Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 72 of 172
Found at i:23773124 original size:19 final size:19
Alignment explanation
Indices: 23773096--23773132 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23773086 CGCATCCTGG
*
23773096 CACACGAAGTGAATCTTAT
1 CACACAAAGTGAATCTTAT
23773115 CACACAAAGTGAATCTTA
1 CACACAAAGTGAATCTTA
23773133 GCGCATAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.24
Consensus pattern (19 bp):
CACACAAAGTGAATCTTAT
Found at i:23779806 original size:30 final size:30
Alignment explanation
Indices: 23779772--23779833 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
23779762 ATGGCATGTC
23779772 ATGAAAACAGCAGCCGCAAAGAATGCAATG
1 ATGAAAACAGCAGCCGCAAAGAATGCAATG
*
23779802 ATGAAAACAGCAGCCGCAAAGAATGCGATG
1 ATGAAAACAGCAGCCGCAAAGAATGCAATG
23779832 AT
1 AT
23779834 CATTCAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (30 bp):
ATGAAAACAGCAGCCGCAAAGAATGCAATG
Found at i:23790242 original size:173 final size:172
Alignment explanation
Indices: 23789947--23790276 Score: 498
Period size: 173 Copynumber: 1.9 Consensus size: 172
23789937 TTTCTACATT
* * * *
23789947 ATTGATTATTCAGTGATTTTACCATATTGAGCTATGCTCATAATGTTTTGTAGTTTGGCAGATGG
1 ATTGATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACGG
* * * *
23790012 GTTATGGGGAACTCGTGGTGTGTAGTGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAGT
66 GTTATAGAGAACGCGTGGTGTGTAGCGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAGT
23790077 GCACGACATATTCGAATGTTATTGATTGATGCAATACACGAC
131 GCACGACATATTCGAATGTTATTGATTGATGCAATACACGAC
* *
23790119 ATTGTATTATTCAGTGGTTTTACGACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACG
1 ATTG-ATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACG
* * * * **
23790184 GGTTATAGAGAACGCGTGGTGTGTAGCGGATGGTATAGGTAGGAACTTTTTTGCATTGCATCATT
65 GGTTATAGAGAACGCGTGGTGTGTAGCGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAG
*
23790249 TGCATGACATATTCGAATGTTATTGATT
130 TGCACGACATATTCGAATGTTATTGATT
23790277 TATGTTACGC
Statistics
Matches: 140, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
172 4 0.03
173 136 0.97
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (172 bp):
ATTGATTATTCAGTGATTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGCAGACGG
GTTATAGAGAACGCGTGGTGTGTAGCGAATGGTATAAGTAGGAAATTTTTAGCATTGCATCAAGT
GCACGACATATTCGAATGTTATTGATTGATGCAATACACGAC
Found at i:23792594 original size:55 final size:53
Alignment explanation
Indices: 23792469--23792657 Score: 245
Period size: 55 Copynumber: 3.5 Consensus size: 53
23792459 AACTTACCAT
* * *
23792469 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
23792522 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
23792577 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
23792631 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
23792658 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 35 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:23802729 original size:48 final size:48
Alignment explanation
Indices: 23802653--23802879 Score: 211
Period size: 48 Copynumber: 4.8 Consensus size: 48
23802643 TAGGGTTATC
* *
23802653 TGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGATA
*
23802701 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCT-ATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCAT-TGATA
* * * * * *
23802749 TTTGATCCCATATAAGACTATATCTGGGATATGACATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGATA
* * * * *
23802797 TGAGA-CGTCGTGTAAGACCATAG-CTGGG-C-T---ATCGGC-TTCGATC
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGACATTGGCATT-GATA
* *
23802840 TGTGATCCCATGTAAGACCCTGTCTGGGATATGACATTGG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGG
23802880 AATCTTACTA
Statistics
Matches: 142, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.01
43 28 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 107 0.75
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGATA
Found at i:23806556 original size:47 final size:46
Alignment explanation
Indices: 23806452--23806664 Score: 163
Period size: 47 Copynumber: 4.6 Consensus size: 46
23806442 TATACGTACT
* * *
23806452 GATGCATGTCCCAGACATGTCTTACACTAGCATGAA-A-C-T-TAGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGC-T-AACATCATCGAGCC
23806496 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGATGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGA-GCC
** * *
23806543 GATGCATGTCCCAGACATATCTTACACTGG-T-AC-TCACCTCTACGCT
1 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCA--TCGA-GCC
* ** * * * *
23806589 GATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGATACG-GCT
1 GATG-CATGTCCCAGAC-ACGTCTTACACTGGCTAACATCAT-CGAGCC
23806637 GATGCATGTCCCAGACACGTCTTACACT
1 GATGCATGTCCCAGACACGTCTTACACT
23806665 AGCCCTCGTC
Statistics
Matches: 136, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 33 0.24
45 3 0.02
46 20 0.15
47 53 0.39
48 17 0.12
49 2 0.01
50 2 0.01
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (46 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGCC
Found at i:23806651 original size:94 final size:93
Alignment explanation
Indices: 23806399--23806716 Score: 313
Period size: 94 Copynumber: 3.4 Consensus size: 93
23806389 GGGTTAAGTT
* * * * * * *
23806399 GCCGCTGCCATGTCCCAGACATGGTCTTACACTAGATCTCGTGTATACGTACTGATGCATGTCCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATG-ATACGTGCTGATGCATGTCCC
*
23806464 AGACATGTCTTACACTAGCA-TGAAACTTA
65 AGACATGTCTTACACTAGCACT-CAACTTA
* * * * *
23806493 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTAACATCAT-CGATGCCGATGCATGTCCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATACG-TGCTGATGCATGTCCC
* * * *
23806555 AGACATATCTTACACTGGTACTCACCTCTA
65 AGACATGTCTTACACTAGCACTCAACT-TA
* * *
23806585 CGCTGATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGATACG-GCTGATGCATGTCCC
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATACGTGCTGATGCATGTCCC
* * **
23806649 AGACACGTCTTACACTAGCCCTCGTCTTAA
65 AGACATGTCTTACACTAGCACTCAACTT-A
*
23806679 TGCCGATGCCATGTCCCAAACATGGTCTTATACTGGCT
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
23806717 TTCACATAAC
Statistics
Matches: 181, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
90 2 0.01
91 36 0.20
92 17 0.09
93 20 0.11
94 85 0.47
95 19 0.10
96 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATACGTGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCAACTTA
Found at i:23813174 original size:48 final size:48
Alignment explanation
Indices: 23813107--23813335 Score: 238
Period size: 48 Copynumber: 4.9 Consensus size: 48
23813097 AGGTTATGTA
*
23813107 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
*
23813155 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * *
23813203 TGATCCCATATAAGACTATATCTGGGATATGACATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * * * * *
23813251 AGA-CGTCGTGTTAGACCATAG-CTGGG---T--TATCGGCTTCGATCTG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATG
* *
23813294 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
23813336 TTACTATGTG
Statistics
Matches: 145, Mismatches: 27, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 111 0.77
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:23824687 original size:10 final size:10
Alignment explanation
Indices: 23824672--23824714 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
23824662 CTATCGAAAG
23824672 TAATAAAAAT
1 TAATAAAAAT
23824682 TAATAAAAAT
1 TAATAAAAAT
23824692 TAATTATAAAAT
1 TAA-TA-AAAAT
*
23824704 TAATTAAAAT
1 TAATAAAAAT
23824714 T
1 T
23824715 CATTATGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 19 0.63
11 3 0.10
12 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAATAAAAAT
Found at i:23824704 original size:12 final size:11
Alignment explanation
Indices: 23824675--23824712 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 11
23824665 TCGAAAGTAA
23824675 TAAAAATTAA-
1 TAAAAATTAAT
23824685 TAAAAATTAAT
1 TAAAAATTAAT
23824696 TATAAAATTAAT
1 TA-AAAATTAAT
23824708 TAAAA
1 TAAAA
23824713 TTCATTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 11 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATTAAT
Found at i:23824704 original size:22 final size:22
Alignment explanation
Indices: 23824677--23824720 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23824667 GAAAGTAATA
23824677 AAAATTAATAAAAATTAATTAT
1 AAAATTAATAAAAATTAATTAT
* *
23824699 AAAATTAATTAAAATTCATTAT
1 AAAATTAATAAAAATTAATTAT
23824721 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATAAAAATTAATTAT
Found at i:23824719 original size:10 final size:10
Alignment explanation
Indices: 23824672--23824719 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
23824662 CTATCGAAAG
*
23824672 TAATAAAAAT
1 TAATTAAAAT
*
23824682 TAATAAAAAT
1 TAATTAAAAT
23824692 TAATTATAAAAT
1 TAA-T-TAAAAT
23824704 TAATTAAAAT
1 TAATTAAAAT
*
23824714 TCATTA
1 TAATTA
23824720 TGTTAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 24 0.71
11 2 0.06
12 8 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAAAAT
Found at i:23828234 original size:22 final size:22
Alignment explanation
Indices: 23828209--23828252 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23828199 TAATTATAAT
* *
23828209 TAATATATATTATAATATATTA
1 TAATAGATATAATAATATATTA
* *
23828231 TAATGGATATAATTATATATTA
1 TAATAGATATAATAATATATTA
23828253 ATGATTATCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TAATAGATATAATAATATATTA
Found at i:23833414 original size:40 final size:41
Alignment explanation
Indices: 23833264--23833415 Score: 202
Period size: 40 Copynumber: 3.8 Consensus size: 41
23833254 TATTACCACA
* * * *
23833264 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* *
23833304 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
* *
23833344 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
*
