Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 38 of 144
Found at i:11482429 original size:66 final size:66
Alignment explanation
Indices: 11482333--11482479 Score: 201
Period size: 66 Copynumber: 2.2 Consensus size: 66
11482323 GAGGCAACAT
11482333 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTA-CAAG-TGAAAGCAGATGCAG
1 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC-AGC-AGCTGAAAGCAGATGCAG
11482396 CAG
64 CAG
* * *
11482399 CGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGCAGCAGCTTAAAGCAGATGCGGC
1 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCAGCAGCTGAAAGCAGATGCAGC
11482463 AG
65 AG
* *
11482465 CAAGAGAAGCAGAGG
1 CGAGAGAAGCTGAGG
11482480 CGGCAGCGAG
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
65 3 0.04
66 66 0.90
67 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.30, T:0.12
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCAGCAGCTGAAAGCAGATGCAGCA
G
Found at i:11482476 original size:21 final size:21
Alignment explanation
Indices: 11482450--11482522 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
11482440 CAGCAGCTTA
*
11482450 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
11482471 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCAAGAG
* * ** * *
11482492 AAGTATAGGCTACAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
11482513 AAGCAGAGGC
1 AAGCAGAGGC
11482523 TAAAGCGAGG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.41, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:11482523 original size:21 final size:21
Alignment explanation
Indices: 11482470--11482557 Score: 104
Period size: 21 Copynumber: 4.2 Consensus size: 21
11482460 GGCAGCAAGA
** *
11482470 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTACAGCGAGG
* *
11482491 GAAGTATAGGCTACAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
*
11482512 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
* *
11482533 GAAGCAGAAGCTGCAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
11482554 GAAG
1 GAAG
11482558 TCGAACAGCG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Found at i:11482966 original size:43 final size:43
Alignment explanation
Indices: 11482919--11483303 Score: 244
Period size: 43 Copynumber: 9.0 Consensus size: 43
11482909 GGCCTATAGT
* * *
11482919 GGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGC
1 GGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTCTTTAGC
** * *
11482962 GGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTCTTTAGC
1 GGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTCTTTAGC
* * * *
11483005 GGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTATTTAGC
1 GGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTCTTTAGC
* * * * *
11483048 GGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGTCTATT-GT
1 GGCG-TTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTCT-TTAGC
* * * * * * *
11483092 GGCGTTTGAGGGGAAAGCGCCACTAAAGATTAGGTTCTTTCGT
1 GGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTCTTTAGC
** ** *
11483135 GGCACTTGT-CCCAAAAACGCCGCTAAAGATCAGGGTCTATT-GC
1 GGCGTTTGTGGGC-AAAGCGCCGCTAAAGATCAGGGTCT-TTAGC
* *** * *
11483178 GGCGTTTGAGAAAAAAACACCGCTAAAGATCAGGGTCTTTAGC
1 GGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTCTTTAGC
* * *** * * *** *
11483221 GACG-CT-TCCACTAAAGCGCCCCTAAAGGTCTTAGTCTTCAGC
1 GGCGTTTGTGGGC-AAAGCGCCGCTAAAGATCAGGGTCTTTAGC
*
11483263 GGCGTTTGT--GCTAGAAGCGCTGCTAAAGATCAGGGTCTTTA
1 GGCGTTTGTGGGC-A-AAGCGCCGCTAAAGATCAGGGTCTTTA
11483304 ACGGTGAATT
Statistics
Matches: 258, Mismatches: 73, Indels: 22
0.73 0.21 0.06
Matches are distributed among these distances:
41 1 0.00
42 33 0.13
43 188 0.73
44 34 0.13
45 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGTCTTTAGC
Found at i:11483022 original size:86 final size:86
Alignment explanation
Indices: 11482932--11483221 Score: 305
Period size: 86 Copynumber: 3.4 Consensus size: 86
11482922 GTTTTTGGTC
* * * *
11482932 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTCGAAAAAGCGCCGCTAAAGATCAGGG
*
11482997 TCT-TTAGCGGCGTTTGTGGGG
66 TCTATT-GCGGCGTTTGAGGGG
* * * *** *
11483018 AAAGCGCCGCTAAAGATTAGGTTATTTAGCGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCG-TTTGTCGAAAAAGCGCCGCTAAAGATCAGG
*
11483083 GTCTATTGTGGCGTTTGAGGGG
65 GTCTATTGCGGCGTTTGAGGGG
* * * * ** *
11483105 AAAGCGCCACTAAAGATTAGGTTCTTTCGTGGCACTTGTCCCAAAAA-CGCCGCTAAAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGT-CGAAAAAGCGCCGCTAAAGATCAGG
***
11483169 GTCTATTGCGGCGTTTGAGAAA
65 GTCTATTGCGGCGTTTGAGGGG
* * *
11483191 AAAACACCGCTAAAGATCAGGGTCTTTAGCG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCG
11483222 ACGCTTCCAC
Statistics
Matches: 166, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
86 93 0.56
87 71 0.43
88 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTCGAAAAAGCGCCGCTAAAGATCAGGG
TCTATTGCGGCGTTTGAGGGG
Found at i:11483180 original size:130 final size:129
Alignment explanation
Indices: 11482919--11483221 Score: 290
Period size: 130 Copynumber: 2.3 Consensus size: 129
11482909 GGCCTATAGT
*
11482919 GGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCA
1 GGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAAAGCGCCA
** **** * *
11482984 CTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTATTTAGC
66 CTAAAGATCATGGTCTTTAGCGGCACTTGTCCCAAAAACGCCGCTAAAGATCAGGTTATTTAGC
* * * * * **
11483048 GGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGTCTATT-GTGGCGTTTGAGGGGAAAGCGC
1 GGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGAGGAAAAAGCGC
* * *
11483112 CACTAAAGATTA-GGTTCTTTCGTGGCACTTGTCCCAAAAACGCCGCTAAAGATCAGGGTCTA-T
64 CACTAAAGATCATGG-TCTTTAGCGGCACTTGTCCCAAAAACGCCGCTAAAGATCA-GGT-TATT
11483175 T-GC
126 TAGC
** *** * * *
11483178 GGCGTTTGAGAAAAAAACACCGCTAAAGATCAGGGTCTTTAGCG
1 GGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCG
11483222 ACGCTTCCAC
Statistics
Matches: 138, Mismatches: 30, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
128 2 0.01
129 33 0.24
130 94 0.68
131 7 0.05
132 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (129 bp):
GGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAAAGCGCCA
CTAAAGATCATGGTCTTTAGCGGCACTTGTCCCAAAAACGCCGCTAAAGATCAGGTTATTTAGC
Found at i:11483400 original size:22 final size:22
Alignment explanation
Indices: 11483372--11483414 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11483362 CTGCGGCGCT
*
11483372 AAAAAGCACCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
* *
11483394 AAAAAGCGCTGCTAAAAGCCT
1 AAAAAGCACCGCTAAAAGCCT
11483415 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:11493903 original size:14 final size:13
Alignment explanation
Indices: 11493879--11493909 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11493869 CAACAACAAT
11493879 ATTATTATTCTAG
1 ATTATTATTCTAG
11493892 ATTATATATTCTAG
1 ATTAT-TATTCTAG
11493906 ATTA
1 ATTA
11493910 GGTATCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (13 bp):
ATTATTATTCTAG
Found at i:11494304 original size:46 final size:46
Alignment explanation
Indices: 11494246--11494339 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
11494236 TAATTTTTAA
11494246 TAACATAACATTGAAAGAAAAAAGCACTCACAAGCTAAATAAAGTT
1 TAACATAACATTGAAAGAAAAAAGCACTCACAAGCTAAATAAAGTT
11494292 TAACATAACATTGAAAGAAAAAAGCACTCACAAGCTAAATAAAGTT
1 TAACATAACATTGAAAGAAAAAAGCACTCACAAGCTAAATAAAGTT
11494338 TA
1 TA
11494340 CCTATAAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.54, C:0.15, G:0.11, T:0.20
Consensus pattern (46 bp):
TAACATAACATTGAAAGAAAAAAGCACTCACAAGCTAAATAAAGTT
Found at i:11497794 original size:22 final size:22
Alignment explanation
Indices: 11497764--11497805 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11497754 TTCAAAAAAA
11497764 ATTTAAATATTAAAATTTTAAT
1 ATTTAAATATTAAAATTTTAAT
*
11497786 ATTTTAATATTAAAATTTTA
1 ATTTAAATATTAAAATTTTA
11497806 CACCTTTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTAAATATTAAAATTTTAAT
Found at i:11497816 original size:16 final size:16
Alignment explanation
Indices: 11497795--11497827 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11497785 TATTTTAATA
*
11497795 TTAAAATTTTACACCT
1 TTAAAATTTTAAACCT
11497811 TTAAAATTTTAAACCT
1 TTAAAATTTTAAACCT
11497827 T
1 T
11497828 GAGCTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATTTTAAACCT
Found at i:11499463 original size:17 final size:18
Alignment explanation
Indices: 11499430--11499474 Score: 83
Period size: 17 Copynumber: 2.6 Consensus size: 18
11499420 TAGGTAAAGT
11499430 ATTAATTGAGAAAATTAG
1 ATTAATTGAGAAAATTAG
11499448 ATTAATTGAG-AAATTAG
1 ATTAATTGAGAAAATTAG
11499465 ATTAATTGAG
1 ATTAATTGAG
11499475 GGGTTAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.36
Consensus pattern (18 bp):
ATTAATTGAGAAAATTAG
Found at i:11500658 original size:46 final size:46
Alignment explanation
Indices: 11500591--11500745 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 46
11500581 TTTGAGTACT
*
11500591 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
11500637 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
11500673 TCTGATCAAGAGACAAAA-TGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGA-AAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
11500719 TCTGATC-A-TGAACAAGTGATAAGTGGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGT
11500746 GACAAAGTGA
Statistics
Matches: 92, Mismatches: 5, Indels: 26
0.75 0.04 0.21
Matches are distributed among these distances:
36 26 0.28
37 6 0.07
40 2 0.02
42 2 0.02
43 3 0.03
44 13 0.14
45 3 0.03
46 37 0.40
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:11500668 original size:36 final size:36
Alignment explanation
Indices: 11500627--11500699 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
11500617 GGTAGCTTTA
*
11500627 GCTACACTTATCTGATCAAGTGA-AAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAA-TGATAAGT
11500663 GCTACACTTATCTGATCAAGAGACAAAATGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAATGATAAGT
11500699 G
1 G
11500700 GTAGCTTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 31 0.89
37 4 0.11
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAAATGATAAGT
Found at i:11500781 original size:62 final size:62
Alignment explanation
Indices: 11500684--11500871 Score: 315
Period size: 62 Copynumber: 3.0 Consensus size: 62
11500674 CTGATCAAGA
*
