Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007962.1 Hibiscus syriacus cultivar Beakdansim tig00110391_pilon, whole genome shotgun sequence
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: 1774241
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1275090 original size:38 final size:37
Alignment explanation
Indices: 1275007--1275095 Score: 126
Period size: 38 Copynumber: 2.4 Consensus size: 37
1274997 ATTTTGTTCG
*
1275007 GGTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTC
1 GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTC
*
1275043 GAGTTGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTC
1 G-GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTC
*
1275081 AGGTCGGGTCAGGTT
1 -GGTCGGGTCGGGTT
1275096 CGAGTTTAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
36 1 0.02
37 10 0.22
38 34 0.74
39 1 0.02
ACGTcount: A:0.13, C:0.10, G:0.38, T:0.38
Consensus pattern (37 bp):
GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTC
Found at i:1275112 original size:228 final size:224
Alignment explanation
Indices: 1274588--1275132 Score: 842
Period size: 224 Copynumber: 2.4 Consensus size: 224
1274578 CCTTATTTTG
* *
1274588 GTCGGGTCGGATCGGGTTTTTTTAAGTGTGATATTC-AGATCGGGTCGGGTCGGGTTCGGGTTTA
1 GTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG-TCGGGTCGGGTCGGGTTCGGGTTTA
* *
1274652 GGGTGAAAAAAACAGGACCGACCCGAAAATATATATAATTCAAGTCGGGTCGGATTAAGTCATTG
65 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAAGTCGGGTCGGATTAAGTCACTG
* *
1274717 TTTTTATTAAATAAAAATAATTTTTTTATTATTTCGGGTCTGGTCGGATGAAACTTTATTTTGTT
130 TTTTTATTAAATAAAAATAATATTTTTATTATTTCGGGTCGGGTCGGATGAAACTTTATTTTGTT
1274782 CGGGTCGGGTTTTTTAAGTGTGATATTCGA
195 CGGGTCGGGTTTTTTAAGTGTGATATTCGA
* * * * *
1274812 GTTGAGTCGGGTCGGGTTTTTTTAAGTGTAATATTCGGGTCGGGTCGGATCGGGTTTGGGTTTAG
1 GTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTCGGGTCGGGTCGGGTTCGGGTTTAG
**
1274877 GGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGT
66 GGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAAGTCGGGTCGGATTAAGTCACTGT
* *
1274942 TTTTGTTAAATAAAAATAA-ATTTTTATTATTTCTGGTCGGGTCGGATGAAACTTTATTTTGTTC
131 TTTTATTAAATAAAAATAATATTTTTATTATTTCGGGTCGGGTCGGATGAAACTTTATTTTG-T-
*
1275006 GGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGG
194 ---TCGGGTCGGGTTTTTTAAGTGTGATATTCGA
* * * *
1275040 GTCGAGTTGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTCAGGTCGGGTCAGGTTCGAGTTTAG
1 GTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTCGGGTCGGGTCGGGTTCGGGTTTAG
1275105 GGTGAAAAAAACCGGACCGACCCGAAAA
66 GGTGAAAAAAACCGGACCGACCCGAAAA
1275133 AAAAATATAA
Statistics
Matches: 290, Mismatches: 25, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
223 39 0.13
224 136 0.47
225 1 0.00
228 114 0.39
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (224 bp):
GTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGAGTCGGGTCGGGTCGGGTTCGGGTTTAG
GGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAAGTCGGGTCGGATTAAGTCACTGT
TTTTATTAAATAAAAATAATATTTTTATTATTTCGGGTCGGGTCGGATGAAACTTTATTTTGTTC
GGGTCGGGTTTTTTAAGTGTGATATTCGA
Found at i:1279689 original size:15 final size:17
Alignment explanation
Indices: 1279665--1279696 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1279655 TAAATAGATG
1279665 ATTTTAAAAT-AATATT
1 ATTTTAAAATAAATATT
1279681 ATTTT-AAATAAATATT
1 ATTTTAAAATAAATATT
1279697 TAATATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTAAAATAAATATT
Found at i:1279692 original size:20 final size:20
Alignment explanation
Indices: 1279669--1279732 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 20
1279659 TAGATGATTT
1279669 TAAAATAATATTATTTTAAA
1 TAAAATAATATTATTTTAAA
*
1279689 TAAATATTTAATATGATTTT-AA
1 TAAA-A--TAATATTATTTTAAA
*
1279711 -AAAATAAATAAATATTTTAAA
1 TAAAAT-AAT-ATTATTTTAAA
1279732 T
1 T
1279733 GTTTATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
18 1 0.03
19 3 0.09
20 11 0.32
21 6 0.18
22 2 0.06