23833384 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
23833416 TCATTCAAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
40 96 0.96
41 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCATATCAACT
Found at i:23836376 original size:34 final size:34
Alignment explanation
Indices: 23836333--23836400 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23836323 GAGTTCAACC
23836333 AGGCTCAAGCTCTATCCCTTAACGAATATGGGAA
1 AGGCTCAAGCTCTATCCCTTAACGAATATGGGAA
23836367 AGGCTCAAGCTCTATCCCTTAACGAATATGGGAA
1 AGGCTCAAGCTCTATCCCTTAACGAATATGGGAA
23836401 TAGCTTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (34 bp):
AGGCTCAAGCTCTATCCCTTAACGAATATGGGAA
Found at i:23842562 original size:40 final size:40
Alignment explanation
Indices: 23842445--23842564 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
23842435 ACATTAGACT
* * * * *
23842445 GAAGCTATCTCGGTATCGCACACTTAGTGCCACATAAAGCT
1 GAAGCTATCTC-GAATCGCACACTAAGTGCCAAATATAGCC
* * * *
23842486 GAAACTAT-TCTAATTCGCACACTAACTGCTC-TATATAGCC
1 GAAGCTATCTCGAA-TCGCACACTAAGTGC-CAAATATAGCC
*
23842526 GAAGCTATCTCGAAACGCACACTAAGTGCCAAATATAGC
1 GAAGCTATCTCGAATCGCACACTAAGTGCCAAATATAGC
23842565 AGATTTGTCG
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
39 2 0.03
40 48 0.77
41 12 0.19
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
GAAGCTATCTCGAATCGCACACTAAGTGCCAAATATAGCC
Found at i:23848234 original size:16 final size:17
Alignment explanation
Indices: 23848204--23848235 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23848194 AGGCATGGAA
23848204 AGAATGAAGAAAATGAG
1 AGAATGAAGAAAATGAG
23848221 AGAATGAA-AAAATGA
1 AGAATGAAGAAAATGA
23848236 ATGGATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (17 bp):
AGAATGAAGAAAATGAG
Found at i:23852375 original size:33 final size:33
Alignment explanation
Indices: 23852333--23852399 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
23852323 AAAAAAATAA
23852333 TAAAAAAAACAATAACAACAACAAGCATTATAT
1 TAAAAAAAACAATAACAACAACAAGCATTATAT
*
23852366 TAAAAAAAACAATAACAACAACGAGCATTATAT
1 TAAAAAAAACAATAACAACAACAAGCATTATAT
23852399 T
1 T
23852400 TCTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.61, C:0.15, G:0.04, T:0.19
Consensus pattern (33 bp):
TAAAAAAAACAATAACAACAACAAGCATTATAT
Found at i:23852956 original size:147 final size:143
Alignment explanation
Indices: 23852600--23853074 Score: 555
Period size: 147 Copynumber: 3.2 Consensus size: 143
23852590 TTTTGAATTA
* * *
23852600 AAAAAAAACAGTTTAGATTTTAAAAATAAAAAAATAT-TTTTTTAGTCATTTTAAAGGAAAGTTT
1 AAAAAGAA-AGTTTAGATTTTAAAAA-ATAAAAATATGTTTTTTAGTCATTTTAAAGGAAATTTT
* *
23852664 AAATTTTTAAAATAAAGTTTTCA-TTTTTTCAACTATTTCAAAATAAAAGCTTTATTCTTTAAGA
64 AAATTTTT-AAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTA-TCTTTAAGA
**
23852728 AAAGTAGTGATTTTTAAAAAAA
127 AAAGTAGTGATTTTT-----TT
* * *
23852750 AATAAAGAGAGTTTACATTTTTAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAATTTT
1 AA-AAAGAAAGTTTAGATTTTAAAAAATAAAAATATG-TTTTTTAGTCATTTTAAAGGAAATTTT
* * ** *
23852815 AAATTTTTATAACAAAATTTTGATTTTTTTCAACAATTTTGAAATAAAAACTTTTATCTTTAAGA
64 AAATTTTTA-AACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGC-TTTATCTTTAAGA
23852880 AAAGTAGTGATTTTTTT
127 AAAGTAGTGATTTTTTT
*
23852897 AAAAGAGAAAGTTTAGAATTTAAAAAATAAAAATATGTGTTTTTAGTCATTTTAAAGGAAAATTT
1 AAAA-AGAAAGTTTAGATTTTAAAAAATAAAAATATGT-TTTTTAGTCATTTTAAAGG-AAATTT
* * *
23852962 TAAATTTTTAAACTAAAGTTTTGATCTTTTTCAACTATTTCAAAAT-AAAGCATTGATTTTTAAG
63 TAAATTTTTAAAC-AAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGC-TTTATCTTTAAG
*
23853026 AAAAGTAATGATTTTTTT
126 AAAAGTAGTGATTTTTTT
* *
23853044 AAAAAAAAACTTT-GATTTTAAAAAA-AAAAAT
1 AAAAAGAAAGTTTAGATTTTAAAAAATAAAAAT
23853075 TCTGGCCACC
Statistics
Matches: 283, Mismatches: 32, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
144 6 0.02
145 11 0.04
146 10 0.04
147 87 0.31
148 43 0.15
149 9 0.03
150 18 0.06
151 48 0.17
152 47 0.17
153 4 0.01
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (143 bp):
AAAAAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAATTTTAA
ATTTTTAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTATCTTTAAGAAAAG
TAGTGATTTTTTT
Found at i:23853533 original size:31 final size:34
Alignment explanation
Indices: 23853485--23853547 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 34
23853475 ATTATTTACA
*
23853485 CTTATATATTCTCTTTC-ATT-TGCA-TTTATAC
1 CTTATATATTCTATTTCAATTATGCACTTTATAC
23853516 CTTATATATT-TAATTTCAATTATGCACTTTAT
1 CTTATATATTCT-ATTTCAATTATGCACTTTAT
23853548 TTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 1 0.04
31 14 0.52
32 3 0.11
33 4 0.15
34 5 0.19
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.54
Consensus pattern (34 bp):
CTTATATATTCTATTTCAATTATGCACTTTATAC
Found at i:23861974 original size:25 final size:25
Alignment explanation
Indices: 23861946--23862039 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 25
23861936 CTCGTATAAA
23861946 CTTATCGATTCTCAGCTCGTGAGAG
1 CTTATCGATTCTCAGCTCGTGAGAG
* *
23861971 CTTA-CTAATTCTCAGTTCGT-ATGAG
1 CTTATC-GATTCTCAGCTCGTGA-GAG
23861996 CTTAT-GATT-TACAGCTCGTGAGAG
1 CTTATCGATTCT-CAGCTCGTGAGAG
* *
23862020 CATACCGATTCAT-AGCTCGT
1 CTTATCGATTC-TCAGCTCGT
23862040 ATGAGCATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
23 1 0.02
24 18 0.33
25 35 0.64
27 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (25 bp):
CTTATCGATTCTCAGCTCGTGAGAG
Found at i:23862040 original size:49 final size:50
Alignment explanation
Indices: 23861933--23862045 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 50
23861923 GGACACACCA
* * * *
23861933 CAGCTCGTATAAACTTATCGATTCTCAGCTCGTGAGAGCTTACTAATTCT
1 CAGCTCGTATGAGCTTATCGATTCTCAGCTCGTGAGAGCATACCAATTCT
* *
23861983 CAGTTCGTATGAGCTTAT-GATT-TACAGCTCGTGAGAGCATACCGATTCAT
1 CAGCTCGTATGAGCTTATCGATTCT-CAGCTCGTGAGAGCATACCAATTC-T
23862033 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
23862046 ATACATGTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 1 0.02
49 37 0.69
50 16 0.30
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTATCGATTCTCAGCTCGTGAGAGCATACCAATTCT
Found at i:23864561 original size:17 final size:18
Alignment explanation
Indices: 23864539--23864572 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23864529 AGTTGAATTG
23864539 AAATTGTG-AAATTAAAT
1 AAATTGTGAAAATTAAAT
23864556 AAATTGTGAAAATTAAA
1 AAATTGTGAAAATTAAA
23864573 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAATTGTGAAAATTAAAT
Found at i:23865325 original size:10 final size:10
Alignment explanation
Indices: 23865298--23865357 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
23865288 TTAAATTCTA
23865298 AAAGATAAAT
1 AAAGATAAAT
23865308 ACAA-ATAAAT
1 A-AAGATAAAT
* *
23865318 AAATATAATT
1 AAAGATAAAT
**
23865328 AAAGATACTT
1 AAAGATAAAT
23865338 AAAGATAAAT
1 AAAGATAAAT
*
23865348 AAAAATAAAT
1 AAAGATAAAT
23865358 CCTAAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 38 0.90
11 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23869311 original size:15 final size:16
Alignment explanation
Indices: 23869280--23869313 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23869270 ATTTCAACAT
23869280 ATAAAAAAAGATAAAA
1 ATAAAAAAAGATAAAA
*
23869296 ATAAAAAAATA-AAAA
1 ATAAAAAAAGATAAAA
23869311 ATA
1 ATA
23869314 GGTGGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
ATAAAAAAAGATAAAA
Found at i:23881603 original size:25 final size:24
Alignment explanation
Indices: 23881525--23881604 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
23881515 TACACCACGG
*
23881525 CTCGTATGAGCTTACCGATTTGTAA
1 CTCGTATGAGCTTACTGATTT-TAA
* * *
23881550 CTTGTGA-GAGCTTA-TCGATTCTCAG
1 CTCGT-ATGAGCTTACT-GATT-TTAA
23881575 CTCGTATGAGCTTACTGATTTATAA
1 CTCGTATGAGCTTACTGATTT-TAA
23881600 CTCGT
1 CTCGT
23881605 TTATTTACAT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
24 2 0.05
25 37 0.88
26 3 0.07
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (24 bp):
CTCGTATGAGCTTACTGATTTTAA
Found at i:23884675 original size:154 final size:147
Alignment explanation
Indices: 23884368--23884835 Score: 478
Period size: 154 Copynumber: 3.0 Consensus size: 147
23884358 ATTTTAGGAT
* *
23884368 ATTTTTTTAAAAAAAAAAGAGAAAGTTTAGATGTTTAAAAATAAAAATCTATTTTTTTAGTCATT
1 ATTTTTTT-AAAAAAAAAGGGAAAGTTTAGAT-TTTTAAAATAAAAATCTA-TTTTTTAGTCATT
* *
23884433 TTAAAAGAAA-TTTAAATTTTTTAAAAAAA-ATTGA-TTTTTTCAACTATTTCAAAATAAAAGCT
63 TTAAAGGAAAGTTTAAA-TTTTTAAAAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAAGCT
*
23884495 TTGATCTTTAAGAAAATTAGTT
127 TTGATCTTTAAGAAAATT-GTG
* ** *
23884517 ATTTTTTTAAAAAAAAAGGGCAAGTTTTTTATTTTTGAAAATAAAAATCTATTTTTTAGTGATTT
1 ATTTTTTTAAAAAAAAAGGGAAAG-TTTAGATTTTT-AAAATAAAAATCTATTTTTTAGTCATTT
* *
23884582 TAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAAA
64 TAAAGGAAAGTTTAAATTTTTAAAA-AAA-TTTTGA--TTTTTTTCAACTATTTCAAAATAAAAG
23884647 CTTTGATCTTTAAGAAAAGTTGTG
125 CTTTGATCTTTAAGAAAA-TTGTG
* * *
23884671 ATTTTTTAGAAGAAAAAAGAGAGAGAGAAAGTTTAGATTTTTAAAA-AAATATATATGTTTTTTT
1 ATTTTTT--TA-AAAAAA-A-AG-G-GAAAGTTTAGATTTTTAAAATAAA-A-ATCT-ATTTTTT
** **
23884735 AGTCATTTTAAAGGAAAAGTTTAAATTTTTAAAATAAAATTTTGATCCTTTTCAACTATTTCGGA
56 AGTCATTTTAAAGG-AAAGTTTAAATTTTT-AAA-AAAATTTTGATTTTTTTCAACTATTTCAAA
* * *
23884800 AT-ACAGCTTTGATTTTTAAGAAAAATAGTG
118 ATAAAAGCTTTGATCTTTAAG-AAAATTGTG
23884830 ATTTTT
1 ATTTTT
23884836 AAAAGAAAAC
Statistics
Matches: 268, Mismatches: 27, Indels: 38
0.80 0.08 0.11
Matches are distributed among these distances:
148 46 0.17
149 36 0.13
151 4 0.01
154 52 0.19
155 2 0.01
156 1 0.00
157 6 0.02
158 4 0.01
159 32 0.12
160 35 0.13
161 23 0.09
162 20 0.07
163 6 0.02
164 1 0.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (147 bp):
ATTTTTTTAAAAAAAAAGGGAAAGTTTAGATTTTTAAAATAAAAATCTATTTTTTAGTCATTTTA
AAGGAAAGTTTAAATTTTTAAAAAAATTTTGATTTTTTTCAACTATTTCAAAATAAAAGCTTTGA
TCTTTAAGAAAATTGTG