11500684 GACAAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCATGAACAAGTGATAAGTGGT
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCATGAACAAGTGATAAGTGGT
*
11500746 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCGTGAACAAGTGATAAGTGGT
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCATGAACAAGTGATAAGTGGT
*
11500808 GATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTG-ACAAAGTGATAAGTGGT
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC-A-TGAAC-AAGTGATAAGTGGT
11500872 AGCCTAGCTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
62 101 0.85
63 2 0.02
64 16 0.13
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (62 bp):
GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCATGAACAAGTGATAAGTGGT
Found at i:11500894 original size:45 final size:46
Alignment explanation
Indices: 11500806--11500912 Score: 166
Period size: 46 Copynumber: 2.4 Consensus size: 46
11500796 GTGATAAGTG
* *
11500806 GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAA
*
11500852 GTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATTTGATCAA
1 GTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAA
11500897 G-GAC-AAGTGATAAGTG
1 GTGACAAAGTGATAAGTG
11500913 ATCATACGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 12 0.21
44 3 0.05
45 21 0.36
46 22 0.38
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (46 bp):
GTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATCAA
Found at i:11507331 original size:31 final size:31
Alignment explanation
Indices: 11507269--11507331 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
11507259 CAACCCAATA
* * *
11507269 ACTTAAATAAAAACTTTTGAGTAGTTCAGTG
1 ACTTAAATAAAAACTTTCGAATAATTCAGTG
* * *
11507300 ACTTATATGAAAACTTTCGAATAATTTAGTG
1 ACTTAAATAAAAACTTTCGAATAATTCAGTG
11507331 A
1 A
11507332 TCAAATTGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCGAATAATTCAGTG
Found at i:11509789 original size:91 final size:91
Alignment explanation
Indices: 11509634--11509907 Score: 487
Period size: 91 Copynumber: 3.0 Consensus size: 91
11509624 GCCGATCTAA
*
11509634 TCTAATCTTCAAGATAAGTTGTTTAAAATGAATTGATGTTGGCTTTTATAC-TTCTACAACATTA
1 TCTAATCTTCAAGATAAGTTGTTTAAAATGAATTGATATTGGCTTTTATACTTTC-ACAACATTA
11509698 GCATCCTTCAAAACTCAAAGATTTTGT
65 GCATCCTTCAAAACTCAAAGATTTTGT
*
11509725 TCTAATCTTCAAGATAAGTTGTTTAAAATGAATTGATATTGGCTTTAATACTTTCACAACATTAG
1 TCTAATCTTCAAGATAAGTTGTTTAAAATGAATTGATATTGGCTTTTATACTTTCACAACATTAG
*
11509790 CATCCTTCAAAACTTAAAGATTTTGT
66 CATCCTTCAAAACTCAAAGATTTTGT
* *
11509816 TCTAATCTTCAAGATAAGTTGTTTCAAATGAATTGATATTGGCTTTTATACTTTCACGACATTAG
1 TCTAATCTTCAAGATAAGTTGTTTAAAATGAATTGATATTGGCTTTTATACTTTCACAACATTAG
11509881 CATCCTTCAAAACTCAAAGATTTTGT
66 CATCCTTCAAAACTCAAAGATTTTGT
11509907 T
1 T
11509908 TTAAAAATTA
Statistics
Matches: 175, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
91 172 0.98
92 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (91 bp):
TCTAATCTTCAAGATAAGTTGTTTAAAATGAATTGATATTGGCTTTTATACTTTCACAACATTAG
CATCCTTCAAAACTCAAAGATTTTGT
Found at i:11517844 original size:7 final size:7
Alignment explanation
Indices: 11517832--11517859 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
11517822 TTTGTTTGAT
11517832 TGCCAAA
1 TGCCAAA
11517839 TGCCAAA
1 TGCCAAA
11517846 TGCCAAA
1 TGCCAAA
11517853 TGCCAAA
1 TGCCAAA
11517860 GAAGCCCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (7 bp):
TGCCAAA
Found at i:11523241 original size:19 final size:19
Alignment explanation
Indices: 11523217--11523256 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11523207 CAGTTTATAA
*
11523217 AATTGAGAATTAATTTTAC
1 AATTGAGAATTAATTTAAC
**
11523236 AATTGAGTCTTAATTTAAC
1 AATTGAGAATTAATTTAAC
11523255 AA
1 AA
11523257 ATTTAGTCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTGAGAATTAATTTAAC
Found at i:11523269 original size:20 final size:19
Alignment explanation
Indices: 11523227--11523269 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
11523217 AATTGAGAAT
* *
11523227 TAATTTTACAATTGAGTCT
1 TAATTTAACAATTGAGTCG
*
11523246 TAATTTAACAAATTTAGTCG
1 TAATTTAAC-AATTGAGTCG
11523266 TAAT
1 TAAT
11523270 ATTTATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (19 bp):
TAATTTAACAATTGAGTCG
Found at i:11524824 original size:21 final size:21
Alignment explanation
Indices: 11524800--11524841 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11524790 AAGTGCCATA
*
11524800 TTAAAATTTAGTTAGGTAATT
1 TTAAAATTTAGATAGGTAATT
* *
11524821 TTAATATTTAGATAGTTAATT
1 TTAAAATTTAGATAGGTAATT
11524842 AAGAAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (21 bp):
TTAAAATTTAGATAGGTAATT
Found at i:11526774 original size:20 final size:20
Alignment explanation
Indices: 11526735--11526774 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11526725 CGTAAAATGA
* *
11526735 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATCTACT
*
11526755 TTTCTGTAAAATGATCTACT
1 TTTCTGGAAAATGATCTACT
11526775 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATCTACT
Found at i:11528161 original size:27 final size:27
Alignment explanation
Indices: 11528131--11528200 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
11528121 AATAATCAAT
*
11528131 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
11528158 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
11528186 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
11528201 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:11531098 original size:240 final size:239
Alignment explanation
Indices: 11530676--11531107 Score: 733
Period size: 240 Copynumber: 1.8 Consensus size: 239
11530666 TCTATAACAT
* *
11530676 CTACCATCAACCAAATATAACAGCTCATCACTGCCATTTCCCAAATAACCCGTAAACAAATTACA
1 CTACCATCAACCAAATATAACAACTCATCACTGCCATTTCCCAAATAACACGTAAACAAATTACA
11530741 GAAAAATGTAAATCAATAATAAACCATACCCAAACACATCCAACAACCATTTAATTCACTTGAAC
66 GAAAAATGTAAATCAATAATAAACCATACCCAAACACATCCAACAACCATTTAATTCACTTGAAC
* **
11530806 CGAATTATAACAACCACAAATGCATATTAGAAGGCTTATCATAAATCAAGCACACCACAAACCTC
131 CGAATTATAACAACCACAAATGCATATTAGAAGCCAAATCATAAATCAAGCACACCACAAACCTC
11530871 TTATGAAAATATCGACCAAGGCCACCACGCACATATATATTAAC
196 TTATGAAAATATCGACCAAGGCCACCACGCACATATATATTAAC
* * *
11530915 CTACCATCAACCAAATATAACAACTCATCACTGTCATTTCCCAAGTAATACGTAAACAAATTACA
1 CTACCATCAACCAAATATAACAACTCATCACTGCCATTTCCCAAATAACACGTAAACAAATTACA
*
11530980 GTCAAAATGTAAATCAATAATAAACCATACCCAAACACATCCAACAACCATGCTTAATTCACTTG
66 G-AAAAATGTAAATCAATAATAAACCATACCCAAACACATCCAACAACCAT--TTAATTCACTTG
*
11531045 AACCGAATTATAACAACCACAAATGCATATTA-TA-CCAAATCATAAATCAAGCACACCACAAAC
128 AACCGAATTATAACAACCACAAATGCATATTAGAAGCCAAATCATAAATCAAGCACACCACAAAC
11531108 ATATAACAAC
Statistics
Matches: 180, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
239 61 0.34
240 74 0.41
241 1 0.01
242 44 0.24
ACGTcount: A:0.45, C:0.27, G:0.06, T:0.22
Consensus pattern (239 bp):
CTACCATCAACCAAATATAACAACTCATCACTGCCATTTCCCAAATAACACGTAAACAAATTACA
GAAAAATGTAAATCAATAATAAACCATACCCAAACACATCCAACAACCATTTAATTCACTTGAAC
CGAATTATAACAACCACAAATGCATATTAGAAGCCAAATCATAAATCAAGCACACCACAAACCTC
TTATGAAAATATCGACCAAGGCCACCACGCACATATATATTAAC
Found at i:11543329 original size:46 final size:44
Alignment explanation
Indices: 11543222--11543501 Score: 326
Period size: 46 Copynumber: 6.6 Consensus size: 44
11543212 TACGTATGAT
11543222 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTAC
*
11543265 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
11543311 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
11543357 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
11543393 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
11543429 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
11543475 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11543502 AGTACTCAAA
Statistics
Matches: 217, Mismatches: 6, Indels: 25
0.88 0.02 0.10
Matches are distributed among these distances:
36 65 0.30
38 3 0.01
40 3 0.01
42 3 0.01
43 10 0.05
44 7 0.03
45 21 0.10
46 104 0.48
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:11543398 original size:36 final size:36
Alignment explanation
Indices: 11543357--11543465 Score: 200
Period size: 36 Copynumber: 3.0 Consensus size: 36
11543347 CTAAAGCTAC
*
11543357 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
11543393 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
11543429 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
11543465 C
1 C
11543466 TAAAGCTACC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:11548556 original size:20 final size:20
Alignment explanation
Indices: 11548505--11548557 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
11548495 ATTAAAACTG
*
11548505 AAAAA-ATTGATACCAAGAT
1 AAAAATATTGATACCAAGAC
* *
11548524 AAAATTATCGATACCAA-AC
1 AAAAATATTGATACCAAGAC
11548543 AAAAGATATTGATAC
1 AAAA-ATATTGATAC
11548558 TAATTGAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.55, C:0.13, G:0.09, T:0.23
Consensus pattern (20 bp):
AAAAATATTGATACCAAGAC
Found at i:11549007 original size:13 final size:13
Alignment explanation
Indices: 11548989--11549016 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11548979 TTAACATTCA
11548989 TTTGTATTCATTT
1 TTTGTATTCATTT
11549002 TTTGTATTCATTT
1 TTTGTATTCATTT
11549015 TT
1 TT
11549017 AGTTGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (13 bp):
TTTGTATTCATTT
Found at i:11552012 original size:17 final size:17
Alignment explanation
Indices: 11551990--11552022 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11551980 TACAATCGAT
*
11551990 TTCCAATATTTATAATG
1 TTCCAATAGTTATAATG
11552007 TTCCAATAGTTATAAT
1 TTCCAATAGTTATAAT
11552023 TAAAAACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (17 bp):
TTCCAATAGTTATAATG
Found at i:11558757 original size:58 final size:58
Alignment explanation
Indices: 11558692--11558868 Score: 354
Period size: 58 Copynumber: 3.1 Consensus size: 58
11558682 GTGAGGTTGA
11558692 TTTGTTTTGGGCTTATTACAGAAAACAAAGAGAGAGGGAGGAAAGCTGAGTGTGGAAT
1 TTTGTTTTGGGCTTATTACAGAAAACAAAGAGAGAGGGAGGAAAGCTGAGTGTGGAAT
11558750 TTTGTTTTGGGCTTATTACAGAAAACAAAGAGAGAGGGAGGAAAGCTGAGTGTGGAAT
1 TTTGTTTTGGGCTTATTACAGAAAACAAAGAGAGAGGGAGGAAAGCTGAGTGTGGAAT
11558808 TTTGTTTTGGGCTTATTACAGAAAACAAAGAGAGAGGGAGGAAAGCTGAGTGTGGAAT
1 TTTGTTTTGGGCTTATTACAGAAAACAAAGAGAGAGGGAGGAAAGCTGAGTGTGGAAT
11558866 TTT
1 TTT