23 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAATAATATTATTTTAAA
Found at i:1279700 original size:23 final size:23
Alignment explanation
Indices: 1279671--1279732 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
1279661 GATGATTTTA
1279671 AAATAATATTATTTTAAATAAAT
1 AAATAATATTATTTTAAATAAAT
** *
1279694 ATTTAATATGATTTTAAA-AAAT
1 AAATAATATTATTTTAAATAAAT
1279716 AAATAA-A-TATTTTAAAT
1 AAATAATATTATTTTAAAT
1279733 GTTTATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 8 0.25
21 1 0.03
22 8 0.25
23 15 0.47
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATAATATTATTTTAAATAAAT
Found at i:1279749 original size:31 final size:31
Alignment explanation
Indices: 1279685--1279760 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
1279675 AATATTATTT
1279685 TAAATAAATA-TTTAATATGATTTTAAAAAA
1 TAAATAAATATTTTAATATGATTTTAAAAAA
**
1279715 TAAATAAATATTTTAA-ATG-TTTATAATATCA
1 TAAATAAATATTTTAATATGATTT-TAA-AAAA
*
1279746 TAAATAAATGTTTTA
1 TAAATAAATATTTTA
1279761 GAATAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 3 0.08
30 16 0.40
31 21 0.52
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (31 bp):
TAAATAAATATTTTAATATGATTTTAAAAAA
Found at i:1283605 original size:155 final size:155
Alignment explanation
Indices: 1283323--1283625 Score: 516
Period size: 155 Copynumber: 2.0 Consensus size: 155
1283313 CGTGTAAGGT
1283323 AGAGTGTTTCTTGGAATTTCATGCTCATCTTCATGCCATTTATCCTTCTTGAATGCATTAATGAT
1 AGAGTGTTTCTTGGAATTTCATGCTCATCTTCATGCCATTTATCCTTCTTGAATGCATTAATGAT
* *
1283388 AAGAATAAAGTAGGCCTTCAATGTATGTCTCCTTGTAGAATTTGAATGGTATCTCAAAAAGGATG
66 AAGAATAAAGTAGGCCTTCAATGTATGTCTCCTTATAGAATTTGAATGGTATCTCAAAAAGGACG
1283453 AGAAAGAAGGTCTTCATTCCAAGAA
131 AGAAAGAAGGTCTTCATTCCAAGAA
* * * *
1283478 AGAGTGTTTCTTGGAATTTCATGCTCATCTTCATGGCATTTATCCTTCTTTAATGCCTTAATGTT
1 AGAGTGTTTCTTGGAATTTCATGCTCATCTTCATGCCATTTATCCTTCTTGAATGCATTAATGAT
* * *
1283543 GAGAATAAAGTAGGCCTTCAATTTATGTCTCCTTATAGAATTTGAATGGTCTCTCAAAAAGGACG
66 AAGAATAAAGTAGGCCTTCAATGTATGTCTCCTTATAGAATTTGAATGGTATCTCAAAAAGGACG
*
1283608 ATAAAGAAGGTCTTCATT
131 AGAAAGAAGGTCTTCATT
1283626 GCATGTCTCC
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
155 138 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (155 bp):
AGAGTGTTTCTTGGAATTTCATGCTCATCTTCATGCCATTTATCCTTCTTGAATGCATTAATGAT
AAGAATAAAGTAGGCCTTCAATGTATGTCTCCTTATAGAATTTGAATGGTATCTCAAAAAGGACG
AGAAAGAAGGTCTTCATTCCAAGAA
Found at i:1284224 original size:19 final size:19
Alignment explanation
Indices: 1284200--1284238 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1284190 TCGAATGCAT
1284200 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1284219 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1284238 T
1 T
1284239 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1284339 original size:64 final size:65
Alignment explanation
Indices: 1284186--1284346 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
1284176 GAATTAATTG
* * *** *
1284186 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
1284251 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
1284314 A
65 A
1284315 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1284347 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1284361 original size:64 final size:64
Alignment explanation
Indices: 1284186--1284366 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
1284176 GAATTAATTG
* * * *
1284186 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
1284251 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
1284315 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
1284367 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 48 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:1287276 original size:165 final size:167
Alignment explanation
Indices: 1286994--1287325 Score: 650
Period size: 165 Copynumber: 2.0 Consensus size: 167
1286984 ATTGAGTATT
1286994 AGTCAATTATGCGATAAAGGATTCAATGTCTTATTTGAAATTAATGGTTGTAAAGTCATTGACAT