Found at i:23884851 original size:20 final size:20
Alignment explanation
Indices: 23884806--23884863 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
23884796 CGGAATACAG
23884806 CTTTGATTTTT--AAGAAAA
1 CTTTGATTTTTAAAAGAAAA
* *
23884824 ATAGTGATTTTTAAAAGAAAA
1 CT-TTGATTTTTAAAAGAAAA
*
23884845 CTTTGATTTTGAAAA-AAAA
1 CTTTGATTTTTAAAAGAAAA
23884864 ATTGTCCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.38
20 11 0.34
21 8 0.25
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (20 bp):
CTTTGATTTTTAAAAGAAAA
Found at i:23886405 original size:4 final size:4
Alignment explanation
Indices: 23886396--23886422 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23886386 TGCCTAAGAT
23886396 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
23886423 AATGGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:23890325 original size:24 final size:23
Alignment explanation
Indices: 23890292--23890349 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
23890282 AGTTGAAAAG
23890292 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
23890316 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
23890338 TATATATAATAA
1 TATA-ATAATAA
23890350 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:23895738 original size:24 final size:23
Alignment explanation
Indices: 23895659--23895738 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 23
23895649 TATTTTTAAA
23895659 ATACATA-C-TTATATACTTTAT
1 ATACATACCTTTATATACTTTAT
* *
23895680 AT-CTTACTTATCTATATACCCTTGTAT
1 ATACATACCT-T-TATATA--CTT-TAT
*
23895707 ATATATACCTTTATATACTTTAT
1 ATACATACCTTTATATACTTTAT
23895730 AATACATAC
1 -ATACATAC
23895739 ATGCACATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
23 4 0.09
24 16 0.36
26 9 0.20
27 6 0.14
28 4 0.09
ACGTcount: A:0.35, C:0.17, G:0.01, T:0.46
Consensus pattern (23 bp):
ATACATACCTTTATATACTTTAT
Found at i:23907565 original size:44 final size:44
Alignment explanation
Indices: 23907511--23907931 Score: 235
Period size: 44 Copynumber: 9.6 Consensus size: 44
23907501 AGAATTTCAG
* *
23907511 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
* * * * *
23907555 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGC-TGGTA
* * * * *
23907599 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-CTAGG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCT-GGTA
* ** * *
23907641 -TCTTAT-TCCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAA
1 ATCTTATCT-CCCTGAGATTACAGTGGAGCAGATTGAAG-CTGGT--A
* *
23907686 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
* * * ***
23907730 ATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-GCTGGTA
* * * * * * *
23907774 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCAGG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTGGTA
* * ** * *
23907816 -TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CTGGT-A
* *
23907860 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
*
23907905 ATCCTATCTCCCTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
23907932 ACGGATTAAA
Statistics
Matches: 285, Mismatches: 66, Indels: 52
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 53 0.19
42 8 0.03
43 6 0.02
44 139 0.49
45 9 0.03
46 68 0.24
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA
Found at i:23907789 original size:175 final size:175
Alignment explanation
Indices: 23907498--23907983 Score: 866
Period size: 175 Copynumber: 2.8 Consensus size: 175
23907488 CGAAGTAGAT
* *
23907498 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTAATCCTATC
1 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
**
23907563 TCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
*
23907628 AGATCGCACTAGGTCTTATTCCCCTGAGATTACAGTGGAACAGAC
131 AGATCGCACCAGGTCTTATTCCCCTGAGATTACAGTGGAACAGAC
*
23907673 CGAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
* *
23907738 TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
*
23907803 AGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGAC
131 AGATCGCACCAGGTCTTATTCCCCTGAGATTACAGTGGAACAGAC
23907848 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
*
23907913 TCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCT-AAGGTTACAGTAGAG
66 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA-GTTACAGTAGAG
23907977 TAGATCG
130 TAGATCG
23907984 TTTCAGATCT
Statistics
Matches: 297, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
174 2 0.01
175 295 0.99
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (175 bp):
CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
AGATCGCACCAGGTCTTATTCCCCTGAGATTACAGTGGAACAGAC
Found at i:23907957 original size:44 final size:43
Alignment explanation
Indices: 23907510--23907981 Score: 198
Period size: 44 Copynumber: 10.8 Consensus size: 43
23907500 AAGAATTTCA
* * **
23907510 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT--G
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * *
23907552 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAG
1 G--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-TAAG
* * * *** *
23907598 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACT-AG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
* **
23907640 G-TCTTAT-TCCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAA-
1 GATCTTATCT-CCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T-AAG
* **
23907686 -ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * * * *
23907728 TAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAGAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* * * *** **
23907773 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCACCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
* * ** *
23907815 G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAG
* **
23907860 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * * *
23907903 TAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* * * * *
23907948 GATCTTATCTCTCTAAGGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
23907982 CGTTTCAGAT
Statistics
Matches: 314, Mismatches: 81, Indels: 68
0.68 0.17 0.15
Matches are distributed among these distances:
40 1 0.00
41 48 0.15
42 10 0.03
43 15 0.05
44 169 0.54
45 6 0.02
46 63 0.20
47 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
Found at i:23909630 original size:24 final size:23
Alignment explanation
Indices: 23909551--23909630 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 23
23909541 TATTTTTAAA
23909551 ATACATA-C-TTATATACTTTAT
1 ATACATACCTTTATATACTTTAT
* *
23909572 AT-CTTACTTATCTATATACCCTTGTAT
1 ATACATACCT-T-TATATA--CTT-TAT
*
23909599 ATATATACCTTTATATACTTTAT
1 ATACATACCTTTATATACTTTAT
23909622 AATACATAC
1 -ATACATAC
23909631 ATGCACATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
23 4 0.09
24 16 0.36
26 9 0.20
27 6 0.14
28 4 0.09
ACGTcount: A:0.35, C:0.17, G:0.01, T:0.46
Consensus pattern (23 bp):
ATACATACCTTTATATACTTTAT
Found at i:23913770 original size:29 final size:28
Alignment explanation
Indices: 23913733--23913788 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
23913723 TTATTTTTAA
* *
23913733 AGGATTAAATTAAAATTTTATCATTATG
1 AGGATTAAAGTAAAATTTTACCATTATG
**
23913761 AGGAGTTAAAGTGCAATTTTACCATTAT
1 AGGA-TTAAAGTAAAATTTTACCATTAT
23913789 TAATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (28 bp):
AGGATTAAAGTAAAATTTTACCATTATG
Found at i:23914093 original size:15 final size:15
Alignment explanation
Indices: 23914075--23914103 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23914065 TAGGATTATT
23914075 TTATTTTATTTTTAA
1 TTATTTTATTTTTAA
23914090 TTATTTTATTTTTA
1 TTATTTTATTTTTA
23914104 TTTAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTATTTTTAA
Found at i:23914287 original size:10 final size:10
Alignment explanation
Indices: 23914259--23914291 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23914249 CTGAAAAATT
23914259 AAAAAAATTA-
1 AAAAAAA-TAC
23914269 AAAAAAATAC
1 AAAAAAATAC
23914279 AAAAAAATAC
1 AAAAAAATAC
23914289 AAA
1 AAA
23914292 GCGGACGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 2 0.09
10 20 0.91
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:23915981 original size:13 final size:13
Alignment explanation
Indices: 23915942--23916002 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
23915932 CACTTAAATT
23915942 TTTTC-AAAGTAC
1 TTTTCAAAAGTAC
*
23915954 TTCTT-AAAAGCAC
1 TT-TTCAAAAGTAC
* *
23915967 TTTTCCACAGTAC
1 TTTTCAAAAGTAC
*
23915980 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
23915993 TTTTCAAAAG
1 TTTTCAAAAG
23916003 CAATGAAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
12 4 0.11
13 34 0.89
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:23917250 original size:3 final size:3
Alignment explanation
Indices: 23917242--23917269 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23917232 TGTGTCCTTT
23917242 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
23917270 CCTATTCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:23921942 original size:35 final size:35
Alignment explanation
Indices: 23921903--23921970 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
23921893 AATAAATACT
23921903 TAGATTTTAGGGCGTTACAACTCTACCCCCTAAGA
1 TAGATTTTAGGGCGTTACAACTCTACCCCCTAAGA
23921938 TAGATTTTAGGGCGTTACAACTCTACCCCCTAA
1 TAGATTTTAGGGCGTTACAACTCTACCCCCTAA
23921971 AAGAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (35 bp):
TAGATTTTAGGGCGTTACAACTCTACCCCCTAAGA
Found at i:23942157 original size:15 final size:15
Alignment explanation
Indices: 23942133--23942167 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23942123 TTTTTTTATT
23942133 TTTA-TTTTAATATA
1 TTTATTTTTAATATA
23942147 TTTATTTTTAATATA
1 TTTATTTTTAATATA
*
23942162 ATTATT
1 TTTATT
23942168 ATTGTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTTTTAATATA
Found at i:23942163 original size:20 final size:19
Alignment explanation
