Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 213 of 222
Found at i:67321282 original size:27 final size:26
Alignment explanation
Indices: 67321240--67321308 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
67321230 TTATAATCAT
67321240 TTTTATA-ATTTATATATATATCTGCAA
1 TTTTATATATTT-TATA-ATATCTGCAA
* *
67321267 TTTTATATATTTTATAATTTTTGCAA
1 TTTTATATATTTTATAATATCTGCAA
67321293 TTTT-TATATTTTATAA
1 TTTTATATATTTTATAA
67321309 AATAATTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 12 0.31
26 12 0.31
27 11 0.28
28 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTTATATATTTTATAATATCTGCAA
Found at i:67323163 original size:27 final size:27
Alignment explanation
Indices: 67323072--67323191 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
67323062 TTAAAGGAAG
67323072 TGGTGAC-ATCGGAGGTGGCAATGGTAC
1 TGGTGACAAT-GGAGGTGGCAATGGTAC
* * * *
67323099 CGGT-AAATATGCAGATGGCAATGGTAC
1 TGGTGACA-ATGGAGGTGGCAATGGTAC
* * *
67323126 TGGTAAAAATGGAGGTGGCAATGGTAT
1 TGGTGACAATGGAGGTGGCAATGGTAC
* *
67323153 TGGCGACAATGGAGGTAGCAATGGTAC
1 TGGTGACAATGGAGGTGGCAATGGTAC
67323180 TGGTGACAATGG
1 TGGTGACAATGG
67323192 TATTGGCGAC
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 70 0.92
28 5 0.07
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.23
Consensus pattern (27 bp):
TGGTGACAATGGAGGTGGCAATGGTAC
Found at i:67323164 original size:42 final size:41
Alignment explanation
Indices: 67323127--67323210 Score: 118
Period size: 42 Copynumber: 2.1 Consensus size: 41
67323117 CAATGGTACT
*
67323127 GGTAAAAATGG-A-GGTGGCAATGGTATTGGCGACAATGGA
1 GGTAAAAATGGTACGGTGACAATGGTATTGGCGACAATGGA
**
67323166 GGTAGCAATGGTACTGGTGACAATGGTATTGGCGACAATGGA
1 GGTAAAAATGGTAC-GGTGACAATGGTATTGGCGACAATGGA
67323208 GGT
1 GGT
67323211 GGCAATGGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 9 0.23
40 1 0.03
42 29 0.74
ACGTcount: A:0.30, C:0.10, G:0.38, T:0.23
Consensus pattern (41 bp):
GGTAAAAATGGTACGGTGACAATGGTATTGGCGACAATGGA
Found at i:67323216 original size:42 final size:42
Alignment explanation
Indices: 67323139--67323226 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
67323129 TAAAAATGGA
*
67323139 GGTGGCAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
1 GGTGACAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
* *
67323181 GGTGACAATGGTATTGGCGACAATGGAGGTGGCAATGGTATT
1 GGTGACAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
67323223 GGTG
1 GGTG
67323227 GAAATGGAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.10, G:0.40, T:0.25
Consensus pattern (42 bp):
GGTGACAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
Found at i:67323226 original size:15 final size:15
Alignment explanation
Indices: 67323139--67323233 Score: 76
Period size: 15 Copynumber: 6.7 Consensus size: 15
67323129 TAAAAATGGA
67323139 GGTGGCAATGGTATT
1 GGTGGCAATGGTATT
* *
67323154 GGCGACAATGG-A--
1 GGTGGCAATGGTATT
* *
67323166 GGTAGCAATGGTACT
1 GGTGGCAATGGTATT
*
67323181 GGTGACAATGGTATT
1 GGTGGCAATGGTATT
* *
67323196 GGCGACAATGG-A--
1 GGTGGCAATGGTATT
67323208 GGTGGCAATGGTATT
1 GGTGGCAATGGTATT
*
67323223 GGTGGAAATGG
1 GGTGGCAATGG
67323234 AGGTGGCACT
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
12 17 0.27
13 2 0.03
14 2 0.03
15 41 0.66
ACGTcount: A:0.26, C:0.09, G:0.40, T:0.24
Consensus pattern (15 bp):
GGTGGCAATGGTATT
Found at i:67323239 original size:27 final size:27
Alignment explanation
Indices: 67323181--67323241 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
67323171 CAATGGTACT
*
67323181 GGTGACAATGGTATTGGCGACAATGGA
1 GGTGGCAATGGTATTGGCGACAATGGA
*
67323208 GGTGGCAATGGTATTGGTGGA-AATGGA
1 GGTGGCAATGGTATTGG-CGACAATGGA
67323235 GGTGGCA
1 GGTGGCA
67323242 CTTGCTGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.43, T:0.23
Consensus pattern (27 bp):
GGTGGCAATGGTATTGGCGACAATGGA
Found at i:67326251 original size:30 final size:30
Alignment explanation
Indices: 67326207--67326299 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
67326197 TTTCTTATGT
* *
67326207 CAATATCTCGATACCCATATCTTTGATTTTC
1 CAATAT-TTGATACCCATATCTTTGACTTTC
*
67326238 CAATATTTGATACCTATATCTTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTC
* * *
67326268 CATTATTTGATAACCATATATTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTC
67326298 CA
1 CA
67326300 TAAATACGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 49 0.89
31 6 0.11
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (30 bp):
CAATATTTGATACCCATATCTTTGACTTTC
Found at i:67326276 original size:15 final size:16
Alignment explanation
Indices: 67326221--67326301 Score: 64
Period size: 15 Copynumber: 5.3 Consensus size: 16
67326211 ATCTCGATAC
* *
67326221 CCATATCTTTGATTTT
1 CCATATATTTGACTTT
*
67326237 CCA-ATATTTGA--TA
1 CCATATATTTGACTTT
*
67326250 CCTATATCTTTGACTTT
1 CC-ATATATTTGACTTT
**
67326267 CCAT-TATTTGA-TAA
1 CCATATATTTGACTTT
67326281 CCATATATTTGACTTT
1 CCATATATTTGACTTT
67326297 CCATA
1 CCATA
67326302 AATACGGATG
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
13 3 0.06
14 6 0.12
15 27 0.54
16 11 0.22
17 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (16 bp):
CCATATATTTGACTTT
Found at i:67330939 original size:15 final size:16
Alignment explanation
Indices: 67330885--67330964 Score: 64
Period size: 15 Copynumber: 5.3 Consensus size: 16
67330875 ATCTCGATAC
67330885 CCATATATTTGA-TTT
1 CCATATATTTGACTTT
* *
67330900 TCA-ATATTTGA--TA
1 CCATATATTTGACTTT
*
67330913 CACATATCTTTGACTTT
1 C-CATATATTTGACTTT
**
67330930 CCAT-TATTTGA-TAA
1 CCATATATTTGACTTT
67330944 CCATATATTTGACTTT
1 CCATATATTTGACTTT
67330960 CCATA
1 CCATA
67330965 AATACGGATG
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
13 1 0.02
14 15 0.31
15 22 0.45
16 9 0.18
17 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.46
Consensus pattern (16 bp):
CCATATATTTGACTTT
Found at i:67330961 original size:30 final size:30
Alignment explanation
Indices: 67330880--67330963 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
67330870 CCAATATCTC
* * *
67330880 GATACCCATATATTTGA-TTTTCAATATTT
1 GATAACCATATATTTGACTTTCCATTATTT
*
67330909 GAT-ACACATATCTTTGACTTTCCATTATTT
1 GATAAC-CATATATTTGACTTTCCATTATTT
67330939 GATAACCATATATTTGACTTTCCAT
1 GATAACCATATATTTGACTTTCCAT
67330964 AAATACGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.02
29 13 0.28
30 31 0.66
31 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (30 bp):
GATAACCATATATTTGACTTTCCATTATTT
Found at i:67331425 original size:30 final size:31
Alignment explanation
Indices: 67331390--67331447 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
67331380 TATTAAACTA
*
67331390 TATAAAAG-TGCACAAAATTATA-AAATTTAG
1 TATAAAAGATACA-AAAATTATATAAATTTAG
*
67331420 TATAAATGATACAAAAATTATATAAATT
1 TATAAAAGATACAAAAATTATATAAATT
67331448 ATTAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (31 bp):
TATAAAAGATACAAAAATTATATAAATTTAG
Found at i:67333206 original size:27 final size:27
Alignment explanation
Indices: 67333168--67333320 Score: 97
Period size: 27 Copynumber: 5.8 Consensus size: 27
67333158 AGGAGGTTAC
67333168 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATTAAGAATTTAAATT
* *
67333195 AAATTAGGATAATT-AGAGTTTTAAATT
1 AAATTAAGATAATTAAGA-ATTTAAATT
* *
67333222 AGA-TAAGATAATTAGGAATTT-AATT
1 AAATTAAGATAATTAAGAATTTAAATT
* * * *
67333247 -AA-TAGGTTAAATAA-AATTTTAGATTT
1 AAATTAAGATAATTAAGAA-TTTA-AATT
* * * *
67333273 TAGTTAAGATAATTAATAGTTTAAATT
1 AAATTAAGATAATTAAGAATTTAAATT
*
67333300 AAATT-GGTATAATTAA-AATTT
1 AAATTAAG-ATAATTAAGAATTT
67333321 TAATATATTT
Statistics
Matches: 95, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
23 2 0.02
24 12 0.13
25 4 0.04
26 23 0.24
27 40 0.42
28 13 0.14
29 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.41
Consensus pattern (27 bp):
AAATTAAGATAATTAAGAATTTAAATT
Found at i:67333236 original size:26 final size:28
Alignment explanation
Indices: 67333168--67333248 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 28
67333158 AGGAGGTTAC
67333168 AAATTAAGATAATTA-AGAATTTAAATT
1 AAATTAAGATAATTAGAGAATTTAAATT
* *
67333195 AAATTAGGATAATTAGAG-TTTTAAATT
1 AAATTAAGATAATTAGAGAATTTAAATT
*
67333222 AGA-TAAGATAATTAG-GAATTT-AATT
1 AAATTAAGATAATTAGAGAATTTAAATT
67333247 AA
1 AA
67333249 TAGGTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
25 6 0.13
26 14 0.30
27 24 0.52
28 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (28 bp):
AAATTAAGATAATTAGAGAATTTAAATT
Found at i:67333296 original size:52 final size:55
Alignment explanation
Indices: 67333172--67333322 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 55
67333162 GGTTACAAAT
* * * *
67333172 TAAGATAATTAAGAATTTAAATTAAATTAGG-ATAATTAGAGTTTTA-A-ATTAGA
1 TAAGATAATTAAGAATTTAAATTAAA-TAGGTATAAATAAAATTTTAGATTTTAGA
* *
67333225 TAAGATAATTAGGAATTT-AATT-AATAGGT-TAAATAAAATTTTAGATTTTAGT
1 TAAGATAATTAAGAATTTAAATTAAATAGGTATAAATAAAATTTTAGATTTTAGA
* * * *
67333277 TAAGATAATTAATAGTTTAAATTAAATTGGTATAATTAAAATTTTA
1 TAAGATAATTAAGAATTTAAATTAAATAGGTATAAATAAAATTTTA
67333323 ATATATTTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
50 15 0.19
51 3 0.04
52 23 0.28
53 21 0.26
54 6 0.07
55 13 0.16
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (55 bp):
TAAGATAATTAAGAATTTAAATTAAATAGGTATAAATAAAATTTTAGATTTTAGA
Found at i:67334415 original size:168 final size:168
Alignment explanation
Indices: 67334137--67334477 Score: 533
Period size: 168 Copynumber: 2.0 Consensus size: 168
67334127 CTTTGGGAAC
* * *
67334137 TCATGTTTATGTTCGTTACCCTCATCTTGCTTTTTCTTGTATTCGGGTATTTCCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGAC
* *