11558869 ATCTATCTAT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 119 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (58 bp):
TTTGTTTTGGGCTTATTACAGAAAACAAAGAGAGAGGGAGGAAAGCTGAGTGTGGAAT
Found at i:11567245 original size:24 final size:24
Alignment explanation
Indices: 11567213--11567260 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11567203 TCGTTCTGTG
*
11567213 GCAAAGGATGAATTAACGGTAAAT
1 GCAAAGGATGAATTAACGGCAAAT
*
11567237 GCAAAGGATGAATTGACGGCAAAT
1 GCAAAGGATGAATTAACGGCAAAT
11567261 TACCCTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (24 bp):
GCAAAGGATGAATTAACGGCAAAT
Found at i:11572519 original size:17 final size:17
Alignment explanation
Indices: 11572497--11572531 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11572487 TTTATGAAAA
11572497 TTTTAAAAT-TTGTTTAT
1 TTTTAAAATATT-TTTAT
11572514 TTTTAAAATATTTTTAT
1 TTTTAAAATATTTTTAT
11572531 T
1 T
11572532 AATTTGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTAAAATATTTTTAT
Found at i:11582304 original size:18 final size:17
Alignment explanation
Indices: 11582283--11582321 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11582273 TTGAAGTATC
11582283 AAATAATTGTTGAATGAG
1 AAATAATTG-TGAATGAG
**
11582301 AAATTTTTGTGAATGAG
1 AAATAATTGTGAATGAG
11582318 AAAT
1 AAAT
11582322 TTTTGAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
AAATAATTGTGAATGAG
Found at i:11582305 original size:15 final size:15
Alignment explanation
Indices: 11582287--11582327 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
11582277 AGTATCAAAT
*
11582287 AATTGTTGAATGAGA
1 AATTTTTGAATGAGA
11582302 AATTTTTGTGAATGAGA
1 AA-TTTT-TGAATGAGA
11582319 AATTTTTGA
1 AATTTTTGA
11582328 GTGAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 7 0.30
17 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (15 bp):
AATTTTTGAATGAGA
Found at i:11582315 original size:17 final size:17
Alignment explanation
Indices: 11582293--11582326 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11582283 AAATAATTGT
11582293 TGAATGAGAAATTTTTG
1 TGAATGAGAAATTTTTG
11582310 TGAATGAGAAATTTTTG
1 TGAATGAGAAATTTTTG
11582327 AGTGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
TGAATGAGAAATTTTTG
Found at i:11583165 original size:14 final size:14
Alignment explanation
Indices: 11583146--11583179 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11583136 TATTTAATAA
*
11583146 ATTTTCCTAAAATT
1 ATTTTCCAAAAATT
11583160 ATTTTCCAAAAATT
1 ATTTTCCAAAAATT
*
11583174 GTTTTC
1 ATTTTC
11583180 TATAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (14 bp):
ATTTTCCAAAAATT
Found at i:11583522 original size:14 final size:14
Alignment explanation
Indices: 11583485--11583524 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
11583475 CAATGGCATG
11583485 AAAAATGAAAAAG-A
1 AAAAATG-AAAAGCA
11583499 AAAAA--AAAAGCA
1 AAAAATGAAAAGCA
11583511 AAAAATGAAAAGCA
1 AAAAATGAAAAGCA
11583525 GGCTCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
14 12 0.52
ACGTcount: A:0.78, C:0.05, G:0.12, T:0.05
Consensus pattern (14 bp):
AAAAATGAAAAGCA
Found at i:11585416 original size:17 final size:19
Alignment explanation
Indices: 11585394--11585428 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11585384 CTAAAATAGT
11585394 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
11585411 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
11585429 TCCAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:11587366 original size:24 final size:24
Alignment explanation
Indices: 11587338--11587389 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11587328 TTTCTAAAAG
* * *
11587338 ATTTAGTATTTATTGGTATAATTT
1 ATTTAGCATTTATTAGCATAATTT
11587362 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATTT
11587386 ATTT
1 ATTT
11587390 GGCTTACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATTT
Found at i:11590371 original size:31 final size:30
Alignment explanation
Indices: 11590309--11590382 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
11590299 TATTATAAAA
*
11590309 TAAGGGTTTATTT-AACAATAGAAATAATT
1 TAAGGGTTTATTTAAACAAAAGAAATAATT
* *
11590338 TAAGGGTTTATTTAAACAAAATATAGTAATT
1 TAAGGGTTTATTTAAACAAAAGA-AATAATT
* *
11590369 TAAAGGTTTGTTTA
1 TAAGGGTTTATTTA
11590383 CTATATTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 13 0.34
30 7 0.18
31 18 0.47
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.41
Consensus pattern (30 bp):
TAAGGGTTTATTTAAACAAAAGAAATAATT
Found at i:11593826 original size:26 final size:26
Alignment explanation
Indices: 11593796--11593868 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
11593786 CACATGGTCA
*
11593796 GTCACATAACCATGTGACACAAGTCT
1 GTCACATGACCATGTGACACAAGTCT
11593822 GTCACATGACCATGTGACACAAGTCT
1 GTCACATGACCATGTGACACAAGTCT
*
11593848 GTCACATGACTATGTGACACA
1 GTCACATGACCATGTGACACA
11593869 CATGGCTTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (26 bp):
GTCACATGACCATGTGACACAAGTCT
Found at i:11603268 original size:41 final size:41
Alignment explanation
Indices: 11603211--11603528 Score: 258
Period size: 41 Copynumber: 7.8 Consensus size: 41
11603201 ATTTTTAAAC
* *
11603211 CTTTAGCGGCGTTTTTA-CTTTAGCGCCGCTAATTCTCCGAT
1 CTTTAGCGGCGTTTTTATC-TGAGCGCCGCTAATTCTCTGAT
* **
11603252 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGT-TCTGGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAAT-TCTCTGAT
* * *
11603293 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTAT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTG-AT
* * * * * *
11603334 CATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTCTGTT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGAT
* * *
11603375 CTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTC-GTG-T
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCT-AA-TTCTCTGAT
* * * * **
11603416 TTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGAT
* * * *
11603457 CTTTAGCGGCGTTTTATATGTAAGCGCCGCTAA-T-GCT-AC
1 CTTTAGCGGCGTTTT-TATCTGAGCGCCGCTAATTCTCTGAT
*
11603496 CTTTAGCGGCGTTTTT-TCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTATCTG-AGCGCCGCTAAT
11603529 AGTAACAAAA
Statistics
Matches: 221, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
37 1 0.00
38 12 0.05
39 18 0.08
40 7 0.03
41 159 0.72
42 21 0.10
43 3 0.01
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGAT
Found at i:11603355 original size:82 final size:80
Alignment explanation
Indices: 11603210--11603493 Score: 345
Period size: 82 Copynumber: 3.5 Consensus size: 80
11603200 GATTTTTAAA
* * * *
11603210 CCTTTAGCGGCGTTTTTACTTTAGCGCCGCTAATTCTCCG-ATCTTTAGCGGCGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTTC-TAAGCGCCGCTAATGCT-CGTATCTTTAGTGGCGTTTTTATCTGA
11603274 GCGCCACTAATGTTCTGG
64 GCGCCACTAAT-TTCTGG
* * *
11603292 CCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTATTGTCTGAG
1 CCTTTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
11603357 CGCCACTAATTCTCTGT
65 CGCCACTAATT-TCTGG
* * * * *
11603374 TCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTCGTGTTTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
11603439 CGCCACTAATACTCTGG
65 CGCCACTAAT-TTCTGG
*
11603456 CCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGCT
1 CCTTTAGCGGCGTTTT-T-TCTAAGCGCCGCTAATGCT
11603494 ACCTTTAGCG
Statistics
Matches: 173, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
81 7 0.04
82 144 0.83
83 22 0.13
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.38
Consensus pattern (80 bp):
CCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAGC
GCCACTAATTTCTGG
Found at i:11603468 original size:123 final size:119
Alignment explanation
Indices: 11603209--11603527 Score: 295
Period size: 123 Copynumber: 2.6 Consensus size: 119
11603199 CGATTTTTAA
* * *
11603209 ACCTTTAGCGGCGTTTTTACTTTAGCGCCGCTAATTCTCCGATCTTTAGCGGCGTTTTTATCTGA
1 ACCTTTAGCGGCGTTTTT-C-TGAGCGCCGCTAATTCT-CG-TCTTTAGCGGCGTTTTTTTCTAA
* * * * *
11603274 GCGCCACTAATGTTCTGGCCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGT
62 GCGCCGCTAAAGTTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCGT
* * * *
11603332 ATCATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTCTGTTCTTTAGCGGCGTTTTTTTCTAA
1 ACCTTTAGCGGCGTT-TT-TCTGAGCGCCGCTAATTCTC-G-TCTTTAGCGGCGTTTTTTTCTAA
** * *
11603397 GCGCCGCTAAAGTTC-GTGTTTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTC-T
62 GCGCCGCTAAAGTTCTG-GCCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCGT
* * * * *
11603454 GGCCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGCTAC--CTTTAGCGGCGTTTTTTCCGA
1 -ACCTTTAGCGGCGTTTT-TCTG--AGCGCCGCTAATTCT-CGTCTTTAGCGGCGTTTTTTTCTA
11603517 AGCGCCGCTAA
61 AGCGCCGCTAA
11603528 TAGTAACAAA
Statistics
Matches: 161, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
121 30 0.19
122 8 0.05
123 105 0.65
124 16 0.10
125 2 0.01
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (119 bp):
ACCTTTAGCGGCGTTTTTCTGAGCGCCGCTAATTCTCGTCTTTAGCGGCGTTTTTTTCTAAGCGC
CGCTAAAGTTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCGT
Found at i:11605282 original size:8 final size:10
Alignment explanation
Indices: 11605260--11605296 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
11605250 TATTTTTACT
11605260 TATATATGGA
1 TATATATGGA
*
11605270 TATATATGAA
1 TATATATGGA
11605280 TATATATGGA
1 TATATATGGA
*
11605290 TAGATAT
1 TATATAT
11605297 ATAGTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (10 bp):
TATATATGGA
Found at i:11613153 original size:66 final size:65
Alignment explanation
Indices: 11613046--11613216 Score: 211
Period size: 66 Copynumber: 2.6 Consensus size: 65
11613036 GAGCAAATTA
* * * *
11613046 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
11613110 G
65 G
* *
11613111 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
11613176 G
65 G
* * *
11613177 CAGCAGCTTAAAGCAGATG-AGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCA-GCAGCGAGAGAAGCTGAGG
11613217 CCGCAGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
65 3 0.03
66 85 0.92
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:11613222 original size:21 final size:21
Alignment explanation
Indices: 11613198--11613299 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 21
11613188 AGCAGATGAG
* * *
11613198 GCAGCAAGAGAAGCAGAGGCC
1 GCAGCGAGGGAAGCAGAGGCT
* * * *
11613219 GCAGCGAGAGAAGTATAGGAT
1 GCAGCGAGGGAAGCAGAGGCT
*
11613240 GCAGCGAGGGAAGCAGAAGCT
