGCG
* * *
399494 TTTTAAAGCCCACACAAGTTGGTGGCATTTCATAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
1 TTTTAAAGCCCACACAAATTGGTGGCATTTCACAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
* * * * * * *
399559 CATACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACA
66 CACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAGGATGCTTTCTCCTTTCAAAGCCCACA
*
399624 CAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTT
131 CAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTT
399670 TTTTAAAGCCCACACAAATTGGTGGCATTTTC-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
1 TTTTAAAGCCCACACAAATTGGTGGCA-TTTCACAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
* *
399734 CCACATAAGTTAGTGGCATTTTCCAGTCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCCAC
65 CCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAGGATGCTTTCTCCTTTCAAAGCCCAC
399799 ACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
130 ACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
399837 TGCTCTCTCT
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
175 4 0.03
176 144 0.95
177 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (176 bp):
TTTTAAAGCCCACACAAATTGGTGGCATTTCACAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
CACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAGGATGCTTTCTCCTTTCAAAGCCCACA
CAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTT
Found at i:399813 original size:386 final size:387
Alignment explanation
Indices: 399100--400104 Score: 1555
Period size: 386 Copynumber: 2.6 Consensus size: 387
399090 CTCAAAAAGT
* *
399100 AGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC-TAGTCCTCAAAGAACAGGATGCCT
1 AGGACGCGTTTTAAAGCCCACACAAGTTGGTGGCATTTTCATAGTCCTCAAAGAGCAGGATGCCT
399164 TTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTA
66 TTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTA
*
399229 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCC
131 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTATTTTAAAGCC
399294 CACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
196 CACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
* * *
399359 AGTGGCATTTTCTAATCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCTACATAAGTTGGTG
261 AGTGGCATTTTCCAATCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTG
*
399424 GCACTTCCCAGTCCTCAAAGAGCAGGATGCTCTCTCTTTTCGCCATTTAGACTTTAAAGAGC
326 GCACTTCCCAGTCCTCAAAGAGCAGGATGCTCTCTCTTTTCGCCATTTAGACCTTAAAGAGC
399486 AGGACGCGTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCATAGTCCTCAAAGAGCAGGATGCCT
1 AGGACGCGTTTTAAAGCCCACACAAGTTGGTGGCATTTTCATAGTCCTCAAAGAGCAGGATGCCT
*
399550 TTCAAAGCCCATACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTA
66 TTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTA
* *
399615 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTAAAGCC
131 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTATTTTAAAGCC
*
399680 CACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAGTT
196 CACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
*
399745 AGTGGCATTTTCCAGTCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTG
261 AGTGGCATTTTCCAATCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTG
* * * *
399810 GCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCTTTTTGCCCTTTAGTCCTTAAAGAGC
326 GCACTTCCCAGTCCTCAAAGAGCAGGATGCTCTCTCTTTTCGCCATTTAGACCTTAAAGAGC
* * *
399872 AAGACGCGTTTTAAAGCCCACACAAGTTAGTGGCATTTTCCA-A-TCCTCAAAGAGCCA-GACGC
1 AGGACGCGTTTTAAAGCCCACACAAGTTGGTGGCATTTT-CATAGTCCTCAAAGAG-CAGGATGC
* * * * * * * * * *
399934 TTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGTAGGA--C----ACCTTT
64 CTTTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT
* * * *
399993 TAAAGCCCGCACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCATTTTAAA
129 TAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTT-TTATTTTAAA
* * * * * *
400058 GCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGTAGGACGC
193 GCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC
400105 TCTCTCTTTT
Statistics
Matches: 573, Mismatches: 41, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
380 54 0.09
381 49 0.09
384 1 0.00
385 4 0.01
386 457 0.80
387 6 0.01
388 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (387 bp):
AGGACGCGTTTTAAAGCCCACACAAGTTGGTGGCATTTTCATAGTCCTCAAAGAGCAGGATGCCT
TTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTA
AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTATTTTAAAGCC
CACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
AGTGGCATTTTCCAATCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTG
GCACTTCCCAGTCCTCAAAGAGCAGGATGCTCTCTCTTTTCGCCATTTAGACCTTAAAGAGC
Found at i:399949 original size:55 final size:55
Alignment explanation
Indices: 399860--400093 Score: 261
Period size: 55 Copynumber: 4.1 Consensus size: 55
399850 TGCCCTTTAG
* * * * *
399860 TCCTTAAAGAGCAAGACGCGTTTTAAAGCCCACACAAGTTAGTGGCATTTTCCAA
1 TCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAA
* * *
399915 TCCTCAAAGAGCCAGACGCTTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAA
1 TCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAA
* * * * *
399970 TCCTCAAAGAGTAGGACACCTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAA
* * * *
400025 TCCTCAAAGAGCAGGATGCCTTCTCATTTTAAAGCCTACACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCA--A-GAC-GC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAA
400086 TCCTCAAA
1 TCCTCAAA
400094 AAGTAGGACG
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
55 107 0.70
58 2 0.01
59 1 0.01
60 1 0.01
61 41 0.27
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (55 bp):
TCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAA
Found at i:400090 original size:265 final size:264
Alignment explanation
Indices: 399610--401189 Score: 1514
Period size: 265 Copynumber: 5.8 Consensus size: 264
399600 TGCTTTTTCT
*
399610 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTTTTTA
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACG-C----TTTTTA
* * * * * * * *
399675 AAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAT
61 AAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACAC
* * ** * *
399740 AAGTTAGTGGCATTTTCCAGTCCTCAAAGAATAGGATGCTTTCTCCTTTCAAAGCCCACACAAGT
126 AAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGATGCCTTCT-CTTTTAAAGCCCACACAAGT
* * * * *
399805 TGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCTTTTTGCCCTTTAGTCCTTAAAGA
190 TGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTGGCCTTTTAGTCCTCAAAGA
* *
399870 GCAAGACGCG
255 GCAGGACGCC
* * *
399880 TTTTAAAGCCCACACAAGTTAGTGGCATTTTCCAATCCTCAAAGAGCCAGACGCTTTTTAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCTTTTTAAAGCC
* *
399945 CACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGTAGGACACCTTTTAAAGCCCGCACAAGTT
66 CACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTT
* *
400010 GGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCATTTTAAAGCCTACACAAGTTGGTG
131 GGTGGCATTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTC-TTTTAAAGCCCACACAAGTTGGTG
* * ** *
400075 GCACTTCCCAGTCCTCAAAAAGTAGGACGCTCTCTCTTTTCTCCTTTTAGTCCTCAAAGAGCAGA
195 GCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTGGCCTTTTAGTCCTCAAAGAGCAGG
*
400140 ACACC
260 ACGCC
* *
400145 TTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCTTTTTAAAGCC
400210 CACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTT
66 CACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTT
* * * * *
400275 GGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGG
131 GGTGGCATTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * *
400340 CATTTTCCAGTCCTCAAGGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAG
196 CACTTCCCAGTCCTCAAAGAGCAGGACG-C--T-------CTCTC---TT-TTGGCCTTTT--AG
* *
400405 TCCTCAAAGAACAGGATGCTTTC
245 TCCTCAAAGAGCAGGACGC---C
*
400428 TCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAAGA--C-------A
1 T--TTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCTTTTTAAA
* * * *** * * * * * * * *
400483 -CTCTCTC---TT-TTCGCCCTT--TAGTCCTTAAAGAACATGACGCCTTTTAAAGCCCACAGAA
63 GCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAA
* * *
400541 GTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA---C-GC-CTTTTAAAGCCCACACAAGTTGG
128 GTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTAAAGCCCACACAAGTTGG
* * * * *
400601 TGGCACTTCCCAATCCTCAAAGAGCAGGACGCTTTTTAAAGCCAACACAAGTTGGTGGCACTTCC
193 TGGCACTTCCCAGTCCTCAAAGAGCAGGACGC----T-----C-TCTC---TT-TTGGC-CTT-T
* *
400666 CAGTCCTCAAAGAGCAGGATGCTTGTTC
242 TAGTCCTCAAAGAGCAGGA--C--G-CC
** *
400694 TTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTTT
1 TTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGAC-GC---T-TTTT
* ** * ** * * * *
400759 AAAGCCCACACAAATTGGTAGCATTTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACA
60 AAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
* ** * * *
400824 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAAATGCTTTCTCCTTTCAAAGCCCACACACG
125 CAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGATGCCTTCT-CTTTTAAAGCCCACACAAG
*