Indices: 23942127--23942167 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
23942117 TAGCTATTTT
* *
23942127 TTTATTTTTATTTTAATATA
1 TTTATTTTTAATATAAT-TA
23942147 TTTATTTTTAATATAATTA
1 TTTATTTTTAATATAATTA
23942166 TT
1 TT
23942168 ATTGTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTTTTAATATAATTA
Found at i:23943564 original size:3 final size:3
Alignment explanation
Indices: 23943556--23943601 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
23943546 TTTTTTGCCC
23943556 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23943602 CATTTCATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23948878 original size:10 final size:10
Alignment explanation
Indices: 23948851--23948909 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
23948841 TTAAATTCTA
23948851 AAAGATAAAT
1 AAAGATAAAT
*
23948861 ACAA-ATAATT
1 A-AAGATAAAT
* *
23948871 AATGATAATT
1 AAAGATAAAT
23948881 AAAGATAAAT
1 AAAGATAAAT
*
23948891 AAGGATAAAT
1 AAAGATAAAT
23948901 AAAGATAAA
1 AAAGATAAA
23948910 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 1 0.02
10 38 0.93
11 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23948908 original size:30 final size:30
Alignment explanation
Indices: 23948851--23948908 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
23948841 TTAAATTCTA
* *
23948851 AAAGATAAATACAAATAATTAATGATAATT
1 AAAGATAAATACAAATAAATAAAGATAATT
*
23948881 AAAGATAAATA-AGGATAAATAAAGATAA
1 AAAGATAAATACA-AATAAATAAAGATAA
23948909 AAGCTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (30 bp):
AAAGATAAATACAAATAAATAAAGATAATT
Found at i:23952364 original size:13 final size:13
Alignment explanation
Indices: 23952346--23952371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23952336 ATTTTCCCAA
23952346 GTAAAGCTTGAAC
1 GTAAAGCTTGAAC
23952359 GTAAAGCTTGAAC
1 GTAAAGCTTGAAC
23952372 TTGGGACCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GTAAAGCTTGAAC
Found at i:23955264 original size:47 final size:45
Alignment explanation
Indices: 23955189--23955278 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 45
23955179 TCGGCACGGA
* *
23955189 TACGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 TACGTAAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGAC
* *
23955234 TTAGCGTAAGAGCCAGTATAAAACCATGTCTGGGACGTGGCATCG
1 -TA-CGTAAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCG
23955279 GCATTATACC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 2 0.05
47 37 0.95
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (45 bp):
TACGTAAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGAC
Found at i:23957830 original size:283 final size:284
Alignment explanation
Indices: 23957322--23957890 Score: 1023
Period size: 283 Copynumber: 2.0 Consensus size: 284
23957312 TTCCTGGAAG
* *
23957322 AGTTCTGAAAGAAGTACATTAGCCAGAGGTTTATACACTAGAAAAGAAAAGAATTTTTAGAGCCG
1 AGTTCTGAAAGAAGTACATTAGCCAGAAGTTTATACACCAGAAAAGAAAAGAATTTTTAGAGCCG
* *
23957387 AAGCAAGGTCGTAGGACGGTGACTGAGTACGAGCGTGAGTTTGTGAGACTCAGTAAATATGTACG
66 AAGCAAGGTCGTAGGACGGTGACTGAGTACGAACGTGAGTTTGTGAGACTCAGCAAATATGTACG
23957452 GGAGTGCGTATCTACAAAATTCATTATGTACAAAAGGTTTGAAGATGGTTTGAACGAAGATATTC
131 GGAGTGCGTATCTACAAAATTCATTATGTACAAAAGGTTTGAAGATGGTTTGAACGAAGATATTC
23957517 ATCTATTAGTCGGCATCTTAGAGATAAGAGAATTTGTGGTGCTCGTGGAAAGAGCACGTAAGACC
196 ATCTATTAGTCGGCATCTTAGAGATAAGAGAATTTGTGGTGCTCGTGGAAAGAGCACGTAAGACC
23957582 AAGGAATTGGCCAAAGAGAAGAAA
261 AAGGAATTGGCCAAAGAGAAGAAA
* *
23957606 AGTTCTGAAAGAAGTACATTAGCCAGAAGTTTATAGACCAGAAAA-AAAATAATTTTTAGAGCCG
1 AGTTCTGAAAGAAGTACATTAGCCAGAAGTTTATACACCAGAAAAGAAAAGAATTTTTAGAGCCG
23957670 AAGCAAGGTCGTAGGACGGTGACTGAGTACGAACGTGAGTTTGTGAGACTCAGCAAATATGTACG
66 AAGCAAGGTCGTAGGACGGTGACTGAGTACGAACGTGAGTTTGTGAGACTCAGCAAATATGTACG
* *
23957735 GGAGTGCGTATTTACAAAATTCATTATGTACAAAAGGTTTGAAGATGGTTTGAATGAAGATATTC
131 GGAGTGCGTATCTACAAAATTCATTATGTACAAAAGGTTTGAAGATGGTTTGAACGAAGATATTC
* * * *
23957800 ATCTATTAGTTGGCATCTTGGAGATAAGAGAATTTGTGGTGCTTGTGGAAAGAGCATGTAAGACC
196 ATCTATTAGTCGGCATCTTAGAGATAAGAGAATTTGTGGTGCTCGTGGAAAGAGCACGTAAGACC
23957865 AAGGAATTGGCCAAAGAGAAGAAA
261 AAGGAATTGGCCAAAGAGAAGAAA
23957889 AG
1 AG
23957891 AGCTGACATT
Statistics
Matches: 273, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
283 231 0.85
284 42 0.15
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (284 bp):
AGTTCTGAAAGAAGTACATTAGCCAGAAGTTTATACACCAGAAAAGAAAAGAATTTTTAGAGCCG
AAGCAAGGTCGTAGGACGGTGACTGAGTACGAACGTGAGTTTGTGAGACTCAGCAAATATGTACG
GGAGTGCGTATCTACAAAATTCATTATGTACAAAAGGTTTGAAGATGGTTTGAACGAAGATATTC
ATCTATTAGTCGGCATCTTAGAGATAAGAGAATTTGTGGTGCTCGTGGAAAGAGCACGTAAGACC
AAGGAATTGGCCAAAGAGAAGAAA
Found at i:23963933 original size:50 final size:49
Alignment explanation
Indices: 23963824--23964002 Score: 187
Period size: 47 Copynumber: 3.8 Consensus size: 49
23963814 CATCGACCTA
*
23963824 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAT-G-GT--G
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGC-ACATAGCGTGAG
* * *
23963868 TGCCAATATAAGACCATGTCTAGGACATGGCATCGGCACGAATA-CGTGAG
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATAGCGTGAG
* * *
23963918 AGTCAATGTAAGACCATGTCTGGGACATGGCAT-TG-ACTTAGCGTGAG
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACATAGCGTGAG
* *
23963965 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA
23964003 TTATACCCTA
Statistics
Matches: 110, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.09
45 15 0.14
46 10 0.09
47 38 0.35
48 5 0.05
49 2 0.02
50 30 0.27
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCACATAGCGTGAG
Found at i:23965180 original size:20 final size:21
Alignment explanation
Indices: 23965141--23965180 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23965131 GTTATAAGGA
*
23965141 CCACATGGGCGTGTTGCCCTT
1 CCACATAGGCGTGTTGCCCTT
*
23965162 CCACATAGGTGTG-TGCCCT
1 CCACATAGGCGTGTTGCCCT
23965181 ATTTCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (21 bp):
CCACATAGGCGTGTTGCCCTT
Found at i:23977434 original size:40 final size:40
Alignment explanation
Indices: 23977345--23977608 Score: 369
Period size: 40 Copynumber: 6.7 Consensus size: 40
23977335 TTGAATGATG
* *
23977345 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
23977384 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
23977424 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23977463 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23977503 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23977543 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23977584 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23977609 AACGAGTAGC
Statistics
Matches: 207, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 144 0.70
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23977615 original size:120 final size:118
Alignment explanation
Indices: 23977397--23977641 Score: 350
Period size: 120 Copynumber: 2.1 Consensus size: 118
23977387 GGACTAAGAT
*
23977397 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
* ** *
23977462 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* *
23977516 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA
* * *
23977581 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
23977635 CCGAAGG
1 CCGAAGG
23977642 TACGTGATTT
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
119 51 0.45
120 60 0.53
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:23979006 original size:21 final size:21
Alignment explanation
Indices: 23978954--23979007 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
23978944 GTGTTACATG
* * * *
23978954 TAAGGGTTGAACGGAAGCTCA
1 TAAGGGTTAAACAGAAACCCA
* *
23978975 TAAGAGCTAAACAGAAACCCA
1 TAAGGGTTAAACAGAAACCCA
23978996 TAAGGGTTAAAC
1 TAAGGGTTAAAC
23979008 TGAAGCTCAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
TAAGGGTTAAACAGAAACCCA
Found at i:23979013 original size:42 final size:42
Alignment explanation
Indices: 23978954--23979060 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
23978944 GTGTTACATG
* *
23978954 TAAGGGTTGAACGGAAGCTCATAAGAGCTAAACAGAAACCCA
1 TAAGGGTTAAACTGAAGCTCATAAGAGCTAAACAGAAACCCA
* * ** *
23978996 TAAGGGTTAAACTGAAGCTCAAAAGAGCTGAATTGAAACCTA
1 TAAGGGTTAAACTGAAGCTCATAAGAGCTAAACAGAAACCCA
* *
23979038 GAAGGGTTAAACTGAAACTCATA
1 TAAGGGTTAAACTGAAGCTCATA
23979061 TGAGTTAACT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (42 bp):
TAAGGGTTAAACTGAAGCTCATAAGAGCTAAACAGAAACCCA
Found at i:23979067 original size:21 final size:21
Alignment explanation
Indices: 23979043--23979089 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
23979033 ACCTAGAAGG
23979043 GTTAAACTGAAACTCAT-ATGA
1 GTTAAACTGAAACTCATGA-GA
*
23979064 GTT-AACTGAAGCTCATGAGA
1 GTTAAACTGAAACTCATGAGA
23979084 GTTAAA
1 GTTAAA
23979090 AGGAAAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (21 bp):
GTTAAACTGAAACTCATGAGA
Found at i:23986316 original size:23 final size:21
Alignment explanation
Indices: 23986270--23986330 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 21
23986260 ATATGAGTCC
23986270 AAAAAATGAAATAAAAACAACT
1 AAAAAAT-AAATAAAAACAACT
23986292 AAAATAA-AAATAAAAGCACAACT
1 AAAA-AATAAATAAAA--ACAACT
23986315 AAAAAATAAATAAAAA
1 AAAAAATAAATAAAAA
23986331 AACAACGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 9 0.26
22 6 0.17
23 20 0.57
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.13
Consensus pattern (21 bp):
AAAAAATAAATAAAAACAACT
Found at i:23986812 original size:8 final size:8
Alignment explanation
Indices: 23986801--23986825 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23986791 TAAATTTTGG
23986801 AATAATAA
1 AATAATAA
23986809 AATAATAA
1 AATAATAA
23986817 AATAATAA
1 AATAATAA
23986825 A
1 A
23986826 GATGACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:23990206 original size:91 final size:91
Alignment explanation
Indices: 23990036--23990228 Score: 226