1 GCAGCGAGGGAAGCAGAGGCT
**
11613261 AAAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
11613282 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
11613300 CAGCGTCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.42, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:11613677 original size:43 final size:42
Alignment explanation
Indices: 11613644--11613857 Score: 230
Period size: 43 Copynumber: 5.0 Consensus size: 42
11613634 AGGTGTTGGC
*
11613644 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAACGGT
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTA-GGT
* * * ** * *
11613687 CTTTAGCGGTGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTA-GGT
* **
11613730 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGG-T
* * * *
11613773 CTTTAGTGACATTTTGTGGTCGAAGCACCGCTAAAGATTAGGTT
1 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATTAGG-T
* *
11613817 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATTAGG
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGG
11613858 GTCTATTGCG
Statistics
Matches: 142, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 2 0.01
43 104 0.73
44 36 0.25
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (42 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGT
Found at i:11613873 original size:87 final size:87
Alignment explanation
Indices: 11613644--11613873 Score: 261
Period size: 87 Copynumber: 2.7 Consensus size: 87
11613634 AGGTGTTGGC
* *
11613644 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAACGGTCTTTAGCGG--TGTTTGTGGAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCAT-TTTGTGGAA
*
11613707 AAAGCGCCACTAAAGATCATGGT
65 AAAGCACCACTAAAGATCATGGT
* ** * * * ***
11613730 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGACATTTTGTGGTCG
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTTGTGGAAA
* *
11613795 AAGCACCGCTAAAGATTA-GGTT
66 AAGCACCACTAAAGATCATGG-T
* *
11613817 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATTAGGGTCTATT-GCGGCATTT
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGTCT-TTAGCGGCATTT
11613874 GAGATAAAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
86 46 0.39
87 69 0.58
88 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (87 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTTGTGGAAA
AAGCACCACTAAAGATCATGGT
Found at i:11613892 original size:130 final size:129
Alignment explanation
Indices: 11613644--11613895 Score: 283
Period size: 130 Copynumber: 1.9 Consensus size: 129
11613634 AGGTGTTGGC
* * * *
11613644 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAACGGTCTTTAGCGGTGTTTGTGGAAAA
1 CTTTAGTGACATTTTTGGTCAAAGCACCGCTAAAGATAACGGTCTTTAGCGGCGTTTGTGGAAAA
* * ** * * *
11613709 AGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
66 AGCGCCACTAAAGATCAGGGTCTTTAGCGGCATTTGAGAGAAAAACGCCGCTAAAGATTAGGTT
* * * **
11613773 CTTTAGTGACATTTTGTGGTCGAAGCACCGCTAAAGATTA-GGTTCTTTAGTGGCGTTTGTGGTC
1 CTTTAGTGACATTTT-TGGTCAAAGCACCGCTAAAGATAACGG-TCTTTAGCGGCGTTTGTGGAA
* * * *
11613837 AAAGCGCCGCTATAGATTAGGGTCTATT-GCGGCATTTGAGATAAAAACGCCGCTAAAGA
64 AAAGCGCCACTAAAGATCAGGGTCT-TTAGCGGCATTTGAGAGAAAAACGCCGCTAAAGA
11613896 CCCTGATCTA
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
129 15 0.15
130 83 0.83
131 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (129 bp):
CTTTAGTGACATTTTTGGTCAAAGCACCGCTAAAGATAACGGTCTTTAGCGGCGTTTGTGGAAAA
AGCGCCACTAAAGATCAGGGTCTTTAGCGGCATTTGAGAGAAAAACGCCGCTAAAGATTAGGTT
Found at i:11614164 original size:22 final size:22
Alignment explanation
Indices: 11614136--11614179 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11614126 TCTGCGGCGC
*
11614136 TAAAAAGCGCCGCTAAAGGCCT
1 TAAAAAGCGCCGCTAAAAGCCT
11614158 TAAAAAGCGCCGCTAAAAGCCT
1 TAAAAAGCGCCGCTAAAAGCCT
11614180 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (22 bp):
TAAAAAGCGCCGCTAAAAGCCT
Found at i:11624178 original size:24 final size:24
Alignment explanation
Indices: 11624144--11624196 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
11624134 TTTCTAGAAG
* *
11624144 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
11624168 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
11624192 ATTTA
1 ATTTA
11624197 ATTTTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:11628386 original size:43 final size:43
Alignment explanation
Indices: 11628325--11628440 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
11628315 CAAAGGTACA
*
11628325 AGGGACAAAC-GCCTGTGTCTCAGGCCGTGTGGGCATTCAAAAT
1 AGGGACAAACGGCC-GTGTCCCAGGCCGTGTGGGCATTCAAAAT
* *
11628368 AGGGACATACGGCCGTGTCCCAGGCCGTGTGGGCATTCGAAAT
1 AGGGACAAACGGCCGTGTCCCAGGCCGTGTGGGCATTCAAAAT
* * *
11628411 AGGGACACACGACCGTGTCCCAGCCCGTGT
1 AGGGACAAACGGCCGTGTCCCAGGCCGTGT
11628441 CCGTACCCGT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 63 0.95
44 3 0.05
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (43 bp):
AGGGACAAACGGCCGTGTCCCAGGCCGTGTGGGCATTCAAAAT
Found at i:11650331 original size:87 final size:86
Alignment explanation
Indices: 11650211--11650463 Score: 332
Period size: 87 Copynumber: 2.9 Consensus size: 86
11650201 TTTATGTTTT
* * * *
11650211 TTTTTTTTGCACTTAATTGAGCACTTGAACTTTCAAAATGTATCAAAAAAACCCTC-AAATTTCT
1 TTTTTTTT-CACTCAATTAAGTACTTGAACTTTCAAAATGTATCAAAAAGACCCTCAAAATTT-T
11650275 TCAAAAAAAGCAATTAGGCCC-C
64 TCAAAAAAAGCAATTAGGCCCGC
** * * *
11650297 TATTTTTCTTCACTCAATTGGGTACTTAAACTTTCAAAATGTATCAAAAAGGCCCTCAAAAATTT
1 T-TTTTT-TTCACTCAATTAAGTACTTGAACTTTCAAAATGTATCAAAAAGACCCTCAAAATTTT
*
11650362 TCAATAAAAGCAATTAGGCCCTGC
64 TCAAAAAAAGCAATTAGGCCC-GC
* *
11650386 TTTTTTTTCACTCAATTAAGTACTTGAACTTTTAAAATGCATCAAAAAGACCCTCAAAATTTTTC
1 TTTTTTTTCACTCAATTAAGTACTTGAACTTTCAAAATGTATCAAAAAGACCCTCAAAATTTTTC
11650451 -AAAAAAGCAATTA
66 AAAAAAAGCAATTA
11650464 AGCTCTTGCT
Statistics
Matches: 146, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
86 13 0.09
87 119 0.82
88 12 0.08
89 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (86 bp):
TTTTTTTTCACTCAATTAAGTACTTGAACTTTCAAAATGTATCAAAAAGACCCTCAAAATTTTTC
AAAAAAAGCAATTAGGCCCGC
Found at i:11650568 original size:28 final size:28
Alignment explanation
Indices: 11650516--11650571 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
11650506 ATAAATTTTA
*
11650516 GAAAAATTATTAAATTTTAATAAAATAT
1 GAAAAATTATAAAATTTTAATAAAATAT
11650544 GAAAAATT-TAAAACTTATTAA-AAAATAT
1 GAAAAATTATAAAA-TT-TTAATAAAATAT
11650572 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 17 0.68
29 4 0.16
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (28 bp):
GAAAAATTATAAAATTTTAATAAAATAT
Found at i:11650880 original size:28 final size:27
Alignment explanation
Indices: 11650832--11650911 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 27
11650822 TTCTTACGAC
11650832 TTTATAAAATTTTATAATTTTTTTATAT
1 TTTATAAAATTTTATAATTTTTTTAT-T
* *
11650860 TTCTAT-ATATTTTATAATTTTTGCTATT
1 TT-TATAAAATTTTATAATTTTT-TTATT
11650888 TTTATAAAATTTTAT-ATTTTTTTA
1 TTTATAAAATTTTATAATTTTTTTA
11650912 CCATTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 2 0.04
27 9 0.20
28 28 0.62
29 6 0.13
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
TTTATAAAATTTTATAATTTTTTTATT
Found at i:11650908 original size:19 final size:19
Alignment explanation
Indices: 11650832--11650928 Score: 69
Period size: 19 Copynumber: 5.2 Consensus size: 19
11650822 TTCTTACGAC
11650832 TTTATAAAATTTTATAATTT
1 TTTATAAAATTTTAT-ATTT
* *
11650852 TTT-T-ATATTTCTATATAT
1 TTTATAAAATTT-TATATTT
* *
11650870 TTTAT-AATTTTTGCTA-TT
1 TTTATAAAATTTT-ATATTT
11650888 TTTATAAAATTTTATATTT
1 TTTATAAAATTTTATATTT
* *
11650907 TTT-TACCATTTTTATATTT
1 TTTATA-AAATTTTATATTT
11650926 TTT
1 TTT
11650929 CTAACTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
18 22 0.36
19 36 0.59
20 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTATAAAATTTTATATTT
Found at i:11650923 original size:56 final size:56
Alignment explanation
Indices: 11650832--11650937 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
11650822 TTCTTACGAC
* *
11650832 TTTATAAAATTTTATAATTTTTTTATATTTCTATATATTTTATAATTTTTGCTATT
1 TTTATAAAATTTTATAATTTTTTTACATTTCTATATATTTTATAACTTTTGCTATT
* * *
11650888 TTTATAAAATTTTAT-ATTTTTTTACCATTTTTATATTTTTTCTAACTTTT
1 TTTATAAAATTTTATAATTTTTTTA-CATTTCTATATATTTTATAACTTTT
11650938 AATAAAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 9 0.20
56 35 0.80
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (56 bp):
TTTATAAAATTTTATAATTTTTTTACATTTCTATATATTTTATAACTTTTGCTATT
Found at i:11651115 original size:89 final size:89
Alignment explanation
Indices: 11651022--11651326 Score: 380
Period size: 88 Copynumber: 3.4 Consensus size: 89
11651012 AAAACATGGA
* * * *
11651022 CTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGTACCCA
1 CTTAATTGCTTTTTTCGAAAAAGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACCCA
11651087 ATTGAATGGAAAAAAAAGTAGGGG
66 ATTGAATGGAAAAAAAAGTAGGGG
* * *
11651111 CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTGATGCATTTTGAAAGTTCATGTACCCA
1 CTTAATTGCTTTTTTCGAAAAAGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACCCA
*
11651176 ATTGAGTGG-AAAAAAAGTAGGGG
66 ATTGAATGGAAAAAAAAGTAGGGG
* * * *
11651199 CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTAATGTATTTTGAAAGTTTAAGTACCTA
1 CTTAATTGCTTTTTTCGAAAAAGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACCCA
* * ** ** *
11651264 AATGAGTTCAAAAAAAAAGTAATGA
66 ATTGA-ATGGAAAAAAAAGTAGGGG
* * *
11651289 CTTAATTACTTTTTTTTGAAAAAGTTTGAGAGT-TTTTT
1 CTTAATTGC-TTTTTTCGAAAAAGTTTGAGTGTATTTTT
11651327 GTATCCTTAA
Statistics
Matches: 190, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
88 78 0.41
89 68 0.36
90 24 0.13
91 20 0.11
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (89 bp):
CTTAATTGCTTTTTTCGAAAAAGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACCCA
ATTGAATGGAAAAAAAAGTAGGGG
Found at i:11651201 original size:88 final size:89
Alignment explanation
Indices: 11651022--11651261 Score: 383
Period size: 88 Copynumber: 2.7 Consensus size: 89
11651012 AAAACATGGA
* * * * *
11651022 CTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAGTACCCA
1 CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACCCA
11651087 ATTGAATGGAAAAAAAAGTAGGGG
66 ATTGAATGGAAAAAAAAGTAGGGG
* *
11651111 CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTGATGCATTTTGAAAGTTCATGTACCCA
