Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 57 of 145
Found at i:19718529 original size:28 final size:27
Alignment explanation
Indices: 19718471--19718531 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
19718461 GAGTAAAAAT
*
19718471 TTTGAGGGAAAAATAAAAATGTTTAGGG
1 TTTGAGGGAAAAATAAAAATATTTA-GG
*
19718499 TTTGAGGTAAAAATATAAAATATTATA-G
1 TTTGAGGGAAAAATA-AAAATATT-TAGG
19718527 TTTGA
1 TTTGA
19718532 TATTCGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 20 0.69
29 7 0.24
30 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTGAGGGAAAAATAAAAATATTTAGG
Found at i:19718809 original size:12 final size:12
Alignment explanation
Indices: 19718773--19718812 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
19718763 AATTTCAAAA
*
19718773 TTTTAAATTTAT
1 TTTTAAAATTAT
19718785 TATTTATAAATTAT
1 T-TTTA-AAATTAT
19718799 TTTTAAAATTAT
1 TTTTAAAATTAT
19718811 TT
1 TT
19718813 ATCTGAAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 10 0.40
13 8 0.32
14 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:19724811 original size:15 final size:15
Alignment explanation
Indices: 19724791--19724821 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19724781 CAAACATCAC
19724791 TCATAGCAACTTTAT
1 TCATAGCAACTTTAT
*
19724806 TCATAGCAATTTTAT
1 TCATAGCAACTTTAT
19724821 T
1 T
19724822 GAATTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (15 bp):
TCATAGCAACTTTAT
Found at i:19725811 original size:63 final size:63
Alignment explanation
Indices: 19725681--19725799 Score: 220
Period size: 63 Copynumber: 1.9 Consensus size: 63
19725671 ATGAGTTTCT
19725681 CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCTAAGCCAA
1 CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCTAAGCCAA
* *
19725744 CCACCATTCGGGCCAATAGTATGTGGCCTATACTCATGATTTTCAACAATAGGCCT
1 CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCT
19725800 GGGCCCACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (63 bp):
CCACCATTCGGGCCAATAGTATGTGGCCTAAACTCATGATTTTCAACAACAGGCCTAAGCCAA
Found at i:19725926 original size:21 final size:21
Alignment explanation
Indices: 19725880--19725930 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
19725870 ATTTCAAAAC
*
19725880 TATTTTGACCATAACCATAGT
1 TATTTTGACCAGAACCATAGT
* *
19725901 AATTTTGACCAGACGCCATA-T
1 TATTTTGACCAGA-ACCATAGT
19725922 TATTTTGAC
1 TATTTTGAC
19725931 TAGGGCCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
TATTTTGACCAGAACCATAGT
Found at i:19731653 original size:25 final size:24
Alignment explanation
Indices: 19731623--19731675 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
19731613 GGTCTGAATA
19731623 AATTAGATGTAAATGTCGATTTTTT
1 AATTAGATGTAAATGTCG-TTTTTT
* * **
19731648 AATTAGGTTTTTATGTCGTTTTTT
1 AATTAGATGTAAATGTCGTTTTTT
19731672 AATT
1 AATT
19731676 TAGAGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (24 bp):
AATTAGATGTAAATGTCGTTTTTT
Found at i:19731842 original size:28 final size:28
Alignment explanation
Indices: 19731811--19731886 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 28
19731801 TTCTCTCTTC
*
19731811 TAGGGTTATGGTTTTAAATTTTTAAGGT
1 TAGGGTTATGGTTTTAAATTTTTAAGGG
*
19731839 TA-GG--AT--TTTT-AATTTTTAGGGG
1 TAGGGTTATGGTTTTAAATTTTTAAGGG
* *
19731861 TAGTGTTATGGGTTTAAATATTTTAA
1 TAGGGTTATGGTTTTAAAT-TTTTAA
19731887 AGTTTAGGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
25 4 0.11
27 5 0.14
28 5 0.14
29 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (28 bp):
TAGGGTTATGGTTTTAAATTTTTAAGGG
Found at i:19733544 original size:21 final size:20
Alignment explanation
Indices: 19733513--19733605 Score: 87
Period size: 21 Copynumber: 4.2 Consensus size: 20
19733503 TTTCTTTATT
19733513 TTTTTATAAAATTTTAAATGTA
1 TTTTT-TAAAATTTTAAAT-TA
* *
19733535 TATTTGAAAAGTTTTATAATATTA
1 TTTTTTAAAA--TTT-TAA-ATTA
19733559 TTTTTTAAAATTTTAAAATTA
1 TTTTTTAAAATTTT-AAATTA
*
19733580 TTTTTTAAAATTTAAATATTA
1 TTTTTTAAAATTTTAA-ATTA
19733601 TTTTT
1 TTTTT
19733606 AAANNNNNNN
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.03
21 31 0.52
22 9 0.15
23 3 0.05
24 13 0.22
25 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTTTAAAATTTTAAATTA
Found at i:19738543 original size:25 final size:24
Alignment explanation
Indices: 19738507--19738649 Score: 96
Period size: 25 Copynumber: 5.8 Consensus size: 24
19738497 CTCTTTTATA
*
19738507 AGCTTCCTGATATATGGCTCTTTGG
1 AGCTTCCCGATATATGGCTCTTT-G
*
19738532 AGCTTCCCGATAT-TGGCTCGCTTG
1 AGCTTCCCGATATATGGCTC-TTTG
* *
19738556 AACTTCCCTAT-TATGGCTCTTATG
1 AGCTTCCCGATATATGGCTCTT-TG
* * * **
19738580 AGCTTCCTGTTATATAGCTCGAATG
1 AGCTTCCCGATATATGGCTC-TTTG
*
19738605 AGCTTCCC-ATTACATGGCTCATATT-
1 AGCTTCCCGA-TATATGGCTC-T-TTG
*
19738630 AGCTTCCCGTTATATGGCTC
1 AGCTTCCCGATATATGGCTC
19738650 GAGAGAGAGC
Statistics
Matches: 89, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
23 2 0.02
24 31 0.35
25 55 0.62
26 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (24 bp):
AGCTTCCCGATATATGGCTCTTTG
Found at i:19738583 original size:48 final size:48
Alignment explanation
Indices: 19738519--19738651 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 48
19738509 CTTCCTGATA
* **
19738519 TATGGCTCTT-TGGAGCTTCCCGATAT-TGGCTCGCTTGAACTTCCCTAT
1 TATGGCTCTTAT-GAGCTTCCCGTTATATGGCTCGAATGAACTTCCC-AT
* * *
19738567 TATGGCTCTTATGAGCTTCCTGTTATATAGCTCGAATGAGCTTCCCAT
1 TATGGCTCTTATGAGCTTCCCGTTATATGGCTCGAATGAACTTCCCAT
* *
19738615 TACATGGCTCATATTAGCTTCCCGTTATATGGCTCGA
1 T--ATGGCTCTTATGAGCTTCCCGTTATATGGCTCGA
19738652 GAGAGAGCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 25 0.35
49 16 0.23
50 30 0.42
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (48 bp):
TATGGCTCTTATGAGCTTCCCGTTATATGGCTCGAATGAACTTCCCAT
Found at i:19738585 original size:24 final size:23
Alignment explanation
Indices: 19738519--19738586 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
19738509 CTTCCTGATA
*
19738519 TATGGCTCTTTGGAGCTTCCCGA-
1 TATGGCTCTTT-GAGCTTCCCTAT
* *
19738542 TATTGGCTCGCTTGAACTTCCCTAT
1 TA-TGGCTC-TTTGAGCTTCCCTAT
19738567 TATGGCTCTTATGAGCTTCC
1 TATGGCTCTT-TGAGCTTCC
19738587 TGTTATATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.08
24 29 0.81
25 4 0.11
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (23 bp):
TATGGCTCTTTGAGCTTCCCTAT
Found at i:19745436 original size:256 final size:256
Alignment explanation
Indices: 19744965--19746082 Score: 969
Period size: 256 Copynumber: 4.4 Consensus size: 256
19744955 AACCACGTTA
* * * * * * * ***
19744965 CACTCCTCAATCAAAAGAGAAAGGGTTATTTCAACCTTTTA-CGAAATCTGATTTCCAACTCCAA
1 CACTCCTTAATCGAAAGAGAAAAGGTTATCTCAACC-CTTAGAGAAATCCGATTTCCAACTCTGG
* * * * * * * * *
19745029 TAAATTGAATGCTTTGAA-AACCGAAGAAAACCCTCTGTTGAAACCCA-TATGTAGTAGTGATGA
65 TGAATGGAAAGATTTGAAGATCC-AA-AAAACCCTCTGTTG-AA-CCAGTCTCTAATAGGGATGA
* * * * * * * *
19745092 A-TGAAGAGATTAAATAAGGGAT-AGTGATAGGATGCCAAGTCTTAAACTGTTTTACC-AGAAAT
126 ATTG-AGAGATTTAATTAGGGATGA-TGATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAAT
* * ** *
19745154 AAATTATGAGCAGCCGCTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGGAATCAA
189 AGATTTTGAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAA
*
19745219 GTT
254 ATT
* * * * * *
19745222 TACTCTTTAATCGAAAGAGAAAGGGTTATCAT-AACCCTTAGAAAAAACCGTTTTCCAACT-TGG
1 CACTCCTTAATCGAAAGAGAAAAGGTTATC-TCAACCCTTAGAGAAATCCGATTTCCAACTCTGG
* * * *
19745285 TTGAATGCAAAGCTTTGAAGATCCAAAAAACCCTATGTTGAACCTGTCTCTAATAGGGATGAATT
65 -TGAATGGAAAGATTTGAAGATCCAAAAAACCCTCTGTTGAACCAGTCTCTAATAGGGATGAATT
* *
19745350 GAGAGATTTAATTAGGGATGATGGTCGGCTACCAAGTCTCAACCAGTTTTTCCAAGAAATAGATT
129 GAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATT
* *
19745415 TTGAGTAGCTACTTCTTCTCCTCAAATACAAGTTACAGATTTTGTTGGAGATGAAATCAAATT
194 TTGAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATT
* *
19745478 CACTCCTTAATAGAAAGAGAAAAGGTTATCTCAACCCTTTA-AGAAATCCAATTTCCAACTCTGG
1 CACTCCTTAATCGAAAGAGAAAAGGTTATCTCAACCC-TTAGAGAAATCCGATTTCCAACTCTGG
* * *
19745542 TGAATGGAAAGATTTGAAGATCC-AAGAACCCTCTGTTTATACCCA-TCTCTAATAGGGATAAAT
65 TGAATGGAAAGATTTGAAGATCCAAAAAACCCTCTGTTGA-A-CCAGTCTCTAATAGGGATGAAT
* * * * * * * *
19745605 AGATAGATTTAATTAAGGATGATGATCGGCGGTCAAGTCTCAACTAGATTTT-CATACAAATAGA
128 TGAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACCAGTTTTTCCA-AGAAATAGA
* ** * * *
19745669 -TTCGAAGCTTCTACTTCTTCCCCTCAAATACAAGTTGCAAATTTTGTTGGTGATGAAATCAAAT
192 TTTTG-AGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAAT
19745733 T
256 T
* * * * ** * * * * *
19745734 CATTTCTCAAT-AAAAGAGAAAATTTTATCTCAACCTTTTGAGAAATCTGATTTCCAAATCTCGT
1 CACTCCTTAATCGAAAGAGAAAAGGTTATCTCAACCCTTAGAGAAATCCGATTTCCAACTCTGGT
* * * *
19745798 GAATGGAAAGGTTTGAATAT-CAAAGATAACCCTCTCTTGAAACCAGTCTCTAATGGGGATGAA-
66 GAATGGAAAGATTTGAAGATCCAAA-A-AACCCTCTGTTG-AACCAGTCTCTAATAGGGATGAAT
* **
19745861 TGTAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTAAACCAAG--TTGACAAGAAATAG
128 TG-AGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACC-AGTTTTTCCAAGAAATAG
* * * * * * * *
19745924 ATTCTGAGCGGCTACTTCTTTTCCTCATATACAACTAGCAGATTTTATTGGAGATGGAATCAAAT
191 ATTTTGAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAAT
19745989 T
256 T
* * * * * ** * ** *
19745990 CACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTA-AAAAATTTGTTTTAGAACTTTGG
1 CACTCCTTAATCGAAAGAGAAAAGGTTATCTCAAC-CCTTAGAGAAATCCGATTTCCAACTCTGG
* * *
19746054 TGAATAGAAAGCTTTAAAGATCCAAAAAA
65 TGAATGGAAAGATTTGAAGATCCAAAAAA
19746083 AAAAATCCAA
Statistics
Matches: 695, Mismatches: 138, Indels: 57
0.78 0.16 0.06
Matches are distributed among these distances:
254 5 0.01
255 135 0.19
256 355 0.51
257 185 0.27
258 15 0.02
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (256 bp):
CACTCCTTAATCGAAAGAGAAAAGGTTATCTCAACCCTTAGAGAAATCCGATTTCCAACTCTGGT
GAATGGAAAGATTTGAAGATCCAAAAAACCCTCTGTTGAACCAGTCTCTAATAGGGATGAATTGA
GAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTT
GAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATT
Found at i:19746169 original size:105 final size:105
Alignment explanation
Indices: 19745981--19746183 Score: 273
Period size: 105 Copynumber: 1.9 Consensus size: 105
19745971 TTGGAGATGG
* *
19745981 AATCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATTTGTTTTAG
1 AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAC
**
19746046 AACTTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAAA
66 AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAAA
* * * * * * *
19746086 AATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAAAAATTTGTTTTC
1 AATCAAATTCACTCCTAAATCGAAAGAGAA-AGAGTCATCTCAACACTTTAAAAAATTTGTTTTA
* *
19746150 CAACTCAGGTGAATGGAAAGCTTTGAAGATCCAA
65 CAACTCAGGTGAATAGAAAGCTTTAAAGATCCAA
19746184 GATAACCCTA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 83 0.99
106 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (105 bp):
AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAC
AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAAA
Found at i:19746419 original size:362 final size:361
Alignment explanation
Indices: 19745724--19746437 Score: 873
Period size: 362 Copynumber: 2.0 Consensus size: 361
19745714 GTTGGTGATG
* * * * *
19745724 AAATCAAATTCATTTCTCAATAAAAGAGAAAATTTTATCTCAACCTTTTGAGAAATCTGATTTCC
1 AAATCAAATTCACTCCTCAATAAAAGAGAAAATGTTATCTCAACCCTTTGAAAAATCTGATTTCC
* * * * *
19745789 AAATCTCGTGAATGGAAAGGTTTGAATATCAAAGATAACCCTCTCTTGAAACCAGTCTCTAATGG
66 AAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTGAAACCAGTCTCTAATAG
* * *
19745854 GGATGAATGTAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTAAACCAAGTTGACAAGA
131 GGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAAGTCTAAACCAAGTTGACAAGA
* * * * **
19745919 AATAGATTCTGAGCGGCTACTTCTTTTCCTCATATACAACTAGCAGATTTTATTGGAGATGGAAT
196 AATAGATTCTGAGCGGCTACTTCTTCTCCTAAAATACAAATAGCAGATTTTATTGGAGATAAAAT
* * *
19745984 CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATTTGTTTTAGAAC
261 CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATCTGATTTACAAC
*
19746049 TTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
326 TCTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
* * * * *
19746085 AAATCCAATTCACTCCTCAATCGAAAGAGAATAA-GTTATCTTAACCCTTTGAAAAATTTGTTTT
1 AAATCAAATTCACTCCTCAAT-AAAAGAGAA-AATGTTATCTCAACCCTTTGAAAAATCTGATTT
* * * *
19746149 CCAACTCAGGTGAATGGAAAGCTTTGAAGATCCAAGATAACCCTATGTTG-AACACA-TCTCTAA
64 CCAAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTGAAAC-CAGTCTCTAA
* * **
19746212 TAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACT-ACAAGGTCTCAACCAATTTTTC
128 TAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAA-GTCTAAACCAA-GTTGA
* * * * *
19746276 CATGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGTA-ATTTTTTTTGGAGA
191 CAAGAAATAGATTCTGAGCGGCTACTTCTTCTCCTAAAATACAAATAGCAGA-TTTTATTGGAGA
* * * * * *
19746340 TAAAATCAATTTCACTCCTCAATTGAAAGAGGAAGGGTTATCTCAA-ACCTTTAAGAAATCTGAT
255 TAAAATCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACA-CTTTAAAAAATCTGAT
* * *
19746404 TTCCAACTCTGGTGAATCGAAAGCTTTGAAGATC
319 TTACAACTCTGGTGAATAGAAAGCTTTAAAGATC
19746438 AAGGAAAACC
Statistics
Matches: 296, Mismatches: 50, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
360 3 0.01
361 79 0.27
362 212 0.72
363 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (361 bp):
AAATCAAATTCACTCCTCAATAAAAGAGAAAATGTTATCTCAACCCTTTGAAAAATCTGATTTCC
AAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTGAAACCAGTCTCTAATAG
GGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAAGTCTAAACCAAGTTGACAAGA
AATAGATTCTGAGCGGCTACTTCTTCTCCTAAAATACAAATAGCAGATTTTATTGGAGATAAAAT
CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATCTGATTTACAAC
TCTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
Found at i:19746636 original size:258 final size:257
Alignment explanation
Indices: 19746084--19746839 Score: 786
Period size: 258 Copynumber: 2.9 Consensus size: 257
19746074 TCCAAAAAAA
* * * * * *
19746084 AAAATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAA-AAATTTGTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAA-AGGGTTATCTCAAACCTTT-AAGAAATCTGAT
* * *
19746147 TTCCAACTCAGGTGAATGGAAAGCTTTGAAGATCCAAGATAACCCTATGTTG-AACACATCTCTA
64 TTCCAACTCTGGTGAATGGAAAGCTTTGAAGAT-CAAGAAAACCCTATGTTGAAACCCATCTCTA
* * * * **
19746211 ATAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTACAAGGTCTCAACCAATTTTTC
128 ATAGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGAC
* * * **
19746276 CATGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGTAATTTTTTTTGGAGAT
193 AAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
* * *
19746341 AAAATCAATTTCACTCCTCAATTGAAAGAGGAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
* * * *
19746406 CCAACTCTGGTGAATCGAAAGCTTTGAAGATCAAGGAAAACCCTCTATTGAAACCCATATCTAAT
66 CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAA-GAAAACCCTATGTTGAAACCCATCTCTAAT
* * *
19746471 AAAGG-TGAATGGAGAGATTTAATTAGGAATGATAATCGGCTACCAA-GTCTGC-ACTAACTTGA
130 -AGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTA-CAAGGTCT-CAACCAACTTGA
* * * * *
19746533 CAAAGAAATGGATTTTGAGCT-GCTACTTCTTCTCGTAAAATACAAGTTGCAGA-TTTTACTGGT
192 CAAAGAAATAGATTCTGAG-TGGCTACTTCTTCTCCTAAAATACAAATTGCA-ATTTTTACTGGA
19746596 GAT
255 GAT
** * * * *
19746599 GTAATCAAATTCACTTCTTAATCGGAAGAGAAAGGGTTATCTC-AACACTTTGAGAAATCTGATT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAAC-CTTTAAGAAATCTGATT
* * *
19746663 TCCAACTCTGGTGAATGGAAAGCTTTGAAGATCTAAGAAAACCATATGTTGAAACCTATCTCTTA
65 TCCAACTCTGGTGAATGGAAAGCTTTGAAGATC-AAGAAAACCCTATGTTGAAACCCATCTCTAA
* * * * *
19746728 TAGGGAAGAATGGAGTGATTTAATTAGGTAAT-ATGATCGACTGTCAA-GTCTCAA-CAAGTTTG
129 TAGGGATGAATGGAGAGATTTAATTAGG-AATGATAATCGACT-ACAAGGTCTCAACCAA-CTTG
* * * * *
19746790 AC-AAGAAATAGATTCTAAGCGGCTATTTTTTATCCTCAAAA-AC-AATTGCA
191 ACAAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCT-AAAATACAAATTGCA
19746840 TATTGTAACA
Statistics
Matches: 413, Mismatches: 68, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
256 12 0.03
257 128 0.31
258 259 0.63
259 14 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (257 bp):
AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAAGAAAACCCTATGTTGAAACCCATCTCTAATA
GGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGACAAA
GAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
Found at i:19750870 original size:258 final size:259
Alignment explanation
Indices: 19749960--19750901 Score: 874
Period size: 258 Copynumber: 3.7 Consensus size: 259
19749950 AGAGGTTACA
* * * * *
19749960 CAGATTTTATTTGAGATTGAATAAAATTCACACCAT-AATCAAAAGAGAAAAGGGTTATCTCAAC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCC-TCAATCAAAAGACAAAAGGGTTATCTCAAC
* * * * * * * * * * *
19750024 CCTTTGAAAAATCCATTTTCCAACTTCGATGAATGTAAAGTTTTGAAGATC-CAAAAACACCCTT
65 CTTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGAAGTTCTAAAAAAAACCCTC
* ** * * ** *
19750088 TGTCG-AATTTCGTCTCTAATAGGGATGAATGGAGAGATTTTACTAGGGATTATGACCGACTGTC
130 TGTTGAAACCT-ATCTCTAATAGGGATGAATGGAGAGA-TTTAATAGGGAAGATGATCGACTGTC
* * ** *
19750152 AAGTCTTAACCAATTTTTCCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCTAATACA-AG
193 AAGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAGA-
19750216 TTG
257 TTG
* * *
19750219 CAGATTTTGTTAGAGATTGAATCAAATTCACTCCTCAATCGAAAA-A-GAAAGGGTTATCTCAAT
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATC-AAAAGACAAAAGGGTTATCTCAAC
* * * *
19750282 CTTTTGAGAAATCCAATTACCAACTCCGGTGAATGGAAA-CTTTTGAAG--ATACAAGAAAACTC
65 CTTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGC-TTTGAAGTTCTA-AAAAAAACCC
* * * * * * * **
19750344 TTTCTTGAACCCCATATCTAATAGGGATGAATAGAGAGATTTAATACGGAATGATGATCGACTAC
128 TCTGTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTTAATAGGGAA-GATGATCGACTGT
* * * *
19750409 CAAGTCTCAACTAGCTTAACCAAGAAATAGATTATGAGCTGCTACTTATTCTCCTAAAATACATG
192 CAAGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACA-G
19750474 -TTG
256 ATTG
* * * **
19750477 CAGATCTTGTTGGTGATAGAATCAAATTCACTCCTCCCTCAAAAGACAAAA-GGTTATCTCAA-C
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGACAAAAGGGTTATCTCAACC
* * * * * **
19750540 TCTTTAAGAAATTCAATTTCCAACTCCAGTGAATGGAAATCTTTGATAATT-T-AAGCAAACCCT
66 T-TTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGA-AGTTCTAAAAAAAACCCT
* * * * *
19750603 CTATTGAAACCTGTCTCAAATAGGGATGAATTGAGAGATTTAATTAGGGAAGATGATC-AGTTGT
129 CTGTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTTAA-TAGGGAAGATGATCGA-CTGT
* * * * * * ** * *
19750667 GAGGTCTCAACCAGTTTGACTAAGAAATATATTTTGAACTAATACTTCTTCTCTTCAAATACAGA
192 CAAGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAGA
19750732 TTG
257 TTG
* * **
19750735 CAG-TTTTTTTGGAGATTGAATCAAATTCACTCCTTAATTGAAAGA-AAAAGGGTTATCTCAACC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGACAAAAGGGTTATCTCAACC
* * *
19750798 TTTTGAGAAATCTAATTTCCAACTCCGGTGAATAGAAAGCTTTGAAGTTCTAAAAAAAACCATCT
66 TTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGAAGTTCTAAAAAAAACCCTCT
** *
19750863 GTTGAAACCTATCTCTAATATCGATAAATGGAGAGATTT
131 GTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTT
19750902 GAAGATCCAG
Statistics
Matches: 550, Mismatches: 110, Indels: 47
0.78 0.16 0.07
Matches are distributed among these distances:
256 7 0.01
257 100 0.18
258 391 0.71
259 47 0.09
260 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (259 bp):
CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGACAAAAGGGTTATCTCAACC
TTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGAAGTTCTAAAAAAAACCCTCT
GTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTTAATAGGGAAGATGATCGACTGTCAAG
TCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAGATTG
Found at i:19751439 original size:258 final size:258
Alignment explanation
Indices: 19750932--19751464 Score: 675
Period size: 258 Copynumber: 2.1 Consensus size: 258
19750922 TGTTGAATTC
* * * * * *
19750932 GTCTCTAGTAGGAAGGAATGGAGAGATTTGATTAGGGATGATGATCGGCTGCTAAGTCTCAACCA
1 GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCCAAGTCTCAAACA
* *
19750997 GTTTGTCCAAGAAATAGATTCTGAGTTGTTTCTTCTTCTTCTCAAATACAAGTTGTAGATGTTAT
66 GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGTAGATGTTAT
* * *
19751062 TATAGATGGAATCAAATTCATTCCTCAATTGAAATAGAAAAGGTTACCTCAACCCTTTGAGAAAT
131 TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
* *
19751127 CCAATCTCTAAATCTGATGAATGATAAGGTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
196 CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
* * * * *
19751190 GTCTCTAATATGGATGAATGGAGAGATTT-AGTTAGGGGTGATGATCAGTTTCCAATTCTCAAAC
1 GTCTCTAATAGGGATGAATGGAGAGATTTGA-TTAGGGATGATGATCAGCTGCCAAGTCTCAAAC
*
19751254 AGTTTGACCAAGAAATAGATTCTGAGCTT-TTACTTCTTCTTCTCAAATACAAGTTGTAGATTTT
65 AGTTTGACCAAGAAATAGATTCTGAG-TTGTTACTTCTTCTTCTCAAATACAAGTTGTAGATGTT
* * * *
19751318 GTTAGAGATGGGATTCAAATTCACTCCTTAATTGAAAGAG-AAAGTGTTATCTCAACCCTTTGA-
129 ATTAGAGAT-GGAATCAAATTCACTCCTCAATTGAAAGAGAAAAG-GTTACCTCAACCCTTTGAG
* * * * * *
19751381 AAGTTCCATTTTC-AAA-CTTCGATGAATGAAAAGCTTTGAATATCTAAGAAAA-CCTCTATTGA
192 AA-ATCCAATCTCTAAATC-T-GATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGA
*
19751443 AACTT
254 AACAT
*
19751448 GTCTTTAATAGGGATGA
1 GTCTCTAATAGGGATGA
19751465 TGATCGGCTA
Statistics
Matches: 236, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
257 2 0.01
258 155 0.66
259 79 0.33
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (258 bp):
GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCCAAGTCTCAAACA
GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGTAGATGTTAT
TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
Found at i:19751951 original size:9 final size:9
Alignment explanation
Indices: 19751939--19751964 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19751929 CTTCTTCATC
19751939 TTCCTCTTT