Period size: 91 Copynumber: 2.1 Consensus size: 91
23990026 TTAATTTCAG
** * **
23990036 GTACCATAATAATACACGGATTGATAGTTCAAGTACCACATTGAATATTGTCAAGGTATAAGTAC
1 GTACCA-AATAATACACAAATTGATAGTTCAAGTACCACATTAAATATTGTCAAAATATAAGTAC
*
23990101 CATATTGAACATTTTATAAAAATACAA
65 CATATTAAACATTTTATAAAAATACAA
* * * * *
23990128 GTACTAAATAATACACAAATTGATTGTTTAAGTACCACATTAAATATTTTTAAAATATAAAG-AC
1 GTACCAAATAATACACAAATTGATAGTTCAAGTACCACATTAAATATTGTCAAAATAT-AAGTAC
* * * *
23990192 TATATTAAAGATTTTATAAAATTACAG
65 CATATTAAACATTTTATAAAAATACAA
23990219 GTACCAAATA
1 GTACCAAATA
23990229 TTAAGAGAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
91 76 0.90
92 8 0.10
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (91 bp):
GTACCAAATAATACACAAATTGATAGTTCAAGTACCACATTAAATATTGTCAAAATATAAGTACC
ATATTAAACATTTTATAAAAATACAA
Found at i:23990563 original size:15 final size:15
Alignment explanation
Indices: 23990543--23990574 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23990533 ATTTTCTCGA
*
23990543 ATCGAGTTGAGTGAG
1 ATCGAGTCGAGTGAG
23990558 ATCGAGTCGAGTGAG
1 ATCGAGTCGAGTGAG
23990573 AT
1 AT
23990575 GAAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.09, G:0.38, T:0.25
Consensus pattern (15 bp):
ATCGAGTCGAGTGAG
Found at i:23991415 original size:21 final size:20
Alignment explanation
Indices: 23991391--23991478 Score: 55
Period size: 21 Copynumber: 4.6 Consensus size: 20
23991381 TTTAATTAAC
23991391 TTTTAAAAATTATAAAAATAT
1 TTTTAAAAATTATAAAAA-AT
**
23991412 TTTTTTAAA-T-T--AAAAT
1 TTTTAAAAATTATAAAAAAT
*
23991428 TATTAAAAATTATAAAAAAAT
1 TTTTAAAAATTAT-AAAAAAT
*
23991449 ATTTT-AAAATT-T-TAAAAT
1 -TTTTAAAAATTATAAAAAAT
*
23991467 TTTAAAAAATTA
1 TTTTAAAAATTA
23991479 ATTAAATGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 18
0.66 0.10 0.23
Matches are distributed among these distances:
16 8 0.16
17 7 0.14
18 12 0.24
19 1 0.02
20 2 0.04
21 18 0.35
22 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTTAAAAATTATAAAAAAT
Found at i:23991435 original size:37 final size:37
Alignment explanation
Indices: 23991391--23991474 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 37
23991381 TTTAATTAAC
* * *
23991391 TTTTAAAAATTATAAAAATATTTTTTTAAA-TTAAAA
1 TTTTAAAAATTATAAAAAAATATTTTAAAATTTAAAA
23991427 TTATTAAAAATTATAAAAAAATATTTTAAAATTTTAAAA
1 TT-TTAAAAATTATAAAAAAATATTTTAAAA-TTTAAAA
23991466 TTTTAAAAA
1 TTTTAAAAA
23991475 ATTAATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 2 0.05
37 25 0.60
38 7 0.17
39 8 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (37 bp):
TTTTAAAAATTATAAAAAAATATTTTAAAATTTAAAA
Found at i:23991460 original size:8 final size:8
Alignment explanation
Indices: 23991449--23991473 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23991439 ATAAAAAAAT
23991449 ATTTTAAA
1 ATTTTAAA
23991457 ATTTTAAA
1 ATTTTAAA
23991465 ATTTTAAA
1 ATTTTAAA
23991473 A
1 A
23991474 AATTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:23991766 original size:66 final size:66
Alignment explanation
Indices: 23991694--23991820 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 66
23991684 TTTAATCTCT
* ** *
23991694 ATACTTAATTTCTAACGTAATTTGGTTCATTCATTTTATGCTGTTATTAATTAGTCCAAAAAGTA
1 ATACTTAATTTCTAACGTAATTTGGTTCATACATTTTATAATGTTATCAATTAGTCCAAAAAGTA
23991759 A
66 A
* *
23991760 ATACTTAATTTCTAATGTAATTTGGTTCATACATTTTGTAATGTTATCAATTAGTCCAAAA
1 ATACTTAATTTCTAACGTAATTTGGTTCATACATTTTATAATGTTATCAATTAGTCCAAAA
23991821 GTTATTATCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (66 bp):
ATACTTAATTTCTAACGTAATTTGGTTCATACATTTTATAATGTTATCAATTAGTCCAAAAAGTA
A
Found at i:24009779 original size:18 final size:17
Alignment explanation
Indices: 24009758--24009799 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
24009748 AAAAATAGAT
24009758 TTATTTATATTTAATATA
1 TTATTTATATTTAA-ATA
24009776 TTATTT-TATTTAAATA
1 TTATTTATATTTAAATA
*
24009792 TAATTTAT
1 TTATTTAT
24009800 TATGTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTATATTTAAATA
Found at i:24009783 original size:23 final size:24
Alignment explanation
Indices: 24009757--24009807 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
24009747 TAAAAATAGA
* *
24009757 TTTATTTATATTTAATATATTAT-
1 TTTATTTAAATATAATATATTATG
*
24009780 TTTATTTAAATATAATTTATTATG
1 TTTATTTAAATATAATATATTATG
24009804 TTTA
1 TTTA
24009808 AGTTTAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATTTAAATATAATATATTATG
Found at i:24010221 original size:31 final size:31
Alignment explanation
Indices: 24010186--24010245 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
24010176 AGTCACTAAT
* * *
24010186 GTTTTAGATTATTTGTATTTTGGTCACTCCC
1 GTTTTAGATCATTTCTATTTTGATCACTCCC
*
24010217 GTTTTATATCATTTCTATTTTGATCACTC
1 GTTTTAGATCATTTCTATTTTGATCACTC
24010246 TTCGTTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.18, C:0.17, G:0.12, T:0.53
Consensus pattern (31 bp):
GTTTTAGATCATTTCTATTTTGATCACTCCC
Found at i:24012468 original size:42 final size:42
Alignment explanation
Indices: 24012421--24012505 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
24012411 TAATCCTTCA
24012421 AAAATTCTCATTCATTATTTCTAATCCTAAAGCAATTTTCTT
1 AAAATTCTCATTCATTATTTCTAATCCTAAAGCAATTTTCTT
24012463 AAAATTCTCATTCATTATTTCTAATCCTAAAGCAATTTTCTT
1 AAAATTCTCATTCATTATTTCTAATCCTAAAGCAATTTTCTT
24012505 A
1 A
24012506 CTTCATCACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.45
Consensus pattern (42 bp):
AAAATTCTCATTCATTATTTCTAATCCTAAAGCAATTTTCTT
Found at i:24014948 original size:26 final size:26
Alignment explanation
Indices: 24014917--24014973 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
24014907 CATTGAAGTC
**
24014917 AAACTCAAGTTTCAAATTGAAAAAAA
1 AAACTCAAGTACCAAATTGAAAAAAA
* *
24014943 AAACTCAAGTACCAAATTGAATATAA
1 AAACTCAAGTACCAAATTGAAAAAAA
24014969 AAACT
1 AAACT
24014974 ACACTTAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (26 bp):
AAACTCAAGTACCAAATTGAAAAAAA
Found at i:24016019 original size:21 final size:22
Alignment explanation
Indices: 24015989--24016033 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
24015979 ATCCATAAAT
*
24015989 AATTTCAAAAAATATAATAGTA
1 AATTTCAAAAAATATAACAGTA
*
24016011 AATTT-AAAATATATAACAGTA
1 AATTTCAAAAAATATAACAGTA
24016032 AA
1 AA
24016034 AAGATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (22 bp):
AATTTCAAAAAATATAACAGTA
Found at i:24028278 original size:11 final size:9
Alignment explanation
Indices: 24028242--24028361 Score: 50
Period size: 9 Copynumber: 12.8 Consensus size: 9
24028232 AAATATATAA
*
24028242 ATAAAATTT
1 ATAAAAATT
24028251 ATCAAAAATT
1 AT-AAAAATT
24028261 ATAAAAATT
1 ATAAAAATT
*
24028270 ATAGGAAAATG
1 ATA--AAAATT
*
24028281 ATAAAAA-A
1 ATAAAAATT
*
24028289 AGTATAAA--
1 A-TAAAAATT
**
24028297 ATAGTAATT
1 ATAAAAATT
24028306 ATTAAAAATT
1 A-TAAAAATT
* *
24028316 ATGGAAAAGT
1 AT-AAAAATT
*
24028326 ATAAATATT
1 ATAAAAATT
24028335 ATTTAAAAATT
1 A--TAAAAATT
24028346 ATAAAATATT
1 ATAAAA-ATT
24028356 -TAAAAA
1 ATAAAAA
24028362 AATGATATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.05
8 3 0.03
9 38 0.44
10 25 0.29
11 16 0.19
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:24028357 original size:18 final size:20
Alignment explanation
Indices: 24028320--24028361 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
24028310 AAAATTATGG
24028320 AAAAGTATAAATATTATTTA
1 AAAAGTATAAATATTATTTA
*
24028340 AAAATTATAAA-A-TATTTA
1 AAAAGTATAAATATTATTTA
24028358 AAAA
1 AAAA
24028362 AATGATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAGTATAAATATTATTTA
Found at i:24030885 original size:23 final size:23
Alignment explanation
Indices: 24030859--24030905 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24030849 ATAGCCGGCT
24030859 TTTGAATCCACCATTGATAGGTA
1 TTTGAATCCACCATTGATAGGTA
24030882 TTTGAATCCACCATTGATAGGTA
1 TTTGAATCCACCATTGATAGGTA
24030905 T
1 T
24030906 CAACCAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (23 bp):
TTTGAATCCACCATTGATAGGTA
Found at i:24031709 original size:11 final size:11
Alignment explanation
Indices: 24031670--24031708 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
24031660 CACAATAGTC
24031670 CTCTCACAATT
1 CTCTCACAATT
24031681 CTCTCACAATT
1 CTCTCACAATT
24031692 CTCTCA-AATTT
1 CTCTCACAA-TT
24031703 CTCTCA
1 CTCTCA
24031709 ATTTTTGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 2 0.07
11 25 0.93
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCACAATT
Found at i:24032900 original size:7 final size:7
Alignment explanation
Indices: 24032888--24032919 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
24032878 AGTCGTTTCA
24032888 TATTTAG
1 TATTTAG
24032895 TATTTAG
1 TATTTAG
*
24032902 TATTTAT
1 TATTTAG
24032909 TATTTAG
1 TATTTAG
24032916 TATT
1 TATT
24032920 ACGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:24033846 original size:21 final size:21
Alignment explanation
Indices: 24033822--24033879 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
24033812 CAACACCCAT
* *
24033822 AACCAGATCCCCTGCCAGAGG
1 AACCAAATCCCCTGCCAGAGC
*
24033843 AACCACAATCCCC-ACCAGAGC
1 AACCA-AATCCCCTGCCAGAGC
24033864 AACCACAA-CCCCTGCC
1 AACCA-AATCCCCTGCC
24033880 GAAAGCTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.13
21 21 0.68
22 6 0.19
ACGTcount: A:0.33, C:0.47, G:0.14, T:0.07
Consensus pattern (21 bp):
AACCAAATCCCCTGCCAGAGC
Found at i:24034247 original size:133 final size:132
Alignment explanation
Indices: 24033986--24034501 Score: 901
Period size: 132 Copynumber: 3.9 Consensus size: 132
24033976 TTGTAGAAAT
* * * *
24033986 TTTTTTATATAGTTTC-ATATAATAAAGTAAAAAATTCTTTTTAATATTTTAATTATACTTTACT
1 TTTTTTATATAGTTTCAAT-TAATAAAAT-AAAAGTTGTTTTTAATATTTTAATTGTACTTTACT
24034050 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATAT
64 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATAT
24034115 TTAA
129 TTAA