1 AGTCAATTATGCGATAAAGGATTCAATGTCTTATTTGAAATTAATGGTTGTAAAGTCATTGACAT
1287059 TGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAACATTTACATGGTGCATTTAGATT
66 TGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAACATTTACATGGTGCATTTAGATT
1287124 CTATTGATATGACTAATTTATG-CTAGTTGCTAAGGA
131 CTATTGATATGACTAATTTATGCCTAGTTGCTAAGGA
1287160 AGTCAATTATGCGATAAAGGATTCAATGTCTTATTTGAAATTAATGGTTGTAAAGTCA-TGACAT
1 AGTCAATTATGCGATAAAGGATTCAATGTCTTATTTGAAATTAATGGTTGTAAAGTCATTGACAT
1287224 TGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAACATTTACATGGTGCATTTAGATT
66 TGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAACATTTACATGGTGCATTTAGATT
1287289 CTATTGATATGACTAATTTATGCCTAGTTGCTAAGGA
131 CTATTGATATGACTAATTTATGCCTAGTTGCTAAGGA
1287326 TGAGCATGAT
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
165 93 0.56
166 72 0.44
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (167 bp):
AGTCAATTATGCGATAAAGGATTCAATGTCTTATTTGAAATTAATGGTTGTAAAGTCATTGACAT
TGCATCTAATCGGATTATGCTTGTTGGTCATAGAATAGGAAACATTTACATGGTGCATTTAGATT
CTATTGATATGACTAATTTATGCCTAGTTGCTAAGGA
Found at i:1291834 original size:21 final size:21
Alignment explanation
Indices: 1291792--1291835 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1291782 ACCCCGGGAG
*
1291792 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
1291813 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
1291834 CT
1 CT
1291836 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:1292831 original size:20 final size:20
Alignment explanation
Indices: 1292806--1292844 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1292796 TCGAATGCAT
1292806 TCCATGCACCAATGCACTCA
1 TCCATGCACCAATGCACTCA
* *
1292826 TCCATGCATCGATGCACTC
1 TCCATGCACCAATGCACTC
1292845 TGAATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.38, G:0.13, T:0.23
Consensus pattern (20 bp):
TCCATGCACCAATGCACTCA
Found at i:1292899 original size:65 final size:65
Alignment explanation
Indices: 1292792--1292954 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 65
1292782 GAATTAATTG
* * * * * *
1292792 AACATCGAATGCATTCCATGCACCAATGCACTCATCCATGCATCGATGCACTC-TG-AATATTTT
1 AACATCGAATGCATTTCATGCATCGATGCAC-AAGCCATGCATCGATGCA-TCAGGCAATATTTT
1292855 CAA
64 C-A
* * *
1292858 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCAATATTTTCA
1292923 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1292955 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 2 0.02
65 49 0.58
66 34 0.40
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCAATATTTTCA
Found at i:1293921 original size:18 final size:18
Alignment explanation
Indices: 1293874--1293927 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
1293864 AACTAGATTT
* *
1293874 ATTAAATGAACCAAAAT-
1 ATTAAATGAACTAACATG
*
1293891 ACTTAAATAAACTAACATG
1 A-TTAAATGAACTAACATG
1293910 ATTAAATGAACT-ACATG
1 ATTAAATGAACTAACATG
1293927 A
1 A
1293928 ATTATCATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 7 0.23
18 23 0.74
19 1 0.03
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (18 bp):
ATTAAATGAACTAACATG
Found at i:1293958 original size:17 final size:19
Alignment explanation
Indices: 1293933--1293972 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
1293923 CATGAATTAT
1293933 CATGGTTTA-ATGAAGTA-
1 CATGGTTTAGATGAAGTAG
*
1293950 CATGTTTTAGATGAAGTAG
1 CATGGTTTAGATGAAGTAG
1293969 CATG
1 CATG
1293973 CTTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 8 0.40
19 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (19 bp):
CATGGTTTAGATGAAGTAG
Found at i:1315679 original size:17 final size:17
Alignment explanation
Indices: 1315657--1315698 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
1315647 TCTCTCTTGA
1315657 TTCTTGTTGATTATTGT
1 TTCTTGTTGATTATTGT
1315674 TTCTTGTTGATTATTGT
1 TTCTTGTTGATTATTGT
1315691 TTCTTGTT
1 TTCTTGTT
1315699 ATTGATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.67
Consensus pattern (17 bp):
TTCTTGTTGATTATTGT