1 CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACCCA
*
11651176 ATTGAGTGG-AAAAAAAGTAGGGG
66 ATTGAATGGAAAAAAAAGTAGGGG
* *
11651199 CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTAATGTATTTTGAAAGTTTAAGTACC
1 CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACC
11651262 TAAATGAGTT
Statistics
Matches: 140, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
88 73 0.52
89 67 0.48
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (89 bp):
CTTAATTGCTTTTTTCGAAAAGGTTTGAGTGTATTTTTAATGCATTTTGAAAGTTCAAGTACCCA
ATTGAATGGAAAAAAAAGTAGGGG
Found at i:11652968 original size:23 final size:23
Alignment explanation
Indices: 11652942--11653014 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
11652932 GTACAAACTT
11652942 GTTATATATAAATAGAGAACATA
1 GTTATATATAAATAGAGAACATA
* ** * *
11652965 GTTAAAATTATATGTACA-AAC-TT
1 GTT-ATA-TATAAATAGAGAACATA
*
11652988 GTTCTATATAAATAGAGAACATA
1 GTTATATATAAATAGAGAACATA
11653011 GTTA
1 GTTA
11653015 AAATTAATAT
Statistics
Matches: 34, Mismatches: 12, Indels: 8
0.63 0.22 0.15
Matches are distributed among these distances:
21 7 0.21
22 4 0.12
23 11 0.32
24 5 0.15
25 7 0.21
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (23 bp):
GTTATATATAAATAGAGAACATA
Found at i:11652975 original size:46 final size:46
Alignment explanation
Indices: 11652925--11653020 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
11652915 CATTGAACAC
11652925 ATTATATGTACAAACTTGTTATATATAAATAGAGAACATAGTTAAA
1 ATTATATGTACAAACTTGTTATATATAAATAGAGAACATAGTTAAA
*
11652971 ATTATATGTACAAACTTGTTCTATATAAATAGAGAACATAGTTAAA
1 ATTATATGTACAAACTTGTTATATATAAATAGAGAACATAGTTAAA
11653017 ATTA
1 ATTA
11653021 ATATATGAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (46 bp):
ATTATATGTACAAACTTGTTATATATAAATAGAGAACATAGTTAAA
Found at i:11653047 original size:46 final size:47
Alignment explanation
Indices: 11652925--11653047 Score: 164
Period size: 46 Copynumber: 2.7 Consensus size: 47
11652915 CATTGAACAC
*
11652925 ATTATATGTACAAACTTGTT-ATATATAAATAGAGAACATAGTTAAA
1 ATTATATATACAAACTTGTTCATATATAAATAGAGAACATAGTTAAA
*
11652971 ATTATATGTACAAACTTGTTC-TATATAAATAGAGAACATAGTTAAA
1 ATTATATATACAAACTTGTTCATATATAAATAGAGAACATAGTTAAA
** *
11653017 ATTA-ATATATGAATTTGATTCATATA-AAATA
1 ATTATATATACAAACTTG-TTCATATATAAATA
11653048 TTAACTGAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
45 9 0.13
46 57 0.81
47 4 0.06
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (47 bp):
ATTATATATACAAACTTGTTCATATATAAATAGAGAACATAGTTAAA
Found at i:11654063 original size:12 final size:12
Alignment explanation
Indices: 11654041--11654066 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11654031 TAATCCTACC
11654041 AATTATCCTATA
1 AATTATCCTATA
11654053 AATTATCCTATA
1 AATTATCCTATA
11654065 AA
1 AA
11654067 GTATGGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTATCCTATA
Found at i:11654272 original size:20 final size:21
Alignment explanation
Indices: 11654247--11654286 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11654237 CAAATATATA
*
11654247 AATTTAATAT-TATAATTTTT
1 AATTTAAAATATATAATTTTT
11654267 AATTTAAAATATATAATTTT
1 AATTTAAAATATATAATTTT
11654287 AATAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTAAAATATATAATTTTT
Found at i:11654338 original size:32 final size:34
Alignment explanation
Indices: 11654275--11654340 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 34
11654265 TTAATTTAAA
* *
11654275 ATATATAATTTTAATAATTTTAGTTACTTATTAT
1 ATATATAATTTTAATAATTTTAGCTAATTATTAT
11654309 ATATATAA-TTTAAT-ATCTTTA-CTAATTATTAT
1 ATATATAATTTTAATAAT-TTTAGCTAATTATTAT
11654341 CTTTCTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 11 0.38
33 10 0.34
34 8 0.28
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (34 bp):
ATATATAATTTTAATAATTTTAGCTAATTATTAT
Found at i:11660146 original size:28 final size:29
Alignment explanation
Indices: 11660102--11660156 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
11660092 TTGTAGACAA
* * *
11660102 AAGAAAAAAGTATC-AAAGGAGTGAAAGG
1 AAGAAAAAAGAAGCAAAAGAAGTGAAAGG
11660130 AAGAAAAAAGAAGCAAAAGAAGTGAAA
1 AAGAAAAAAGAAGCAAAAGAAGTGAAA
11660157 TCTAGTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.25, T:0.07
Consensus pattern (29 bp):
AAGAAAAAAGAAGCAAAAGAAGTGAAAGG
Found at i:11660427 original size:32 final size:32
Alignment explanation
Indices: 11660391--11660451 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
11660381 AAAATAGATG
* *
11660391 AATTTAGTATAAGTATCTGCAAGAGATATAAA
1 AATTTAGTATAAATATCAGCAAGAGATATAAA
11660423 AATTTAGTATAAATATCAGCAAGAGATAT
1 AATTTAGTATAAATATCAGCAAGAGATAT
11660452 GAATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.31
Consensus pattern (32 bp):
AATTTAGTATAAATATCAGCAAGAGATATAAA
Found at i:11660685 original size:44 final size:44
Alignment explanation
Indices: 11660622--11660715 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
11660612 GTGAATGCGA
* *
11660622 TAAGTGGTATGTAGAGTTAGTAAAAGAATATTTTATAAGT-AGAT
1 TAAGTGGCATGTAGAGTTAGTAAAAGAATATTTCATAAGTGA-AT
*
11660666 TAAGTGGCATGTGGAGTTAGTAAAAGAATATTTCATAAGTGAAT
1 TAAGTGGCATGTAGAGTTAGTAAAAGAATATTTCATAAGTGAAT
11660710 TAAGTG
1 TAAGTG
11660716 ATAAATAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (44 bp):
TAAGTGGCATGTAGAGTTAGTAAAAGAATATTTCATAAGTGAAT
Found at i:11660949 original size:24 final size:23
Alignment explanation
Indices: 11660922--11660995 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
11660912 TGCTCGTGCG
11660922 ATTAGCACTTCGGTGCTTGTGACT
1 ATTAGCACTTC-GTGCTTGTGACT
* * *
11660946 ATTATCACCTAT-GTGCTCGTGATT
1 ATTAGCA-CT-TCGTGCTTGTGACT
*
11660970 ATTAGCACTTACATGCTTGTG-CT
1 ATTAGCACTT-CGTGCTTGTGACT
11660993 ATT
1 ATT
11660996 CTACATATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 1 0.03
23 6 0.15
24 29 0.74
25 2 0.05
26 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (23 bp):
ATTAGCACTTCGTGCTTGTGACT
Found at i:11663958 original size:5 final size:6
Alignment explanation
Indices: 11663946--11663971 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11663936 GATTGAATAT
11663946 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
11663972 ACAAACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:11666033 original size:5 final size:6
Alignment explanation
Indices: 11666021--11666046 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11666011 GATTGAATAT
11666021 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
11666047 ACAAACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:11681469 original size:52 final size:51
Alignment explanation
Indices: 11681371--11681475 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
11681361 TTATAAAACT
* * *
11681371 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATA
1 TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
* * * *
11681422 TATACATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTA
1 TATACATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATA
11681474 TA
1 TA
11681476 ATATAAAACG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 25 0.56
52 20 0.44
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (51 bp):
TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
Found at i:11681804 original size:21 final size:21
Alignment explanation
Indices: 11681764--11681830 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
11681754 AAATTAAATC
* *
11681764 TCTAATATTACA-AAATCATA
1 TCTAAGATTACATATATCATA
11681784 TCTAAGATTACATATATCATA
1 TCTAAGATTACATATATCATA
*
11681805 TCTAAGATTGCATATATCATA
1 TCTAAGATTACATATATCATA
11681826 TCTAA
1 TCTAA
11681831 TATTNNNNNN
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
20 11 0.26
21 32 0.74
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (21 bp):
TCTAAGATTACATATATCATA
Found at i:11681900 original size:21 final size:21
Alignment explanation
Indices: 11681876--11681957 Score: 132
Period size: 21 Copynumber: 4.0 Consensus size: 21
11681866 ATATTACAAA
*
11681876 ATCATATCTAAGATTACATAT
1 ATCATATCTAAGATTGCATAT
11681897 ATCATATCTAAGATTGCATAT
1 ATCATATCTAAGATTGCATAT
*
11681918 ATCATATCTAATATTGC--AT
1 ATCATATCTAAGATTGCATAT
11681937 ATCATATCTAAGATTGCATAT
1 ATCATATCTAAGATTGCATAT
11681958 CCTCGAAGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 18 0.32
21 38 0.68
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (21 bp):
ATCATATCTAAGATTGCATAT
Found at i:11681950 original size:40 final size:41
Alignment explanation
Indices: 11681876--11681957 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
11681866 ATATTACAAA
11681876 ATCATATCTAAGATTACATATATCATATCTAAGATTGCATAT
1 ATCATATCTAAGATTACA-ATATCATATCTAAGATTGCATAT
* *
11681918 ATCATATCTAATATTGC-ATATCATATCTAAGATTGCATAT
1 ATCATATCTAAGATTACAATATCATATCTAAGATTGCATAT
11681958 CCTCGAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 23 0.61
42 15 0.39
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (41 bp):
ATCATATCTAAGATTACAATATCATATCTAAGATTGCATAT
Found at i:11682360 original size:44 final size:43
Alignment explanation
Indices: 11682306--11682499 Score: 146
Period size: 44 Copynumber: 4.5 Consensus size: 43
11682296 ACTCTGCTAT
* * * *
11682306 AACTTTAGGGAGATAGGATTTATTTATTTAGTCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTTA-TGATTTAATCTGCTCCACTGC
** ** *
11682350 AACTTCAGGGAGATAAGACTAGATGCGTT--T-TGCT-CTCTGC
1 AACTTCAGGGAGATAAGA-TTTATGATTTAATCTGCTCCACTGC
* * * * * *
11682390 AACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTTCACTGC
1 AACTTCAGGGAGATAAGAT-TTATGATTTAATCTGCTCCACTGC
* *
11682434 AACTTCAGGGAGAT-AGAATTATCGACTTTAATCTGCTCCACTAC
1 AACTTCAGGGAGATAAGATTTAT-GA-TTTAATCTGCTCCACTGC
*
11682478 AACTTCAGGGAGATAAAATTTA
1 AACTTCAGGGAGATAAGATTTA
11682500 CCATCTTCAA
Statistics
Matches: 115, Mismatches: 26, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
39 1 0.01
40 26 0.23
41 4 0.03
42 4 0.03
43 7 0.06
44 66 0.57
45 7 0.06
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
AACTTCAGGGAGATAAGATTTATGATTTAATCTGCTCCACTGC
Found at i:11682422 original size:128 final size:129
Alignment explanation
Indices: 11682242--11682493 Score: 294
Period size: 128 Copynumber: 2.0 Consensus size: 129
11682232 AGATGAATTT
* * * * *
11682242 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCAC-TCTGCTAT
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTTC-ACTAC
* * ** * *
11682306 AACTTTAGGGAGATAGGATTTATTTA-TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