400889 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCGCCTTTTAGTCCTCAAAG
189 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTGGCCTTTTAGTCCTCAAAG
*
400954 AGCAGGACACC
254 AGCAGGACGCC
* * * *
400965 TTTTAAAGCCCACACAAGTTAGTGGCATTTTCTAGTCCTCAAAGAGCAAGATGCCTTTTAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCTTTTTAAAGCC
*
401030 CACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCGCACAAGTT
66 CACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTT
* * *
401095 GGTGGCAATTCCCAGTCCTCAAAAAGCAAGATGCCTTCTCATTTTAAAGCCCACACAAGTTGGTG
131 GGTGGCATTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTC-TTTTAAAGCCCACACAAGTTGGTG
*
401160 GCACCTT-CCAGTCCTCAAAGAGTAGGACGC
195 GCA-CTTCCCAGTCCTCAAAGAGCAGGACGC
401190 CTTTTCTTTT
Statistics
Matches: 1093, Mismatches: 154, Indels: 131
0.79 0.11 0.10
Matches are distributed among these distances:
263 5 0.00
264 155 0.14
265 510 0.47
266 6 0.01
267 1 0.00
268 2 0.00
269 65 0.06
270 94 0.09
271 10 0.01
272 2 0.00
274 4 0.00
275 4 0.00
276 19 0.02
277 5 0.00
278 9 0.01
279 3 0.00
280 21 0.02
282 2 0.00
283 6 0.01
284 5 0.00
285 25 0.02
286 86 0.08
288 1 0.00
290 1 0.00
292 52 0.05
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (264 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCTTTTTAAAGCC
CACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTT
GGTGGCATTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGG
CACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTGGCCTTTTAGTCCTCAAAGAGCAGGA
CGCC
Found at i:400186 original size:210 final size:204
Alignment explanation
Indices: 399915--400308 Score: 556
Period size: 210 Copynumber: 1.9 Consensus size: 204
399905 CATTTTCCAA
* *
399915 TCCTCAAAGAGCCAGACGCTTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGA
1 TCCTCAAAGAGCCAGACACCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGA
* * * * *
399980 GTAGGACACCTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCC
66 GCAAGACACCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGA---C
* * *
400045 TTCTCATTTTAAAGCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGTAGGACGCTCTCT
128 -AC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCTCTCT
400110 CTTTTCTCCTTTTAG
190 CTTTTCTCCTTTTAG
* * * * *
400125 TCCTCAAAGAG-CAGAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAAG
1 TCCTCAAAGAGCCAG-ACACCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAG
*
400189 AGCAAGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACAC
65 AGCAAGACACCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACAC
* *
400254 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGC
130 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGC
400309 CTTTTCTTTT
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
204 50 0.30
205 1 0.01
206 1 0.01
207 1 0.01
209 3 0.02
210 109 0.66
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (204 bp):
TCCTCAAAGAGCCAGACACCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGA
GCAAGACACCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGACACC
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCTCTCTCTTTTC
TCCTTTTAG
Found at i:400207 original size:55 final size:55
Alignment explanation
Indices: 400123--400477 Score: 435
Period size: 55 Copynumber: 6.3 Consensus size: 55
400113 TTCTCCTTTT
* * *
400123 AGTCCTCAAAGAGCAGAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
400178 AGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
400233 AATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
400287 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
400348 AGTCCTCAAGGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
400403 AGTCCTCAAAGAACAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGACGC---CT--TTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
400463 AGTCCTCAAAGAGCA
1 AGTCCTCAAAGAGCA
400478 AGACACTCTC
Statistics
Matches: 259, Mismatches: 28, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
54 3 0.01
55 160 0.62
56 1 0.00
58 2 0.01
59 1 0.00
60 66 0.25
61 26 0.10
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:400378 original size:115 final size:113
Alignment explanation
Indices: 400123--400483 Score: 480
Period size: 115 Copynumber: 3.2 Consensus size: 113
400113 TTCTCCTTTT
* *
400123 AGTCCTCAAAGAGCAGAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
* * *
400188 GAGCAAGACGC----CTTTTAAAGCCCACACAAGTTGGGGGCACTTCCC
66 GAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCC
* *
400233 AATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAA
*
400297 AGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCATTTTCC
65 AGAGCAGGACG-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCC
* * * *
400348 AGTCCTCAAGGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
* * * *
400413 GAACAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
66 GAGCAGGACGCTTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCATTTCC
*
400463 AGTCCTCAAAGAGCAAGACAC
1 AGTCCTCAAAGAGCAGGACAC
400484 TCTCTCTTTT
Statistics
Matches: 219, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
109 4 0.02
110 65 0.30
111 1 0.00
114 4 0.02
115 115 0.53
116 30 0.14
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (113 bp):
AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
GAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTCC
Found at i:400411 original size:170 final size:170
Alignment explanation
Indices: 400144--400477 Score: 490
Period size: 170 Copynumber: 1.9 Consensus size: 170
400134 AGCAGAACAC
* * *
400144 CTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTTTTAAAGC
1 CTTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGC
* * *
400209 CCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGA-CACCTTTTAAAGCCCACACAAG
66 CCACACAAGTTAGGGGCACTTCCCAATCCTCAAAGAACAGGATCACCTTTCAAAGCCCACACAAG
400273 TTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTTT
131 TTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCCTTTT
* *
400314 CTTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAGGAGCAGGACGCCTTTCAAAGC
1 CTTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGC
* * * * *
400379 CCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAGGATGCTTTCTCCTTTCAAAGCCCAC
66 CCACACAAGTTAGGGGCACTTCCCAATCCTCAAAGAACAGGA-----TCACCTTTCAAAGCCCAC
400444 ACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCA
126 ACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCA
400478 AGACACTCTC
Statistics
Matches: 145, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
170 96 0.66
175 15 0.10
176 34 0.23
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (170 bp):
CTTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGC
CCACACAAGTTAGGGGCACTTCCCAATCCTCAAAGAACAGGATCACCTTTCAAAGCCCACACAAG
TTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:400571 original size:379 final size:376
Alignment explanation
Indices: 399860--400858 Score: 1336
Period size: 379 Copynumber: 2.6 Consensus size: 376
399850 TGCCCTTTAG
* * * * * *
399860 TCCTTAAAGAGCAAGACGCGTTTTAAAGCCCACACAAGTTAGTGGCATTTTCCAATCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGA
* * * * *
399925 GCCA-GACGC---T-TTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGTAGG
65 G-CAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
* * * *
399985 ACACCTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTC
129 ACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTCTC
* * * * * * *
400050 ATTTTAAAGCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGTAGGACGCTCTCTCTTTT
193 CTTTCAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAAGACACTCTCTCTTTT
* * * *
400115 CTCCTTTTAGTCCTCAAAGAGCAGAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAG
257 CGCCCTTTAGTCCTCAAAGAACAGAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAA
400180 TCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAA
322 TCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAA
*
400235 TCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGA
* *
400300 GCAGGACGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAGGAGCAGG
65 GCAGGACG-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
* * *
400365 ACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAGGATGCTTTCTC
129 ACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-TTCTC
400430 CTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAAGACACTCTCTCTTTTC
193 CTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAAGACACTCTCTCTTTTC
* *
400495 GCCCTTTAGTCCTTAAAGAACATG-ACGCCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAA
258 GCCCTTTAGTCCTCAAAGAACA-GAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAA
* *
400559 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAA
322 TCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAA
* *
400614 TCCTCAAAGAGCAGGACGCTTTTTAAAGCCAACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGA
* ** *
400679 GCAGGATGCTTGTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAA
65 GCAGGACGCTT-TTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
* * * *
400744 GACACCTTTTCTTTTAAAGCCCACACAAATTGGTAGCATTTTTCAGTCCTCAAAGAGTAGGA---
128 GACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC
* *
400806 --CGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAA
188 TTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAA
400859 AATGCTTTCT
Statistics
Matches: 552, Mismatches: 54, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
374 6 0.01
375 58 0.11
376 1 0.00
378 3 0.01
379 244 0.44
380 195 0.35
381 4 0.01
385 41 0.07
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (376 bp):
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAG
CAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTCTCCTT
TCAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAAGACACTCTCTCTTTTCGCC
CTTTAGTCCTCAAAGAACAGAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAATCCT
CAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAA
Found at i:400598 original size:55 final size:55
Alignment explanation
Indices: 400502--400924 Score: 441
Period size: 55 Copynumber: 7.4 Consensus size: 55
400492 TTCGCCCTTT
* * * *
400502 AGTCCTTAAAGAACATGACGCCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
400557 AATCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * *
400612 AATCCTCAAAGAGCAGGACGCTTTTTAAAGCCAACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
400667 AGTCCTCAAAGAGCAGGATGCTTGTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGA--C--G-CCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * *
400728 AGTCCTCAAAGAGCAAGACACCTTTTCTTTTAAAGCCCACACAAATTGGTAGCATTTTTC
1 AGTCCTCAAAGAGCAGGAC-GC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
400788 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
** * * * *
400843 AGTCCTCAAAGAGCAAAATGCTTTCTCCTTTCAAAGCCCACACACGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGC---CT--TTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
400904 AGTCCTCAAAGAGCAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
400925 TCTCTCTTTT
Statistics
Matches: 310, Mismatches: 42, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
55 165 0.53
57 1 0.00
58 2 0.01
59 3 0.01
60 49 0.16
61 90 0.29
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:400827 original size:176 final size:171
Alignment explanation
Indices: 400523--400918 Score: 508
Period size: 176 Copynumber: 2.3 Consensus size: 171
400513 AACATGACGC
* * * *
400523 CTTTT-AAAGCCCACAGAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCCTTTTAAAG
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACCCCTTTTAAAG
* * * *
400587 CCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGCTTTTTAAAGCCAACACAAG
66 CCCACACAAATTGGTAGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCAACACAAG
**
400652 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCTTGT-T
131 TTGGTGGCACTTCCCAGTCCTCAAAGAGCAAAATGCTT-TCT
**
400693 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAAGACACCTTTTCTTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGAC-CC----CTTT
* ** * * *
400758 TAAAGCCCACACAAATTGGTAGCATTTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCAC
61 TAAAGCCCACACAAATTGGTAGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCAAC
* *
400823 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAAATGCTTTCT
126 ACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAAATGCTTTCT
* * * *
400869 CCTTTCAAAGCCCACACACGTTGGTGGCACTTCCCAGTCCTCAAAGAGCA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
400919 GGACGCTCTC
Statistics
Matches: 193, Mismatches: 26, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
170 5 0.03
171 43 0.22
172 1 0.01
175 1 0.01
176 143 0.74
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (171 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACCCCTTTTAAAG
CCCACACAAATTGGTAGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCAACACAAG
TTGGTGGCACTTCCCAGTCCTCAAAGAGCAAAATGCTTTCT
Found at i:400842 original size:440 final size:439
Alignment explanation
Indices: 400125--401254 Score: 1660
Period size: 441 Copynumber: 2.6 Consensus size: 439
400115 CTCCTTTTAG
* * * * * *
400125 TCCTCAAAGAGCAGAACACCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGA
* * *
400190 GCAAGACGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGCAGGA--C-
66 GCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCT
* *
400252 -ACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
131 TATCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
* *
400316 TTTAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAGGAGCAGGACGCCTTTCAAAGCCC
196 TTTAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
**
400381 ACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAGGATGCTTTCTCCTTTCAAAGCCCACAC