24034119 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
24034184 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTTATTATTTTTATATT
66 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATA-TTTTTTATTATTTTTATATT
24034249 TAA
130 TAA
*
24034252 TTTTTTATATAGTTTCAGTTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
24034317 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATTT
66 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTT
24034382 AA
131 AA
24034384 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* * * *
24034448 TTTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAATTTTTATTA
66 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTA
24034502 AAATAAATGT
Statistics
Matches: 370, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
131 52 0.14
132 162 0.44
133 154 0.42
134 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (132 bp):
TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTT
AA
Found at i:24034437 original size:265 final size:264
Alignment explanation
Indices: 24033986--24034501 Score: 910
Period size: 265 Copynumber: 2.0 Consensus size: 264
24033976 TTGTAGAAAT
*
24033986 TTTTTTATATAGTTTCATATAATAAAGTAAAAAATTCTTTTTAATATTTTAATTATACTTTACTT
1 TTTTTTATATAGTTTCATATAATAAAATAAAAAATTCTTTTTAATATTTTAATTATACTTTACTT
*
24034051 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATT
66 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATT
24034116 TAATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC
131 TAATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC
* *
24034181 TTTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTTATTATTTTTAT
196 -TTTTTTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGGCAATA-ATTTTTATTATTTTTAT
24034246 ATTTAA
259 ATTTAA
* * *
24034252 TTTTTTATATAGTTTCAGT-TAATAAAAT-AAAAGTTGTTTTTAATATTTTAATTGTACTTTACT
1 TTTTTTATATAGTTTCA-TATAATAAAATAAAAAATTCTTTTTAATATTTTAATTATACTTTACT
24034315 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTATTTTTATAT
65 TTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTATTTTTATAT
24034380 TTAATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTA
130 TTAATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTA
* *
24034445 CTTTTTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAATTTTTATTA
195 CTTTTTTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGGCAATAATTTTTATTA
24034502 AAATAAATGT
Statistics
Matches: 240, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
263 9 0.04
264 43 0.18
265 162 0.68
266 25 0.10
267 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (264 bp):
TTTTTTATATAGTTTCATATAATAAAATAAAAAATTCTTTTTAATATTTTAATTATACTTTACTT
TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATT
TAATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC
TTTTTTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGGCAATAATTTTTATTATTTTTATAT
TTAA
Found at i:24034530 original size:39 final size:38
Alignment explanation
Indices: 24034455--24034539 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
24034445 CTTTTTTTAA
* * *
24034455 TTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAAT
1 TTTTAATAAAATAAATGTTATTTTAAATTAGACAAT-AT
* *
24034494 TTTTATTAAAATAAATGTTATTTTGAA-TAGGACAATAT
1 TTTTAATAAAATAAATGTTATTTTAAATTA-GACAATAT
24034532 TTTTAATA
1 TTTTAATA
24034540 TTTTCAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 11 0.28
39 28 0.72
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATTAGACAATAT
Found at i:24034541 original size:9 final size:9
Alignment explanation
Indices: 24034527--24034557 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24034517 TGAATAGGAC
24034527 AATATTTTT
1 AATATTTTT
*
24034536 AATATTTTC
1 AATATTTTT
24034545 AATATTTTT
1 AATATTTTT
24034554 AATA
1 AATA
24034558 AAACATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTT
Found at i:24036691 original size:19 final size:20
Alignment explanation
Indices: 24036663--24036701 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24036653 AAAAAACTTT
24036663 CAAAATATAAT-TTTGTTAAA
1 CAAAATATAATATTT-TTAAA
24036683 CAAAA-ATAATATTTTTAAA
1 CAAAATATAATATTTTTAAA
24036702 TAATAAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
CAAAATATAATATTTTTAAA
Found at i:24037343 original size:21 final size:21
Alignment explanation
Indices: 24037319--24037358 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24037309 CGCTCAAATT
24037319 TCTC-TCAATTTTTGTCAAAGC
1 TCTCTTCAATTTTTG-CAAAGC
*
24037340 TCTCTTTAATTTTTGCAAA
1 TCTCTTCAATTTTTGCAAA
24037359 ATAGCTCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (21 bp):
TCTCTTCAATTTTTGCAAAGC
Found at i:24038730 original size:265 final size:265
Alignment explanation
Indices: 24038245--24038772 Score: 887
Period size: 265 Copynumber: 2.0 Consensus size: 265
24038235 TTTTCACTTT
* *
24038245 TCATTTTTACATCATCGAGTGAACCACCCATATACATCCCCACTAATAATGAGGTAAAATTTATA
1 TCATTTTTACATCATCGAGTAAACCACCCATATACATCCCCACTAATAACGAGGTAAAATTTATA
**
24038310 TTAGATTTTACAATTATTATGTAGATTTAAAATATAATTGTATGCTAAAAAATTATTTAATTAGG
66 TTAGATTTTACAATTATTACATAGATTTAAAATATAATTGTATGCTAAAAAATTATTTAATTAGG
* *
24038375 TGAAACCATTCGGCGAGTTATGTTGGAATACCCATATCTCTTAAAGATATACGGCTTCTATTAGA
131 TGAAACCATTCGGCGAGTTATGTTGGAATACCCACATCTCTTAAAGATATACGACTTCTATTAGA
* * * *
24038440 CCAACGGTCGGAAGCACAGGTAAGTATTAAATAAAATATATATACATAATAAAATAGTCGTTTCA
196 CCAACGGTCGGAAACACAAGTAAGTACTAAATAAAATATATATACATAATAAAATAGTCCTTTCA
24038505 TATAG
261 TATAG
*
24038510 TCATTTTTACATCATCGAGTAAACCACCCATATACATTCCCACTAATAACGAGGTAAAATTTATA
1 TCATTTTTACATCATCGAGTAAACCACCCATATACATCCCCACTAATAACGAGGTAAAATTTATA
*
24038575 TTAGATTTTACAATTATTACATAGATTTCAAATATAATTGTATGCTAAAAAATTATTTAATTAGG
66 TTAGATTTTACAATTATTACATAGATTTAAAATATAATTGTATGCTAAAAAATTATTTAATTAGG
* * * *
24038640 TGGAACCATTCGGTGAGTTATGTTGTAATACCCACATCTCTTGAAGATATACGACTTCTATTATG
131 TGAAACCATTCGGCGAGTTATGTTGGAATACCCACATCTCTTAAAGATATACGACTTCTATTA-G
*
24038705 -CCAACGGTCGGAAACACAAGTAAGTACTAAATAAAATATATATACATAATAAAATAGTCCTTTG
195 ACCAACGGTCGGAAACACAAGTAAGTACTAAATAAAATATATATACATAATAAAATAGTCCTTTC
24038769 ATAT
260 ATAT
24038773 TTAGTATTTA
Statistics
Matches: 245, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
265 244 1.00
266 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (265 bp):
TCATTTTTACATCATCGAGTAAACCACCCATATACATCCCCACTAATAACGAGGTAAAATTTATA
TTAGATTTTACAATTATTACATAGATTTAAAATATAATTGTATGCTAAAAAATTATTTAATTAGG
TGAAACCATTCGGCGAGTTATGTTGGAATACCCACATCTCTTAAAGATATACGACTTCTATTAGA
CCAACGGTCGGAAACACAAGTAAGTACTAAATAAAATATATATACATAATAAAATAGTCCTTTCA
TATAG
Found at i:24039486 original size:18 final size:18
Alignment explanation
Indices: 24039463--24039500 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24039453 TGCCAGTTGC
*
24039463 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
24039481 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
24039499 GT
1 GT
24039501 TTTCTTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:24039755 original size:21 final size:21
Alignment explanation
Indices: 24039731--24039781 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
24039721 ATTACCAGAT
* *
24039731 TCCCTGCCGGAGGAACCACAA
1 TCCCTGCCAGAGCAACCACAA
**
24039752 TCCCCACCAGAGCAACCACAA
1 TCCCTGCCAGAGCAACCACAA
*
24039773 CCCCTGCCA
1 TCCCTGCCA
24039782 AAAGCTGAAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.47, G:0.16, T:0.08
Consensus pattern (21 bp):
TCCCTGCCAGAGCAACCACAA
Found at i:24040121 original size:132 final size:131
Alignment explanation
Indices: 24039887--24040398 Score: 839
Period size: 132 Copynumber: 3.9 Consensus size: 131
24039877 TTGTAGAAAT
* * *
24039887 TTTTTTATATAGTTTC-ATATAATAAAATAAAAATTATTTTTAATATTTTAATTATACTTTACTT
1 TTTTTTATATAGTTTCAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
*
24039951 TTTTTAATTTTATTAAAATAAATGTTCTTTGAAATTAGGCAATATTTTTTATTATTTTTATATTT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTT
24040016 AA
130 AA
24040018 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TT
* *
24040083 TTTTTAATTTTATTAAAATAAGTGTTCTTTTAAATTAGGAAATATTTTTTATTATTTTTATATTT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTT
24040148 AA
130 AA
* * * *
24040150 GTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATGTTTTAAGTGTACTTTGATTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTT-ACTT
*
24040215 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATTT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTT
24040280 AA
130 AA
*
24040282 TTTTTTATATAG-TTCAATTAATATAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* * * *
24040346 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAATTTTTATTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTA
24040399 AAATAAATGT
Statistics
Matches: 356, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
130 53 0.15
131 100 0.28
132 202 0.57
133 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (131 bp):
TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTA
A
Found at i:24040339 original size:263 final size:262
Alignment explanation
Indices: 24039888--24040398 Score: 846
Period size: 263 Copynumber: 1.9 Consensus size: 262
24039878 TGTAGAAATT
*
24039888 TTTTTATATAGTTTCATATAATAAAATAAAAATTATTTTTAATATTTTAATTATACTTTACTTTT
1 TTTTTATATAGTTTCATATAATAAAATAAAAATTATTTTTAATATTTTAAGTATACTTTACTTTT
*
24039953 TTTAATTTTATTAAAATAAATGTTCTTTGAAATTAGGCAATATTTTTTATTATTTTTATATTTAA
66 TTTAATTTTATTAAAATAAATGTTCTTTGAAATTAGACAATATTTTTTATTATTTTTATATTTAA
24040018 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
131 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TT
* * *
24040083 TTTTTAATTTTATTAAAATAAGTGTTCTTTTAAATTAGGAAATATTTTTTATTATTTTTATATTT
195 TTTTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGGAAATAATTTTTATTATTTTTATATTT
24040148 AAG
260 AAG
* * * * *
24040151 TTTTTATATAGTTTCA-ATTAATAAAATAAAAGTTGTTTTTAATGTTTTAAGTGTACTTTGATTT