65 AACTTCAGGGAGATA-GAATTATCGACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACT
11682370 A
129 A
* * * ** * * *
11682371 GATGCGTTTTGCTCT-CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTTCACTACA
11682435 ACTTCAGGGAGATAGAATTATCGACTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
66 ACTTCAGGGAGATAGAATTATCGACTTTAATCTGCTCCACTACAACTTCAGGGAGATAA
11682494 AATTTACCAT
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
127 7 0.07
128 80 0.78
129 15 0.15
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTTCACTACA
ACTTCAGGGAGATAGAATTATCGACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTA
Found at i:11682854 original size:44 final size:44
Alignment explanation
Indices: 11682800--11683175 Score: 374
Period size: 44 Copynumber: 8.7 Consensus size: 44
11682790 GCTATTTTCC
* ** * *
11682800 ACCTACTCCACTGCTGTTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
11682844 ACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCA
* * * * *
11682888 ATCTATTCCACTGCTGCCCAGAGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* *
11682932 ACCTATTCCACTGCTGACCAGGGAGATAAGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
11682976 ACCTATTCCA-TACTTGTCTC-GGGAGATAAGATT--C--T-TT-A
1 ACCTATTCCACTGC-TGAC-CAGGGAGATAGGATTCACAATCTTCA
* * * * * ** *
11683014 ATCTATTCCATTGTTGCCCAGGAAGATAAAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
11683058 ACCTATTCCACTGTTGACCAAGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * * * *
11683102 ACATATTCCACTGCTGTCTAGGGAGATAGGATTCACAGTCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
11683146 ACCTATTCCACTACTGACCAGGGAGATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
11683176 GCTGGGGTCA
Statistics
Matches: 276, Mismatches: 44, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
37 1 0.00
38 24 0.09
39 3 0.01
40 2 0.01
42 2 0.01
43 6 0.02
44 235 0.85
45 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:11683068 original size:126 final size:126
Alignment explanation
Indices: 11682882--11683135 Score: 377
Period size: 126 Copynumber: 2.0 Consensus size: 126
11682872 GGACTTACAA
*
11682882 TCTTCAATCTATTCCACTGCTGCCCAGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCT
1 TCTTCAATCTATTCCACTGCTGCCCAGAGAGATAAAATTCTCAATCTTCAACCTATTCCACTGCT
* * *
11682947 GACCAGGGAGATAAGATTCACAATCTTTAACCTATTCCA-TACTTGTCTCGGGAGATAAGAT
66 GACCAAGGAGATAAGATTCACAATCTTTAACATATTCCACTAC-TGTCTAGGGAGATAAGAT
* * * *
11683008 TCTTTAATCTATTCCATTGTTGCCCAG-GAAGATAAAATTCTCAATCTTCAACCTATTCCACTGT
1 TCTTCAATCTATTCCACTGCTGCCCAGAG-AGATAAAATTCTCAATCTTCAACCTATTCCACTGC
* * *
11683072 TGACCAAGGAGATAGGATTCACAATCTTTAACATATTCCACTGCTGTCTAGGGAGATAGGAT
65 TGACCAAGGAGATAAGATTCACAATCTTTAACATATTCCACTACTGTCTAGGGAGATAAGAT
11683134 TC
1 TC
11683136 ACAGTCTTTA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
125 1 0.01
126 112 0.97
127 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (126 bp):
TCTTCAATCTATTCCACTGCTGCCCAGAGAGATAAAATTCTCAATCTTCAACCTATTCCACTGCT
GACCAAGGAGATAAGATTCACAATCTTTAACATATTCCACTACTGTCTAGGGAGATAAGAT
Found at i:11683390 original size:44 final size:45
Alignment explanation
Indices: 11683264--11683399 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 45
11683254 GGGAGTAAGG
11683264 CTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGAT
1 CTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGAT
* * * * * ** **** **
11683309 CTGCTATTTTCAGTCTTCTCCGCTG-CAACCCGGGAAGGCAAGA-
1 CTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGAT
11683352 CTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGAT
1 CTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGAT
11683397 CTG
1 CTG
11683400 CTATTTGCAG
Statistics
Matches: 63, Mismatches: 26, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 18 0.29
44 24 0.38
45 21 0.33
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (45 bp):
CTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGAT
Found at i:11683436 original size:44 final size:43
Alignment explanation
Indices: 11683298--11683438 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 43
11683288 GTCGGTGCAA
11683298 GAAGGCAAGATCTGCTATTTTCAGTCTTCTCCGCTGCAACCCGG
1 GAAGGCAAGATCTGCTA-TTTCAGTCTTCTCCGCTGCAACCCGG
* * * * ** **** **
11683342 GAAGGCAAGA-CTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAA
1 GAAGGCAAGATCTGCTAT-TTCAGTCTTCTCCGCTG-CAACCCGG
11683386 GAAGGCAAGATCTGCTATTTGCAGTCTTCTCCGCTGCAACCCGG
1 GAAGGCAAGATCTGCTATTT-CAGTCTTCTCCGCTGCAACCCGG
*
11683430 GGAGGCAAG
1 GAAGGCAAG
11683439 GCTGGTGTCT
Statistics
Matches: 68, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
42 1 0.01
43 17 0.25
44 34 0.50
45 16 0.24
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (43 bp):
GAAGGCAAGATCTGCTATTTCAGTCTTCTCCGCTGCAACCCGG
Found at i:11683610 original size:88 final size:88
Alignment explanation
Indices: 11683175--11683670 Score: 573
Period size: 88 Copynumber: 5.6 Consensus size: 88
11683165 AGGGAGATAG
* * * * * * * *
11683175 GGCTGGGGTCATCAATCTGCTTCGTTGTTGGTGCAGGAAGGTAAGATCAGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
11683240 TCCGCTGCAACCCAGGGA-GTAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * * *
11683262 GGCTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTCAGTCTTC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
11683327 TCCGCTGCAACCC-GGGAAGGCAA
66 TCCGCTGCAACCCAGGG-AGGCAA
* * * * ** * *
11683350 GACTGGTGTCTTCAATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTGCAGTCTTC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
11683415 TCCGCTGCAACCCGGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
** *
11683438 GGCTGGTGTCTTCGATCTGCTTTACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCAGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
11683503 TCCACTGCAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * * *
11683526 TGCTGGTGACTTTGACCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
11683591 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * * * * *
11683614 GGCTAGTGACTTCGATCTGCTTCGCTGCCAGTACAGGAAGTCAATATCTGTTATTTT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTT
11683671 CACTGATCTG
Statistics
Matches: 357, Mismatches: 49, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
86 3 0.01
87 67 0.19
88 284 0.80
89 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:11683815 original size:7 final size:7
Alignment explanation
Indices: 11683794--11683842 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
11683784 CGAATGCGTA
11683794 ATTTATTT
1 ATTT-TTT
11683802 A-TTTTT
1 ATTTTTT
11683808 ATTTTTT
1 ATTTTTT
11683815 ATTTTTT
1 ATTTTTT
11683822 ATTTTTT
1 ATTTTTT
11683829 ATTTTTT
1 ATTTTTT
11683836 ATTTTTT
1 ATTTTTT
11683843 TAAGAATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 4 0.10
7 35 0.88
8 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:11690182 original size:19 final size:19
Alignment explanation
Indices: 11690158--11690210 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
11690148 AATCATATCT
*
11690158 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
11690177 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
11690196 TCTAAGATTGCATAT
1 TCTAAGATTACATAT
11690211 ATCCTCGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11690221 original size:19 final size:19
Alignment explanation
Indices: 11690169--11690223 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
11690159 CTAAGATTAT
*
11690169 ATATCATATCTAAGATTGC
1 ATATCATATCGAAGATTGC
*
11690188 ATATCATATCTAAGATTGC
1 ATATCATATCGAAGATTGC
*
11690207 ATAT-ATCCTCGAAGATT
1 ATATCAT-ATCGAAGATT
11690224 ATGTTTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 2 0.06
19 31 0.94
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
ATATCATATCGAAGATTGC
Found at i:11692707 original size:17 final size:18
Alignment explanation
Indices: 11692674--11692709 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11692664 TAAAAAATAC
11692674 ATAAAAATTATTAAAAGT
1 ATAAAAATTATTAAAAGT
11692692 ATAAAAATTA-TAAAAGT
1 ATAAAAATTATTAAAAGT
11692709 A
1 A
11692710 CTTTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
ATAAAAATTATTAAAAGT
Found at i:11702714 original size:20 final size:20
Alignment explanation
Indices: 11702654--11702716 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
11702644 ACCAACTATA
**
11702654 AAAAATAATATTTTAATAATAA
1 AAAAATAATATTTT-A-AATTT
** *
11702676 ATAAAATAATAAGTAAAATTT
1 A-AAAATAATATTTTAAATTT
11702697 AAAAATAATATTTTAAATTT
1 AAAAATAATATTTTAAATTT
11702717 TTAAATTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 16 0.50
21 4 0.12
22 2 0.06
23 10 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATAATATTTTAAATTT
Found at i:11703190 original size:13 final size:13
Alignment explanation
Indices: 11703149--11703203 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
11703139 TCTATATATT
11703149 ATTTT-TATTTAA
1 ATTTTATATTTAA
* *
11703161 ATTTTAAATATAA
1 ATTTTATATTTAA
*
11703174 ATTTTATATTTAC
1 ATTTTATATTTAA
* *
11703187 A-TTTACATTTAC
1 ATTTTATATTTAA
11703199 ATTTT
1 ATTTT
11703204 TGGTACATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
12 16 0.46
13 19 0.54
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTTATATTTAA
Found at i:11704246 original size:15 final size:15
Alignment explanation
Indices: 11704201--11704308 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
11704191 CCAATATCTC
11704201 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11704216 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11704231 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11704246 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11704261 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11704276 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
11704291 GATACCCATATCTTT
1 GATACCCATATCTTT
11704306 GAT
1 GAT
11704309 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:11704315 original size:30 final size:30
Alignment explanation
Indices: 11704191--11704314 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
11704181 TTTTATTATG
*
11704191 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
11704222 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11704252 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