261 ACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAAAATGCTTTCTCCTTTCAAAGCCCACAC
*
400446 AAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAAGACACTCTCTCTTTTCGCCCTTTAGTCCTTA
326 AAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACACTCTCTCTTTTCGCCCTTTAGTCCTCA
* * * *
400510 AAGAACATGACGCCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTCCAA
391 AAGAACAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCCAA
400559 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGA
* *
400624 GCAGGACGCTTTTTAAAGCCAACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCT
66 GCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCT
* * * * *
400689 TGTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAAGACACCTTTT
131 T-ATCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
400754 CTTTTAAAGCCCACACAAATTGGTAGCATTTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGC
194 CTTTTAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
* *
400819 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAAATGCTTTCTCCTTTCAAAGCCCAC
259 CCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAAAATGCTTTCTCCTTTCAAAGCCCAC
* * * *
400884 ACACGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTCTCTCTTTTCGCCTTTTAGTCCT
324 ACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACACTCTCTCTTTTCGCCCTTTAGTCCT
* * *
400949 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCTAG
389 CAAAGAACAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCCAA
* * *
401000 TCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGA
* * * * *
401065 GCAGGACACCTTTTAAAGCCCGCACAAGTTGGTGGCAATTCCCAGTCCTCAAAAAGCAAGATGCC
66 GCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATG-C
* * * *
401130 TTCTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCCTTTT
130 TTATC-TTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
401195 CTTTTCAAAGCCCACACGAGTTAGTGGCACTTTTT-AGTCCTCAAAAACCAGGATGCCTTT
194 CTTTT-AAAGCCCACACAAATTGGTGGCA-TTTTTCAGTCCTCAAAGAGCAGGACGCCTTT
401255 TCCTTCTCTC
Statistics
Matches: 621, Mismatches: 64, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
434 115 0.19
436 1 0.00
439 5 0.01
440 188 0.30
441 260 0.42
442 47 0.08
443 5 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (439 bp):
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGA
GCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCT
TATCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
TTTAAAGCCCACACAAATTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
ACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAACAAAATGCTTTCTCCTTTCAAAGCCCACAC
AAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACACTCTCTCTTTTCGCCCTTTAGTCCTCA
AAGAACAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCCAA
Found at i:401026 original size:55 final size:55
Alignment explanation
Indices: 400943--401255 Score: 293
Period size: 55 Copynumber: 5.5 Consensus size: 55
400933 TTCGCCTTTT
* * * *
400943 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
* * * *
400998 AGTCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
* * * * *
401053 AATCCTCAAAGAGCAGGACACCTTTTAAAGCCCGCACAAGTTGGTGGCAATTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
* * * *
401108 AGTCCTCAAAAAGCAAGATGCCTTCTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGC-AG--GAC-GC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
* * * **
401169 AGTCCTCAAAGAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACG-C----CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCC
* * *
401230 AGTCCTCAAAAACCAGGATGCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTT
401256 CCTTCTCTCC
Statistics
Matches: 211, Mismatches: 36, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
55 107 0.51
56 7 0.03
58 5 0.02
59 1 0.00
60 8 0.04
61 83 0.39
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
Found at i:401171 original size:61 final size:58
Alignment explanation
Indices: 400963--401253 Score: 256
Period size: 61 Copynumber: 5.0 Consensus size: 58
400953 GAGCAGGACA
* * *
400963 CCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCTAGTCCTCAAAGAGCAAGATG----
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAAGATGCCTT
* * * *
401018 CCTTTTAAAGCCCACACAAGTTGGGGGCACTTCCCAATCCTCAAAGAGC-AG--GAC-A
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAAGATGCCTT
* * *
401073 CCTTTTAAAGCCCGCACAAGTTGGTGGCAATTCCCAGTCCTCAAAAAGCAAGATGCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAAGATGCCTT
* * *
401132 CTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCCTTT
1 C-C-TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAAGATGCC-TT
* * * ** * * *
401194 TCTTTTCAAAGCCCACACGAGTTAGTGGCACTTTTTAGTCCTCAAAAACCAGGATGCCTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCAC-TTCCAGTCCTCAAAGAGCAAGATGCCTT
401254 TTCCTTCTCT
Statistics
Matches: 195, Mismatches: 27, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.01
54 4 0.02
55 85 0.44
56 2 0.01
58 2 0.01
59 1 0.01
60 8 0.04
61 88 0.45
62 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (58 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAAGATGCCTT
Found at i:402013 original size:60 final size:60
Alignment explanation
Indices: 401920--402034 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
401910 TTTTCACAAT
* *
401920 TTGTATCGATACATTGTTCATTGTATCGATACATTTTGCATTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCATTGTATCGATACATTTTACAATGTATCGATACATTGCTCA
401980 TTGTATCGATACATTGCTT-ATTGTATCGATACATTTTACAATGTATCGATACATT
1 TTGTATCGATACATTG-TTCATTGTATCGATACATTTTACAATGTATCGATACATT
402035 TAGGCATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 50 0.96
61 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (60 bp):
TTGTATCGATACATTGTTCATTGTATCGATACATTTTACAATGTATCGATACATTGCTCA
Found at i:402035 original size:20 final size:20
Alignment explanation
Indices: 401920--402034 Score: 164
Period size: 20 Copynumber: 5.8 Consensus size: 20
401910 TTTTCACAAT
401920 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
401940 TTGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
*
401960 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
401980 TTGTATCGATACATTGCTT-A
1 TTGTATCGATACATTG-TTCA
402000 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
402020 ATGTATCGATACATT
1 TTGTATCGATACATT
402035 TAGGCATTTT
Statistics
Matches: 87, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 81 0.93
21 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:404339 original size:51 final size:51
Alignment explanation
Indices: 404274--404442 Score: 164
Period size: 51 Copynumber: 3.3 Consensus size: 51
404264 ATTTTTCATC
* * * **
404274 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTCATTTCCAAAACACCAATTTTCCAAAA
* * *
404325 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCAAAA
1 TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACACCAATTTTCCAAAA
* * * * *
404376 TCGGGGATAC-CACAACTCTGATTTTATTTCCAAAACACCGACTTTT-TACAA
1 TCGGGGATACTC-CAACTCCGATTTCATTTCCAAAACACC-AATTTTCCAAAA
*
404427 TCGGGGATACGCCAAC
1 TCGGGGATACTCCAAC
404443 CCTGTTATTT
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 93 0.93
52 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACACCAATTTTCCAAAA
Found at i:404705 original size:79 final size:79
Alignment explanation
Indices: 404425--404865 Score: 497
Period size: 79 Copynumber: 5.6 Consensus size: 79
404415 GACTTTTTAC
* ** * *
404425 AATCGGGGATACGCCAACCCTGTTATTTCTGAGGGGACACTCCAACCCCGATTTTATTTTTAAAA
1 AATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
*
404490 CATCAATTTTTC--
66 TATCAATTTTTCAT
* * *
404502 -ATCGGGGATACTCCAACCCCATTATTT-TCGAGGGGATACCCCAA-CCCTAGCTTTATTTCTAA
1 AATCGGGGATACTCCAACCCCATTATTTCT-GAGGGGATACTCCAACCCCGA-TTTTATTTCTAA
* *
404564 AATATTAATTTCTCAT
64 AATATCAATTTTTCAT
* * * **
404580 -ATCGGGGATACCCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTAATTTTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
*
404644 TATTAATTTTTCAT
66 TATCAATTTTTCAT
* *
404658 AATCAGGGATACTCCAACCCCATTATTTCCT-AGGGGATACTCTAACCCCGATTTTATTTCTAAA
1 AATCGGGGATACTCCAACCCCATTATTT-CTGAGGGGATACTCCAACCCCGATTTTATTTCTAAA
*
404722 ACATCAATTTTTCAT
65 ATATCAATTTTTCAT
* * * * *
404737 AGTCAGGGATACTCCAACCTCGA-TATTTTTGAGGGGATACTCCAATCCCGATTTTATTTCT-AA
1 AATCGGGGATACTCCAACC-CCATTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAA
* *
404800 ATCATCGATTTTTCAC
65 AT-ATCAATTTTTCAT
* *
404816 AATCGGGGATACTCCAACCCCGTTATTT-TCGAGGAGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCATTATTTCT-GAGGGGATACTCCAACCCCG
404866 TTATTATCGC
Statistics
Matches: 310, Mismatches: 41, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
75 5 0.02
76 58 0.19
78 71 0.23
79 173 0.56
80 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
AATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
TATCAATTTTTCAT
Found at i:404825 original size:158 final size:155
Alignment explanation
Indices: 404378--404865 Score: 558
Period size: 158 Copynumber: 3.1 Consensus size: 155
404368 TTCCAAAATC
* * * * * *
404378 GGGGATAC-CACAACTCTGATTTTATTTCCAAAACACCGACTTTTTACA-ATCGGGGATACGCCA
1 GGGGATACTC-CAACCCCGATTTTATTTCTAAAACATC-AATTTTT-CATATCGGGGATACCCCA
* * * *