Found at i:1317159 original size:18 final size:17
Alignment explanation
Indices: 1317105--1317153 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1317095 TTGGACTCTC
* *
1317105 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1317123 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1317141 AGTGCATTCGATG
1 AGTGCA-TCGATG
1317154 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1317258 original size:65 final size:63
Alignment explanation
Indices: 1317102--1317284 Score: 208
Period size: 65 Copynumber: 2.8 Consensus size: 63
1317092 CCGTTGGACT
* *
1317102 CTCAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGC
1 CTCAGTGCATCGGTGCA-T-GGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGC
** * *
1317166 CAGAGTGCATCGATGCATGGCAGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AT
1 CTCAGTGCATCGGTGCATGG-A-GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAG
1317230 C
63 C
* * *
1317231 CTCAGTGCATCGGTGCATGGTACGTGCATCGATGCATGAAATGCGTTTGATGTT
1 CTCAGTGCATCGGTGCATGG-A-GTGCATCGATGCATCAAATGCATTCGATGTT
1317285 CAATTTAATT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 42 0.42
65 53 0.52
66 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (63 bp):
CTCAGTGCATCGGTGCATGGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGC
Found at i:1319723 original size:12 final size:12
Alignment explanation
Indices: 1319706--1319734 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1319696 GAGAGTTTTG
1319706 AGAAAATGAGGA
1 AGAAAATGAGGA
1319718 AGAAAATGAGGA
1 AGAAAATGAGGA
1319730 AGAAA
1 AGAAA
1319735 TAGGGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (12 bp):
AGAAAATGAGGA
Found at i:1319838 original size:21 final size:19
Alignment explanation
Indices: 1319809--1319880 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 19
1319799 CAAGGCATGC
*
1319809 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCA-CTTCA-GGTGT
* *
1319830 ATCGATGCATATTCAAGGATGC
1 ATCGATGCA-CTTC-AGG-TGT
*
1319852 ATCGATGCACTGTTAGGTGT
1 ATCGATGCACT-TCAGGTGT
1319872 ATCGATGCA
1 ATCGATGCA
1319881 TGAAGCACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
20 11 0.27
21 17 0.41
22 13 0.32
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (19 bp):
ATCGATGCACTTCAGGTGT
Found at i:1319879 original size:42 final size:44
Alignment explanation
Indices: 1319786--1319881 Score: 126
Period size: 42 Copynumber: 2.2 Consensus size: 44
1319776 GGCCTTGTTC
* * *
1319786 ATCGAAGCACATTCAAGGCATGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCATATTCAAGGCATGCATCGATGCACCTTCATGGTGT
*
1319830 ATCGATGCATATTCAAGG-ATGCATCGATGCA-CTGTTA-GGTGT
1 ATCGATGCATATTCAAGGCATGCATCGATGCACCT-TCATGGTGT
1319872 ATCGATGCAT
1 ATCGATGCAT
1319882 GAAGCACAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 17 0.36
43 14 0.30
44 16 0.34
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCGATGCATATTCAAGGCATGCATCGATGCACCTTCATGGTGT
Found at i:1325812 original size:65 final size:65
Alignment explanation
Indices: 1325678--1325838 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 65
1325668 GTGCACTAAG
* * * *
1325678 AGTGCATCGGTGCATCAAGTGCATTCGATG-TTTCAAAATAGCTAGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGCT
*
1325742 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCT-CAGTGCATCGGTGCATGG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATA-CCTACAGTGCATCGATGCATGG
1325805 -T
64 CT
* *
1325806 ACGTGCATCAATGCATGAAATGCATTCGATGTT
1 A-GTGCATCGATGCATCAAATGCATTCGATGTT
1325839 CAATTTAATT
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 30 0.35
65 51 0.59
66 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATACCTACAGTGCATCGATGCATGGCT
Found at i:1325878 original size:65 final size:63
Alignment explanation
Indices: 1325688--1325888 Score: 169
Period size: 65 Copynumber: 3.1 Consensus size: 63
1325678 AGTGCATCGG
* * * * *
1325688 TGCATCAAGTGCATTCGATGTTTCA-AAATAGCTAGAGTGCATCGATGCATGGCTAG-TGCATCG