67334202 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTAGGGAACTCGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTAGGGAACTCGAGATTTTCTTTCTCGTACT
*
67334267 CTTCGTGCT-CTTTCGATTCGCGTGATTCGTGGTACTCT
131 CTTCGTGCTCCTTT-GATTCGCGTGACTCGTGGTACTCT
* *
67334305 TCATGTTTATGTTCCTTGCCCTCATCTTG-TTTTACCTTGTACTCGGGTATTTTCGGATATTCGA
1 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTT-CCTTGTACTCGGGTATTTCCGGATATTCGA
* *
67334369 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAACTCGAGATTTTCTTTCTCGTAC
65 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTAGGGAACTCGAGATTTTCTTTCTCGTAC
** *
67334434 TCTTTTTGCTCCTTTGATTCGTGTGACTCGTGGTACTCT
130 TCTTCGTGCTCCTTTGATTCGCGTGACTCGTGGTACTCT
67334473 TCATG
1 TCATG
67334478 CTGTTTGCAG
Statistics
Matches: 158, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
167 4 0.03
168 150 0.95
169 4 0.03
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.46
Consensus pattern (168 bp):
TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGAC
TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTAGGGAACTCGAGATTTTCTTTCTCGTACT
CTTCGTGCTCCTTTGATTCGCGTGACTCGTGGTACTCT
Found at i:67342046 original size:6 final size:6
Alignment explanation
Indices: 67342035--67342062 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
67342025 TTTCAAATGC
67342035 AGATAT AGATAT AGATAT AGATAT AGAT
1 AGATAT AGATAT AGATAT AGATAT AGAT
67342063 CCTACCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (6 bp):
AGATAT
Found at i:67343658 original size:15 final size:15
Alignment explanation
Indices: 67343638--67343666 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
67343628 ACTCTTGGTT
67343638 TACTAACCCAATTTA
1 TACTAACCCAATTTA
67343653 TACTAACCCAATTT
1 TACTAACCCAATTT
67343667 TTGAGATGTG
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:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
TACTAACCCAATTTA
Found at i:67346564 original size:22 final size:22
Alignment explanation
Indices: 67346539--67346581 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
67346529 CGTTCTTCTG
*
67346539 AAAATAGACTAAAT-TTTTAAAA
1 AAAATA-AATAAATGTTTTAAAA
67346561 AAAATAAATAAATGTTTTAAA
1 AAAATAAATAAATGTTTTAAA
67346582 TTCGACTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAATAAATAAATGTTTTAAAA
Found at i:67346738 original size:26 final size:26
Alignment explanation
Indices: 67346663--67346741 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
67346653 AGGAGGTTAC
*
67346663 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
* * *
67346690 AAATTAGGATATTTAGATTTTTAATTT
1 AAATTAAGATAATTAGA-ATTTAATTT
*
67346717 AGA-TAAGATAATTAGGAATTTAATT
1 AAATTAAGATAATTA-GAATTTAATT
67346742 AATAGGTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (26 bp):
AAATTAAGATAATTAGAATTTAATTT
Found at i:67347887 original size:168 final size:168
Alignment explanation
Indices: 67347609--67348287 Score: 1133
Period size: 168 Copynumber: 4.0 Consensus size: 168
67347599 CTTTTGGAAC
*
67347609 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTATTCGGGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
* ** *
67347674 TTCGTGTTTCTCATGCTCTTTAGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
*
67347739 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCA
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
*
67347777 TCATGTTTATGTTCCTTGCCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
* * ** *
67347842 TTCATGTTTCTCGTGCTCTTTGGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
*
67347907 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCC
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
* *
67347945 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
*
67348010 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* * *
67348075 CTTCGTGCTCCTTCGATTCGCGTGATTCGTGGTACTCT
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
*
67348113 TCATGTTTATGTTCCTTACCCTCATCTTGGTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
* * *
67348178 TTTGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTGGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* *
67348243 CTTCGTGCTCCTTCGATTTGTGTGACTCGTGGTACTCT
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
67348281 TCATGTT
1 TCATGTT
67348288 GCTTGCACGG
Statistics
Matches: 485, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 485 1.00
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.46
Consensus pattern (168 bp):
TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
Found at i:67349098 original size:10 final size:10
Alignment explanation
Indices: 67349083--67349110 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
67349073 AATTTCCATA
67349083 AAATTATGAT
1 AAATTATGAT
67349093 AAATTATGAT
1 AAATTATGAT
67349103 AAATTATG
1 AAATTATG
67349111 TATTAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (10 bp):
AAATTATGAT
Found at i:67351508 original size:27 final size:27
Alignment explanation
Indices: 67351473--67351531 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
67351463 GGGCCAAAAG
*
67351473 TGTGAATTTAGAGATAAAATGGGCCAA
1 TGTGCATTTAGAGATAAAATGGGCCAA
67351500 TGTGCATTTAGAGATAAAATGGGCCAA
1 TGTGCATTTAGAGATAAAATGGGCCAA
67351527 TGTGC
1 TGTGC
67351532 GACACAGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (27 bp):
TGTGCATTTAGAGATAAAATGGGCCAA
Found at i:67351650 original size:15 final size:15
Alignment explanation
Indices: 67351625--67351659 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
67351615 AACTCTATTT
*
67351625 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
67351639 TAATTAATATTAAGA
1 TAATTAATATTAAGA
67351654 TAATTA
1 TAATTA
67351660 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:67351702 original size:10 final size:10
Alignment explanation
Indices: 67351684--67351731 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
67351674 ATTTTAGTAT
67351684 TTTAT-TTTA
1 TTTATCTTTA
67351693 TTTATCTTTA
1 TTTATCTTTA
67351703 TTTATCTTTA
1 TTTATCTTTA
* ** *
67351713 ATTAAATGTA
1 TTTATCTTTA
67351723 TTTATCTTT
1 TTTATCTTT
67351732 TGGGAGTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:67354028 original size:82 final size:82
Alignment explanation
Indices: 67353891--67354055 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
67353881 TGGTTCAAAA
67353891 TTTTATGGGCCAACAAAGCTATCTTAGTTTATAATAAGATTGAACTTTCACCTTGGGGTCAAAGG
1 TTTTATGGGCCAACAAAGCTATCTTAGTTTATAATAAGATTGAACTTTCACCTTGGGGTCAAAGG
67353956 CAACTTTCACCTCGGGG
66 CAACTTTCACCTCGGGG
67353973 TTTTATGGGCCAACAAAGCTATCTTAGTTTATAATAAGATTGAACTTTCACCTTGGGGTCAAAGG
1 TTTTATGGGCCAACAAAGCTATCTTAGTTTATAATAAGATTGAACTTTCACCTTGGGGTCAAAGG
67354038 CAACTTTCACCTCGGGG
66 CAACTTTCACCTCGGGG
67354055 T
1 T
67354056 CAAAGGCAAT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (82 bp):
TTTTATGGGCCAACAAAGCTATCTTAGTTTATAATAAGATTGAACTTTCACCTTGGGGTCAAAGG
CAACTTTCACCTCGGGG
Found at i:67354047 original size:24 final size:24
Alignment explanation
Indices: 67354015--67354064 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
67354005 AATAAGATTG
*
67354015 AACTTTCACCTTGGGGTCAAAGGC
1 AACTTTCACCTCGGGGTCAAAGGC
67354039 AACTTTCACCTCGGGGTCAAAGGC
1 AACTTTCACCTCGGGGTCAAAGGC
67354063 AA
1 AA
67354065 TTGCTATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (24 bp):
AACTTTCACCTCGGGGTCAAAGGC
Found at i:67360957 original size:5 final size:5
Alignment explanation
Indices: 67360947--67360971 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
67360937 TTGTATTTTT
67360947 AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA
67360972 TGTGGGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:67361994 original size:24 final size:23
Alignment explanation
Indices: 67361934--67362002 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
67361924 ATAAATTATT
*
67361934 TATAAAGTTTAATTTAT-ATATAA
1 TATAAAATTTAATTTATGA-ATAA
67361957 -ATAAAAATTGTAATTTATGAATAA
1 TAT-AAAATT-TAATTTATGAATAA
* *
67361981 TATAAACTTATAATTTAAGAAT
1 TATAAAATT-TAATTTATGAAT
67362003 CGATGCTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 2 0.05
23 5 0.13
24 28 0.74
25 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (23 bp):
TATAAAATTTAATTTATGAATAA
Found at i:67363699 original size:25 final size:25
Alignment explanation
Indices: 67363661--67363767 Score: 92
Period size: 25 Copynumber: 4.3 Consensus size: 25
67363651 GACTCACCAC
**
67363661 AGCTCGTATCAGCTTACCGATTTAT
1 AGCTCGTAGGAGCTTACCGATTTAT
* **
67363686 AGCTCGTAGGAGCTTACTGATTTGC
1 AGCTCGTAGGAGCTTACCGATTTAT
* *
67363711 AGCTCATAGGAACTTACCGATATT-T
1 AGCTCGTAGGAGCTTACCGAT-TTAT
* * *
67363736 AGCTCGGAAGAGCTTACTG-TTTAT
1 AGCTCGTAGGAGCTTACCGATTTAT
*
67363760 CGCTCGTA
1 AGCTCGTA
67363768 TGAGTCTACA
Statistics
Matches: 64, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
23 2 0.03
24 8 0.12
25 52 0.81
26 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
AGCTCGTAGGAGCTTACCGATTTAT
Found at i:67371399 original size:64 final size:64
Alignment explanation
Indices: 67371296--67371476 Score: 308
Period size: 64 Copynumber: 2.8 Consensus size: 64
67371286 AGCATCTCGG
* * * *
67371296 TCGGTATTGATCCTGCATGTGTTGCGGACATACCGCAGCTCTTTGTGAGCGTCCTATTATATGA
1 TCGGTATTGATCTTGCATGTATTGTGGACATACCACAGCTCTTTGTGAGCGTCCTATTATATGA
67371360 TCGGTATTGATCTTGCATGTATTGTGGACATACCACAGCTCTTTGTGAGCGTCCTATTATATGA
1 TCGGTATTGATCTTGCATGTATTGTGGACATACCACAGCTCTTTGTGAGCGTCCTATTATATGA
**
67371424 TCGGTATTGATCTTGCATGTATTGTGGACATACCACAGCTCTTAATGAGCGTC
1 TCGGTATTGATCTTGCATGTATTGTGGACATACCACAGCTCTTTGTGAGCGTC
67371477 TCGATATTTG
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 111 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (64 bp):