11704282 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11704312 CCA
1 CCA
11704315 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:11708940 original size:15 final size:15
Alignment explanation
Indices: 11708895--11709002 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
11708885 CCAATATCTC
11708895 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11708910 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11708925 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11708940 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
11708955 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
11708970 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
11708985 GATACCCATATCTTT
1 GATACCCATATCTTT
11709000 GAT
1 GAT
11709003 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:11709009 original size:30 final size:30
Alignment explanation
Indices: 11708885--11709008 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
11708875 TTTTATTATG
*
11708885 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
11708916 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11708946 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
11708976 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
11709006 CCA
1 CCA
11709009 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:11714194 original size:30 final size:30
Alignment explanation
Indices: 11714160--11714222 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11714150 ACTTATTTTA
11714160 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
11714190 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11714220 TTG
1 TTG
11714223 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11714376 original size:12 final size:12
Alignment explanation
Indices: 11714346--11714378 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11714336 TATATATTTT
11714346 AAAATT-ATATA
1 AAAATTAATATA
11714357 AAAA-TAATATA
1 AAAATTAATATA
11714368 AAAATTAATAT
1 AAAATTAATAT
11714379 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:11725868 original size:20 final size:20
Alignment explanation
Indices: 11725843--11725892 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
11725833 TGGCTTAAAA
11725843 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
11725863 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
11725880 GTGGTAGTGGATT
1 TTGGTAGTGGATT
11725893 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:11730934 original size:17 final size:17
Alignment explanation
Indices: 11730889--11730936 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
11730879 TCCATATTTA
*
11730889 ATTCTTAAATTATCATT
1 ATTCTTAAATTATTATT
**
11730906 A-TCATTGTATTATTATT
1 ATTC-TTAAATTATTATT
11730923 ATTCTTAAATTATT
1 ATTCTTAAATTATT
11730937 CATGCTTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTCTTAAATTATTATT
Found at i:11734687 original size:11 final size:11
Alignment explanation
Indices: 11734667--11734703 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11734657 AGCCCGGCCC
*
11734667 ATATTAAATAT
1 ATATTTAATAT
11734678 ATATTTAATAT
1 ATATTTAATAT
11734689 ATA--TAATAT
1 ATATTTAATAT
11734698 ATATTT
1 ATATTT
11734704 GATTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATATTTAATAT
Found at i:11734929 original size:21 final size:21
Alignment explanation
Indices: 11734903--11734983 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
11734893 AACAGAAACC
* *
11734903 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAACGGAAGCT
* * *
11734924 CATAAGAGCTGAACAGAAACC
1 CATAAGAGCTGAACGGAAGCT
* * *
11734945 CATAAG-GGTTAAGCTGAAGCT
1 CATAAGAGCTGAA-CGGAAGCT
*
11734966 CAAAAGAGCTGAACGGAA
1 CATAAGAGCTGAACGGAA
11734984 ACCTAATAGG
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
20 4 0.09
21 36 0.82
22 4 0.09
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (21 bp):
CATAAGAGCTGAACGGAAGCT
Found at i:11734952 original size:42 final size:42
Alignment explanation
Indices: 11734893--11734986 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
11734883 GATCACCTCT
*
11734893 AACAGAAACCCATAAGGGTTGAA-CGGAAGCTCATAAGAGCTG
1 AACAGAAACCCATAAGGGTT-AAGCGGAAGCTCAAAAGAGCTG
*
11734935 AACAGAAACCCATAAGGGTTAAGCTGAAGCTCAAAAGAGCTG
1 AACAGAAACCCATAAGGGTTAAGCGGAAGCTCAAAAGAGCTG
*
11734977 AACGGAAACC
1 AACAGAAACC
11734987 TAATAGGGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTAAGCGGAAGCTCAAAAGAGCTG
Found at i:11734995 original size:42 final size:42
Alignment explanation
Indices: 11734893--11734998 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
11734883 GATCACCTCT
* * *
11734893 AACAGAAACCCATAAGGGTTGAA-CGGAAGCTCATAAGAGCTG
1 AACAGAAACCAATAAGGGTT-AAGCTGAAGCTCAAAAGAGCTG
*
11734935 AACAGAAACCCATAAGGGTTAAGCTGAAGCTCAAAAGAGCTG
1 AACAGAAACCAATAAGGGTTAAGCTGAAGCTCAAAAGAGCTG
*
11734977 AACGGAAACCTAAT-AGGGTTAA
1 AACAGAAACC-AATAAGGGTTAA
11734999 ACTAAAACTC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 2 0.03
42 54 0.93
43 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (42 bp):
AACAGAAACCAATAAGGGTTAAGCTGAAGCTCAAAAGAGCTG
Found at i:11736443 original size:2 final size:2
Alignment explanation
Indices: 11736436--11736461 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11736426 TTCAATTTTC
11736436 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11736462 TCTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11744022 original size:21 final size:21
Alignment explanation
Indices: 11743980--11744064 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
11743970 GACAACTTGT
*
11743980 AGCTCATAAGAGCTGAACGGA
1 AGCTCATAAGAGCTAAACGGA
*
11744001 AGCTCATAAGAGCTAAATGGA
1 AGCTCATAAGAGCTAAACGGA
* * * * * *
11744022 AACCCATAAGGGTTAATCTGA
1 AGCTCATAAGAGCTAAACGGA
* *
11744043 AGCTCAAAAGAGCCAAACGGA
1 AGCTCATAAGAGCTAAACGGA
11744064 A
1 A
11744065 ACCCAATAGG
Statistics
Matches: 47, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (21 bp):
AGCTCATAAGAGCTAAACGGA
Found at i:11744045 original size:42 final size:42
Alignment explanation
Indices: 11743999--11744092 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
11743989 GAGCTGAACG
* * *
11743999 GAAGCTCATAAGAGCTAAATGGAAACCC-ATAAGGGTTAATCT
1 GAAGCTCATAAGAGCCAAACGGAAACCCAAT-AGGGTTAAACT
*
11744041 GAAGCTCAAAAGAGCCAAACGGAAACCCAATAGGGTTAAACT
1 GAAGCTCATAAGAGCCAAACGGAAACCCAATAGGGTTAAACT
*
11744083 GAAACTCATA
1 GAAGCTCATA
11744093 TGAGTTAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (42 bp):
GAAGCTCATAAGAGCCAAACGGAAACCCAATAGGGTTAAACT
Found at i:11752955 original size:16 final size:16
Alignment explanation
Indices: 11752934--11752967 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
11752924 TTAACGACTC
11752934 AGTAGAGATATCCTTA
1 AGTAGAGATATCCTTA
11752950 AGTAGAGATATCCTTA
1 AGTAGAGATATCCTTA
11752966 AG
1 AG
11752968 GCAATTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (16 bp):
AGTAGAGATATCCTTA
Found at i:11753810 original size:16 final size:16
Alignment explanation
Indices: 11753789--11753820 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11753779 AGTTTATTGA
*
11753789 ATATATATGTGTATGT
1 ATATATATGTATATGT
11753805 ATATATATGTATATGT
1 ATATATATGTATATGT
11753821 GTGTGTCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (16 bp):
ATATATATGTATATGT
Found at i:11756997 original size:35 final size:35
Alignment explanation
Indices: 11756951--11757021 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
11756941 GTTATGCAGC
11756951 AATGGTAGTTATAATAATTTTAACATGAAAATCAA
1 AATGGTAGTTATAATAATTTTAACATGAAAATCAA
*
11756986 AATGGTAGTTATAATAATTTTGACATGAAAATCAA
1 AATGGTAGTTATAATAATTTTAACATGAAAATCAA
11757021 A
1 A
11757022 CACACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.34
Consensus pattern (35 bp):
AATGGTAGTTATAATAATTTTAACATGAAAATCAA
Found at i:11767248 original size:29 final size:29
Alignment explanation
Indices: 11767196--11767252 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
11767186 TATTATTCTA
*
11767196 ATTTTTTTTACTTTTTATATATTTTTTAG
1 ATTTTTTTTAATTTTTATATATTTTTTAG
11767225 ATTTTTTTTGAATTTTTATA-ATTTTTTA
1 ATTTTTTTT-AATTTTTATATATTTTTTA
11767253 AAAATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (29 bp):
ATTTTTTTTAATTTTTATATATTTTTTAG
Found at i:11767249 original size:18 final size:18
Alignment explanation
Indices: 11767228--11767314 Score: 52
Period size: 19 Copynumber: 4.8 Consensus size: 18
11767218 TTTTTAGATT
11767228 TTTTTTGAATTTTTATAA
1 TTTTTTGAATTTTTATAA
***
11767246 TTTTTT-AA-AAATATAA
1 TTTTTTGAATTTTTATAA
* * *
11767262 ATTTTAGATTTTTTATAAA
1 TTTTTTGAATTTTTAT-AA
* * * *
11767281 TATTTTCAATTTTAAAAA
1 TTTTTTGAATTTTTATAA
11767299 TTATTTTGAATTTTTA
1 TT-TTTTGAATTTTTA
11767315 AAAACTATTT
Statistics
Matches: 46, Mismatches: 19, Indels: 7
0.64 0.26 0.10
Matches are distributed among these distances:
16 9 0.20
17 3 0.07
18 12 0.26
19 22 0.48
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTTTGAATTTTTATAA
Found at i:11767315 original size:20 final size:20
Alignment explanation
Indices: 11767247--11767325 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
11767237 TTTTTATAAT
*
11767247 TTTTTAAAAATATAAATTTTAGAT
1 TTTTTAAAAAT-T--ATTTT-GAA
* *
11767271 TTTTTATAAA-TATTTTCAA
1 TTTTTAAAAATTATTTTGAA
11767290 -TTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
11767309 TTTTTAAAAACTATTTT
1 TTTTTAAAAATTATTTT
11767326 TTAATTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.17
19 9 0.19
20 20 0.43
22 1 0.02
24 9 0.19
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:11772577 original size:20 final size:20
Alignment explanation
Indices: 11772552--11772589 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11772542 TTTAATTTCA
*
11772552 AAAAAATTAAATAGTTAAAT
1 AAAAAATTAAATAATTAAAT
*
11772572 AAAAAATTTAATAATTAA
1 AAAAAATTAAATAATTAA
11772590 CTAATAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAAAATTAAATAATTAAAT
Found at i:11773056 original size:20 final size:23
Alignment explanation
Indices: 11773028--11773073 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
11773018 TGTTTTTAAA
*
11773028 AAAATTAATTTT-T-ATTTTT-T
1 AAAAGTAATTTTATAATTTTTCT
11773048 AAAAGTAATTTTATAATTTTTCT
1 AAAAGTAATTTTATAATTTTTCT
11773071 AAA
1 AAA
11773074 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 1 0.05
22 6 0.27
23 4 0.18
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
AAAAGTAATTTTATAATTTTTCT
Found at i:11775183 original size:14 final size:14