404441 ACCCTGTTATTTCTGAGGGGACACTCCAACCCCGATTTTATTTTTAAAACATCAATTTTT--C-A
63 ACCC-GTTATTTTTGAGGGGATACTCCAA-CCCGATTTTATTTCTAAATCATCAATTTTTCACAA
404503 TCGGGGATACTCCAACCCCATTATTTTCGA
126 TCGGGGATACTCCAACCCCATTATTTTCGA
* * * * * *
404533 GGGGATACCCCAA-CCCTAGCTTTATTTCTAAAATATTAATTTCTCATATCGGGGATACCCCAAC
1 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAACATCAATTTTTCATATCGGGGATACCCCAA-
* * *
404597 CCCGTTATTTTTGAGGGGATACTCCAACCCTAATTTTATTTCTAAAAT-ATTAATTTTTCATAAT
64 CCCGTTATTTTTGAGGGGATACTCCAACCC-GATTTTATTTCT-AAATCATCAATTTTTCACAAT
* * *
404661 CAGGGATACTCCAACCCCATTATTTCCTA
127 CGGGGATACTCCAACCCCATTATTTTCGA
* * *
404690 GGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAGTCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATA-TCGGGGATACCCCAAC
* *
404755 CTCGATATTTTTGAGGGGATACTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAATC
65 C-CGTTATTTTTGAGGGGATACTCCAA-CCCGATTTTATTTCTAAATCATCAATTTTTCACAATC
*
404820 GGGGATACTCCAACCCCGTTATTTTCGA
128 GGGGATACTCCAACCCCATTATTTTCGA
*
404848 GGAGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
404866 TTATTATCGC
Statistics
Matches: 278, Mismatches: 41, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
153 5 0.02
154 63 0.23
155 30 0.11
156 1 0.00
157 70 0.25
158 106 0.38
159 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (155 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATATCGGGGATACCCCAACC
CGTTATTTTTGAGGGGATACTCCAACCCGATTTTATTTCTAAATCATCAATTTTTCACAATCGGG
GATACTCCAACCCCATTATTTTCGA
Found at i:406771 original size:20 final size:20
Alignment explanation
Indices: 406746--406832 Score: 129
Period size: 20 Copynumber: 4.2 Consensus size: 20
406736 TAGATATATT
*
406746 GATACATTGAAGAAGGTATC
1 GATACATTGAAGAATGTATC
406766 GATACATCTCGATAGAATGTATC
1 GATACAT-T-GA-AGAATGTATC
406789 GATACATTGAAGAATGTATC
1 GATACATTGAAGAATGTATC
*
406809 GATACATTGAAAAATGTATC
1 GATACATTGAAGAATGTATC
406829 GATA
1 GATA
406833 TATCTAGGTA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
20 40 0.65
21 3 0.05
22 3 0.05
23 16 0.26
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (20 bp):
GATACATTGAAGAATGTATC
Found at i:406794 original size:43 final size:40
Alignment explanation
Indices: 406746--406832 Score: 129
Period size: 43 Copynumber: 2.1 Consensus size: 40
406736 TAGATATATT
*
406746 GATACATTGAAGAAGGTATCGATACATCTCGATAGAATGTATC
1 GATACATTGAAGAAGGTATCGATACAT-T-GA-AAAATGTATC
*
406789 GATACATTGAAGAATGTATCGATACATTGAAAAATGTATC
1 GATACATTGAAGAAGGTATCGATACATTGAAAAATGTATC
406829 GATA
1 GATA
406833 TATCTAGGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
40 13 0.31
41 2 0.05
42 1 0.02
43 26 0.62
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (40 bp):
GATACATTGAAGAAGGTATCGATACATTGAAAAATGTATC
Found at i:406860 original size:51 final size:51
Alignment explanation
Indices: 406801--406897 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
406791 TACATTGAAG
* *
406801 AATGTATCGATACATTGAAAAATGTATCGATATATCTAGGTAAAAAGACAA
1 AATGTATCGATACATTGAAAAATGTACCGATACATCTAGGTAAAAAGACAA
406852 AATGTATCGATACATTGAAAAATGTACCGATACATCTAGGTAAAAA
1 AATGTATCGATACATTGAAAAATGTACCGATACATCTAGGTAAAAA
406898 TGTGACTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.27
Consensus pattern (51 bp):
AATGTATCGATACATTGAAAAATGTACCGATACATCTAGGTAAAAAGACAA
Found at i:407550 original size:80 final size:80
Alignment explanation
Indices: 407388--407570 Score: 192
Period size: 80 Copynumber: 2.3 Consensus size: 80
407378 TCTATAGTGG
* **
407388 AAAATCAGTATTTTAGAAATAAAATCGAAGTTGCAGTATCTTCTCAGAAATAATAAGGTTAGAAT
1 AAAATCAGTATTTTAGAAATAAAATCAAAGTTGCAGTATCCCCTCAGAAATAATAAGGTTAGAAT
* *
407453 ATCTCCAATAGTGGA
66 ATCCCCAATAGTAGA
* * * * ** * *
407468 AAAATTAGTGTTTTAGGAATAAAATCAAAGTTGGAGTATCCCCTC-GAAAATAATGGGGTTGGAG
1 AAAATCAGTATTTTAGAAATAAAATCAAAGTTGCAGTATCCCCTCAG-AAATAATAAGGTTAGAA
* *
407532 TATCCCCGATGGTAG-
65 TATCCCCAATAGTAGA
407547 AAAATC-GATATTTTAGAAATAAAA
1 AAAATCAG-TATTTTAGAAATAAAA
407571 ACATTAATGA
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
78 1 0.01
79 20 0.24
80 62 0.75
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (80 bp):
AAAATCAGTATTTTAGAAATAAAATCAAAGTTGCAGTATCCCCTCAGAAATAATAAGGTTAGAAT
ATCCCCAATAGTAGA
Found at i:410306 original size:21 final size:22
Alignment explanation
Indices: 410280--410320 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
410270 AATACATGGA
410280 TGTATCGATA-CATGGCCTTGG
1 TGTATCGATACCATGGCCTTGG
*
410301 TGTATCGATACCTTGGCCTT
1 TGTATCGATACCATGGCCTT
410321 TAAGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (22 bp):
TGTATCGATACCATGGCCTTGG
Done.