TCGGTATTGATCTTGCATGTATTGTGGACATACCACAGCTCTTTGTGAGCGTCCTATTATATGA
Found at i:67372242 original size:14 final size:14
Alignment explanation
Indices: 67372223--67372249 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
67372213 TAATTTGGCC
67372223 AATGTTGGCTTATT
1 AATGTTGGCTTATT
67372237 AATGTTGGCTTAT
1 AATGTTGGCTTAT
67372250 AGGTATGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (14 bp):
AATGTTGGCTTATT
Found at i:67373125 original size:25 final size:25
Alignment explanation
Indices: 67373096--67373190 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
67373086 GGACTCATCA
*
67373096 CAGCTCGTATGAGCTTACCGATTTG
1 CAGCTCGTAGGAGCTTACCGATTTG
*
67373121 CAGCTTGTAGGAGCTTACCGATTTG
1 CAGCTCGTAGGAGCTTACCGATTTG
*
67373146 CAGCTCATAGGAGCTTACCGATATT-
1 CAGCTCGTAGGAGCTTACCGAT-TTG
*
67373171 CAGCTC-TGAGGAACTTACCG
1 CAGCTCGT-AGGAGCTTACCG
67373191 TTTATCGCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
24 1 0.02
25 60 0.95
26 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
CAGCTCGTAGGAGCTTACCGATTTG
Found at i:67375855 original size:46 final size:46
Alignment explanation
Indices: 67375776--67375932 Score: 154
Period size: 46 Copynumber: 3.4 Consensus size: 46
67375766 TAATAGTGCA
* * * ** * *
67375776 TGGTCACCCGTTAGGGTTGAACCTACCCAAATCGAATAAAAATGTT
1 TGGTCACCCATTAAGGTTGGACCTATACAAATCGAATAATAATGTC
* * ** *
67375822 TGGTCACCCATTAGGGTTGGACTTATATGAATCGAACAATAATGTC
1 TGGTCACCCATTAAGGTTGGACCTATACAAATCGAATAATAATGTC
* * * *
67375868 CGGTCA-CCAGTTAAGGTTGGACCTATACAAATTGGATAATAGTGTC
1 TGGTCACCCA-TTAAGGTTGGACCTATACAAATCGAATAATAATGTC
67375914 TGGTCACCCATTAAGGTTG
1 TGGTCACCCATTAAGGTTG
67375933 AAATAACATA
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
45 3 0.03
46 83 0.93
47 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (46 bp):
TGGTCACCCATTAAGGTTGGACCTATACAAATCGAATAATAATGTC
Found at i:67377639 original size:395 final size:395
Alignment explanation
Indices: 67376909--67377701 Score: 1586
Period size: 395 Copynumber: 2.0 Consensus size: 395
67376899 GTCATTGTAC
67376909 CTAAATTAGCCATTTAATAACTAAATTTTTCAAACCAAATTTTAATACATCTACAAAACAACTCC
1 CTAAATTAGCCATTTAATAACTAAATTTTTCAAACCAAATTTTAATACATCTACAAAACAACTCC
67376974 GTAAATATTTATATTAAATATTTATGGGCTCAGTTTATGGAAACAAAATCTCGATACCTTATTTC
66 GTAAATATTTATATTAAATATTTATGGGCTCAGTTTATGGAAACAAAATCTCGATACCTTATTTC
67377039 TCAAAACCACTAATTTTCAAGTCAAACCACTTGTACTTTAATTAACCGTCTAATTAGAAAAATTT
131 TCAAAACCACTAATTTTCAAGTCAAACCACTTGTACTTTAATTAACCGTCTAATTAGAAAAATTT
67377104 ATCAAATCAAAATTCACTATATCATTATACTTGACTCGTAAATATTAAATAATAATATTTACAGA
196 ATCAAATCAAAATTCACTATATCATTATACTTGACTCGTAAATATTAAATAATAATATTTACAGA
67377169 CTTGCTTGTCGGAATTGTGGCCCGAAACCACTGTTTTCGATACCACTAAAAATAGGCTATTACAT
261 CTTGCTTGTCGGAATTGTGGCCCGAAACCACTGTTTTCGATACCACTAAAAATAGGCTATTACAT
67377234 TTAGTCCCTATACAAACCCCAACATGTTTCCCGAATTTTTGTAAATTCAATTGATCCCCTGGTAT
326 TTAGTCCCTATACAAACCCCAACATGTTTCCCGAATTTTTGTAAATTCAATTGATCCCCTGGTAT
67377299 TATAA
391 TATAA
67377304 CTAAATTAGCCATTTAATAACTAAATTTTTCAAACCAAATTTTAATACATCTACAAAACAACTCC
1 CTAAATTAGCCATTTAATAACTAAATTTTTCAAACCAAATTTTAATACATCTACAAAACAACTCC
67377369 GTAAATATTTATATTAAATATTTATGGGCTCAGTTTATGGAAACAAAATCTCGATACCTTATTTC
66 GTAAATATTTATATTAAATATTTATGGGCTCAGTTTATGGAAACAAAATCTCGATACCTTATTTC
67377434 TCAAAACCACTAATTTTCAAGTCAAACCACTTGTACTTTAATTAACCGTCTAATTAGAAAAATTT
131 TCAAAACCACTAATTTTCAAGTCAAACCACTTGTACTTTAATTAACCGTCTAATTAGAAAAATTT
67377499 ATCAAATCAAAATTCACTATATCATTATACTTGACTCGTAAATATTAAATAATAATATTTACAGA
196 ATCAAATCAAAATTCACTATATCATTATACTTGACTCGTAAATATTAAATAATAATATTTACAGA
67377564 CTTGCTTGTCGGAATTGTGGCCCGAAACCACTGTTTTCGATACCACTAAAAATAGGCTATTACAT
261 CTTGCTTGTCGGAATTGTGGCCCGAAACCACTGTTTTCGATACCACTAAAAATAGGCTATTACAT
67377629 TTAGTCCCTATACAAACCCCAACATGTTTCCCGAATTTTTGTAAATTCAATTGATCCCCTGGTAT
326 TTAGTCCCTATACAAACCCCAACATGTTTCCCGAATTTTTGTAAATTCAATTGATCCCCTGGTAT
67377694 TATAA
391 TATAA
67377699 CTA
1 CTA
67377702 TTCTGCAATT
Statistics
Matches: 398, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
395 398 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (395 bp):
CTAAATTAGCCATTTAATAACTAAATTTTTCAAACCAAATTTTAATACATCTACAAAACAACTCC
GTAAATATTTATATTAAATATTTATGGGCTCAGTTTATGGAAACAAAATCTCGATACCTTATTTC
TCAAAACCACTAATTTTCAAGTCAAACCACTTGTACTTTAATTAACCGTCTAATTAGAAAAATTT
ATCAAATCAAAATTCACTATATCATTATACTTGACTCGTAAATATTAAATAATAATATTTACAGA
CTTGCTTGTCGGAATTGTGGCCCGAAACCACTGTTTTCGATACCACTAAAAATAGGCTATTACAT
TTAGTCCCTATACAAACCCCAACATGTTTCCCGAATTTTTGTAAATTCAATTGATCCCCTGGTAT
TATAA
Found at i:67379452 original size:24 final size:24
Alignment explanation
Indices: 67379425--67379487 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
67379415 CAGCTCGAAA
* *
67379425 GAGCGTCCCATTATTAGCTCTCAT
1 GAGCATCCCATTATTAGCTCTCAC
* *
67379449 GAGCATCCCAATACTTGGCTCTCAC
1 GAGCATCCCATTA-TTAGCTCTCAC
*
67379474 GAGCTTCCCATTAT
1 GAGCATCCCATTAT
67379488 ATGGTTCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (24 bp):
GAGCATCCCATTATTAGCTCTCAC
Found at i:67379531 original size:25 final size:25
Alignment explanation
Indices: 67379474--67379531 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
67379464 TGGCTCTCAC
* * *
67379474 GAGCTTCCCATTATATGGTTCTTGG
1 GAGCTTCCCATTATATAGCTCTTCG
67379499 GAGCTTCCCATTA-ATAGCTCTTCG
1 GAGCTTCCCATTATATAGCTCTTCG
67379523 GAGCATTCC
1 GAGC-TTCC
67379532 GATTGGTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTCG
Found at i:67379624 original size:25 final size:27
Alignment explanation
Indices: 67379596--67379645 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
67379586 CCGATATATG
67379596 GCTC-TTCA-GAGCTTCCCGATTAAAA
1 GCTCTTTCATGAGCTTCCCGATTAAAA
*
67379621 GCTCTTTCATGAGCTTCCTGATTAA
1 GCTCTTTCATGAGCTTCCCGATTAA
67379646 TGGCTCGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 14 0.64
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (27 bp):
GCTCTTTCATGAGCTTCCCGATTAAAA
Found at i:67379651 original size:27 final size:25
Alignment explanation
Indices: 67379584--67379651 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
67379574 CTTATGAGTG
67379584 TCCCGA-TATATGGCTCTTCAGAGCT
1 TCCCGATTA-ATGGCTCTTCAGAGCT
**
67379609 TCCCGATTAAAAGCTCTTTCATGAGCT
1 TCCCGATTAATGGCTC-TTCA-GAGCT
*
67379636 TCCTGATTAATGGCTC
1 TCCCGATTAATGGCTC
67379652 GCTTGAACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.31
26 6 0.17
27 18 0.51
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTCAGAGCT
Found at i:67381286 original size:43 final size:43
Alignment explanation
Indices: 67381190--67381301 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
67381180 GCACATAAGT
* * * * * * *
67381190 GCTAAACGGAAACCGATAAGGATT-GAACAGAAGCTCATAGGA
1 GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
67381232 GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
1 GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
* * **
67381275 GCTGAATGGAAACCCATTAGGGTTAAA
1 GCTAAACGGAAACCCAAAAGGGTTAAA
67381302 CTAAAACTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 21 0.36
43 37 0.64
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (43 bp):
GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
Found at i:67382321 original size:6 final size:6
Alignment explanation
Indices: 67382297--67382334 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
67382287 CAAGTACCTA
*
67382297 AACAGT AATCAGT AACAGT AGCAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT A
67382335 TTCAACACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:67382327 original size:18 final size:19
Alignment explanation
Indices: 67382299--67382334 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
67382289 AGTACCTAAA
67382299 CAGTAATCAGTAACAGTAG
1 CAGTAATCAGTAACAGTAG
67382318 CAGTAA-CAGTAACAGTA
1 CAGTAATCAGTAACAGTA
67382335 TTCAACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (19 bp):
CAGTAATCAGTAACAGTAG
Found at i:67382478 original size:45 final size:45
Alignment explanation
Indices: 67382318--67382635 Score: 382
Period size: 45 Copynumber: 7.2 Consensus size: 45
67382308 GTAACAGTAG
* ** *
67382318 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * * * *
67382363 TAGT-ACGGTAACAGTATTTGACACACAAAGTGTCGAATCGATAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * *
67382407 CAG-CACGGTAACAGTATTTGACACACAAAGTGCCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
67382451 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* *
67382496 CAGTAACGGTAACAGTATTCGACACACACAGTGCCGAA----T--
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * **
67382535 CAGTAACAGTAACAGTATTCGACGCACAAAGTGTCGAATATGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
* * * *
67382580 CAATAACAATAACAGTATTCGACACACAAAGTGCCTAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
67382625 CAGTAACAGTA
1 CAGTAACAGTA
67382636 GTCGACATAT
Statistics
Matches: 237, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
39 34 0.14
41 1 0.00
43 1 0.00
44 77 0.32
45 124 0.52
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAA
Found at i:67382563 original size:84 final size:84
Alignment explanation
Indices: 67382318--67382642 Score: 364
Period size: 84 Copynumber: 3.8 Consensus size: 84
67382308 GTAACAGTAG
* * ** * * *
67382318 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAATAGTACGGTAACAGTATTTG
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATC---AGTA--ACAGTAACAGTATTCG
*
67382383 ACACACAAAGTGTCGAATCGATAA
61 ACACACAAAGTGTCGAATCGGTAA
* *
67382407 CAG-CACGGTAACAGTATTTGACACACAAAGTGCCGAATCGGTAACAGTAACAGTAACAGTATTC
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAA----T--CAGTAACAGTAACAGTATTC
*
67382471 GACACACAAAGTGCCGAATCGGTAA