1 TTCCTCTTT
19751948 TTCCTCTTT
1 TTCCTCTTT
19751957 TTCCTCTT
1 TTCCTCTT
19751965 CTTCTTCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (9 bp):
TTCCTCTTT
Found at i:19751964 original size:24 final size:24
Alignment explanation
Indices: 19751928--19751983 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
19751918 TTTTTGTTCT
* * *
19751928 TCTTCTTCATCTTCCTCTTTTTCC
1 TCTTTTTCATCTTCCTCTTCTCCC
* *
19751952 TCTTTTTCCTCTTCTTCTTCTCCC
1 TCTTTTTCATCTTCCTCTTCTCCC
19751976 TCTTTTTC
1 TCTTTTTC
19751984 TTCATCATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.61
Consensus pattern (24 bp):
TCTTTTTCATCTTCCTCTTCTCCC
Found at i:19751991 original size:3 final size:3
Alignment explanation
Indices: 19751985--19752217 Score: 439
Period size: 3 Copynumber: 77.7 Consensus size: 3
19751975 CTCTTTTTCT
19751985 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
19752033 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
19752081 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
19752129 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
* * *
19752177 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCT TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
19752218 TTTTTCTTTT
Statistics
Matches: 228, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
3 228 1.00
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:19752233 original size:3 final size:3
Alignment explanation
Indices: 19752201--19753140 Score: 1828
Period size: 3 Copynumber: 313.3 Consensus size: 3
19752191 ATCATCATCA
* * * *
19752201 TCT TCT TCT TCA TCA TCT TTT TCT TTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752249 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752297 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752345 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752393 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752441 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752489 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752537 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752585 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752633 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752681 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752729 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752777 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752825 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752873 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752921 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19752969 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19753017 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19753065 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCTT TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT
19753110 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
19753141 TTCGTGTAAC
Statistics
Matches: 929, Mismatches: 6, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
2 2 0.00
3 924 0.99
4 3 0.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:19755787 original size:20 final size:21
Alignment explanation
Indices: 19755749--19755787 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
19755739 TTTATGGTTT
*
19755749 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTAGGGTAAAAA
*
19755770 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGGTAAA
19755788 TTGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAGGGTAAAAA
Found at i:19765196 original size:528 final size:524
Alignment explanation
Indices: 19764192--19765786 Score: 2164
Period size: 528 Copynumber: 3.0 Consensus size: 524
19764182 CCAAGCCTTA
* * * * *
19764192 AGGGGGAATCGCAAATGTAGTACATGTATAGGTCAATCTATTTTGAAGGAAAAATTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
* * * * * *
19764257 TTTGGTTGTAACAATGCTATTTGGAAGAGGAAATATGGAGAAGGTGGACGAA-AGACTCATTGTG
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGA-ACTCTTTTTA
* * *
19764321 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATATCAAG-AAAAGGCAATGCCTACC
130 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACC
* * * * *
19764385 TCAAATGTCAAATCCCAATTATGTTTACCTTTGATTTGATACAAATTGCCTTGATATTTCTTCAA
195 TCAAGTGTC-AATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAA
* * * *
19764450 ATACAAAGCGTTGCGATGCCCCTAGTCTTGTTCTCAAGGCTGCTATTAGCACTTCACTTTGACAT
259 ATACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACAT
* * *
19764515 TCCTTATACCTTTTGGTAGCATTTGTTGCTTTCTCGAACAGGTTTCGGCACATATGGGAAGGGTT
323 TGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTT
* * *
19764580 TTCTTTTGAATCATTTGTTTATATTATTATAGACTTGAAACTAACCTTACCCTCTTAAGCAATGA
387 TTCTTTTGAATCATTTG-TTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGA
* * * * *
19764645 TGTATCTAGAACATTGGGCTTTTGAAATTCTTATCTTGCTACCAGGATTGAAGCCAAATTTATAA
451 TGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAA
19764710 ATAACTTTG
516 ATAACTTTG
* ** *
19764719 AGGGGGAATCGTAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGGTAATTTGAAAGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
* *
19764784 TTTGGTTGTAACAATGTTATTTCGTAGTGGAAATAGGGAGAAGGTGGACGAAGAACTCTTTTTAG
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTAG
* *
19764849 CTAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTTGATGCCTACCT
131 CCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACCT
19764914 CAAGTGTCGAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAA
196 CAAGTGTC-AATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAA
*
19764979 TACAAAGCGTTGTGATGTCCCTAGTCTTGTTCTCAAAGCTGCCATTGGTACTTCACTTTGACATT
260 TACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACATT
* * **
19765044 GCTTATACCTTTTGGTAGCCTTTGCTGCTTTCTCTAACAAGTTTCGGCACATATATGAATGGTTT
324 GCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTTT
* *
19765109 TCTTTTAAATCATTTAGTTATATTATTACAGACTTGAAATTAGCCTTACCCTTTTAAGCAATGAT
388 TCTTTTGAATCATTT-GTTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGAT
* * *
19765174 GTGTCTAGAATATTGAGCTTTTGAAATTCTTGTTTTGCTGCCAGGATTGATGCCAAAATTATAAA
452 GTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAAA
19765239 TAACTTTG
517 TAACTTTG
* * *
19765247 AGGGGGAATCACAAATGCAATACGTGTATAGGTCAATCTTTTTCGAAGGACAATTTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
*
19765312 TTTGGTTGTAACAATGTTATTTCGAAGTGAAAATATGGAGAAGGTGGACGAAAGACTCATTGTAA
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGAC----GA---A--G-AA
* * * *
19765377 CCAAGCTAATATTAATATTTCCCAAGCTAATATTAATATTTCTTCATCAACAGCTTGATATTTCA
121 -C--TCT--T-TT--TA---GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCA
* *
19765442 AGAAAAAGGTCGATGCGTACCTTAAGTGTCAAGTCCCAGTTATG--T---TTTGGTTTGATACAA
175 AGAAAAA-GTCGATGCCTACCTCAAGTGTCAA-TCCCAGTTATGTTTACCTTTGGTTTGATACAA
* * * *
19765502 ATCGTCTTGATATTTCTTCAAATACAAAGTGTTGTGATGCACCTAGTCTTCTTCTCAAGGTTGCC
238 ATAGTCTTGATATTTCTTCAAATACAAAGCGTTGTGATGC-CCTAGTCTTGTTCTCAAGGCTGCC
* * *
19765567 ATTGGTACTTTACTTTGACATTGCGTATACCTTTCGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
302 ATTGGTACTTCACTTTGACATTGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
*
19765632 TCGGCACATATGGGAAGGATTTTC--TTGAGTCATTTTGTTATATTATTACAGACTTGAAATTAG
367 TCGGCACATATGGGAAGG-TTTTCTTTTGAATCA-TTTGTTATATTATTACAGACTTGAAATTAG
* *
19765695 CCTTACCCTCTTAAGAAATAATGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCA
430 CCTTACCCTCTTAAGCAATGATGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCA
19765760 GGATTGATGCCAAATTTATAAATAACT
495 GGATTGATGCCAAATTTATAAATAACT
19765787 ACTTCGTTGG
Statistics
Matches: 947, Mismatches: 92, Indels: 42
0.88 0.09 0.04
Matches are distributed among these distances:
527 155 0.16
528 419 0.44
529 1 0.00
532 2 0.00
535 1 0.00
537 1 0.00
538 2 0.00
539 1 0.00
541 2 0.00
543 120 0.13
544 8 0.01
545 152 0.16
546 2 0.00
548 1 0.00
549 50 0.05
550 30 0.03
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (524 bp):
AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTAG
CCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACCT
CAAGTGTCAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAAT
ACAAAGCGTTGTGATGCCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACATTGC
TTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAAGGTTTTCT
TTTGAATCATTTGTTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGATGTGT
CTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAAATAAC
TTTG
Found at i:19765431 original size:27 final size:21
Alignment explanation
Indices: 19765377--19765418 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19765367 CTCATTGTAA
19765377 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
19765398 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
19765419 TTCATCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
CCAAGCTAATATTAATATTTC
Found at i:19767431 original size:17 final size:17
Alignment explanation
Indices: 19767409--19767446 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
19767399 TCATAATAGT
19767409 TTTAAAAAATA-AAAATA
1 TTTAAAAAATACAAAA-A
*
19767426 TTTAAAATATACAAAAA
1 TTTAAAAAATACAAAAA
19767443 TTTA
1 TTTA
19767447 TTAACATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TTTAAAAAATACAAAAA
Found at i:19768878 original size:19 final size:19
Alignment explanation
Indices: 19768856--19768910 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
19768846 CCACTGTCAC
19768856 CCACCGTAATAAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
19768875 CCACCATAATTAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
19768894 CCACCGAAATCAAATTT
1 CCACCGTAATAAAATTT
19768911 TTTATTAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (19 bp):
CCACCGTAATAAAATTTGT
Found at i:19769469 original size:16 final size:16
Alignment explanation
Indices: 19769448--19769497 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
19769438 TGGGATGGAA
19769448 AGGGAGTAAAAGTTTT
1 AGGGAGTAAAAGTTTT
***
19769464 AGGGAG--AAAGTGGG
1 AGGGAGTAAAAGTTTT
*
19769478 AGGGAGTAAAAATTTT
1 AGGGAGTAAAAGTTTT
19769494 AGGG
1 AGGG
19769498 GAAAATAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
14 11 0.44
16 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (16 bp):
AGGGAGTAAAAGTTTT
Found at i:19770924 original size:5 final size:5
Alignment explanation
Indices: 19770914--19770944 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
19770904 CTCGAAAATT
19770914 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
19770945 GAATGCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:19771106 original size:9 final size:9
Alignment explanation
Indices: 19771094--19771122 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
19771084 GATATTCAAT
19771094 TTATTCGAA
1 TTATTCGAA
19771103 TTATTCGAA
1 TTATTCGAA
19771112 TTATTCGAA
1 TTATTCGAA
19771121 TT
1 TT