1 TGCATCAAATGCATTCGATGTTTCATAAA-ATCT-CAGTGCATCGATGCATGG-TTGCTGCATCA
1325751 A
63 A
* *
1325752 TGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGG-TACGTGCATCA
1 TGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGTTGC-TGCATCA
1325816 A
63 A
* **
1325817 TGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGATTGCTGCATC
1 TGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-TTGCTGCATC
**
1325880 GG
62 AA
1325882 TGCATCA
1 TGCATCA
1325889 CTCTGAAAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 39 0.35
65 60 0.54
66 7 0.06
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
TGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTGCTGCATCAA
Found at i:1328976 original size:2 final size:2
Alignment explanation
Indices: 1328969--1328996 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1328959 TAATACATAC
1328969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1328997 TTACAGGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1329415 original size:55 final size:55
Alignment explanation
Indices: 1329328--1329752 Score: 594
Period size: 55 Copynumber: 7.7 Consensus size: 55
1329318 AATGGGTTCA
* *
1329328 CTCCCTATTTCTTTCAG-GTAGTAT-AGAACTCGAATAATCTTCAATAATCGTGTTTG
1 CTCCCTATTTC-TTCAGAG-AGTATGAG-ACTCGAACAATCTTCAATAATCGTGTCTG
* *
1329384 CTCTCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
1329439 CTCCCTATTTCTTTAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
1329494 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATTGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
1329549 CTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATTGTGTTTG
1 CTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* * *
1329604 CTCCCTA-TTCTTTCAGAGAGTATGAGACTCGAACAATATTCAATAATTGTGTCTA
1 CTCCCTATTTC-TTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
1329659 CTCCCTA-TTCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTG
1 CTCCCTATTTC-TTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
1329714 TTCCCTA-TTCTTCAGGGAGTAT-AGAACTCGAA-AATCTTC
1 CTCCCTATTTCTTCAGAGAGTATGAG-ACTCGAACAATCTTC
1329753 TTCTTACGGG
Statistics
Matches: 343, Mismatches: 22, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
53 9 0.03
54 21 0.06
55 300 0.87
56 13 0.04
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (55 bp):
CTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
Found at i:1329779 original size:54 final size:54
Alignment explanation
Indices: 1329721--1330519 Score: 1305
Period size: 54 Copynumber: 14.6 Consensus size: 54
1329711 CTGTTCCCTA
*
1329721 TTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1329775 TTCTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
* *
1329830 TTCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGTTCCCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
* *
1329884 TTCTTCAAGG-AGTATAGAACTCGAAAACCTTCTTCTTACGGGTTCACTCCCTCT
1 TTCTTC-AGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1329938 TTCTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1329993 TTCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTAC-GG---G-TTCGCTCCCTCT
* **
1330052 TTCTTCAGGAAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330106 TTCTTCAGGAAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1330160 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
* *
1330214 TTCTTCAAGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330269 TTCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330323 TTCTTCAAGG-AGTATAGAACTCGAAAACCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTC-AGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330377 TTCTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
1 TTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
* *
1330432 TTCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTACCTCT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330486 TTCTTCAGGGAGTATAGAACTCGAAAATCTTCTT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTT
1330520 TTGCTTCACT
Statistics
Matches: 695, Mismatches: 37, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
53 6 0.01
54 422 0.61
55 217 0.31
58 3 0.00
59 47 0.07
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (54 bp):
TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
Found at i:1329835 original size:109 final size:108
Alignment explanation
Indices: 1329721--1330519 Score: 1305
Period size: 109 Copynumber: 7.3 Consensus size: 108
1329711 CTGTTCCCTA
*
1329721 TTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAA
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAA
*
1329786 GTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
66 GTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
* *
1329830 TTCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGTTCCCTCTTTCTTCAAGG-
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTC-AGGA
* *
1329894 AGTATAGAACTCGAAAACCTTCTTCTTACGGGTTCACTCCCTCT
65 AGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1329938 TTCTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGA
1 TTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGA
*
1330003 AGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTTCGCTCCCTCT
65 AGTATAGAACTCGAAAATCTTCTTCTTAC-GG---G-TTCGCTCCCTCT
* **
1330052 TTCTTCAGGAAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGAA
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAA
*
1330117 GTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
66 GTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330160 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAAGAA
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAA
*
1330225 GTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
66 GTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330269 TTCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAAGG-
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTC-AGGA
*
1330333 AGTATAGAACTCGAAAACCTTCTTCTTACGGGTTCGCTCCCTCT
65 AGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330377 TTCTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGA
1 TTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGA
* *
1330442 AGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTACCTCT
65 AGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
*
1330486 TTCTTCAGGGAGTATAGAACTCGAAAATCTTCTT
1 TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTT
1330520 TTGCTTCACT
Statistics
Matches: 645, Mismatches: 33, Indels: 25
0.92 0.05 0.04
Matches are distributed among these distances:
108 204 0.32
109 333 0.52
110 7 0.01
112 2 0.00
113 66 0.10
114 33 0.05
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (108 bp):
TTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAA
GTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCT
Found at i:1329890 original size:163 final size:162
Alignment explanation
Indices: 1329713--1330519 Score: 1305
Period size: 163 Copynumber: 4.9 Consensus size: 162
1329703 AATCGTGTCT
* *
1329713 GTTCCCT-ATTCTTCAGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTT
1 GTTCCCTCTTTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTT
1329777 CTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAAG
66 CTTCAGGAAGTATAGAACTC-AAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAAG
*
1329842 TATAGAACTCGAGAATCTTCTTCTTACGGGTTC
130 TATAGAACTCGAAAATCTTCTTCTTACGGGTTC
* *
1329875 GTTCCCTCTTTCTTCAAGG-AGTATAGAACTCGAAAACCTTCTTCTTACGGGTTCACTCCCTCTT
1 GTTCCCTCTTTCTTC-AGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTT
1329939 TCTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAA
65 TCTTCAGGAAGTATAGAACTC-AAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAA
*
1330004 GTATAGAACTCGAGAATCTTCTTCTTACGGGTTC
129 GTATAGAACTCGAAAATCTTCTTCTTACGGGTTC
* **
1330038 GCTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCC
1 G--T---TCCCTCTTTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCC
1330103 TCTTTCTTCAGGAAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAG
61 TCTTTCTTCAGGAAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAG
1330168 GAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTC
126 GAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTC
* * *
1330205 GCTCCCTCTTTCTTCAAGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTT
1 GTTCCCTCTTTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCTT
* *
1330270 TCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAAGG-A
65 TCTTCAGGAAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTC-AGGAA
*
1330334 GTATAGAACTCGAAAACCTTCTTCTTACGGGTTC
129 GTATAGAACTCGAAAATCTTCTTCTTACGGGTTC
* *
1330368 GCTCCCTCTTTCTTCAGGAAGTATAGAACTCAAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTT
1 GTTCCCTCTTTCTTCAGGAAGTATAGAACTC-GAAAATCTTCTTCTTACGGGTTCGCTCCCTCTT
* * * *
1330433 TCTTCAGGAAGTATAGAACTCGAGAATCTTCTTCTTACGGGTTCGCTACCTCTTTCTTCAGGGAG
65 TCTTCAGGAAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAAG
1330498 TATAGAACTCGAAAATCTTCTT
130 TATAGAACTCGAAAATCTTCTT
1330520 TTGCTTCACT
Statistics
Matches: 613, Mismatches: 21, Indels: 21
0.94 0.03 0.03
Matches are distributed among these distances:
162 38 0.06
163 414 0.68
164 6 0.01
165 1 0.00
167 80 0.13
168 74 0.12
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (162 bp):
GTTCCCTCTTTCTTCAGGAAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTT
CTTCAGGAAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGAAGT
ATAGAACTCGAAAATCTTCTTCTTACGGGTTC
Found at i:1332518 original size:124 final size:125
Alignment explanation
Indices: 1332292--1332526 Score: 323
Period size: 124 Copynumber: 1.9 Consensus size: 125
1332282 CGCAACATCA
* * *
1332292 TCTTATACTGGTACGGGCCTTCAAAATGCCCCAACATATCAGATTGTAAGGCTTACTCTTAATGC
1 TCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACATCAAATTGTAAGGCTCACTCTTAATGC
* *
1332357 CTTCTAGGTCTAAATCTTGTCCTCTCAATATAATGTGGGTTCAGTCATTCCCCATCAGTG
66 CTCCTAGGTCTAAATCTTGTCCTCTCAACATAATGTGGGTTCAGTCATTCCCCATCAGTG
* * * * *
1332417 TCTTA-ACTGGTACGGGCCTTCAAAATGCCTCATCACCTCAAATTGTAAGGCTCATTCTTCATGC
1 TCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACATCAAATTGTAAGGCTCACTCTTAATGC
* *
1332481 CTCCTTA-GTCTGAATCTT-TCCATCTCAACATGATGTGGGTTCAGTC
66 CTCC-TAGGTCTAAATCTTGTCC-TCTCAACATAATGTGGGTTCAGTC
1332527 GTACCCCAAC
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
123 3 0.03
124 86 0.90
125 7 0.07
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (125 bp):
TCTTATACTGGTACGGGCCTTCAAAATGCCCCAACACATCAAATTGTAAGGCTCACTCTTAATGC
CTCCTAGGTCTAAATCTTGTCCTCTCAACATAATGTGGGTTCAGTCATTCCCCATCAGTG
Found at i:1333849 original size:12 final size:12
Alignment explanation
Indices: 1333832--1333883 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
1333822 TCCAATTTTT
1333832 TTCTTTTCTTTC
1 TTCTTTTCTTTC
1333844 TTCTTTTCTTTTC
1 TTCTTTTC-TTTC
1333857 TT-TTTCTCTTTC
1 TTCTTT-TCTTTC
* *
1333869 TACATTTCTCTTC
1 TTCTTTTCT-TTC
1333882 TT
1 TT
1333884 TCTATTCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 19 0.58
13 14 0.42
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTTTTCTTTC
Found at i:1333850 original size:17 final size:16
Alignment explanation
Indices: 1333830--1333869 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
1333820 CTTCCAATTT
1333830 TTTTCTTTTCTTTCTTC
1 TTTTCTTTTCTTT-TTC
1333847 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTTTTTC
1333863 TCTTTCT
1 T-TTTCT
1333870 ACATTTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTC
Found at i:1333861 original size:23 final size:22
Alignment explanation
Indices: 1333787--1333863 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 22
1333777 GTTTGATCGA
1333787 TTTTCTTTCATTCTCTTTTTTTCAT
1 TTTTCTTTC-TTCT-TTTTTTTC-T
** *
1333812 TTTTCTCACTTCCAATTTTTTTC-
1 TTTTCTTTCTT-C-TTTTTTTTCT
1333835 TTTTCTTTCTTCTTTTCTTTTCT
1 TTTTCTTTCTTCTTTT-TTTTCT
1333858 TTTTCT
1 TTTTCT
1333864 CTTTCTACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