60 GACACACAAAGTGTCGAATCGGTAA
* *
67382496 CAGTAACGGTAACAGTATTCGACACACACAGTGCCGAATCAGTAACAGTAACAGTATTCGACGCA
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTATTCGACACA
**
67382561 CAAAGTGTCGAATATGTAA
66 CAAAGTGTCGAATCGGTAA
* ** * *
67382580 CAATAACAATAACAGTATTCGACACACAAAGTGCCTAATCAGTAACAGTAACAGTAGTCGACA
1 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTATTCGACA
67382643 TATAAATGCC
Statistics
Matches: 204, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
84 97 0.48
86 1 0.00
88 28 0.14
89 42 0.21
90 31 0.15
91 3 0.01
92 1 0.00
94 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (84 bp):
CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACAGTATTCGACACA
CAAAGTGTCGAATCGGTAA
Found at i:67382593 original size:129 final size:133
Alignment explanation
Indices: 67382321--67382631 Score: 409
Period size: 129 Copynumber: 2.4 Consensus size: 133
67382311 ACAGTAGCAG
* ** * * *
67382321 TAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAATAGT-ACGGTAACAGTATTTGAC
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACGGTAACAGTATTCGAC
* * *
67382385 ACACAAAGTGTCGAATCGATAACAGCACGGTAACAGTATTTGACACACAAAGTGCCGAATCGGTA
66 ACACAAAGTGCCGAATCGATAACAGCAC-GTAACAGTATTCGACACACAAAGTGCCGAATAGGTA
*
67382450 ACAG
130 ACAA
*
67382454 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGTAACGGTAACAGTATTCGAC
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACGGTAACAGTATTCGAC
* * * *
67382519 ACACACAGTGCCGAATC-AGT-A-A-CA-GTAACAGTATTCGACGCACAAAGTGTCGAATATGTA
66 ACACAAAGTGCCGAATCGA-TAACAGCACGTAACAGTATTCGACACACAAAGTGCCGAATAGGTA
67382579 ACAA
130 ACAA
* *
67382583 TAACAATAACAGTATTCGACACACAAAGTGCCTAATCAGTAACAGTAAC
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
67382632 AGTAGTCGAC
Statistics
Matches: 159, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
129 80 0.50
131 2 0.01
132 1 0.01
133 43 0.27
134 33 0.21
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (133 bp):
TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAACGGTAACAGTATTCGAC
ACACAAAGTGCCGAATCGATAACAGCACGTAACAGTATTCGACACACAAAGTGCCGAATAGGTAA
CAA
Found at i:67382662 original size:38 final size:39
Alignment explanation
Indices: 67382451--67382662 Score: 147
Period size: 45 Copynumber: 5.2 Consensus size: 39
67382441 GAATCGGTAA
* * *
67382451 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAATAACAGTAGTCGACACACAAAGTGCCTAAT
* * * *
67382490 CGGTAACAGTAACGGTAACAGTATTCGACACACACAGTGCCGAAT
1 CAGTAAC---AA---TAACAGTAGTCGACACACAAAGTGCCTAAT
* * * * *
67382535 CAGTAACAGTAACAGTATTCGACGCACAAAGTGTCGAATATGTAA
1 CAGTAACAATAACAGTAGTCGACACACAAAGTG-C--CTA---AT
* *
67382580 CAATAACAATAACAGTATTCGACACACAAAGTGCCTAAT
1 CAGTAACAATAACAGTAGTCGACACACAAAGTGCCTAAT
* * * *
67382619 CAGTAACAGTAACAGTAGTCGACATATAAA-TGCCTGAT
1 CAGTAACAATAACAGTAGTCGACACACAAAGTGCCTAAT
67382657 CAGTAA
1 CAGTAA
67382663 GCCGACAAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 25
0.75 0.11 0.13
Matches are distributed among these distances:
38 13 0.09
39 54 0.39
40 1 0.01
42 5 0.04
44 1 0.01
45 66 0.47
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (39 bp):
CAGTAACAATAACAGTAGTCGACACACAAAGTGCCTAAT
Found at i:67382879 original size:40 final size:40
Alignment explanation
Indices: 67382835--67382921 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
67382825 AATTCATAAC
* *
67382835 TTCAGTAATTTCACAGTTCAA-TGCAATA-TACAAAACAATA
1 TTCAGTAACTTCACAATTCAACT-CAATACT-CAAAACAATA
*
67382875 TTCAGTAACTTCACAATTCAACTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAACTCAATACTCAAAACAATA
67382915 TTCAGTA
1 TTCAGTA
67382922 TTCCATAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 40 0.95
41 2 0.05
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAACTCAATACTCAAAACAATA
Found at i:67390285 original size:15 final size:16
Alignment explanation
Indices: 67390261--67390307 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
67390251 AAATTCATGA
67390261 AAATG-ATGATATATG
1 AAATGAATGATATATG
*
67390276 AAAT-ATTGATATAATG
1 AAATGAATGATAT-ATG
67390292 AAATGAATGATATATG
1 AAATGAATGATATATG
67390308 TTTATGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 10 0.37
16 10 0.37
17 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (16 bp):
AAATGAATGATATATG
Found at i:67395021 original size:41 final size:41
Alignment explanation
Indices: 67394933--67395025 Score: 118
Period size: 41 Copynumber: 2.2 Consensus size: 41
67394923 CCAAAAATTT
* *
67394933 ATTTTAAAAATTAAAATAAAAATTAAAAAAGTATTTTAAATAT
1 ATTTT-AAAATTAAAATAAAAA-TAAAAAAGTATTTTAAAAAA
67394976 ATTTTAAAATTAAAA-AAATAA-AAAAAAGTATTTTAAAAAAA
1 ATTTTAAAATTAAAATAAA-AATAAAAAAGTATTTT-AAAAAA
67395017 ATTTTAAAA
1 ATTTTAAAA
67395026 AAATTTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
40 13 0.28
41 16 0.35
42 12 0.26
43 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (41 bp):
ATTTTAAAATTAAAATAAAAATAAAAAAGTATTTTAAAAAA
Found at i:67395056 original size:17 final size:16
Alignment explanation
Indices: 67395013--67395056 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
67395003 GTATTTTAAA
67395013 AAAAATTTTAAAAAAAT
1 AAAAATTTT-AAAAAAT
**
67395030 TTAAATTTTAAAAAAT
1 AAAAATTTTAAAAAAT
67395046 AAAAATATTTA
1 AAAAAT-TTTA
67395057 TTATTCGGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATTTTAAAAAAT
Found at i:67397027 original size:19 final size:19
Alignment explanation
Indices: 67397005--67397044 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
67396995 ATTTTCTTGC
* *
67397005 TATTTTTTTACTATTTTGT
1 TATTTTTTCACTAATTTGT
67397024 TATTTTTTCACTAATTTGT
1 TATTTTTTCACTAATTTGT
67397043 TA
1 TA
67397045 CAATTTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (19 bp):
TATTTTTTCACTAATTTGT
Found at i:67399808 original size:9 final size:9
Alignment explanation
Indices: 67399794--67399843 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
67399784 GAAATATTTA
67399794 TTTTAATAT
1 TTTTAATAT
*
67399803 TTTTAACAT
1 TTTTAATAT
67399812 TTTTAATA-
1 TTTTAATAT
*
67399820 TATTATATAT
1 TTTTA-ATAT
*
67399830 TTTTAAAAT
1 TTTTAATAT
67399839 TTTTA
1 TTTTA
67399844 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
8 4 0.12
9 26 0.76
10 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTAATAT
Found at i:67399817 original size:18 final size:19
Alignment explanation
Indices: 67399794--67399845 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
67399784 GAAATATTTA
67399794 TTTTAATATTTTTA-ACAT
1 TTTTAATATTTTTATACAT
* *
67399812 TTTTAATA-TATTATATAT
1 TTTTAATATTTTTATACAT
*
67399830 TTTTAAAATTTTTATA
1 TTTTAATATTTTTATA
67399846 AAAAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.64
19 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATATTTTTATACAT
Found at i:67399856 original size:27 final size:26
Alignment explanation
Indices: 67399797--67399856 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
67399787 ATATTTATTT
* * * *
67399797 TAATATTTTTAACATTTTTAATATAT
1 TAATATTTTTAAAATTTTTAAAAAAA
67399823 TATATATTTTTAAAATTTTTATAAAAAA
1 TA-ATATTTTTAAAATTTTTA-AAAAAA
67399851 TAATAT
1 TAATAT
67399857 AAAAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.07
27 21 0.75
28 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATATTTTTAAAATTTTTAAAAAAA
Found at i:67402441 original size:20 final size:20
Alignment explanation
Indices: 67402416--67402465 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67402406 TGGCTTAAAA
67402416 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67402436 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67402453 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67402466 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67407080 original size:20 final size:20
Alignment explanation
Indices: 67407055--67407104 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67407045 TGGCTTAAAA
67407055 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67407075 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67407092 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67407105 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67409590 original size:6 final size:6
Alignment explanation
Indices: 67409579--67409609 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
67409569 CTTGAAAGCC
*
67409579 CCATCT CCATCT CCATCT CCGTCT CCATCT C
1 CCATCT CCATCT CCATCT CCATCT CCATCT C
67409610 AACTCACCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.52, G:0.03, T:0.32
Consensus pattern (6 bp):
CCATCT
Found at i:67413313 original size:25 final size:26
Alignment explanation
Indices: 67413285--67413527 Score: 195
Period size: 25 Copynumber: 9.7 Consensus size: 26
67413275 AATGTAACGA
* *
67413285 GAAGCTCGTGTGAGCTATATAAT-GG
1 GAAGCTCGTGAGAGCCATATAATCGG
* *
67413310 GAAGCTCTTGCGAGCCA-ATAATCGG
1 GAAGCTCGTGAGAGCCATATAATCGG
*
67413335 GAAGCTCAT-ACGAGCCATA-AA-CGG
1 GAAGCTCGTGA-GAGCCATATAATCGG
* * *
67413359 GAAGCTCATGTGAGCCAAAT-ATCGG
1 GAAGCTCGTGAGAGCCATATAATCGG
* * ** *
67413384 TAATCTTATGAGAGCCATAT-ATCGA
1 GAAGCTCGTGAGAGCCATATAATCGG
*
67413409 GAAGCTCGTGAGAGCCATATAA-CTG
1 GAAGCTCGTGAGAGCCATATAATCGG
* *
67413434 GAAGCTCAAGAGAGAGCCAT-TAATCGA
1 GAAGCTC--GTGAGAGCCATATAATCGG
* * *
67413461 GAAGCTCATGAGAGCTAAATAAT-GG
1 GAAGCTCGTGAGAGCCATATAATCGG
67413486 GAAGCTCGTGAGAGCCA-AGT-ATCGG
1 GAAGCTCGTGAGAGCCATA-TAATCGG
67413511 GAAGCTCGTGAGAGCCA
1 GAAGCTCGTGAGAGCCA
67413528 AATAGCGGGA
Statistics
Matches: 176, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
24 28 0.16
25 121 0.69
26 9 0.05
27 18 0.10
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (26 bp):
GAAGCTCGTGAGAGCCATATAATCGG