19771123 CGAAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:19781214 original size:76 final size:76
Alignment explanation
Indices: 19781131--19781284 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
19781121 AATAATTATA
**
19781131 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATATTAACATAAATAATATGTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATGTATCTTTATTAGGT
* *
19781196 TCATGATTCAC
66 TCACGATTAAC
*
19781207 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATTTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATGTATCTTTATTAGGT
19781272 TCACGATTAAC
66 TCACGATTAAC
19781283 AT
1 AT
19781285 AAATTATTGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (76 bp):
ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATAACAACATAAATAATATGTATCTTTATTAGGT
TCACGATTAAC
Found at i:19781906 original size:16 final size:17
Alignment explanation
Indices: 19781878--19781911 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
19781868 TGACAATTCA
19781878 TTCCAATCTATTTATTT
1 TTCCAATCTATTTATTT
19781895 TTCCAA-CTATTTATTT
1 TTCCAATCTATTTATTT
19781911 T
1 T
19781912 CTCCCCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (17 bp):
TTCCAATCTATTTATTT
Found at i:19783507 original size:100 final size:101
Alignment explanation
Indices: 19783384--19783584 Score: 395
Period size: 100 Copynumber: 2.0 Consensus size: 101
19783374 TTGCATAAAG
19783384 TTTATTCTTTAAAACTATAATAATAAAATTAAAAGATCAATTATTCCCTTCAAGAGTGGTGAAGA
1 TTTATTCTTTAAAACTATAATAATAAAATTAAAAGATCAATTATTCCCTTCAAGAGTGGTGAAGA
19783449 AATCAATAACTTCAAATGAGTTGTACCAACAATGCC
66 AATCAATAACTTCAAATGAGTTGTACCAACAATGCC
19783485 TTTATTCTTT-AAACTATAATAATAAAATTAAAAGATCAATTATTCCCTTCAAGAGTGGTGAAGA
1 TTTATTCTTTAAAACTATAATAATAAAATTAAAAGATCAATTATTCCCTTCAAGAGTGGTGAAGA
19783549 AATCAATAACTTCAAATGAGTTGTACCAACAATGCC
66 AATCAATAACTTCAAATGAGTTGTACCAACAATGCC
19783585 ATAAATCACA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 90 0.90
101 10 0.10
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (101 bp):
TTTATTCTTTAAAACTATAATAATAAAATTAAAAGATCAATTATTCCCTTCAAGAGTGGTGAAGA
AATCAATAACTTCAAATGAGTTGTACCAACAATGCC
Found at i:19789154 original size:22 final size:23
Alignment explanation
Indices: 19789123--19789165 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19789113 AAAAAAAATC
*
19789123 TGCTAATTTTATTTTTGTTTTAA
1 TGCTAATTTTATTGTTGTTTTAA
*
19789146 TGCT-ATTTTCTTGTTGTTTT
1 TGCTAATTTTATTGTTGTTTT
19789166 CTCCTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (23 bp):
TGCTAATTTTATTGTTGTTTTAA
Found at i:19792627 original size:22 final size:22
Alignment explanation
Indices: 19792599--19792640 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19792589 CACCCTTCAA
19792599 AGTTCCAAGGCAGACTTTGACC
1 AGTTCCAAGGCAGACTTTGACC
*
19792621 AGTTCCAAGGCTGACTTTGA
1 AGTTCCAAGGCAGACTTTGA
19792641 TCAACTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
AGTTCCAAGGCAGACTTTGACC
Found at i:19794842 original size:198 final size:200
Alignment explanation
Indices: 19794492--19794890 Score: 784
Period size: 198 Copynumber: 2.0 Consensus size: 200
19794482 AATTATCAAA
19794492 TCAAATTTCAATACAATACTATATTTGACTCGTAAATATTAAATAATAATATTTACGGACTCACT
1 TCAAATTTCAATACAATACTATATTTGACTCGTAAATATTAAATAATAATATTTACGGACTCACT
19794557 CGCTAGATTTTTGGTCCCAAAACCAGTGTTTTTGACACCACTGAAAAGTAGGTTGTTTTAACTCT
66 CGCTAGATTTTTGGTCCCAAAACCAGTGTTTTTGACACCACTGAAAAGTAGGTTGTTTTAACTCT
19794622 CCCCCTCCCAATTTTGCCCTAGAAATTTTTACCTGTGAAAAATTAGGGTACTGTGAATCTCATGT
131 CCCCCTCCCAATTTTGCCCTAGAAATTTTTACCTGTGAAAAATTAGGGTACTGTGAATCTCATGT
19794687 TTATT
196 TTATT
19794692 TCAAATTTC-A-ACAATACTATATTTGACTCGTAAATATTAAATAATAATATTTACGGACTCACT
1 TCAAATTTCAATACAATACTATATTTGACTCGTAAATATTAAATAATAATATTTACGGACTCACT
19794755 CGCTAGATTTTTGGTCCCAAAACCAGTGTTTTTGACACCACTGAAAAGTAGGTTGTTTTAACTCT
66 CGCTAGATTTTTGGTCCCAAAACCAGTGTTTTTGACACCACTGAAAAGTAGGTTGTTTTAACTCT
19794820 CCCCCTCCCAATTTTGCCCTAGAAATTTTTACCTGTGAAAAATTAGGGTACTGTGAATCTCATGT
131 CCCCCTCCCAATTTTGCCCTAGAAATTTTTACCTGTGAAAAATTAGGGTACTGTGAATCTCATGT
19794885 TTATT
196 TTATT
19794890 T
1 T
19794891 TTTCAGCTCT
Statistics
Matches: 199, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
198 189 0.95
199 1 0.01
200 9 0.05
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (200 bp):
TCAAATTTCAATACAATACTATATTTGACTCGTAAATATTAAATAATAATATTTACGGACTCACT
CGCTAGATTTTTGGTCCCAAAACCAGTGTTTTTGACACCACTGAAAAGTAGGTTGTTTTAACTCT
CCCCCTCCCAATTTTGCCCTAGAAATTTTTACCTGTGAAAAATTAGGGTACTGTGAATCTCATGT
TTATT
Found at i:19799703 original size:7 final size:7
Alignment explanation
Indices: 19799691--19799725 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
19799681 TCATTCTACA
19799691 ATTTCAT
1 ATTTCAT
19799698 ATTTCAT
1 ATTTCAT
*
19799705 ATTTCAC
1 ATTTCAT
19799712 ATTTCAT
1 ATTTCAT
19799719 ATTTCAT
1 ATTTCAT
19799726 TTCACATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTTCAT
Found at i:19799715 original size:21 final size:19
Alignment explanation
Indices: 19799691--19799736 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 19
19799681 TCATTCTACA
19799691 ATTTCATATTTCATATTTCAC
1 ATTTCATATTTC--ATTTCAC
19799712 ATTTCATATTTCATTTCAC
1 ATTTCATATTTCATTTCAC
19799731 ATTTCA
1 ATTTCA
19799737 CTTAAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 13 0.52
21 12 0.48
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTCATATTTCATTTCAC
Found at i:19799733 original size:7 final size:7
Alignment explanation
Indices: 19799691--19799737 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
19799681 TCATTCTACA
*
19799691 ATTTCAT
1 ATTTCAC
*
19799698 ATTTCAT
1 ATTTCAC
19799705 ATTTCAC
1 ATTTCAC
*
19799712 ATTTCAT
1 ATTTCAC
19799719 ATTT--C
1 ATTTCAC
19799724 ATTTCAC
1 ATTTCAC
19799731 ATTTCAC
1 ATTTCAC
19799738 TTAAATTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.11
7 31 0.89
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (7 bp):
ATTTCAC
Found at i:19803886 original size:18 final size:19
Alignment explanation
Indices: 19803854--19803898 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19803844 CCCCTATTTC
19803854 TAAAATTTTTATATTTT-TT
1 TAAAA-TTTTATATTTTATT
*
19803873 TAAAATTTTCTATTTTATT
1 TAAAATTTTATATTTTATT
*
19803892 TCAAATT
1 TAAAATT
19803899 GATCCCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TAAAATTTTATATTTTATT
Found at i:19810391 original size:23 final size:23
Alignment explanation
Indices: 19810360--19810424 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
19810350 TATTGAATTT
19810360 ATATATTTTAAAATTTTATAAAAA
1 ATAT-TTTTAAAATTTTATAAAAA
* * *
19810384 ATATTTTTAAACTTTTTTAAAAT
1 ATATTTTTAAAATTTTATAAAAA
* *
19810407 A-ATTTTTACATTTTTATA
1 ATATTTTTAAAATTTTATA
19810425 TTTTTATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 14 0.40
23 17 0.49
24 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTTTAAAATTTTATAAAAA
Found at i:19812234 original size:22 final size:22
Alignment explanation
Indices: 19812198--19812261 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
19812188 AAAATAGTGA
*
19812198 AAAACAATAAGAAAATAACAAC
1 AAAACAATAAAAAAATAACAAC
* * *
19812220 AAAATAATATAAAAAA-AGCAAG
1 AAAACAATA-AAAAAATAACAAC
*
19812242 AAAACAGTAAAAAAATAACA
1 AAAACAATAAAAAAATAACA
19812262 GTTTCTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 6 0.18
22 22 0.67
23 5 0.15
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.11
Consensus pattern (22 bp):
AAAACAATAAAAAAATAACAAC
Found at i:19821352 original size:1 final size:1
Alignment explanation
Indices: 19821315--19821341 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
19821305 ATCATTTCTG
19821315 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
19821342 GGGGTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:19824078 original size:23 final size:23
Alignment explanation
Indices: 19824034--19824078 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
19824024 GAATTTGACG
*
19824034 ATAATAGTTTATTAAATAAAAAA
1 ATAATAGTTTATTAAAAAAAAAA
* *
19824057 ATAATA-TTTTTTAAAAATAAAA
1 ATAATAGTTTATTAAAAAAAAAA
19824079 TAAAATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAATAGTTTATTAAAAAAAAAA
Found at i:19825630 original size:82 final size:82
Alignment explanation
Indices: 19825542--19825868 Score: 629
Period size: 82 Copynumber: 4.0 Consensus size: 82
19825532 ACCATAAACA
19825542 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
19825607 TAATAAAATAACTCTAG
66 TAATAAAATAACTCTAG
19825624 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
19825689 TAATAAAATAACTCTAG
66 TAATAAAATAACTCTAG
19825706 TAATTAAAATAACTACTAAAACACTCTCAATCACCTCTT-ACTTAAATGAAATAAAAGCTTAAAA
1 TAATTAAAATAACTACTAAAACACTCTCAATCA-CTCTTAACTTAAATGAAATAAAAGCTTAAAA
19825770 GTAATAAAATAACTCTAG
65 GTAATAAAATAACTCTAG
*
19825788 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTGAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
19825853 TAATAAAATAACTCTA
66 TAATAAAATAACTCTA
19825869 TATCCTAGAG
Statistics
Matches: 242, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
81 5 0.02
82 232 0.96
83 5 0.02
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (82 bp):
TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTAAATGAAATAAAAGCTTAAAAG
TAATAAAATAACTCTAG
Found at i:19828700 original size:16 final size:16
Alignment explanation
Indices: 19828679--19828709 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19828669 GAGATTAAGA
*
19828679 AATTAAATTAATTAAT
1 AATTAAATCAATTAAT
19828695 AATTAAATCAATTAA
1 AATTAAATCAATTAA
19828710 ATTAGTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATCAATTAAT
Found at i:19843120 original size:28 final size:28
Alignment explanation
Indices: 19843075--19843130 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
19843065 ACGTATTCCC
19843075 AATTCATAAATGTTAGCTTGTGTGAGCA
1 AATTCATAAATGTTAGCTTGTGTGAGCA
19843103 AATTCATAAAT-TTCAGCTTGTGTGAGCA
1 AATTCATAAATGTT-AGCTTGTGTGAGCA
19843131 CTATAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (28 bp):
AATTCATAAATGTTAGCTTGTGTGAGCA
Found at i:19849749 original size:5 final size:6
Alignment explanation
Indices: 19849730--19849759 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
19849720 CGAATGTGGC
19849730 TTTCTT TTTCTT TTTCTT TTTC-T TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
19849760 AGCTAGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:19853297 original size:16 final size:17
Alignment explanation
Indices: 19853265--19853299 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19853255 TTTCTACTTA
*
19853265 ACATGTTTAAGTTCATT
1 ACATGATTAAGTTCATT
19853282 ACATGATTAA-TTCATT
1 ACATGATTAAGTTCATT
19853298 AC
1 AC
19853300 TTACACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (17 bp):
ACATGATTAAGTTCATT
Found at i:19856878 original size:14 final size:14
Alignment explanation
Indices: 19856859--19856888 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19856849 TTTTTTAATT