Alignment explanation
Indices: 11775164--11775191 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11775154 ATACTGTACT
11775164 GTCAAATTTGCACA
1 GTCAAATTTGCACA
11775178 GTCAAATTTGCACA
1 GTCAAATTTGCACA
11775192 AAATTGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
GTCAAATTTGCACA
Found at i:11779887 original size:2 final size:2
Alignment explanation
Indices: 11779877--11779923 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
11779867 GTATTTGTGT
*
11779877 GA GA TA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11779919 GA GA G
1 GA GA G
11779924 CTTGTGGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
GA
Found at i:11787280 original size:22 final size:22
Alignment explanation
Indices: 11787250--11787312 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
11787240 TACGAGGGCT
*
11787250 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
* *
11787272 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
11787294 GTGGAGGTATGGGGCTGCT
1 GTGGAGGTATGGGGCTGCT
11787313 TCATGGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.13, C:0.11, G:0.51, T:0.25
Consensus pattern (22 bp):
GTGGAGGTATGGGGCTGCTGTA
Found at i:11788457 original size:88 final size:87
Alignment explanation
Indices: 11788359--11788524 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 87
11788349 AACATCTATT
* * *
11788359 GAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG-AA
1 GAAAATACCTCAGC--ATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAA
11788423 AACA-TAAATTGAAAAACAGAAATG
64 AACAGT-AATTGAAAAACAGAAATG
* * * * * * *
11788447 GAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGGTTTTTGCCAAA
1 GAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAAA
11788512 CAGTAATTGAAAA
66 CAGTAATTGAAAA
11788525 TACCTTAGCG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
86 38 0.58
87 14 0.21
88 14 0.21
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (87 bp):
GAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAAA
CAGTAATTGAAAAACAGAAATG
Found at i:11788555 original size:73 final size:72
Alignment explanation
Indices: 11788435--11790007 Score: 671
Period size: 76 Copynumber: 21.2 Consensus size: 72
11788425 CATAAATTGA
* * * *
11788435 AAAACAGAAATGGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
11788500 GTTTTTG
66 ATTTTTG
* * * * * ** *
11788507 CCAAACAGTAATTGAAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11788572 GA-TTTAG
65 GATTTTTG
* ** * ** * * *
11788579 AAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGA-GC-CAAGGCTCAACTCACCT
1 AAAACAGAAATTGAAA-A-TACCTCAACGTG--T-----CTTGAGGCTCAA----C---TCACCT
*
11788642 TTCGCAATATGAGTTGATTTTTTTG
50 CTCGCAATATGAGTTGA--TTTTTG
** * ** * **
11788667 AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
11788732 ATTTTTG
66 ATTTTTG
11788739 AAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
1 -AAAAC----A--G---A--AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
11788804 CAATATGAGTTGATTTTCTTG
54 CAATATGAGTTGA-TTT-TTG
*
11788825 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
11788890 GATTTTCTTG
65 GA-TTT-TTG
**
11788900 AAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11788965 GAATTTTG
65 GATTTTTG
*
11788973 AAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11789038 GGTTTTTG
65 GATTTTTG
* * * * * ** *
11789046 CCAAACAGTAATTGAAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11789111 GA-TTTAG
65 GATTTTTG
* ** ** *** * *** ** * **
11789118 AAAACAGACA-T-AAAA-A-CAGAAATTGAAAGTGA--CTCAACACGTTTCTTTCAA-A-AACAT
1 AAAACAGAAATTGAAAATACCTCAACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* **
11789175 -AATAATG
65 GATTTTTG
* *** * *
11789182 AAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
** **
11789247 AAATTAA
66 ATTTTTG
* ** * * * ** **** *
11789254 AATACCACAGTGTGTAATCTGAAGCTCAACTC-ACCTCTCGCAATATGA-G-TTGA-TTTTTTTT
1 AA-A--ACA----GAAAT-TGAAAAT-ACCTCAACGTGT--C--T-TGAGGCTCAACTCACCTCT
*** * * ***
11789315 TAAAACA-GAAATTGA-AAAT-
52 CGCAATATG-AGTTGATTTTTG
*** * *** * * * * * * *
11789334 ACCTCAG-CATGTGAACCGAGGCTCAAC---TC---A-CCTC-TCGCA-ATAT---AAGT-TGAT
1 AAAACAGAAAT-TGAAAATA-CCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA-TATGAG
**
11789385 TTTTTTTTTG
63 TTGATTTTTG
11789395 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
11789460 ATTTTTTG
66 A-TTTTTG
* * * * ** *
11789468 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
11789533 AATTTTG
66 ATTTTTG
* * * * ** *
11789540 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCGATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
11789605 ATTTTTTTTT
66 A---TTTTTG
* * * * ** *
11789615 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCGATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11789680 GATTTTTTTTT
65 GA---TTTTTG
* * * * ** *
11789691 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCGATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11789756 GATTTTTTTTT
65 GA---TTTTTG
* * * * ** *
11789767 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCGATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11789832 GATTTTTTTTT
65 GA---TTTTTG
* * * * ** *
11789843 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCGATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
11789908 GATTTTTTTTT
65 GA---TTTTTG
* * * *
11789919 AACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
11789984 GA-TTTTG
65 GATTTTTG
*
11789991 AAAAACAAAAATT-AAAA
1 -AAAACAGAAATTGAAAA
11790008 GGCTTAACTC
Statistics
Matches: 1200, Mismatches: 209, Indels: 184
0.75 0.13 0.12
Matches are distributed among these distances:
59 5 0.00
60 8 0.01
61 9 0.01
62 5 0.00
63 4 0.00
64 13 0.01
65 1 0.00
66 19 0.02
67 12 0.01
68 10 0.01
69 19 0.02
70 3 0.00
71 25 0.02
72 116 0.10
73 259 0.22
74 27 0.02
75 138 0.12
76 363 0.30
77 5 0.00
78 3 0.00
79 10 0.01
80 12 0.01
81 9 0.01
82 15 0.01
83 2 0.00
84 53 0.04
85 31 0.03
86 9 0.01
87 1 0.00
88 14 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:11788653 original size:158 final size:153
Alignment explanation
Indices: 11788356--11789038 Score: 600
Period size: 159 Copynumber: 4.4 Consensus size: 153
11788346 AAAAACATCT
* * * * * * * *
11788356 ATTGAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG
1 ATTGAAAATACCTCAGCG--TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAG
* * * * **
11788421 -AAAACATAAATTGAAAAACAGAAATGGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTC
63 AAAAACATAAA-T----AACAGAAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTC
* * *
11788485 TCGCAGTATGAGTTGGTTTTTGCCAAA-CAGTA
123 TCGCAATATGAGTTGATTTTTG-AAAAGCAG-A
* *
11788517 ATTGAAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTAGAAA
1 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAG-AA
* *
11788582 ACAGACATAAA-AACAGAAATTGAAAGTGA-CTCAACACGTGAGC-CAAGGCTCAACTCACCTTT
65 A-A-ACATAAATAACAGAAATTGAAAAT-ACCTC-A-ACGTG-GCTCAAGGCTCAACTCACCTCT
*
11788644 CGCAATATGAGTTGATTTTTTTG-AAAGTAGA
124 CGCAATATGAGTTGA--TTTTTGAAAAGCAGA
* *
11788675 ATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 A-TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAGA
* * **
11788740 AAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC
64 AAAACATAAA-T-AACAGAAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGC
11788805 AATATGAGTTGATTTTCTTGAAAAGCAGAA
127 AATATGAGTTGA-TTT-TTGAAAAGCAG-A
** * **
11788835 ATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-----
1 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
* * * * ** **
11788895 -TCTTGAAA-AGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 AACAT-AAATAACAGAAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGCAAT
*
11788958 ATGAGTTGAATTTTGAAAAGCAGAA
130 ATGAGTTGATTTTTGAAAAGCAG-A
* * ** *
11788983 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAGTATGAGTTG
1 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
11789039 GTTTTTGCCA
Statistics
Matches: 454, Mismatches: 46, Indels: 57
0.82 0.08 0.10
Matches are distributed among these distances:
148 67 0.15
149 2 0.00
150 60 0.13
152 2 0.00
153 3 0.01
156 17 0.04
157 14 0.03
158 84 0.19
159 150 0.33
160 31 0.07
161 17 0.04
162 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (153 bp):
ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
AACATAAATAACAGAAATTGAAAATACCTCAACGTGGCTCAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAGA
Found at i:11789644 original size:76 final size:76
Alignment explanation
Indices: 11789277--11789989 Score: 1059
Period size: 76 Copynumber: 9.4 Consensus size: 76
11789267 GTAATCTGAA
** *
11789277 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AACAGAAATTGAAAATACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
* *
11789341 CATGTGAACC-GAG
66 C--GTG-TCCTAAG
** * *
11789354 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAA-AACAGAAATTGAAAATACCTC
1 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTT-AACAACAGAAATTGAAATTACCTC
* * *
11789418 AACGTGTCTTGAG
64 AGCGTGTCCTAAG
** *
11789431 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
*
11789493 CGTGTCCTGAG
66 CGTGTCCTAAG
* * *
11789504 GCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAA-AACAGAAATTGAAATTACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
11789565 CGTGTCCTAAG
66 CGTGTCCTAAG
*
11789576 GCTCAACTCATTTCTCGCGATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
11789641 CGTGTCCTAAG
66 CGTGTCCTAAG
*
11789652 GCTCAACTCATTTCTCGCGATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
11789717 CGTGTCCTAAG
66 CGTGTCCTAAG
*
11789728 GCTCAACTCATTTCTCGCGATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
11789793 CGTGTCCTAAG
66 CGTGTCCTAAG
*
11789804 GCTCAACTCATTTCTCGCGATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
11789869 CGTGTCCTAAG
66 CGTGTCCTAAG
*
11789880 GCTCAACTCATTTCTCGCGATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
*
11789945 CGTGTCCTGAG
66 CGTGTCCTAAG
** *
11789956 GCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
11789990 GAAAAACAAA
Statistics
Matches: 603, Mismatches: 25, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
72 62 0.10
73 69 0.11
75 6 0.01
76 368 0.61
77 64 0.11
78 9 0.01
79 25 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (76 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAG
CGTGTCCTAAG
Done.