Found at i:67413464 original size:27 final size:26
Alignment explanation
Indices: 67413393--67413474 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 26
67413383 GTAATCTTAT
*
67413393 GAGAGCCA-TATATCGAGAAGCTC-GT
1 GAGAGCCATTA-ATCGAGAAGCTCAGA
67413418 GAGAGCCATATAA-CTG-GAAGCTCAAGA
1 GAGAGCCAT-TAATC-GAGAAGCTC-AGA
67413445 GAGAGCCATTAATCGAGAAGCTCATGA
1 GAGAGCCATTAATCGAGAAGCTCA-GA
67413472 GAG
1 GAG
67413475 CTAAATAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
25 16 0.33
26 7 0.15
27 25 0.52
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (26 bp):
GAGAGCCATTAATCGAGAAGCTCAGA
Found at i:67436994 original size:21 final size:21
Alignment explanation
Indices: 67436968--67437008 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67436958 ATCTGCTCAA
* *
67436968 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
67436989 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
67437009 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:67445870 original size:27 final size:25
Alignment explanation
Indices: 67445840--67445895 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
67445830 TTACAGTATA
67445840 AAAATAAATAAAATAATTAATATTTTT
1 AAAATAAATAAAATAATT-A-ATTTTT
*
67445867 AAAATGAATAAAATAATTAATTTTT
1 AAAATAAATAAAATAATTAATTTTT
67445892 AAAA
1 AAAA
67445896 CATATTCCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 10 0.36
26 1 0.04
27 17 0.61
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAATAAATAAAATAATTAATTTTT
Found at i:67456659 original size:15 final size:15
Alignment explanation
Indices: 67456639--67456670 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
67456629 CAGGTAAGAA
67456639 TTCTATTAATGGTGG
1 TTCTATTAATGGTGG
67456654 TTCTATTAATGGTGG
1 TTCTATTAATGGTGG
67456669 TT
1 TT
67456671 GGAGGGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (15 bp):
TTCTATTAATGGTGG
Found at i:67460459 original size:30 final size:30
Alignment explanation
Indices: 67460423--67460479 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
67460413 CTTCCTGATA
*
67460423 AAACCAACATATAGAACATCATTTTACATG
1 AAACCAACAAATAGAACATCATTTTACATG
67460453 AAACCAACAAATAGAACATCATTTTAC
1 AAACCAACAAATAGAACATCATTTTAC
67460480 TTTTATGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (30 bp):
AAACCAACAAATAGAACATCATTTTACATG
Found at i:67461794 original size:31 final size:31
Alignment explanation
Indices: 67461759--67461822 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
67461749 TTGAAAATGG
67461759 AAAACACTAAAGAAAACGTGTTTGATTGAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAA
*
67461790 AAAACACTACAGAAAACGTGTTTGATTGAAA
1 AAAACACTAAAGAAAACGTGTTTGATTGAAA
67461821 AA
1 AA
67461823 TTAAAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.22
Consensus pattern (31 bp):
AAAACACTAAAGAAAACGTGTTTGATTGAAA
Found at i:67468816 original size:13 final size:13
Alignment explanation
Indices: 67468798--67468822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67468788 AATATATTTT
67468798 AAAATAAAAAATA
1 AAAATAAAAAATA
67468811 AAAATAAAAAAT
1 AAAATAAAAAAT
67468823 TACTAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:67468892 original size:16 final size:15
Alignment explanation
Indices: 67468872--67468905 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
67468862 AAAATTTAAG
67468872 ATTTTTAAAACATTT
1 ATTTTTAAAACATTT
* *
67468887 ATTTTTACAATATTT
1 ATTTTTAAAACATTT
67468902 ATTT
1 ATTT
67468906 AAAATTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTAAAACATTT
Found at i:67475143 original size:18 final size:17
Alignment explanation
Indices: 67475102--67475143 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
67475092 ATTAAATTTT
*
67475102 ACCAAATTTATTTTAAA
1 ACCAAATTTATTTGAAA
67475119 ACCAAATTTATTTGATAA
1 ACCAAATTTATTTGA-AA
*
67475137 ACTAAAT
1 ACCAAAT
67475144 GTAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (17 bp):
ACCAAATTTATTTGAAA
Found at i:67475903 original size:13 final size:13
Alignment explanation
Indices: 67475885--67475911 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
67475875 AGTTTGGCAA
67475885 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
67475898 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
67475911 T
1 T
67475912 TTAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:67476184 original size:33 final size:35
Alignment explanation
Indices: 67476089--67476185 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
67476079 TTAATATTTT
*
67476089 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
67476124 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
67476157 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
67476186 ATATTTGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:67479906 original size:9 final size:9
Alignment explanation
Indices: 67479892--67479916 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
67479882 GCTAATCATC
67479892 CAGTGGTTT
1 CAGTGGTTT
67479901 CAGTGGTTT
1 CAGTGGTTT
67479910 CAGTGGT
1 CAGTGGT
67479917 GTGAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.36, T:0.40
Consensus pattern (9 bp):
CAGTGGTTT
Found at i:67480556 original size:19 final size:19
Alignment explanation
Indices: 67480504--67480574 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
67480494 AAAATTACAA
* *
67480504 AAAATATCAAAGTAATTTTC
1 AAAAT-TCAAAATAATTTTT
* *
67480524 AAATTTTGAAAATAATTTTT
1 AAA-ATTCAAAATAATTTTT
*
67480544 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
*
67480562 AGAAATTCTAAAT
1 A-AAATTCAAAAT
67480575 TTTACATTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.15
19 17 0.41
20 17 0.41
21 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:67480671 original size:16 final size:16
Alignment explanation
Indices: 67480650--67480702 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
67480640 TTTTGTAATA
*
67480650 AAATTTTTAAAACTTT
1 AAATTTTGAAAACTTT
*
67480666 AAATTTTGAAAACTTAA
1 AAATTTTGAAAACTT-T
*
67480683 AAATTTGGAGAAACTTT
1 AAATTTTGA-AAACTTT
67480700 AAA
1 AAA
67480703 ACTTTGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 11 0.35
18 6 0.19
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (16 bp):
AAATTTTGAAAACTTT
Found at i:67480701 original size:19 final size:17
Alignment explanation
Indices: 67480666--67480708 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
67480656 TTAAAACTTT
*
67480666 AAATTTTGAAAACTTAA
1 AAATTTGGAAAACTTAA
67480683 AAATTTGGAGAAACTTTAA
1 AAATTTGGA-AAAC-TTAA
*
67480702 AACTTTG
1 AAATTTG
67480709 ATTTCTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (17 bp):
AAATTTGGAAAACTTAA
Found at i:67488129 original size:11 final size:11
Alignment explanation
Indices: 67488115--67488152 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
67488105 AAATTTTTTA
67488115 AAAATATATAT
1 AAAATATATAT
*
67488126 AAAATATATTT
1 AAAATATATAT
*
67488137 AAAATTTA-AT
1 AAAATATATAT
67488147 AAAATA
1 AAAATA
67488153 ATAATTTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATATATAT
Found at i:67488148 original size:21 final size:21
Alignment explanation
Indices: 67488095--67488152 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
67488085 TTGGCTCTGA
*
67488095 TAAAATTT-AT-AAAT-TTTT
1 TAAAATTTAATAAAATATATT
*
67488113 TAAAAATATATATAAAATATATT
1 T-AAAATTTA-ATAAAATATATT
67488136 TAAAATTTAATAAAATA
1 TAAAATTTAATAAAATA
67488153 ATAATTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 1 0.03
19 6 0.19
21 10 0.31
22 11 0.34
23 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAATTTAATAAAATATATT
Found at i:67489350 original size:61 final size:60
Alignment explanation
Indices: 67489247--67489360 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 60
67489237 AAATAGTATT
* *
67489247 TAAATATTAATTTGATAAAAATAAAATTTAATAATCGCAATATCTAAATATAAATGGCATC
1 TAAATATTAATTAGATAAAAATAAAATTTAATAATCACAATATCT-AATATAAATGGCATC
* * * *
67489308 TAAATATTAATTAGGTAAAAAT-AAATTTAAATAATTATAATATCTGATATAAA
1 TAAATATTAATTAGATAAAAATAAAATTT-AATAATCACAATATCTAATATAAA
67489361 AATGAATATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 13 0.28
61 33 0.72
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (60 bp):
TAAATATTAATTAGATAAAAATAAAATTTAATAATCACAATATCTAATATAAATGGCATC
Found at i:67489398 original size:12 final size:12
Alignment explanation
Indices: 67489381--67489409 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
67489371 TAATTTAATT
67489381 TAATTTTATAAA
1 TAATTTTATAAA
67489393 TAA-TTTATAAA
1 TAATTTTATAAA
67489404 TAATTT
1 TAATTT
67489410 AATATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATTTTATAAA
Found at i:67489399 original size:11 final size:11
Alignment explanation
Indices: 67489385--67489410 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
67489375 TTAATTTAAT
67489385 TTTATAAATAA
1 TTTATAAATAA
67489396 TTTATAAATAA
1 TTTATAAATAA
67489407 TTTA
1 TTTA
67489411 ATATTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTATAAATAA
Found at i:67489630 original size:19 final size:19
Alignment explanation
Indices: 67489608--67489645 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
67489598 TTTTATTTAC
*
67489608 CAAAATATACAAAAAAAAA
1 CAAAAAATACAAAAAAAAA
*
67489627 CAAAAAATAGAAAAAAAAA
1 CAAAAAATACAAAAAAAAA
67489646 GCTGCGCCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (19 bp):
CAAAAAATACAAAAAAAAA
Found at i:67489815 original size:10 final size:10
Alignment explanation
Indices: 67489800--67489947 Score: 72
Period size: 10 Copynumber: 15.2 Consensus size: 10
67489790 GAATGAGAGG
67489800 GAAAGAAGAA
1 GAAAGAAGAA
67489810 GAAAG-A-AA
1 GAAAGAAGAA
67489818 GAAAG-A-AA
1 GAAAGAAGAA