19856859 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
19856873 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
19856887 TT
1 TT
19856889 ATTCAAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:19857112 original size:18 final size:19
Alignment explanation
Indices: 19857078--19857113 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19857068 AATAATTTTC
19857078 AAAATTCTAAATATTTATT
1 AAAATTCTAAATATTTATT
19857097 AAAATTCTAAAT-TTTAT
1 AAAATTCTAAATATTTAT
19857114 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTCTAAATATTTATT
Found at i:19857124 original size:24 final size:24
Alignment explanation
Indices: 19857088--19857136 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
19857078 AAAATTCTAA
* *
19857088 ATATTTATTAAAATTCTAAATTTT
1 ATATTTATTAAAATTATAAAATTT
19857112 ATATTT-TTAAAAATTATAAAATTT
1 ATATTTATT-AAAATTATAAAATTT
19857136 A
1 A
19857137 AAAAATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTTATTAAAATTATAAAATTT
Found at i:19860243 original size:21 final size:21
Alignment explanation
Indices: 19860217--19860256 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19860207 AAAAAAATCA
*
19860217 ATTTTCATTTTAG-TTTGTATT
1 ATTTTC-TTATAGATTTGTATT
19860238 ATTTTCTTATAGATTTGTA
1 ATTTTCTTATAGATTTGTA
19860257 CCAATGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (21 bp):
ATTTTCTTATAGATTTGTATT
Found at i:19869866 original size:43 final size:44
Alignment explanation
Indices: 19869802--19869889 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
19869792 ACATGTTTCT
19869802 GGTCAAACTCTTAGTTAACATGTCTGCAACTTGTTGTCTAGTAG
1 GGTCAAACTCTTAGTTAACATGTCTGCAACTTGTTGTCTAGTAG
19869846 GGTCAAACTC-TAGTTAACATGTCTGCAACTTGTTGTCTAGTAG
1 GGTCAAACTCTTAGTTAACATGTCTGCAACTTGTTGTCTAGTAG
19869889 G
1 G
19869890 TAGGTAGGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 34 0.77
44 10 0.23
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (44 bp):
GGTCAAACTCTTAGTTAACATGTCTGCAACTTGTTGTCTAGTAG
Found at i:19884796 original size:22 final size:20
Alignment explanation
Indices: 19884750--19884802 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
19884740 AGGCCGGAGA
19884750 AGAGAAAGGGGGTGAGATAG
1 AGAGAAAGGGGGTGAGATAG
*
19884770 AGAGAAATGGGGTGAGATAG
1 AGAGAAAGGGGGTGAGATAG
*
19884790 AGAGAGAGGGGGT
1 AGAGAAAGGGGGT
19884803 TCAGCCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.51, T:0.11
Consensus pattern (20 bp):
AGAGAAAGGGGGTGAGATAG
Found at i:19885261 original size:6 final size:6
Alignment explanation
Indices: 19885252--19885540 Score: 375
Period size: 6 Copynumber: 48.2 Consensus size: 6
19885242 TTTAGTCCTG
* *
19885252 TTATTG TTATTG TTATT- TTCATTA TTATTA TTATTA TTATTA TTATTA
1 TTATTA TTATTA TTATTA TT-ATTA TTATTA TTATTA TTATTA TTATTA
19885300 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
19885348 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
19885396 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATCA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * ** * **
19885444 TTACTA GTATTA TTATTA GTT-TTA TTGCTA TTTTTA ACATTA TTATTA
1 TTATTA TTATTA TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA
** * * * * * **
19885492 GAATTA TTATTA ATGTCA TTACTA TTAATA TTATTA TTACCA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
19885540 T
1 T
19885541 ATACATATAT
Statistics
Matches: 248, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
5 4 0.02
6 240 0.97
7 4 0.02
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (6 bp):
TTATTA
Found at i:19885469 original size:15 final size:15
Alignment explanation
Indices: 19885252--19885540 Score: 375
Period size: 15 Copynumber: 19.3 Consensus size: 15
19885242 TTTAGTCCTG
* *
19885252 TTATTGTTATTGTTA
1 TTATTATTATTATTA
19885267 TT-TTCATTATTATTA
1 TTATT-ATTATTATTA
19885282 TTATTATTATTATTA
1 TTATTATTATTATTA
19885297 TTATTATTATTATTA
1 TTATTATTATTATTA
19885312 TTATTATTATTATTA
1 TTATTATTATTATTA
19885327 TTATTATTATTATTA
1 TTATTATTATTATTA
19885342 TTATTATTATTATTA
1 TTATTATTATTATTA
19885357 TTATTATTATTATTA
1 TTATTATTATTATTA
19885372 TTATTATTATTATTA
1 TTATTATTATTATTA
19885387 TTATTATTATTATTA
1 TTATTATTATTATTA
19885402 TTATTATTATTATTA
1 TTATTATTATTATTA
19885417 TTATTATTATTATTA
1 TTATTATTATTATTA
*
19885432 TTATTATTATCATTA
1 TTATTATTATTATTA
* *
19885447 CTAGTATTATTATTA
1 TTATTATTATTATTA
** *
19885462 GTT-TTATTGCTATTT
1 -TTATTATTATTATTA
**
19885477 TTAACATTATTATTA
1 TTATTATTATTATTA
** * *
19885492 GAATTATTATTAATG
1 TTATTATTATTATTA
* * *
19885507 TCATTACTATTAATA
1 TTATTATTATTATTA
**
19885522 TTATTATTACCATTA
1 TTATTATTATTATTA
19885537 TTAT
1 TTAT
19885541 ATACATATAT
Statistics
Matches: 239, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
14 4 0.02
15 232 0.97
16 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATTATTATTATTA
Found at i:19887658 original size:16 final size:16
Alignment explanation
Indices: 19887619--19887651 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19887609 CGTTTGGTTC
19887619 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
19887635 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
19887651 G
1 G
19887652 GCGTAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:19887691 original size:45 final size:44
Alignment explanation
Indices: 19887640--19887731 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 44
19887630 ATAGAGCTGT
19887640 AATGGAATAGAGGCGTAATAGTAATTTAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGT-A-TTAATGTGTTTGGTTGAATGG
* *
19887685 AATGGAATGGAGGCGTAATAGTATTATTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAATGG
19887729 AAT
1 AAT
19887732 AATGTTGTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 4 0.09
44 19 0.43
45 21 0.48
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAATGG
Found at i:19887915 original size:18 final size:18
Alignment explanation
Indices: 19887892--19888023 Score: 111
Period size: 18 Copynumber: 7.8 Consensus size: 18
19887882 TTATTATTAA
19887892 ATATAATTTAATAATAAT
1 ATATAATTTAATAATAAT
19887910 ATATAATTTAATAA-AAT
1 ATATAATTTAATAATAAT
*
19887927 ATATGAATTTACTAA-AAT
1 ATAT-AATTTAATAATAAT
* * *
19887945 -CATAATAT-ATAATACT
1 ATATAATTTAATAATAAT
* * *
19887961 ATAAAATATAAT-TTAA-
1 ATATAATTTAATAATAAT
* *
19887977 A-ATAA-TTATTATTAA-
1 ATATAATTTAATAATAAT
19887992 ATATAATTTAATAATAAT
1 ATATAATTTAATAATAAT
19888010 ATATAATTTAATAA
1 ATATAATTTAATAA
19888024 AATTCAATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
14 3 0.03
15 11 0.12
16 11 0.12
17 25 0.27
18 42 0.46
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAATAAT
Found at i:19889313 original size:23 final size:23
Alignment explanation
Indices: 19889287--19889332 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19889277 TGCATTAATG
19889287 TAAATAGCTATTT-AAATAAAAAA
1 TAAATA-CTATTTGAAATAAAAAA
* *
19889310 TAAATATTTTTTGAAATAAAAAA
1 TAAATACTATTTGAAATAAAAAA
19889333 AATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAATACTATTTGAAATAAAAAA
Found at i:19890481 original size:6 final size:6
Alignment explanation
Indices: 19890470--19890496 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19890460 ATTTATTATT
19890470 AATGTG AATGTG AATGTG AATGTG AAT
1 AATGTG AATGTG AATGTG AATGTG AAT
19890497 ATCAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (6 bp):
AATGTG
Found at i:19890727 original size:18 final size:18
Alignment explanation
Indices: 19890704--19890743 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
19890694 TTTTTTCGAG
*
19890704 ATTTTGATATTTACACTC
1 ATTTTGATATTTACACTA
19890722 ATTTTGATATTTACACTA
1 ATTTTGATATTTACACTA
19890740 ATTT
1 ATTT
19890744 ACTGTCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTTGATATTTACACTA
Found at i:19894508 original size:14 final size:14
Alignment explanation
Indices: 19894489--19894517 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19894479 ACTTTTCTCA
19894489 GGGCTGCATCACTT
1 GGGCTGCATCACTT
19894503 GGGCTGCATCACTT
1 GGGCTGCATCACTT
19894517 G
1 G
19894518 TAACTTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (14 bp):
GGGCTGCATCACTT
Found at i:19903061 original size:16 final size:16
Alignment explanation
Indices: 19903037--19903074 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19903027 TTTGGTTCGC
* *
19903037 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
19903053 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
19903069 TGTAAT
1 TGTAAT
19903075 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:19903119 original size:45 final size:44
Alignment explanation
Indices: 19903053--19903143 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
19903043 GGATTAGAGG
*
19903053 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
19903098 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
19903142 TG
1 TG
19903144 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:19911073 original size:17 final size:17
Alignment explanation
Indices: 19911051--19911086 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
19911041 ACTCAAAGGG
19911051 AAATAAACAGCAATAGA
1 AAATAAACAGCAATAGA
19911068 AAATAAACAGCAATAGA
1 AAATAAACAGCAATAGA
19911085 AA
1 AA
19911087 CATGCAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAACAGCAATAGA
Found at i:19911322 original size:5 final size:5
Alignment explanation
Indices: 19911312--19911337 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19911302 AAGGAGAGTT
19911312 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
19911338 AAGAGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:19913497 original size:19 final size:20
Alignment explanation
Indices: 19913471--19913516 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
19913461 AAAAAAAGAA
*
19913471 TCAAAATAATTATTAAAATT
1 TCAAAATAATTATAAAAATT
*
19913491 T-AAAATATTTATAAAAATT
1 TCAAAATAATTATAAAAATT
19913510 TCAAAAT
1 TCAAAAT
19913517 TCATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TCAAAATAATTATAAAAATT
Found at i:19913563 original size:21 final size:20
Alignment explanation
Indices: 19913521--19913581 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
19913511 CAAAATTCAT
*
19913521 ATTTTTAAGAAAAATTATAAA
1 ATTTTTAA-AAAAATTAAAAA
*
19913542 ATTTTTAAAAAATTCTAAAAA
1 ATTTTTAAAAAAAT-TAAAAA
* * *
19913563 ATATATAAAAAAGTTAAAA
1 ATTTTTAAAAAAATTAAAA
19913582 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (20 bp):
ATTTTTAAAAAAATTAAAAA
Found at i:19914375 original size:6 final size:6
Alignment explanation
Indices: 19914367--19914413 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
19914357 ATTTTTCAAG
* *
19914367 AAAACG AAAACG AAAACA AAAACA AAAACA AAAACA AAAACA AAAAC
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAAC
19914414 GACTATTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.79, C:0.17, G:0.04, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:19925812 original size:16 final size:18