1 TTTTTATATAGTTTCATA-TAATAAAATAAAAATTATTTTTAATATTTTAAGTATACTTT-ACTT
*
24040215 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATTT
64 TTTTTAATTTTATTAAAATAAATGTTCTTTGAAATTAGACAATATTTTTTATTATTTTTATATTT
*
24040280 AATTTTTTATATAG-TTCAATTAATATAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACT
129 AATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACT
* **
24040344 TTTTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAATTTTTATTA
194 TTTTTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGGAAATAATTTTTATTA
24040399 AAATAAATGT
Statistics
Matches: 231, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
262 51 0.22
263 100 0.43
264 80 0.35
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (262 bp):
TTTTTATATAGTTTCATATAATAAAATAAAAATTATTTTTAATATTTTAAGTATACTTTACTTTT
TTTAATTTTATTAAAATAAATGTTCTTTGAAATTAGACAATATTTTTTATTATTTTTATATTTAA
TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGGAAATAATTTTTATTATTTTTATATTTA
AG
Found at i:24040427 original size:39 final size:38
Alignment explanation
Indices: 24040352--24040436 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
24040342 CTTTTTTTAA
* * *
24040352 TTTTAATACAATAAATGTTCTTTTAAATTAGTCAATAAT
1 TTTTAATAAAATAAATGTTATTTTAAATTAGACAAT-AT
* *
24040391 TTTTATTAAAATAAATGTTATTTTGAA-TACGACAATAT
1 TTTTAATAAAATAAATGTTATTTTAAATTA-GACAATAT
24040429 TTTTAATA
1 TTTTAATA
24040437 TTTTTAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 11 0.28
39 28 0.72
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATTAGACAATAT
Found at i:24040438 original size:9 final size:9
Alignment explanation
Indices: 24040424--24040454 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
24040414 TGAATACGAC
24040424 AATATTTTT
1 AATATTTTT
24040433 AATATTTTT
1 AATATTTTT
24040442 AATATTTTT
1 AATATTTTT
24040451 AATA
1 AATA
24040455 AAACATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
AATATTTTT
Found at i:24044386 original size:20 final size:20
Alignment explanation
Indices: 24044361--24044415 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
24044351 ATAAATTTGA
*
24044361 AAAAAATAAAAAAATGATAT
1 AAAAAATAAAAAAATGACAT
* * *
24044381 AAAAAATCAAAATATTACAT
1 AAAAAATAAAAAAATGACAT
* *
24044401 AAAAATTGAAAAAAT
1 AAAAAATAAAAAAAT
24044416 ATAAATATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAAATAAAAAAATGACAT
Found at i:24044413 original size:21 final size:21
Alignment explanation
Indices: 24044389--24044454 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
24044379 ATAAAAAATC
*
24044389 AAAATATTACATAAAAATTGA
1 AAAATATTAAATAAAAATTGA
* *
24044410 AAAA-ATATAAATATAAATTTAA
1 AAAATAT-TAAATA-AAAATTGA
*
24044432 AAAATATTATATAAAAATTGA
1 AAAATATTAAATAAAAATTGA
24044453 AA
1 AA
24044455 TTTTTTCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 17 0.47
22 15 0.42
23 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (21 bp):
AAAATATTAAATAAAAATTGA
Found at i:24044417 original size:22 final size:22
Alignment explanation
Indices: 24044389--24044454 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
24044379 ATAAAAAATC
*
24044389 AAAATATTACATAAAAATTGAA
1 AAAATATTAAATAAAAATTGAA
* *
24044411 AAAATA-TAAATATAAATTTAA
1 AAAATATTAAATAAAAATTGAA
*
24044432 AAAATATTATATAAAAATTGAA
1 AAAATATTAAATAAAAATTGAA
24044454 A
1 A
24044455 TTTTTTCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (22 bp):
AAAATATTAAATAAAAATTGAA
Found at i:24044553 original size:2 final size:2
Alignment explanation
Indices: 24044546--24044572 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24044536 AAACATCATA
24044546 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24044573 AAGTTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24044962 original size:32 final size:30
Alignment explanation
Indices: 24044892--24045057 Score: 132
Period size: 29 Copynumber: 5.6 Consensus size: 30
24044882 AATTTGACCA
*
24044892 TTTTTCAATTTTATATAATA-TTTT-GATT
1 TTTTTCAATTTTATATAATATTTTTAAATT
* *
24044920 TTTTTAAATTTATACATAAATATTTTTAAATT
1 TTTTTCAATTT-TATAT-AATATTTTTAAATT
24044952 TTTTTCAATTTTTATATAATATTTTT--ATT
1 TTTTTCAA-TTTTATATAATATTTTTAAATT
** *
24044981 TTTTAAAATTTTA-ATTATATATTATT-AA-T
1 TTTTTCAATTTTATA-TA-ATATTTTTAAATT
* * *
24045010 TTTTTAAATTTTTTA-AATTTTTTTAAATT
1 TTTTTCAATTTTATATAATATTTTTAAATT
24045039 TTTTTCAACTATTTATATA
1 TTTTTCAA-T-TTTATATA
24045058 TTTTATATGA
Statistics
Matches: 110, Mismatches: 14, Indels: 24
0.74 0.09 0.16
Matches are distributed among these distances:
27 7 0.06
28 20 0.18
29 40 0.36
30 7 0.06
31 18 0.16
32 15 0.14
33 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (30 bp):
TTTTTCAATTTTATATAATATTTTTAAATT
Found at i:24045003 original size:60 final size:59
Alignment explanation
Indices: 24044892--24045034 Score: 170
Period size: 61 Copynumber: 2.5 Consensus size: 59
24044882 AATTTGACCA
* * *
24044892 TTTTTCAA-TTTTATATAATATTTTGATTTTTTTAAATTTATACATAAATATTTTTAAATT
1 TTTTTCAATTTTTATATAATATTTTTATTTTTTAAAATTTATACATAAATATTATT-AA-T
*
24044952 TTTTTCAATTTTTATATAATATTTTTATTTTTTAAAATTT-TA-ATTATATATTATTAAT
1 TTTTTCAATTTTTATATAATATTTTTATTTTTTAAAATTTATACA-TAAATATTATTAAT
* *
24045010 TTTTTAAATTTTT-TA-AATTTTTTTA
1 TTTTTCAATTTTTATATAATATTTTTA
24045035 AATTTTTTTC
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
56 9 0.12
57 2 0.03
58 13 0.17
59 3 0.04
60 19 0.25
61 29 0.39
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.64
Consensus pattern (59 bp):
TTTTTCAATTTTTATATAATATTTTTATTTTTTAAAATTTATACATAAATATTATTAAT
Found at i:24045043 original size:10 final size:10
Alignment explanation
Indices: 24044917--24045043 Score: 84
Period size: 10 Copynumber: 12.8 Consensus size: 10
24044907 TAATATTTTG
24044917 ATTTTTTTAA
1 ATTTTTTTAA
**
24044927 ATTTATACATAA
1 ATTT-T-TTTAA
*
24044939 ATATTTTTAA
1 ATTTTTTTAA
*
24044949 ATTTTTTTCA
1 ATTTTTTTAA
*
24044959 ATTTTTATATA
1 ATTTTTTTA-A
*
24044970 ATATTTTT--
1 ATTTTTTTAA
*
24044978 ATTTTTTAAA
1 ATTTTTTTAA
* *
24044988 ATTTTAATTAT
1 ATTTT-TTTAA
* *
24044999 ATATTATT-A
1 ATTTTTTTAA
24045008 A-TTTTTTAA
1 ATTTTTTTAA
24045017 A-TTTTTTAA
1 ATTTTTTTAA
24045026 ATTTTTTTAA
1 ATTTTTTTAA
24045036 ATTTTTTT
1 ATTTTTTT
24045044 CAACTATTTA
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
8 10 0.11
9 12 0.13
10 46 0.52
11 15 0.17
12 6 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:24045886 original size:22 final size:23
Alignment explanation
Indices: 24045859--24045903 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24045849 TGATATCTAC
24045859 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
24045881 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
24045904 TATCATATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:24045908 original size:22 final size:21
Alignment explanation
Indices: 24045856--24045919 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
24045846 AAATGATATC
*
24045856 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
24045877 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
24045900 TACATATCATATC-C-AAGAT
1 TACAAATCATATCTCTAAGAT
24045919 T
1 T
24045920 GCATATCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.15
20 1 0.03
21 3 0.08
22 18 0.46
23 11 0.28
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:24048003 original size:7 final size:7
Alignment explanation
Indices: 24047991--24048015 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24047981 ATTGATGTGC
24047991 TATTATT
1 TATTATT
24047998 TATTATT
1 TATTATT
24048005 TATTATT
1 TATTATT
24048012 TATT
1 TATT
24048016 TTTGTTGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTATT
Found at i:24049568 original size:22 final size:23
Alignment explanation
Indices: 24049541--24049585 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24049531 GGATATCTAC
*
24049541 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAAATTACA
*
24049563 AAATCATATCTTCTAAAATTACA
1 AAATCAAATCTTCTAAAATTACA
24049586 TATCATATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAAATTACA
Found at i:24049590 original size:22 final size:21
Alignment explanation
Indices: 24049538--24049594 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
24049528 AAAGGATATC
* *
24049538 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAAAT
24049559 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAAAT
*
24049582 TACATATCATATC
1 TACAAATCATATC
24049595 CAAGATTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:24050670 original size:16 final size:16
Alignment explanation
Indices: 24050637--24050678 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
24050627 AAAGAAAAAC
* *
24050637 AAGAGAA-GCAGAATA
1 AAGAGAAGGAAGAAGA
*
24050652 AAGAGAGGGAAGAAGA
1 AAGAGAAGGAAGAAGA
24050668 AAGAGAAGGAA
1 AAGAGAAGGAA
24050679 AAAAATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (16 bp):
AAGAGAAGGAAGAAGA
Found at i:24051462 original size:9 final size:9
Alignment explanation
Indices: 24051448--24051486 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
24051438 TATTGCCATG
24051448 TTATTTTTA
1 TTATTTTTA
*
24051457 TTATTTTAA
1 TTATTTTTA
24051466 TATATATTTTA
1 T-TAT-TTTTA
24051477 TTATTTTTA
1 TTATTTTTA
24051486 T
1 T
24051487 GTAAGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 15 0.58
10 6 0.23
11 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTATTTTTA
Found at i:24054668 original size:93 final size:93
Alignment explanation
Indices: 24054509--24054724 Score: 423
Period size: 93 Copynumber: 2.3 Consensus size: 93
24054499 TATTAATCGT
24054509 TTGAATTGACATAGGGATATGTAAGAGATTGGTTCAATTTAATGGGTATGTATGTGTAATAACAT
1 TTGAATTGACATAGGGATATGTAAGAGATTGGTTCAATTTAATGGGTATGTATGTGTAATAACAT
24054574 GTTTGCTTACTAGAATCTGTTTAGTCGG
66 GTTTGCTTACTAGAATCTGTTTAGTCGG
24054602 TTGAATTGACATAGGGATATGTAAGAGATTGGTTCAATTTAATGGGTATGTATGTGTAATAACAT
1 TTGAATTGACATAGGGATATGTAAGAGATTGGTTCAATTTAATGGGTATGTATGTGTAATAACAT
24054667 GTTTGCTTACTAGAATCTGTTTAGTCGG