67489826 GAAAGAA-AA
1 GAAAGAAGAA
* *
67489835 GAAAAGGAGAG
1 G-AAAGAAGAA
67489846 GAAAG-A-AA
1 GAAAGAAGAA
67489854 GAAA-AAGAA
1 GAAAGAAGAA
67489863 GGAAAGAA-AA
1 -GAAAGAAGAA
67489873 GGAAAGGAGAAGAA
1 -G-AA--AGAAGAA
*
67489887 GAAAAAAGAAA
1 GAAAGAAG-AA
67489898 GAAA-AAGAA
1 GAAAGAAGAA
67489907 GGAAAGAA-AA
1 -GAAAGAAGAA
*
67489917 GGAAAGGAGAA
1 -GAAAGAAGAA
67489928 GAGAA-AA-AA
1 GA-AAGAAGAA
67489937 -AAAGAAGAA
1 GAAAGAAGAA
67489946 GA
1 GA
67489948 GGGAAGGAAG
Statistics
Matches: 113, Mismatches: 6, Indels: 38
0.72 0.04 0.24
Matches are distributed among these distances:
7 2 0.02
8 24 0.21
9 14 0.12
10 46 0.41
11 18 0.16
12 2 0.02
13 5 0.04
14 2 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:67489817 original size:4 final size:4
Alignment explanation
Indices: 67489800--67489915 Score: 77
Period size: 4 Copynumber: 29.0 Consensus size: 4
67489790 GAATGAGAGG
*
67489800 GAAA G-AA G-AA GAAA GAAA GAAA GAAA GAAA GAAAA GAAAA GGAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA -GA-AA
*
67489846 GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA GGAGAA G-AA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GAAA GAAA
*
67489891 -AAA GAAA G-AA -AAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
67489916 AGGAAAGGAG
Statistics
Matches: 93, Mismatches: 6, Indels: 26
0.74 0.05 0.21
Matches are distributed among these distances:
3 20 0.22
4 47 0.51
5 21 0.23
6 5 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:67489896 original size:44 final size:43
Alignment explanation
Indices: 67489808--67489952 Score: 185
Period size: 44 Copynumber: 3.4 Consensus size: 43
67489798 GGGAAAGAAG
* *
67489808 AAGAAAGAAAGAAAGAAAGAAAGAAAAGAAAAGGAG-AG-G---A
1 AAGAAAG-AA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
67489848 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG-AGAAAA
67489892 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
* *
67489935 AA-AAAGAAGAAGAGGGAA
1 AAGAAAGAAAAAGAAGGAA
67489953 GGAAGGAAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
38 23 0.24
39 4 0.04
40 7 0.07
41 1 0.01
42 14 0.15
43 8 0.08
44 38 0.40
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (43 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
Found at i:67489955 original size:31 final size:30
Alignment explanation
Indices: 67489875--67489977 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 30
67489865 AAAGAAAAGG
* * * *
67489875 AAAGGAGAAGAAGAAAAAAGAA-AGAAAAAG
1 AAAGAAGAA-AAGGAAAGAGAAGAGAAAAAA
*
67489905 AAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
1 AAAG-AAGAAAAGGAAA-GAGAAGAGAAAAAA
* *
67489937 AAAGAAGAAGAGGGAAG-GAAG-GAAAAAA
1 AAAGAAGAAAAGGAAAGAGAAGAGAAAAAA
*
67489965 AAAGAAAAAAAGG
1 AAAGAAGAAAAGG
67489978 TAATTTTTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
28 18 0.30
29 4 0.07
30 10 0.17
31 18 0.30
32 10 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (30 bp):
AAAGAAGAAAAGGAAAGAGAAGAGAAAAAA
Found at i:67491645 original size:18 final size:18
Alignment explanation
Indices: 67491624--67491667 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
67491614 TATTTTTCAC
*
67491624 TATTATTGTATTAT-TAAT
1 TATTATTATATTATAT-AT
67491642 TATTATTATATTATATAT
1 TATTATTATATTATATAT
67491660 TATTATTA
1 TATTATTA
67491668 CACCTATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTATTATATTATATAT
Found at i:67507008 original size:100 final size:99
Alignment explanation
Indices: 67506879--67507448 Score: 782
Period size: 100 Copynumber: 5.7 Consensus size: 99
67506869 TATCTCTTTG
67506879 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
* *
67506944 GAAGTCACAACAGCAGATCTGGTTTTCCCGACAGC
66 GAAGTTACAAC-GCAGATCTGGTTTCCCCGACAGC
* *
67506979 GCAATTAAAAAGATTGAAGCCATAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
*
67507044 GAAGTCACAACGGCAGATCTGGTTTCCCCGACAGC
66 GAAGTTACAAC-GCAGATCTGGTTTCCCCGACAGC
*
67507079 GTAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
* *
67507144 GAAGTTACAACG-ACGAATCCGGTTTCCCTGACAGC
66 GAAGTTACAACGCA-G-ATCTGGTTTCCCCGACAGC
* * *
67507179 GCAAGTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
* * *
67507244 GAAGTTACAACGACGGATCTTGTTTCCCCGATAGC
66 GAAGTTACAACG-CAGATCTGGTTTCCCCGACAGC
* * *
67507279 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTACCTGGCAGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
* * **
67507344 GAAGTTACGACGGCAGATCTCGTTTCCCCGACATT
66 GAAGTTACAAC-GCAGATCTGGTTTCCCCGACAGC
* * ** * * * * ** *
67507379 GTAATTTTAAAAGATTGAAGCCACAATAGCGAATCTTACTTCCTTAGCGGCGCAGTTAAACAAAT
1 GCAA-TTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAAT
67507444 TGAAG
65 TGAAG
67507449 AAAATAGTCT
Statistics
Matches: 421, Mismatches: 43, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.00
99 2 0.00
100 364 0.86
101 54 0.13
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (99 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAAATT
GAAGTTACAACGCAGATCTGGTTTCCCCGACAGC
Found at i:67507343 original size:50 final size:50
Alignment explanation
Indices: 67506889--67507347 Score: 321
Period size: 50 Copynumber: 9.2 Consensus size: 50
67506879 GCAATTAAAA
*
67506889 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
* * * * * * * * ** **
67506939 AAATTGAAGTCACAACAGCAGATCTGGT-TTTCCC-GACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCT--TACTTCCCTGGCAGTGCAGTGGAGC
* *
67506989 AGATTGAAGCCATAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
* * *** * * * * * ** **
67507039 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGTAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
*
67507089 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
* ** * * **** * * * **
67507139 AAATTGAAGTTACAACGACGAATCCGGTTTCCCTGACAGCGCAAGT-AAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGC-AGTGGAGC
* *
67507189 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
** * ** * ** * * ** **
67507239 AGATTGAAGTTACAACGACGGATCTTGTTTCCCCGATAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
*
67507289 AGATTGAAGCCACAACGGCGGATCTTACTTACCTGGCAGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
67507339 AGATTGAAG
1 AGATTGAAG
67507348 TTACGACGGC
Statistics
Matches: 283, Mismatches: 120, Indels: 12
0.68 0.29 0.03
Matches are distributed among these distances:
48 1 0.00
49 8 0.03
50 265 0.94
51 8 0.03
52 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.21
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCAGTGCAGTGGAGC
Found at i:67508796 original size:3 final size:3
Alignment explanation
Indices: 67508790--67508831 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
67508780 ACTATTATTG
67508790 TAT TAT TAAT TAT TAT TAT TAT TA- TAT TAT ATAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
67508832 CACCTATAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.78
4 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:67508806 original size:21 final size:22
Alignment explanation
Indices: 67508782--67508830 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
67508772 TATTTTTCAC
67508782 TATTATTGTATTAT-TAAT-TAT
1 TATTATT-TATTATATAATATAT
*
67508803 TATTA-TTATTATATTATATAT
1 TATTATTTATTATATAATATAT
67508824 TATTATT
1 TATTATT
67508831 ACACCTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 13 0.54
22 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATTTATTATATAATATAT
Found at i:67508831 original size:21 final size:24
Alignment explanation
Indices: 67508782--67508831 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
67508772 TATTTTTCAC
*
67508782 TATTATTGTATTATTAATTATTAT
1 TATTATTATATTATTAATTATTAT
67508806 TATTATTATATTA-TATATTATTAT
1 TATTATTATATTATTA-ATTATTAT
67508830 TA
1 TA
67508832 CACCTATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTATTATATTATTAATTATTAT
Found at i:67510299 original size:162 final size:162
Alignment explanation
Indices: 67509861--67510342 Score: 472
Period size: 158 Copynumber: 3.0 Consensus size: 162
67509851 GGTTTCGACA
*
67509861 GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACTAAATTAATAAATTTC
1 GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACAAAATTAATAAATTTC
67509926 AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
66 AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
*
67509991 AAAATACGGAGAAAAAAATACGAACAAATGGC
131 AAAATACGAAGAAAAAAATACGAACAAATGGC
** * * * * * *** * * *
67510023 CCA-AG-TAAGAG----TGTATTACA--AACTT-TTTTAAAAATTTAGAAATAATTAATATAAAT
1 GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTT-AAAAAACACACAAAATT-A-AT-AA-
* * * * * * *
67510079 ATTTCAAACAATATACACTGGAATAATATAAAATAATAAAA-TACGAAAA-TAAAATATTTGTAT
61 ATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTA--AAAATTATAATATTT-T-C
* * ** *
67510142 TGAAAGTAATAAAA-ATC-AAGAAAATAATATTAGCAAA-GG-
122 T-AAAATAATAAAATA-CGAAGAAAAAAATACGAACAAATGGC
* *
67510181 GTAGGGATAAGGGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACGAAATTAATAAATTTC
1 GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACAAAATTAATAAATTTC
*
67510246 AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAA
66 AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
* *
67510311 AAAATGCGGAGAAAAAAATACGAACAAATGGC
131 AAAATACGAAGAAAAAAATACGAACAAATGGC
67510343 CGAAGTAAGA
Statistics
Matches: 237, Mismatches: 57, Indels: 52
0.68 0.16 0.15
Matches are distributed among these distances:
153 3 0.01
154 14 0.06
155 1 0.00
156 9 0.04
157 4 0.02
158 46 0.19
159 19 0.08
160 44 0.19
161 20 0.08
162 46 0.19
163 4 0.02
164 9 0.04
165 1 0.00
166 14 0.06
167 3 0.01
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (162 bp):