Alignment explanation
Indices: 19925791--19925834 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
19925781 TTTAATATGT
19925791 TATAAAT-T-ACATAATA
1 TATAAATATAACATAATA
*
19925807 TATAAATATAATATAATA
1 TATAAATATAACATAATA
*
19925825 TATTAATATA
1 TATAAATATA
19925835 TTATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.29
17 1 0.04
18 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAATATAACATAATA
Found at i:19925824 original size:18 final size:18
Alignment explanation
Indices: 19925801--19925840 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19925791 TATAAATTAC
19925801 ATAATATATAAATATAAT
1 ATAATATATAAATATAAT
* *
19925819 ATAATATATTAATATATT
1 ATAATATATAAATATAAT
19925837 ATAA
1 ATAA
19925841 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATATAAATATAAT
Found at i:19927793 original size:32 final size:32
Alignment explanation
Indices: 19927754--19927821 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
19927744 TTATATAAAT
* * *
19927754 GTTACATTTTTGTCACTTATCTGTTAACTTCC
1 GTTACATTTTGGCCACTTATCCGTTAACTTCC
19927786 GTTACATTTTGGCCACTTATCCGTTAACTTCC
1 GTTACATTTTGGCCACTTATCCGTTAACTTCC
19927818 GTTA
1 GTTA
19927822 AGATGGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.46
Consensus pattern (32 bp):
GTTACATTTTGGCCACTTATCCGTTAACTTCC
Found at i:19940320 original size:20 final size:20
Alignment explanation
Indices: 19940295--19940334 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19940285 CCCCTATAGG
*
19940295 ACACTTGTCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
19940315 ACACTTGCCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
19940335 CTGCTTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (20 bp):
ACACTTGCCAACTCTTTACT
Found at i:19948750 original size:19 final size:19
Alignment explanation
Indices: 19948726--19948768 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
19948716 TTTTATATTT
19948726 AAAATTAATA-AAAATGT-TA
1 AAAATT-ATAGAAAAT-TATA
19948745 AAAATTATAGAAAATTATA
1 AAAATTATAGAAAATTATA
19948764 AAAAT
1 AAAAT
19948769 ATTTAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATTATAGAAAATTATA
Found at i:19948758 original size:10 final size:9
Alignment explanation
Indices: 19948726--19948785 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
19948716 TTTTATATTT
19948726 AAAATTAATA
1 AAAATT-ATA
19948736 AAAATGT-TA
1 AAAAT-TATA
19948745 AAAATTATA
1 AAAATTATA
19948754 GAAAATTATA
1 -AAAATTATA
*
19948764 AAAATATTTA
1 AAAAT-TATA
*
19948774 AAGATTATA
1 AAAATTATA
19948783 AAA
1 AAA
19948786 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
8 1 0.02
9 19 0.45
10 21 0.50
11 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:19948758 original size:29 final size:29
Alignment explanation
Indices: 19948726--19948782 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
19948716 TTTTATATTT
19948726 AAAATTAATAAAAAT-GTTAAAAATTATAG
1 AAAATT-ATAAAAATAGTTAAAAATTATAG
* *
19948755 AAAATTATAAAAATATTTAAAGATTATA
1 AAAATTATAAAAATAGTTAAAAATTATA
19948783 AAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTATAAAAATAGTTAAAAATTATAG
Found at i:19948766 original size:18 final size:19
Alignment explanation
Indices: 19948745--19948791 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
19948735 AAAAATGTTA
19948745 AAAATTATAGAAA-ATTAT
1 AAAATTATAGAAAGATTAT
* **
19948763 AAAAATATTTAAAGATTAT
1 AAAATTATAGAAAGATTAT
19948782 AAAATATATA
1 AAAAT-TATA
19948792 TATATAAGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAATTATAGAAAGATTAT
Found at i:19949091 original size:20 final size:19
Alignment explanation
Indices: 19949059--19949102 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
19949049 AATATTTTGT
* *
19949059 ATTTTTAATATTTTTTATA
1 ATTTTTAATATTTATAATA
*
19949078 ATTTTTAGTCATTTATAATA
1 ATTTTTAAT-ATTTATAATA
19949098 ATTTT
1 ATTTT
19949103 ATAAGGTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTAATATTTATAATA
Found at i:19969025 original size:29 final size:26
Alignment explanation
Indices: 19968993--19969045 Score: 70
Period size: 29 Copynumber: 1.9 Consensus size: 26
19968983 TCTGAAAGTA
*
19968993 TTTATTTATTTTTGAATTAATTTTTTATT
1 TTTATATATTTTT-AATT--TTTTTTATT
19969022 TTTATATATTTTTAATTTTTTTTA
1 TTTATATATTTTTAATTTTTTTTA
19969046 GAATTAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
28 4 0.17
29 12 0.52
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTATATATTTTTAATTTTTTTTATT
Found at i:19969114 original size:50 final size:50
Alignment explanation
Indices: 19969060--19969231 Score: 132
Period size: 50 Copynumber: 3.3 Consensus size: 50
19969050 TAGGATTAAA
*
19969060 TTGAGATCATATGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAG
1 TTGAGATAATATGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAG
* * * * * * * * * *
19969110 TTGAGAATTAATTTTTA-TTTTTATATATTTTTAATTTTTTTTAGAATTAGGATTAAA-
1 TTGAG-A-TAATATGTAGATTCT-GAGA--GTTAA--TTTTTTA-AAATATGA-CAAAG
*
19969167 TTGAGATCATATGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAG
1 TTGAGATAATATGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAG
*
19969217 TTGATATAATATGTA
1 TTGAGATAATATGTA
19969232 AAAATTGAAG
Statistics
Matches: 87, Mismatches: 24, Indels: 22
0.65 0.18 0.17
Matches are distributed among these distances:
49 3 0.03
50 24 0.28
51 11 0.13
52 8 0.09
53 4 0.05
54 4 0.05
55 8 0.09
56 11 0.13
57 11 0.13
58 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (50 bp):
TTGAGATAATATGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAG
Found at i:19969133 original size:107 final size:108
Alignment explanation
Indices: 19969006--19969220 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 108
19968996 ATTTATTTTT
19969006 GAATTAATTTTTTATTTTTATATATTTTTAATTTTTTTTAGAATTAGGATTAAATTGAGATCATA
1 GAATTAATTTTTTATTTTTATATATTTTTAATTTTTTTTAGAATTAGGATTAAATTGAGATCATA
19969071 TGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAGTTGA
66 TGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAGTTGA
19969114 GAATTAA-TTTTTATTTTTATATATTTTTAATTTTTTTTAGAATTAGGATTAAATTGAGATCATA
1 GAATTAATTTTTTATTTTTATATATTTTTAATTTTTTTTAGAATTAGGATTAAATTGAGATCATA
19969178 TGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAGTTGA
66 TGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAGTTGA
19969221 TATAATATGT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 100 0.93
108 7 0.07
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (108 bp):
GAATTAATTTTTTATTTTTATATATTTTTAATTTTTTTTAGAATTAGGATTAAATTGAGATCATA
TGTAGATTCTGAGAGTTAATTTTTTAAAATATGACAAAGTTGA
Found at i:19970854 original size:13 final size:13
Alignment explanation
Indices: 19970836--19970886 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
19970826 AGTTCTTCAT
*
19970836 TGCTTTTGGGAAG
1 TGCTTTTGAGAAG
* *
19970849 TGCTTTTCAAAAG
1 TGCTTTTGAGAAG
19970862 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
19970875 TACTTTTGAGAA
1 TGCTTTTGAGAA
19970887 ATTTGAGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:19972972 original size:11 final size:11
Alignment explanation
Indices: 19972950--19972993 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
19972940 AACTAATCCT
19972950 CTCTCAAATTTC
1 CTCTC-AATTTC
19972962 CTCTCAATTTC
1 CTCTCAATTTC
* *
19972973 TTCTAAATTTC
1 CTCTCAATTTC
19972984 CTCTCAATTT
1 CTCTCAATTT
19972994 AAAATATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 23 0.82
12 5 0.18
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.48
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:19975600 original size:45 final size:45
Alignment explanation
Indices: 19975539--19975706 Score: 221
Period size: 45 Copynumber: 3.7 Consensus size: 45
19975529 GATATAAACG
* *
19975539 AAAAGGAAAAGGCCATAGTTGAAAGATACTATGGCATTATAATCG
1 AAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATTATAATCA
* * *
19975584 AAAAGGAAAAGACCATAGTTGAAAGAAACTATGACATTGTAATCA
1 AAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATTATAATCA
* * *
19975629 AAAAGGAAAAGATCATAGTTGAAAGATAATATGGCATTA-AATAA
1 AAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATTATAATCA
* * *
19975673 AAAATGAAAAAAACAATAGTTGAAAGATACTATG
1 AAAA-GGAAAAGACCATAGTTGAAAGATACTATG
19975707 ACATCGTTTG
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 8 0.08
45 98 0.92
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.21
Consensus pattern (45 bp):
AAAAGGAAAAGACCATAGTTGAAAGATACTATGGCATTATAATCA
Found at i:19975692 original size:90 final size:90
Alignment explanation
Indices: 19975539--19975710 Score: 247
Period size: 90 Copynumber: 1.9 Consensus size: 90
19975529 GATATAAACG
* * ** * * *
19975539 AAAAGGAAAAGGCCATAGTTGAAAGATACTATGGCATTATAATCGAAAAGGAAAAGACCATAGTT
1 AAAAGGAAAAGACCATAGTTGAAAGATAATATGGCATTATAATAAAAAAGAAAAAAACAATAGTT
19975604 GAAAGAAACTATGACATTGTAATCA
66 GAAAGAAACTATGACATTGTAATCA
*
19975629 AAAAGGAAAAGATCATAGTTGAAAGATAATATGGCATTA-AATAAAAAATGAAAAAAACAATAGT
1 AAAAGGAAAAGACCATAGTTGAAAGATAATATGGCATTATAATAAAAAA-GAAAAAAACAATAGT
*
19975693 TGAAAGATACTATGACAT
65 TGAAAGAAACTATGACAT
19975711 CGTTTGGGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 7 0.10
90 65 0.90
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.22
Consensus pattern (90 bp):
AAAAGGAAAAGACCATAGTTGAAAGATAATATGGCATTATAATAAAAAAGAAAAAAACAATAGTT
GAAAGAAACTATGACATTGTAATCA
Found at i:19977789 original size:21 final size:20
Alignment explanation
Indices: 19977725--19977789 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
19977715 TCGTCTATCA
19977725 ATTATTTATG-TGTTTATTTT
1 ATTATTTATGTTGTTTA-TTT
*
19977745 ATTTATTTATAATCTGTTTA-TT
1 A-TTATTTAT-GT-TGTTTATTT
19977767 ATTATTTATGTTTGTTTATTT
1 ATTATTTATG-TTGTTTATTT
19977788 AT
1 AT
19977790 ATCTTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
20 7 0.19
21 21 0.57
22 3 0.08
24 6 0.16
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.68
Consensus pattern (20 bp):
ATTATTTATGTTGTTTATTT
Found at i:19977985 original size:135 final size:136
Alignment explanation
Indices: 19977821--19978091 Score: 535
Period size: 135 Copynumber: 2.0 Consensus size: 136
19977811 TATTACTTAT
19977821 ATAATTAAATGAACACATTTAACCTAAAATAGTAATATCACAAGGAGATATGTAAGATATTATGC
1 ATAATTAAATGAACACATTTAACCTAAAATAGTAATATCACAAGGAGATATGTAAGATATTATGC
19977886 CTTAATTCAAATCACTAACATGGATTTATCTAAAAAAAATGTTGTATTAAATTAAAACATGTAAG
66 CTTAATTCAAATCACTAACATGGATTTATCTAAAAAAAATGTTGTATTAAATTAAAACATGTAAG
19977951 TAATAA
131 TAATAA
19977957 ATAATTAAAT-AACACATTTAACCTAAAATAGTAATATCACAAGGAGATATGTAAGATATTATGC
1 ATAATTAAATGAACACATTTAACCTAAAATAGTAATATCACAAGGAGATATGTAAGATATTATGC
19978021 CTTAATTCAAATCACTAACATGGATTTATCTAAAAAAAATGTTGTATTAAATTAAAACATGTAAG
66 CTTAATTCAAATCACTAACATGGATTTATCTAAAAAAAATGTTGTATTAAATTAAAACATGTAAG
19978086 TAATAA
131 TAATAA
19978092 GAGATACTTA
Statistics
Matches: 135, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 125 0.93