66 GTTTGCTTACTAGAATCTGTTTAGTCGG
24054695 TTGAATTGACATAGGGATATGTCAAGAGAT
1 TTGAATTGACATAGGGATATGT-AAGAGAT
24054725 GGATGGGTTT
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 115 0.94
94 7 0.06
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (93 bp):
TTGAATTGACATAGGGATATGTAAGAGATTGGTTCAATTTAATGGGTATGTATGTGTAATAACAT
GTTTGCTTACTAGAATCTGTTTAGTCGG
Found at i:24055347 original size:18 final size:19
Alignment explanation
Indices: 24055326--24055367 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
24055316 GATATATAGG
24055326 CAGAGCCT-GAGCCAGAGC
1 CAGAGCCTAGAGCCAGAGC
*
24055344 CAGAG-CTAGAGCCCGAGC
1 CAGAGCCTAGAGCCAGAGC
*
24055362 CCGAGC
1 CAGAGC
24055368 TGTCGCATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.26, C:0.36, G:0.33, T:0.05
Consensus pattern (19 bp):
CAGAGCCTAGAGCCAGAGC
Found at i:24055944 original size:14 final size:14
Alignment explanation
Indices: 24055925--24055953 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24055915 TGGAACAAAC
24055925 TTTGTAATATAAAT
1 TTTGTAATATAAAT
24055939 TTTGTAATATAAAT
1 TTTGTAATATAAAT
24055953 T
1 T
24055954 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:24055974 original size:62 final size:62
Alignment explanation
Indices: 24055896--24056063 Score: 291
Period size: 62 Copynumber: 2.7 Consensus size: 62
24055886 ATTAATTGCA
* *
24055896 ACATTACAACACTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
* *
24055958 ACATTACAATATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
*
24056020 ACATTACAACATTAAAAATTGGAACAAAGTTTGTAATATAAATT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
24056064 AGGTACATCG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 100 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (62 bp):
ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
Found at i:24060259 original size:72 final size:71
Alignment explanation
Indices: 24060142--24060289 Score: 228
Period size: 72 Copynumber: 2.1 Consensus size: 71
24060132 TGGACTATTA
* *
24060142 TTAGTTTTGGTGGTTTCAGTTTAATCATGAATTATGACTAATTTTGGAGTTTGGTTTGTC-GATT
1 TTAGTTTTGCTGGTTTCAGTTTAATCATGAATTATGACTAATTTTGGAGTTTGGTTTATCAG-TT
24060206 TTAGGTT
65 TTAGGTT
*
24060213 GTTAGTTTTGCTGGTTTC-GATTTAATCATGAATTATGACTGATTTTGGAGTTTGGTTTATCAGT
1 -TTAGTTTTGCTGGTTTCAG-TTTAATCATGAATTATGACTAATTTTGGAGTTTGGTTTATCAGT
24060277 TTTAGGTT
64 TTTAGGTT
24060285 TTAGT
1 TTAGT
24060290 GATCTCGGGT
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
71 6 0.08
72 64 0.90
73 1 0.01
ACGTcount: A:0.20, C:0.06, G:0.24, T:0.51
Consensus pattern (71 bp):
TTAGTTTTGCTGGTTTCAGTTTAATCATGAATTATGACTAATTTTGGAGTTTGGTTTATCAGTTT
TAGGTT
Found at i:24060801 original size:13 final size:13
Alignment explanation
Indices: 24060762--24060806 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
24060752 TCAAGCATGA
*
24060762 TATTTCTGTATCTA
1 TATTT-TGTATCTG
* *
24060776 TATATTGTTTCTG
1 TATTTTGTATCTG
24060789 TATTTTGTATCTG
1 TATTTTGTATCTG
24060802 TATTT
1 TATTT
24060807 GGGGTGGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.18, C:0.09, G:0.11, T:0.62
Consensus pattern (13 bp):
TATTTTGTATCTG
Found at i:24064051 original size:10 final size:10
Alignment explanation
Indices: 24064035--24064120 Score: 60
Period size: 9 Copynumber: 9.0 Consensus size: 10
24064025 AAATTAGAAA
24064035 ATTATAAAAT
1 ATTATAAAAT
*
24064045 CTTAT-AAAT
1 ATTATAAAAT
24064054 ATTATAAAA-
1 ATTATAAAAT
*
24064063 ATTCTAATAA-
1 ATTATAA-AAT
24064073 ATTATAAAA-
1 ATTATAAAAT
*
24064082 AATATAAAAT
1 ATTATAAAAT
*
24064092 -TAATAAAACTT
1 ATTATAAAA--T
24064103 ATT-TAAAAT
1 ATTATAAAAT
24064112 ATT-TAAAAT
1 ATTATAAAAT
24064121 TAGGAAAAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
9 40 0.65
10 15 0.24
11 6 0.10
12 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:24064058 original size:9 final size:9
Alignment explanation
Indices: 24063993--24064104 Score: 75
Period size: 9 Copynumber: 12.1 Consensus size: 9
24063983 TAAGAAATAT
*
24063993 TAAATATTA
1 TAAAAATTA
*
24064002 CAAAAATTGA
1 TAAAAATT-A
24064012 TACAAAATTA
1 TA-AAAATTA
**
24064022 TTTAAATTA
1 TAAAAATTA
*
24064031 -GAAAATTA
1 TAAAAATTA
*
24064039 TAAAATCTTA
1 TAAAA-ATTA
*
24064049 TAAATATTA
1 TAAAAATTA
*
24064058 TAAAAATTC
1 TAAAAATTA
24064067 TAATAAATTA
1 TAA-AAATTA
*
24064077 TAAAAAATA
1 TAAAAATTA
24064086 T-AAAATTAA
1 TAAAAATT-A
*
24064095 TAAAACTTA
1 TAAAAATTA
24064104 T
1 T
24064105 TTAAAATATT
Statistics
Matches: 79, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
8 11 0.14
9 38 0.48
10 24 0.30
11 6 0.08
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (9 bp):
TAAAAATTA
Found at i:24064063 original size:28 final size:26
Alignment explanation
Indices: 24064032--24064122 Score: 74
Period size: 28 Copynumber: 3.3 Consensus size: 26
24064022 TTTAAATTAG
* *
24064032 AAAATTATAAAATCTTATAAATATTAT
1 AAAATTATAAAA-CTTATAAAAAATAT
* *
24064059 AAAAATTCTAATAAATTATAAAAAATAT
1 -AAAATTATAA-AACTTATAAAAAATAT
* *
24064087 AAAATTAATAAAACTTATTTAAAATATTT
1 AAAATT-ATAAAACTTA--TAAAAAATAT
24064116 AAAATTA
1 AAAATTA
24064123 GGAAAAACAT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.22
28 24 0.47
29 16 0.31
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATTATAAAACTTATAAAAAATAT
Found at i:24064076 original size:19 final size:19
Alignment explanation
Indices: 24064032--24064099 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
24064022 TTTAAATTAG
*
24064032 AAAATTAT-AAAATCTTAT
1 AAAATTATAAAAATCTAAT
24064050 AAATATTATAAAAATTCTAAT
1 AAA-ATTATAAAAA-TCTAAT
*
24064071 -AAATTATAAAAA-AT-AT
1 AAAATTATAAAAATCTAAT
24064087 AAAATTAATAAAA
1 AAAATT-ATAAAA
24064100 CTTATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
16 2 0.05
17 6 0.14
18 9 0.21
19 15 0.35
20 6 0.14
21 5 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTATAAAAATCTAAT
Found at i:24064119 original size:29 final size:29
Alignment explanation
Indices: 24064077--24064186 Score: 86
Period size: 29 Copynumber: 3.8 Consensus size: 29
24064067 TAATAAATTA
* * *
24064077 TAAAAAATATAAAATTAATAAAACTTATT
1 TAAAATATTTAAAATTAATAAAACATATT
24064106 TAAAATATTTAAAATTAGGA-AAAACAT-TT
1 TAAAATATTTAAAATTA--ATAAAACATATT
** *
24064135 TGGAAT-TCTTAAAAATAATAAAA-ATATT
1 TAAAATAT-TTAAAATTAATAAAACATATT
*
24064163 TAAAATA-TTAAAATTCATATAAAC
1 TAAAATATTTAAAATTAATA-AAAC
24064187 TTACAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
27 13 0.21
28 14 0.22
29 29 0.46
30 6 0.10
31 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.35
Consensus pattern (29 bp):
TAAAATATTTAAAATTAATAAAACATATT
Found at i:24072531 original size:21 final size:20
Alignment explanation
Indices: 24072494--24072535 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
24072484 TACTCAAGGA
*
24072494 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
24072515 AAGCCGAATTCAT-CATCAAG
1 AAGCCG-ATTCATCCATCAAG
24072535 A
1 A
24072536 CTGAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:24076250 original size:46 final size:45
Alignment explanation
Indices: 24076103--24076317 Score: 134
Period size: 46 Copynumber: 4.6 Consensus size: 45
24076093 TGTGAGCTAC
* * * * *
24076103 TGTAAGACATGTCTGAGACATGCATGGGCC-ACATTATGA-GAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTAC--GA-GACGTGTCAG
* * * * * *
24076149 TGTAAGACCATGTTTGGGACATGGGATCGACAT-TGAGACGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGACGTGT-C-AG
*
24076197 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGTCAT
1 TGTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGT--GTCAG
** * * *
24076243 TGTAAGACATGTCCAGAACATGCATC-GACTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGTGTCAG
*
24076287 TGTAAGACCATGTCTGAGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
24076318 ACAGATATGC
Statistics
Matches: 130, Mismatches: 27, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
44 11 0.08
45 15 0.12
46 60 0.46
47 28 0.22
48 16 0.12
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGTGTCAG
Found at i:24079451 original size:21 final size:20
Alignment explanation
Indices: 24079437--24079495 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
24079427 TTTTTATGGA
*
24079437 TTTTTATAGAATTTTAATATG
1 TTTTTATAAAATTTT-ATATG
24079458 TTTTTATAAAATTTTAAATATG
1 TTTTTATAAAATTTT--ATATG
*
24079480 -TTTTAT-TAATTTTATA
1 TTTTTATAAAATTTTATA
24079496 ATTTATTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 3 0.09
20 6 0.17
21 20 0.57
22 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTTATAAAATTTTATATG
Found at i:24079477 original size:22 final size:21
Alignment explanation
Indices: 24079437--24079483 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
24079427 TTTTTATGGA
*
24079437 TTTTTATAGAATTTTAATATG
1 TTTTTATAAAATTTTAATATG
24079458 TTTTTATAAAATTTTAAATATG
1 TTTTTATAAAATTTT-AATATG
24079480 TTTT
1 TTTT
24079484 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (21 bp):
TTTTTATAAAATTTTAATATG
Found at i:24079528 original size:9 final size:9
Alignment explanation
Indices: 24079480--24079530 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
24079470 TTTAAATATG
24079480 TTTTATTAA-
1 TTTTA-TAAT
24079489 TTTTATAAT
1 TTTTATAAT
* *
24079498 TTATTAGATT
1 TT-TTATAAT
24079508 TTTTAT-AT
1 TTTTATAAT
24079516 TTTTATAAT
1 TTTTATAAT
24079525 TTTTAT
1 TTTTAT
24079531 GAGTCCATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 10 0.29
9 18 0.51
10 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24079598 original size:17 final size:18
Alignment explanation
Indices: 24079577--24079618 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
24079567 AATTTAAATA
*
24079577 ATTTTT-TATATTTTAT-
1 ATTTTTATAAATTTTATG
24079593 ATTTTTATAAATTTTATG
1 ATTTTTATAAATTTTATG
24079611 ATTTTTAT
1 ATTTTTAT
24079619 TCATTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 8 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTTTATAAATTTTATG
Done.