GTAGGGATAAGAGTTTTTTTCTTACACCAAATTAATTTAAAAAACACACAAAATTAATAAATTTC
AAACATTATGCACTGAAATAATGTAAAATTATAAAATTAAAAATTATAATATTTTCTAAAATAAT
AAAATACGAAGAAAAAAATACGAACAAATGGC
Found at i:67515869 original size:27 final size:27
Alignment explanation
Indices: 67515825--67515912 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
67515815 AACACGAGTA
* * * *
67515825 GTGCCACCAATCAATATGGCACCATCG
1 GTGCCGCCAACCAGTATGGCACCATTG
*
67515852 GTGCCGCCAACCTGTATGGCACCATTG
1 GTGCCGCCAACCAGTATGGCACCATTG
*
67515879 GTGCCGCCAACCAGTATGGCACCTTTG
1 GTGCCGCCAACCAGTATGGCACCATTG
67515906 GTGCCGC
1 GTGCCGC
67515913 TAATCAGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.20
Consensus pattern (27 bp):
GTGCCGCCAACCAGTATGGCACCATTG
Found at i:67518766 original size:31 final size:31
Alignment explanation
Indices: 67518703--67518773 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
67518693 TAAAAACAAC
*
67518703 AATTCAACTTTTTTTAAAAGATTAATTATCA
1 AATTCAACTCTTTTTAAAAGATTAATTATCA
* *
67518734 AATTCGACTCTTTTTAAAAGATTGA-TAGTCA
1 AATTCAACTCTTTTTAAAAGATTAATTA-TCA
*
67518765 AATTTAACT
1 AATTCAACT
67518774 TAAAATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAGATTAATTATCA
Found at i:67519218 original size:18 final size:18
Alignment explanation
Indices: 67519182--67519218 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
67519172 AAATACTTTA
*
67519182 AAAATATTTTTTATTTTT
1 AAAATATTTTTTATGTTT
*
67519200 AAAATATTTTTTGTGTTT
1 AAAATATTTTTTATGTTT
67519218 A
1 A
67519219 TTAAAAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
AAAATATTTTTTATGTTT
Found at i:67527095 original size:33 final size:33
Alignment explanation
Indices: 67527058--67527126 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
67527048 TTCAAAGGTA
*
67527058 AAACAATCTGAGGTTTCCCGCAGGGAACCCCAG
1 AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
67527091 AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
1 AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
67527124 AAA
1 AAA
67527127 AAAGGTTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (33 bp):
AAACAATCTGAGGTTTCCCGCAAGGAACCCCAG
Found at i:67535023 original size:25 final size:24
Alignment explanation
Indices: 67534994--67535050 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
67534984 ACATTGTATA
67534994 ATATTAAAATTAAAATTAAATAAAT
1 ATATTAAAATTAAAATTAAAT-AAT
* * ** *
67535019 ATATTATACTTTTAGTTAAATAAT
1 ATATTAAAATTAAAATTAAATAAT
67535043 ATATTAAA
1 ATATTAAA
67535051 CAAATCAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
ATATTAAAATTAAAATTAAATAAT
Found at i:67542313 original size:26 final size:26
Alignment explanation
Indices: 67542284--67542363 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
67542274 TTATAAGTTT
*
67542284 ATAACTACTAAGTAATCCCATTGCTC
1 ATAACTACTAAGTAATCCTATTGCTC
* *
67542310 ATAACTACCAAATAATCCTATTGCTC
1 ATAACTACTAAGTAATCCTATTGCTC
* *
67542336 ATAACAACTAAGTAATCCTATTACTC
1 ATAACTACTAAGTAATCCTATTGCTC
67542362 AT
1 AT
67542364 CAAGCTAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (26 bp):
ATAACTACTAAGTAATCCTATTGCTC
Found at i:67545561 original size:24 final size:24
Alignment explanation
Indices: 67545534--67545579 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
67545524 TATGAAGAAC
*
67545534 CTTAAATTTAAAAATGATTATAGG
1 CTTAAAATTAAAAATGATTATAGG
67545558 CTTAAAATTAAAAATGATTATA
1 CTTAAAATTAAAAATGATTATA
67545580 AGTGGACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (24 bp):
CTTAAAATTAAAAATGATTATAGG
Found at i:67546049 original size:27 final size:29
Alignment explanation
Indices: 67546017--67546070 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
67546007 TGTATCCTGA
67546017 TTAGGGTTTTGG-GTTATT-AGTTTAGGG
1 TTAGGGTTTTGGTGTTATTAAGTTTAGGG
*
67546044 TTAGGGTTTTGGTGTTTTTAAGTTTAG
1 TTAGGGTTTTGGTGTTATTAAGTTTAG
67546071 AATTTTAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
28 5 0.21
29 7 0.29
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (29 bp):
TTAGGGTTTTGGTGTTATTAAGTTTAGGG
Found at i:67546276 original size:96 final size:96
Alignment explanation
Indices: 67546168--67546383 Score: 283
Period size: 96 Copynumber: 2.2 Consensus size: 96
67546158 TGTTTATTGT
* * *
67546168 TTTTTAA-CAAAAATCAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAATATT
1 TTTTTAAGCAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATT-AAAAATATT
*
67546232 TA-AAAATCAGATAATGGTTTAGAGTTAAGGG
65 TATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* * * *
67546263 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGCAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATATTT
* * * *
67546328 ATAAAATTAGATTAGGGTTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
*
67546359 TTTTTAAGTAAAAACTCAAATAAAT
1 TTTTTAAGCAAAAA-TCAAATAAAT
67546384 AAGGATTTGG
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 16 0.15
96 79 0.75
97 10 0.10
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (96 bp):
TTTTTAAGCAAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATATTT
ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
Found at i:67551009 original size:52 final size:52
Alignment explanation
Indices: 67550938--67551055 Score: 227
Period size: 52 Copynumber: 2.3 Consensus size: 52
67550928 ACTATATGAC
67550938 CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
1 CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
*
67550990 TATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
1 CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
67551042 CATGATGGAAATAT
1 CATGATGGAAATAT
67551056 CTATTTTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (52 bp):
CATGATGGAAATATTAGTTATATACTAAATACTAAACACCAATTGACTATCT
Found at i:67552218 original size:12 final size:12
Alignment explanation
Indices: 67552201--67552261 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
67552191 CTTTTAAATA
*
67552201 GAAATTTGAGTG
1 GAAATTTGAGAG
67552213 GAAA-TTGAGAG
1 GAAATTTGAGAG
67552224 GAAATTTGAGA-
1 GAAATTTGAGAG
*
67552235 GAATATTAGAGA-
1 GAA-ATTTGAGAG
67552247 GAAA-TTGAG-G
1 GAAATTTGAGAG
67552257 GAAAT
1 GAAAT
67552262 GATTTAGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
10 8 0.19
11 14 0.33
12 20 0.48
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (12 bp):
GAAATTTGAGAG
Found at i:67552226 original size:11 final size:11
Alignment explanation
Indices: 67552201--67552261 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
67552191 CTTTTAAATA
*
67552201 GAAATTTGAGTG
1 GAAA-TTGAGAG
67552213 GAAATTGAGAG
1 GAAATTGAGAG
67552224 GAAATTTGAGA-
1 GAAA-TTGAGAG
67552235 GAATATT-AGAG
1 GAA-ATTGAGAG
67552246 AGAAATTGAG-G
1 -GAAATTGAGAG
67552257 GAAAT
1 GAAAT
67552262 GATTTAGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
10 8 0.19
11 19 0.44
12 16 0.37
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:67552227 original size:23 final size:22
Alignment explanation
Indices: 67552200--67552261 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
67552190 TCTTTTAAAT
67552200 AGAAATTTGAGTGGAAATT-GAG
1 AGAAATTTGAG-GGAAATTAGAG
*
67552222 AGGAAATTTGAGAGAATATTAGAG
1 A-GAAATTTGAGGGAA-ATTAGAG
67552246 AGAAA-TTGAGGGAAAT
1 AGAAATTTGAGGGAAAT
67552262 GATTTAGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 12 0.34
23 17 0.49
24 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (22 bp):
AGAAATTTGAGGGAAATTAGAG
Found at i:67553079 original size:20 final size:21
Alignment explanation
Indices: 67553056--67553094 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
67553046 TGATGTAAAC
67553056 TTATAAAA-ACTATAAAAAAG
1 TTATAAAATACTATAAAAAAG
*
67553076 TTATAAAATATTATAAAAA
1 TTATAAAATACTATAAAAA
67553095 TATATAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (21 bp):
TTATAAAATACTATAAAAAAG
Found at i:67553168 original size:21 final size:22
Alignment explanation
Indices: 67553132--67553186 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
67553122 AATAAGAATA
*
67553132 ATAAAAACATATTTAAAATTTT
1 ATAAAAACATATTTAAAATTCT
67553154 ATAAAAACATA-TTAAAATTCT
1 ATAAAAACATATTTAAAATTCT
67553175 ATAAAAATCATA
1 ATAAAAA-CATA
67553187 AAAAGTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAAAACATATTTAAAATTCT
Found at i:67553702 original size:9 final size:9
Alignment explanation
Indices: 67553644--67553884 Score: 100
Period size: 10 Copynumber: 25.8 Consensus size: 9
67553634 CCAGTTCAAG
*
67553644 TTTTTATGA
1 TTTTTATAA
67553653 TTTTT-TAGTA
1 TTTTTATA--A
67553663 TTTTTATAA
1 TTTTTATAA
*
67553672 GTTTATATCAA
1 -TTTTTAT-AA
*
67553683 TTTTAAT-A
1 TTTTTATAA
67553691 TTTTTATAA
1 TTTTTATAA
*
67553700 TTTTTTATAG
1 -TTTTTATAA
*
67553710 TTTTTATTA
1 TTTTTATAA
*
67553719 TTTTTAAAGAA
1 TTTTT--ATAA
* *
67553730 TTCTAATAAA
1 TTTTTAT-AA
*
67553740 ATTTT-TAA
1 TTTTTATAA
*
67553748 TATTTA-ATA
1 TTTTTATA-A
*
67553757 TTTTAAATAA
1 TTTT-TATAA
*
67553767 ATTTTATTAA
1 TTTTTA-TAA
*
67553777 -TTTTATAG
1 TTTTTATAA
* *
67553785 CTTTTATTA
1 TTTTTATAA
*
67553794 TTTATTAGAA
1 TTT-TTATAA
67553804 TTTTTAT-A
1 TTTTTATAA
67553812 TTTTTATAA
1 TTTTTATAA
*
67553821 TATTTATAA
1 TTTTTATAA
*
67553830 GTTTTTATAT
1 -TTTTTATAA
67553840 TATTTTATAA
1 T-TTTTATAA
*
67553850 TTTTAATAA
1 TTTTTATAA
*
67553859 GTTTATATGAA
1 -TTTTTAT-AA
*
67553870 TTTTAAT-A
1 TTTTTATAA
67553878 TTTTTAT
1 TTTTTAT
67553885 TTTTATAATA
Statistics
Matches: 171, Mismatches: 39, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
8 31 0.18
9 59 0.35
10 69 0.40
11 12 0.07
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:67553703 original size:37 final size:36
Alignment explanation
Indices: 67553654--67553884 Score: 101
Period size: 37 Copynumber: 6.2 Consensus size: 36