136 10 0.07
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (136 bp):
ATAATTAAATGAACACATTTAACCTAAAATAGTAATATCACAAGGAGATATGTAAGATATTATGC
CTTAATTCAAATCACTAACATGGATTTATCTAAAAAAAATGTTGTATTAAATTAAAACATGTAAG
TAATAA
Found at i:19998830 original size:256 final size:257
Alignment explanation
Indices: 19998364--19998877 Score: 1021
Period size: 256 Copynumber: 2.0 Consensus size: 257
19998354 TTACAAATAT
19998364 TAAATTATTTATATACATTTATTATATATTATATTTTTAAAATTTGTAATTTCTATTGTTTTTAA
1 TAAATTATTTATATACATTTATTATATATTATATTTTTAAAATTTGTAATTTCTATTGTTTTTAA
19998429 TGGTGTTTAGTTAATTTCTAACGCTAACTTCTTAAAGATATAAACAAAAAGGGCTAGATATAAAA
66 TGGTGTTTAGTTAATTTCTAACGCTAACTTCTTAAAGATATAAACAAAAAGGGCTAGATATAAAA
19998494 TTGGATAATTTCAACCATAAACAAAACAATTAATAGATGTGGAATGCCTCTGTTTTAAAATATAA
131 TTGGATAATTTCAACCATAAACAAAACAATTAATAGATGTGGAATGCCTCTGTTTTAAAATATAA
19998559 AAGTTTTGGTTAGGAAGTTTGAGTATCAAATTGATAGAATATGTAAATAATTGAAGATTAAA
196 AAGTTTTGGTTAGGAAGTTTGAGTATCAAATTGATAGAATATGTAAATAATTGAAGATTAAA
19998621 TAAATTATTT-TATACATTTATTATATATTATATTTTTAAAATTTGTAATTTCTATTGTTTTTAA
1 TAAATTATTTATATACATTTATTATATATTATATTTTTAAAATTTGTAATTTCTATTGTTTTTAA
19998685 TGGTGTTTAGTTAATTTCTAACGCTAACTTCTTAAAGATATAAACAAAAAGGGCTAGATATAAAA
66 TGGTGTTTAGTTAATTTCTAACGCTAACTTCTTAAAGATATAAACAAAAAGGGCTAGATATAAAA
19998750 TTGGATAATTTCAACCATAAACAAAACAATTAATAGATGTGGAATGCCTCTGTTTTAAAATATAA
131 TTGGATAATTTCAACCATAAACAAAACAATTAATAGATGTGGAATGCCTCTGTTTTAAAATATAA
19998815 AAGTTTTGGTTAGGAAGTTTGAGTATCAAATTGATAGAATATGTAAATAATTGAAGATTAAA
196 AAGTTTTGGTTAGGAAGTTTGAGTATCAAATTGATAGAATATGTAAATAATTGAAGATTAAA
19998877 T
1 T
19998878 GTGCATTATG
Statistics
Matches: 257, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
256 247 0.96
257 10 0.04
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (257 bp):
TAAATTATTTATATACATTTATTATATATTATATTTTTAAAATTTGTAATTTCTATTGTTTTTAA
TGGTGTTTAGTTAATTTCTAACGCTAACTTCTTAAAGATATAAACAAAAAGGGCTAGATATAAAA
TTGGATAATTTCAACCATAAACAAAACAATTAATAGATGTGGAATGCCTCTGTTTTAAAATATAA
AAGTTTTGGTTAGGAAGTTTGAGTATCAAATTGATAGAATATGTAAATAATTGAAGATTAAA
Found at i:19999482 original size:24 final size:22
Alignment explanation
Indices: 19999455--19999514 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
19999445 TTTTTAAAAT
* *
19999455 TTTAAAAATAAAATGATTAGATTC
1 TTTAAAAATAAAAAGATTA-A-AC
19999479 TTTAAATAA-AAAAAGATTAAAC
1 TTTAAA-AATAAAAAGATTAAAC
*
19999501 TTTAAATATAAAAA
1 TTTAAAAATAAAAA
19999515 AATATAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 12 0.39
23 1 0.03
24 15 0.48
25 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (22 bp):
TTTAAAAATAAAAAGATTAAAC
Found at i:20002747 original size:4 final size:4
Alignment explanation
Indices: 20002738--20002762 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20002728 TTTTGACATT
20002738 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
20002763 AACACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:20007068 original size:14 final size:14
Alignment explanation
Indices: 20007051--20007103 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
20007041 CTCCACCGGA
20007051 CCACCACCACCAAT
1 CCACCACCACCAAT
* *
20007065 CCACCTCCACCGGA-
1 CCACCACCACC-AAT
20007079 CCACCACCACCAAT
1 CCACCACCACCAAT
*
20007093 CCACCTCCACC
1 CCACCACCACC
20007104 TCCACCTCCG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.60, G:0.04, T:0.08
Consensus pattern (14 bp):
CCACCACCACCAAT
Found at i:20007071 original size:28 final size:28
Alignment explanation
Indices: 20007039--20007103 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
20007029 CAATTCGAAG
20007039 ACCTCCACCGGACCACCACCACCAATCC
1 ACCTCCACCGGACCACCACCACCAATCC
20007067 ACCTCCACCGGACCACCACCACCAATCC
1 ACCTCCACCGGACCACCACCACCAATCC
20007095 ACCTCCACC
1 ACCTCCACC
20007104 TCCACCTCCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.58, G:0.06, T:0.08
Consensus pattern (28 bp):
ACCTCCACCGGACCACCACCACCAATCC
Found at i:20008679 original size:14 final size:14
Alignment explanation
Indices: 20008660--20008686 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20008650 TTAAAAAAAT
20008660 TTAAGTTTGATTTA
1 TTAAGTTTGATTTA
20008674 TTAAGTTTGATTT
1 TTAAGTTTGATTT
20008687 TAAACCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TTAAGTTTGATTTA
Found at i:20010692 original size:15 final size:14
Alignment explanation
Indices: 20010674--20010703 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20010664 AATTCAATAC
20010674 ATATATA-TTAAAT
1 ATATATATTTAAAT
20010687 ATATATATTTAAAT
1 ATATATATTTAAAT
20010701 ATA
1 ATA
20010704 ATAAGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTTAAAT
Found at i:20014747 original size:16 final size:19
Alignment explanation
Indices: 20014721--20014758 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
20014711 TTAATTTAAA
20014721 TAAATTATTTTT-TCAA-T
1 TAAATTATTTTTCTCAACT
20014738 TAAA-TATTTTTCTCAACT
1 TAAATTATTTTTCTCAACT
20014756 TAA
1 TAA
20014759 TTCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATTATTTTTCTCAACT
Found at i:20019334 original size:21 final size:21
Alignment explanation
Indices: 20019310--20019352 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20019300 ATGAATTATT
*
20019310 TATGTTATATATGTATTAATG
1 TATGTAATATATGTATTAATG
* *
20019331 TATGTAATGTATGTTTTAATG
1 TATGTAATATATGTATTAATG
20019352 T
1 T
20019353 TTCGTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
TATGTAATATATGTATTAATG
Found at i:20028631 original size:22 final size:21
Alignment explanation
Indices: 20028601--20028646 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20028591 ATTCAACTAT
* * *
20028601 ATTTTAAAAACAAAATGGAACC
1 ATTTGAAAAA-AAAAAGGAAAC
20028623 ATTTGAAAAAAAAAAGGAAAC
1 ATTTGAAAAAAAAAAGGAAAC
20028644 ATT
1 ATT
20028647 ATGTTATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.22
Consensus pattern (21 bp):
ATTTGAAAAAAAAAAGGAAAC
Found at i:20031287 original size:28 final size:28
Alignment explanation
Indices: 20031247--20031302 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
20031237 AAAAAAAAAA
20031247 AAAAAAATTCCCATGTAGAGGTCTCCAT
1 AAAAAAATTCCCATGTAGAGGTCTCCAT
*
20031275 AAAAACATTCCCATGTAGAGGTCTCCAT
1 AAAAAAATTCCCATGTAGAGGTCTCCAT
20031303 CAACAGCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (28 bp):
AAAAAAATTCCCATGTAGAGGTCTCCAT
Found at i:20034417 original size:16 final size:16
Alignment explanation
Indices: 20034396--20034433 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20034386 AATAGTTTCG
*
20034396 GATACAGAGCA-ATTCA
1 GATACACAGCAGA-TCA
20034412 GATACACAGCAGATCA
1 GATACACAGCAGATCA
20034428 GATACA
1 GATACA
20034434 AAAACAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (16 bp):
GATACACAGCAGATCA
Found at i:20037205 original size:113 final size:113
Alignment explanation
Indices: 20037062--20037284 Score: 410
Period size: 113 Copynumber: 2.0 Consensus size: 113
20037052 AAAAGCGAAT
* *
20037062 CTCTATCTGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAGTTTA
1 CTCTATCCGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
*
20037127 GCTAACCTCTATAGCAAATAATCGGTTTTGATTAGAAGAAAATGTAAC
66 GCTAACCTCTATAGCAAATAATCGGTTCTGATTAGAAGAAAATGTAAC
*
20037175 CTCTATCCGTGATAAGCAAAATCGAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
1 CTCTATCCGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
20037240 GCTAACCTCTATAGCAAATAATCGGTTCTGATTAGAAGAAAATGT
66 GCTAACCTCTATAGCAAATAATCGGTTCTGATTAGAAGAAAATGT
20037285 GTAGACTTGG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (113 bp):
CTCTATCCGTGATAAGCAAAATCAAGATTTCATGTAACCTCACAATCTTAGACACGTACAATTTA
GCTAACCTCTATAGCAAATAATCGGTTCTGATTAGAAGAAAATGTAAC
Found at i:20038460 original size:120 final size:121
Alignment explanation
Indices: 20038239--20038485 Score: 415
Period size: 120 Copynumber: 2.0 Consensus size: 121
20038229 TGCCAGAACG
*
20038239 AACTTGAGCTTCTCAAAGCTCGACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
1 AACTTGAGCTTCTCAAAGCTCAACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
* * * *
20038304 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTTGATAAACTTCTAGTAGT
66 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCAGTAGT
* *
20038360 AACTTGA-CTTCTTAAAGCTCAACTGATACTCCTCAGACCACCTGAATGGGGCATTCTTACGCAG
1 AACTTGAGCTTCTCAAAGCTCAACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
*
20038424 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCGGTAGT
66 TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCAGTAGT
20038480 AACTTG
1 AACTTG
20038486 CTAACCCGAG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
120 111 0.94
121 7 0.06
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (121 bp):
AACTTGAGCTTCTCAAAGCTCAACTGATACTCCTCAGACCACCTGAATAGGGCATTCTTACGCAG
TAACTTAGTCATGGGAGATACAATCAGGGAGAATCCCTCGACAAACCTCCAGTAGT
Found at i:20041019 original size:19 final size:19
Alignment explanation
Indices: 20040995--20041052 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
20040985 TGTGACCCTC
20040995 ATCCACGACTTCCTTGTGA
1 ATCCACGACTTCCTTGTGA
20041014 ATCCACGACTTCCTTGTGA
1 ATCCACGACTTCCTTGTGA
20041033 ATCCACGACTTCCTTGTGA
1 ATCCACGACTTCCTTGTGA
20041052 A
1 A
20041053 CTCATAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (19 bp):
ATCCACGACTTCCTTGTGA
Found at i:20041779 original size:16 final size:16
Alignment explanation
Indices: 20041758--20041799 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
20041748 TCACAATAGT
*
20041758 TTCAGATACAAAGTAG
1 TTCAGATACAAAGCAG
*
20041774 TTCAGATACATAGCAG
1 TTCAGATACAAAGCAG
*
20041790 ATCAGATACA
1 TTCAGATACA
20041800 GAAACAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (16 bp):
TTCAGATACAAAGCAG
Found at i:20046121 original size:21 final size:21
Alignment explanation
Indices: 20046088--20046131 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20046078 CAAAAGAAGA
20046088 AGGAACACACCCAGTCCAATC
1 AGGAACACACCCAGTCCAATC
* *
20046109 AGGAGCACGCCCAGTCCAATC
1 AGGAACACACCCAGTCCAATC
20046130 AG
1 AG
20046132 CCAAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.36, G:0.20, T:0.09
Consensus pattern (21 bp):
AGGAACACACCCAGTCCAATC
Found at i:20051326 original size:16 final size:16
Alignment explanation
Indices: 20051305--20051357 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
20051295 TTGGTTCGCT
*
20051305 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
20051321 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
20051337 GTAATGGAATTGAGGC
1 GTAATGGAATAGAGGC
20051353 GTAAT
1 GTAAT
20051358 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:20051388 original size:45 final size:44
Alignment explanation
Indices: 20051337--20051433 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
20051327 GAATAGAGGC
* *
20051337 GTAATGGAATTGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
20051382 GTAATGGAATAGAGACGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