67553644 TTTTTATGAT
67553654 TTTTTAGT-ATTTTTATAAGTTTATATCAATTTTAATA
1 TTTTTA-TAATTTTTATAAGTTTATAT-AATTTTAATA
* * *
67553691 TTTTTATAATTTTT-TATAGTTTTTATTATTTTTAAAGAA
1 TTTTTATAATTTTTATA-AGTTTATA-TAATTTT-AA-TA
* *
67553730 TTCTAATAAAATTTTTA-ATA-TTTA-AT-ATTTTAAATAA
1 TT-T-TTATAATTTTTATA-AGTTTATATAATTTT-AAT-A
* *
67553767 ATTTTATTAA-TTTTAT-AGCTTT-TATTATTTATTAGA-A
1 TTTTTA-TAATTTTTATAAG-TTTATA-TAATT-TTA-ATA
*
67553804 TTTTTAT-ATTTTTATAA-TATT-TATAAGTTTTTATA
1 TTTTTATAATTTTTATAAGT-TTATATAA-TTTTAATA
*
67553839 TTATTTTATAATTTTAATAAGTTTATATGAATTTTAATA
1 -T-TTTTATAATTTTTATAAGTTTATAT-AATTTTAATA
67553878 TTTTTAT
1 TTTTTAT
67553885 TTTTATAATA
Statistics
Matches: 148, Mismatches: 17, Indels: 58
0.66 0.08 0.26
Matches are distributed among these distances:
34 2 0.01
35 14 0.09
36 24 0.16
37 53 0.36
38 19 0.13
39 18 0.12
40 6 0.04
41 12 0.08
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (36 bp):
TTTTTATAATTTTTATAAGTTTATATAATTTTAATA
Found at i:67553705 original size:19 final size:18
Alignment explanation
Indices: 67553683--67553921 Score: 97
Period size: 19 Copynumber: 12.8 Consensus size: 18
67553673 TTTATATCAA
67553683 TTTTAATATTTTTATAAT
1 TTTTAATATTTTTATAAT
* *
67553701 TTTTTATAGTTTTTATTAT
1 TTTTAATA-TTTTTATAAT
* * *
67553720 TTTTAAAGAATTCTAATAAAAT
1 TTTT-AA-TATT-T-TTATAAT
*
67553742 TTTTAATA-TTTAAT-AT
1 TTTTAATATTTTTATAAT
* *
67553758 TTTAAATAAATTTTATTAA-
1 TTTTAAT-ATTTTTA-TAAT
* *
67553777 TTTT-ATAGCTTTTATTAT
1 TTTTAATA-TTTTTATAAT
67553795 TTATTAGA-ATTTTTAT-AT
1 TT-TTA-ATATTTTTATAAT
*
67553813 TTTT-ATAATATTTATAAGT
1 TTTTAAT-ATTTTTATAA-T
67553832 TTTT-ATATTATTTTATAA-
1 TTTTAATA-T-TTTTATAAT
*
67553850 TTTTAATAAGTTTATATGAA-
1 TTTTAAT-A-TTTTTAT-AAT
67553870 TTTTAATATTTTTAT--T
1 TTTTAATATTTTTATAAT
*
67553886 TTTATAATATTTTTTTGAAT
1 TTT-TAATATTTTTAT-AAT
67553906 TTTTAATCATTTTTAT
1 TTTTAAT-ATTTTTAT
67553922 GTGAAAAATA
Statistics
Matches: 168, Mismatches: 24, Indels: 56
0.68 0.10 0.23
Matches are distributed among these distances:
15 1 0.01
16 11 0.07
17 25 0.15
18 37 0.22
19 46 0.27
20 35 0.21
21 5 0.03
22 8 0.05
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTAATATTTTTATAAT
Found at i:67553714 original size:28 final size:28
Alignment explanation
Indices: 67553641--67553724 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
67553631 AATCCAGTTC
* *
67553641 AAGTTTTTATGATTTTTTAGTATTTTTAT
1 AAGTTTTTATCA-TTTTTAATATTTTTAT
* *
67553670 AAGTTTATATCAATTTTAATATTTTTAT
1 AAGTTTTTATCATTTTTAATATTTTTAT
* *
67553698 AATTTTTTAT-AGTTTTTATTATTTTTA
1 AAGTTTTTATCA-TTTTTAATATTTTTA
67553725 AAGAATTCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.02
28 35 0.76
29 10 0.22
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (28 bp):
AAGTTTTTATCATTTTTAATATTTTTAT
Found at i:67553835 original size:20 final size:19
Alignment explanation
Indices: 67553644--67553898 Score: 91
Period size: 19 Copynumber: 13.8 Consensus size: 19
67553634 CCAGTTCAAG
* *
67553644 TTTTTATGATTTTTTAGT-A
1 TTTTTATAATATTTTA-TAA
*
67553663 TTTTTATAAGT-TTATATCAA
1 TTTTTATAA-TATTTTAT-AA
*
67553683 TTTTAAT-AT-TTTTATAA
1 TTTTTATAATATTTTATAA
* *
67553700 TTTTTTATAGT-TTTTATTA
1 -TTTTTATAATATTTTATAA
* *
67553719 TTTTTA-AAGAATTCTAATAAA
1 TTTTTATAA-TATT-TTAT-AA
* *
67553740 ATTTT-TAATATTTAAT-A
1 TTTTTATAATATTTTATAA
*
67553757 TTTTAAATAA-ATTTTATTAA
1 TTTT-TATAATATTTTA-TAA
** *
67553777 -TTTTAT-AGCTTTTATTA
1 TTTTTATAATATTTTATAA
*
67553794 TTTATTAGAAT-TTTTAT-A
1 TTT-TTATAATATTTTATAA
67553812 TTTTTATAATA-TTTATAA
1 TTTTTATAATATTTTATAA
*
67553830 GTTTTTATATTATTTTATAA
1 -TTTTTATAATATTTTATAA
* *
67553850 TTTTAATAAGT-TTATATGAA
1 TTTTTATAA-TATTTTAT-AA
67553870 --TTT-TAATATTTT-T-A
1 TTTTTATAATATTTTATAA
67553884 TTTTTATAATATTTT
1 TTTTTATAATATTTT
67553899 TTTGAATTTT
Statistics
Matches: 180, Mismatches: 28, Indels: 58
0.68 0.11 0.22
Matches are distributed among these distances:
14 1 0.01
16 5 0.03
17 36 0.20
18 40 0.22
19 65 0.36
20 26 0.14
21 7 0.04
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTATAATATTTTATAA
Found at i:67553845 original size:29 final size:29
Alignment explanation
Indices: 67553804--67553898 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 29
67553794 TTTATTAGAA
67553804 TTTTTATA-T-TTTTATAATATTTATAAG
1 TTTTTATATTATTTTATAATATTTATAAG
67553831 TTTTTATATTATTTTATAAT-TTTAATAAG
1 TTTTTATATTATTTTATAATATTT-ATAAG
* * *
67553860 --TTTATATGAATTT-TAATATTT-TTA-
1 TTTTTATATTATTTTATAATATTTATAAG
*
67553884 TTTTTATAATATTTT
1 TTTTTATATTATTTT
67553899 TTTGAATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
25 2 0.04
26 14 0.25
27 22 0.39
28 4 0.07
29 14 0.25
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTTATATTATTTTATAATATTTATAAG
Found at i:67553852 original size:27 final size:25
Alignment explanation
Indices: 67553777--67553862 Score: 64
Period size: 29 Copynumber: 3.1 Consensus size: 25
67553767 ATTTTATTAA
* * *
67553777 TTTTATAGCTTTTATTATTTATTAGAAT
1 TTTTATA-TTTTTATAATTTA-TA-AGT
67553805 TTTTATATTTTTATAATATTTATAAGT
1 TTTTATATTTTTAT-A-ATTTATAAGT
67553832 TTTTATATTATTTTATAATTTTAATAAGT
1 TTTTATA-T-TTTTATAA-TTT-ATAAGT
67553861 TT
1 TT
67553863 ATATGAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 16 0.33
28 14 0.29
29 19 0.39
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (25 bp):
TTTTATATTTTTATAATTTATAAGT
Found at i:67555041 original size:19 final size:19
Alignment explanation
Indices: 67555017--67555054 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
67555007 TAAAAGCTTT
67555017 AAAAAATGTATATATATTA
1 AAAAAATGTATATATATTA
*
67555036 AAAAAATGTGTATATATTA
1 AAAAAATGTATATATATTA
67555055 TATATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (19 bp):
AAAAAATGTATATATATTA
Found at i:67555047 original size:21 final size:24
Alignment explanation
Indices: 67555016--67555066 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
67555006 ATAAAAGCTT
67555016 TAAAAAA--TGTATATA-TAT-TA
1 TAAAAAATGTGTATATATTATATA
67555036 -AAAAAATGTGTATATATTATATA
1 TAAAAAATGTGTATATATTATATA
67555059 TAAAAAAT
1 TAAAAAAT
67555067 ATGTGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.23
21 8 0.31
22 3 0.12
23 2 0.08
24 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
TAAAAAATGTGTATATATTATATA
Found at i:67555490 original size:3 final size:3
Alignment explanation
Indices: 67555475--67555558 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
67555465 AGCAATAACT
* * *
67555475 ATA ATA ATG ATA ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67555523 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67555559 TAACATGATT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:67557209 original size:44 final size:44
Alignment explanation
Indices: 67557121--67557235 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 44
67557111 ACCAGTATGG
** * *
67557121 GAAGACAAGATCTGCTTATTTTTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTT-TTTCCGATCTACTTCACGCCAATACAT
*
67557166 GAAGACAAGATCTG-TTTTCTCCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTTTT-TCCGATCTACTTCACGCCAATACAT
67557210 GAAGACAAGATCTGCTTTTTCCGATC
1 GAAGACAAGATCTGCTTTTTCCGATC
67557236 GATTCCACTG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.03
44 43 0.68
45 18 0.29
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTTTCCGATCTACTTCACGCCAATACAT
Found at i:67560868 original size:14 final size:14
Alignment explanation
Indices: 67560849--67560883 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
67560839 GACACCGGAT
67560849 TATTTTTAAATAAG
1 TATTTTTAAATAAG
67560863 TATTTTT-AATAAG
1 TATTTTTAAATAAG
*
67560876 TTTTTTTA
1 TATTTTTA
67560884 TTGGTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (14 bp):
TATTTTTAAATAAG
Found at i:67565919 original size:16 final size:17
Alignment explanation
Indices: 67565876--67565920 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
67565866 TAATAAATCT
**
67565876 TTAAAAAATCCATAAAA
1 TTAAAAAATTAATAAAA
*
67565893 TTAATAAATTAATAAAA
1 TTAAAAAATTAATAAAA
67565910 -TAAAAAATTAA
1 TTAAAAAATTAA
67565921 ATTGAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAATTAATAAAA
Found at i:67569832 original size:29 final size:26
Alignment explanation
Indices: 67569784--67569837 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
67569774 TGGGTATGGT
*
67569784 GGACAAAAAAATCAAATACCAAGTTA
1 GGACAAAAAAAACAAATACCAAGTTA
67569810 GGACAAAAAAAAACATAAGTACCAAGTT
1 GGAC-AAAAAAAACA-AA-TACCAAGTT
67569838 GGGAGAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 2 0.08
29 9 0.38
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (26 bp):
GGACAAAAAAAACAAATACCAAGTTA
Found at i:67570333 original size:30 final size:29
Alignment explanation
Indices: 67570297--67570358 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
67570287 CTAACGGCCT
67570297 AAATCCACTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-AAAACAACTTTAACCC
* * *
67570327 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCAAAACAACTTTAACCC
67570356 AAA
1 AAA
67570359 CCCAACTAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (29 bp):
AAATCCACTACCCAAAACAACTTTAACCC
Found at i:67570351 original size:29 final size:29
Alignment explanation
Indices: 67570297--67570374 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
67570287 CTAACGGCCT
*
67570297 AAATCCACTACCCAAAAACAACTTTAACCC
1 AAATCCACTACCC-TAAACAACTTTAACCC
* *
67570327 AAATCCACTATCCTAAACAGCTTTAACCC
1 AAATCCACTACCCTAAACAACTTTAACCC
* *
67570356 AAACCCAACTAGCCTAAAC
1 AAATCC-ACTACCCTAAAC
67570375 CCAAAACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.18
Consensus pattern (29 bp):
AAATCCACTACCCTAAACAACTTTAACCC
Done.