*
20051426 GGAATGGA
1 GTAATGGA
20051434 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.52
45 21 0.46
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:20053297 original size:190 final size:190
Alignment explanation
Indices: 20052974--20053353 Score: 742
Period size: 190 Copynumber: 2.0 Consensus size: 190
20052964 TGCAGATCTA
20052974 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
1 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
20053039 TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
66 TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
*
20053104 TGTGACTTAGCATCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
131 TGTGACTTAGCACCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
20053164 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
1 TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
20053229 TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
66 TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
*
20053294 TGTGACTTAGCCCCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
131 TGTGACTTAGCACCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
20053354 CAGTTAAAAC
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 188 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (190 bp):
TCAATGACATTTCAAATTTGTTTGCAGATGGAAAACAAAAAGAAAGACGATAACTATCTAGAGGT
TGTAATTATTAAAAATTTACAATAAATGAGACTTTTTAATTAAAAGGCTCACCCTTGCCAATTTT
TGTGACTTAGCACCCACCCATCAATGGTAAAAAGAAGAAAGGACCAAGCGGATATCATGG
Found at i:20055108 original size:30 final size:30
Alignment explanation
Indices: 20055072--20055130 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
20055062 CCCTTTGGCT
20055072 ATCAGCGTACCTTTGGCTGGAAGAAGATGA
1 ATCAGCGTACCTTTGGCTGGAAGAAGATGA
20055102 ATCAGCGTACCTTTGGCTGGAAGAAGATG
1 ATCAGCGTACCTTTGGCTGGAAGAAGATG
20055131 TGAAAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (30 bp):
ATCAGCGTACCTTTGGCTGGAAGAAGATGA
Found at i:20055476 original size:17 final size:17
Alignment explanation
Indices: 20055454--20055494 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
20055444 ATTTGACACC
* *
20055454 CAAAAGTGATTTTGCAG
1 CAAAAGCGATTTTACAG
20055471 CAAAAGCGATTTTACAG
1 CAAAAGCGATTTTACAG
20055488 CAAAAGC
1 CAAAAGC
20055495 TCAAATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (17 bp):
CAAAAGCGATTTTACAG
Found at i:20060597 original size:90 final size:89
Alignment explanation
Indices: 20060444--20060736 Score: 320
Period size: 90 Copynumber: 3.3 Consensus size: 89
20060434 CACCGGGTTA
* * * * * * *
20060444 TGGATAAACCACAAAAGTTACAGGTTAATACGCTGGCAAATGGTTGTGAGTACACAACGTAATTG
1 TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGTGA-TACACAACATAATTG
* * **
20060509 CAGATGAGAGCAGCCAGAATGTGGG
65 CAGATAAGAGCAGCCAAAAAATGGG
* *
20060534 TGGATGAACCACCAATGTTGCAGGTTAATACGTTGTTAGATGGTTGTGGATACACAACATAATTG
1 TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGT-GATACACAACATAATTG
**
20060599 CAGATAAGAGTTGCCAAAAAATGGG
65 CAGATAAGAGCAGCCAAAAAATGGG
* * * *
20060624 TGGATGAACCACCAATGTTGTAGGTTAATATGCTGTCAGATGGTTGTGAAAGCACAACATATTTG
1 TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGTGATA-CACAACATAATTG
* * **
20060689 CAGATAAAAGCTA-CCAAATAATCTG
65 CAGATAAGAGC-AGCCAAAAAATGGG
20060714 TGGATGAACCACCAGA-GTTGCAG
1 TGGATGAACCACCA-ATGTTGCAG
20060737 ATTATTAATC
Statistics
Matches: 171, Mismatches: 28, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
89 3 0.02
90 165 0.96
91 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (89 bp):
TGGATGAACCACCAATGTTGCAGGTTAATACGCTGTCAGATGGTTGTGATACACAACATAATTGC
AGATAAGAGCAGCCAAAAAATGGG
Found at i:20063458 original size:10 final size:10
Alignment explanation
Indices: 20063443--20063476 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
20063433 AACTAGCATC
20063443 TATATATACA
1 TATATATACA
20063453 TATATATACA
1 TATATATACA
* *
20063463 TGTATATATA
1 TATATATACA
20063473 TATA
1 TATA
20063477 GGCATCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (10 bp):
TATATATACA
Found at i:20066063 original size:29 final size:29
Alignment explanation
Indices: 20066013--20066090 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
20066003 CCAAAACTAT
* * *
20066013 ACATTAACTATGGTTTAATGTGTAATTGTAC
1 ACATGAACTTTGGTTT--TGTGCAATTGTAC
* *
20066044 ACATGAACTTTGGTTTTGTGCAATTTTAT
1 ACATGAACTTTGGTTTTGTGCAATTGTAC
* *
20066073 ACATGAAATTTGGATTTG
1 ACATGAACTTTGGTTTTG
20066091 ATCAAATTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 26 0.65
31 14 0.35
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (29 bp):
ACATGAACTTTGGTTTTGTGCAATTGTAC
Found at i:20066393 original size:11 final size:11
Alignment explanation
Indices: 20066377--20066403 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
20066367 ATTAAAAGTA
20066377 TTTTTAAATAT
1 TTTTTAAATAT
20066388 TTTTTAAATAT
1 TTTTTAAATAT
20066399 TTTTT
1 TTTTT
20066404 CAATTTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAAATAT
Found at i:20071787 original size:28 final size:28
Alignment explanation
Indices: 20071755--20071809 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
20071745 CTCTTCTGGA
20071755 GAAGGAAACAACAATACTTTTCATAAAC
1 GAAGGAAACAACAATACTTTTCATAAAC
20071783 GAAGGAAACAACAATACTTTTCATAAA
1 GAAGGAAACAACAATACTTTTCATAAA
20071810 TTCTCTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (28 bp):
GAAGGAAACAACAATACTTTTCATAAAC
Found at i:20074162 original size:36 final size:36
Alignment explanation
Indices: 20074111--20074183 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
20074101 AAGAAGAACA
*
20074111 TCCCCAGAAATTAAACTTTGATGGGGCCTCAAACGC
1 TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
*
20074147 TCCCCAGAAACTAAACTTTGATGGGGCCTCCAACGC
1 TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
20074183 T
1 T
20074184 ATGGGTAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (36 bp):
TCCCCAGAAACTAAACTTTGATGGGGCCTCAAACGC
Found at i:20075776 original size:44 final size:44
Alignment explanation
Indices: 20075726--20076190 Score: 445
Period size: 44 Copynumber: 10.5 Consensus size: 44
20075716 GTGGTGAATT
* * * * * *
20075726 TTATCTCTCTGAAGTCT-TAGTGGATCAGATTAAAGCCACGAATC
1 TTATCTCCCTGAAGT-TGCAGTGGAGCAGATTGAAGCTACAAATC
* * * *
20075770 TTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCCACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* * *
20075814 TTATCTCCCTGAAGTTGAAGTGGAGCAGATTGGAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* ** * *
20075858 TTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
*
20075902 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTTG-AGC-ACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACAAATC
* * * * *
20075945 TTATCTCCGTGAAGTTGTAGTGGAGCAGATTAAAGCCA-AAAGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA-TC
* * * **
20075989 TTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATC
* *
20076034 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
* **
20076078 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATC
* * * * ** * **
20076123 CTATCTCTCTGAAGTTGCGGTTGAGTGGATTGAAACTACACTTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
*
20076167 CTATAC-CCCTGAAGTTGCAGTGGA
1 TTAT-CTCCCTGAAGTTGCAGTGGA
20076191 TTAGAACAAT
Statistics
Matches: 355, Mismatches: 57, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.01
43 42 0.12
44 237 0.67
45 72 0.20
46 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATC
Found at i:20076078 original size:176 final size:176
Alignment explanation
Indices: 20075726--20076108 Score: 511
Period size: 176 Copynumber: 2.2 Consensus size: 176
20075716 GTGGTGAATT
* * *
20075726 TTATCTCTCTGAAGTCT-TAGTGGATCAGATTAAAGCCACGAATCTTATCTCCCTGAAGTTGTAA
1 TTATCTCCCTGAAGT-TGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAA
* * *
20075790 TGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTGGAGTTACAA
65 TGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAGCGGAGCAGATTGAAGATACAA
* * * *
20075855 ATCTTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATC
130 ATCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
** * *
20075902 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTTGAG-CACAAATCTTATCTCCGTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAAT
* * * **
20075966 GGAGCAGATTAAAGCCA-AAAGTTTTATCTCCTTGAAGTTGCAGCGGAGCAGATTGAAGATAGTG
66 GGAGCAGATTAAAGCCACAAA-TCTTATCTCCCTGAAGTTGAAGCGGAGCAGATTGAAGATA-CA
* * *
20076030 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
129 AATCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
*
20076078 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATT
20076109 GAAGATAGTG
Statistics
Matches: 181, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
174 3 0.02
175 78 0.43
176 100 0.55
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (176 bp):
TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGTAAT
GGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGAAGCGGAGCAGATTGAAGATACAAA
TCTTATCTCCCTGAAGTTACAGTAGAACAGATTGAAGCTACAAATC
Found at i:20076154 original size:89 final size:88
Alignment explanation
Indices: 20075765--20076190 Score: 441
Period size: 89 Copynumber: 4.8 Consensus size: 88
20075755 TTAAAGCCAC
* * * * *
20075765 GAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
* * * *
20075830 GAAGTGGAGCAGATTGGAGTTAC
66 GCAGTGGAGCAGATTGAAGATAT
* * * ** * *
20075853 AAATCTTATCTCCCTGAAGTTACAGTGGAATAGATTGGAGTTACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
* *
20075918 GTAGTGGAGCAGATTTG-AGCACA-
66 GCAGTGGAGCAGA-TTGAAG-ATAT
* * * * *
20075941 -AATCTTATCTC-CGTGAAGTTGTAGTGGAGCAGATTAAAGCCA-AAAGTTTTATCTCCTTGAAG
1 GAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA-TCTTATCTCCCTGAAG
*
20076003 TTGCAGCGGAGCAGATTGAAGATAGT
64 TTGCAGTGGAGCAGATTGAAGATA-T
*
20076029 GAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
20076094 GCAGTGGAGCAGATTGAAGATAGT
66 GCAGTGGAGCAGATTGAAGATA-T
* * * ** * ** *
20076118 GAATCCTATCTCTCTGAAGTTGCGGTTGAGTGGATTGAAACTACACTTCCTATAC-CCCTGAAGT
1 GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTAT-CTCCCTGAAGT
20076182 TGCAGTGGA
65 TGCAGTGGA
20076191 TTAGAACAAT
Statistics
Matches: 285, Mismatches: 42, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
86 9 0.03
87 61 0.21
88 69 0.24
89 141 0.49
90 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (88 bp):
GAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTGAAGATAT
Found at i:20079983 original size:19 final size:19
Alignment explanation
Indices: 20079959--20080004 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
20079949 AAGTATCTTT
*
20079959 TTTGCATT-CATTTCATGCA
1 TTTGCATTCCATTACAT-CA
20079978 TTTGCATTCCATTACATCA
1 TTTGCATTCCATTACATCA
*
20079997 TATGCATT
1 TTTGCATT
20080005 AGACACCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.46
Consensus pattern (19 bp):
TTTGCATTCCATTACATCA
Done.