21 3 0.07
22 6 0.14
23 15 0.36
24 2 0.05
25 16 0.38
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTCTTTCTTCTTTTTTTTCT
Found at i:1336418 original size:21 final size:21
Alignment explanation
Indices: 1336406--1336451 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
1336396 GTCTTCATGT
1336406 CTTTATGAATGGTCTTCTCGC
1 CTTTATGAATGGTCTTCTCGC
*
1336427 CTTTATGAATGATCTTCTCGTC
1 CTTTATGAATGGTCTTCTCG-C
1336449 CTT
1 CTT
1336452 GGTATGACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (21 bp):
CTTTATGAATGGTCTTCTCGC
Found at i:1340006 original size:4 final size:4
Alignment explanation
Indices: 1339993--1340055 Score: 119
Period size: 4 Copynumber: 16.0 Consensus size: 4
1339983 TTCATATACC
1339993 CATA -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1340040 CATA CATA CATA CATA
1 CATA CATA CATA CATA
1340056 TATATATATA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 3 0.05
4 55 0.95
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1340807 original size:64 final size:65
Alignment explanation
Indices: 1340680--1340813 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 65
1340670 GATGCATTTT
* * ** *
1340680 GAATGCATTTTTTTGTACCGATGCACAAGCCATACATCGATGCACTCTTGAATATTTTGAACATC
1 GAATGCATTTTTGTGTACCGATGCACAAACCATACATCGATGCACTCCAGAATATTTTAAACATC
* * **
1340745 GAATGCA-TTTTGTGTACTGATGCACAAACCATGCATCGATGCACTCCAGGCT-TGTTTAAACAT
1 GAATGCATTTTTGTGTACCGATGCACAAACCATACATCGATGCACTCCAGAATAT-TTTAAACAT
1340808 C
65 C
1340809 GAATG
1 GAATG
1340814 TAATTAGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
63 1 0.02
64 51 0.86
65 7 0.12
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
GAATGCATTTTTGTGTACCGATGCACAAACCATACATCGATGCACTCCAGAATATTTTAAACATC
Found at i:1345377 original size:6 final size:6
Alignment explanation
Indices: 1345366--1345445 Score: 52
Period size: 6 Copynumber: 12.3 Consensus size: 6
1345356 GCAACCATTA
* * *
1345366 TTATTT TTATTTT TTGTTTGT TTAATT TTATTTT TTATTT TTCAATT TTATTT
1 TTATTT TTA-TTT TT-ATT-T TTATTT TTA-TTT TTATTT TT-ATTT TTATTT
* * *
1345419 TTCTGAT TTATTT TTGTTT TTATTT TT
1 TTAT-TT TTATTT TTATTT TTATTT TT
1345446 CTTTGATTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
6 31 0.55
7 22 0.39
8 3 0.05
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:1345407 original size:13 final size:13
Alignment explanation
Indices: 1345369--1345445 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
1345359 ACCATTATTA
*
1345369 TTTTTATTTTTTGT
1 TTTTTA-TTTTTAT
*
1345383 TTGTTTAATTTTAT
1 TT-TTTATTTTTAT
1345397 TTTTTATTTTTCA-
1 TTTTTATTTTT-AT
* *
1345410 ATTTTATTTTTCT
1 TTTTTATTTTTAT
** *
1345423 GATTTATTTTT-G
1 TTTTTATTTTTAT
1345435 TTTTTATTTTT
1 TTTTTATTTTT
1345446 CTTTGATTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
12 9 0.18
13 27 0.54
14 10 0.20
15 4 0.08
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:1345412 original size:20 final size:21
Alignment explanation
Indices: 1345370--1345420 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
1345360 CCATTATTAT
* *
1345370 TTTTATTTTTTGTTTGTTTAA
1 TTTTATTTTTTATTTGTTCAA
1345391 TTTTATTTTTTATTT-TTCAA
1 TTTTATTTTTTATTTGTTCAA
1345411 TTTTATTTTT
1 TTTTATTTTT
1345421 CTGATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTATTTGTTCAA
Found at i:1345432 original size:25 final size:26
Alignment explanation
Indices: 1345399--1345447 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
1345389 AATTTTATTT
1345399 TTTATTTTTCAATTTTATTTTTCTGA
1 TTTATTTTTCAATTTTATTTTTCTGA
**
1345425 TTTATTTTT-GTTTTTATTTTTCT
1 TTTATTTTTCAATTTTATTTTTCT
1345448 TTGATTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTATTTTTCAATTTTATTTTTCTGA
Found at i:1345677 original size:32 final size:31
Alignment explanation
Indices: 1345640--1345704 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
1345630 CGGACATTGT
* * *
1345640 AAAAAACTGATTTGGTTCGAACTGTGCAAGAA
1 AAAAAAATGACTTGGTTCGAACTATGC-AGAA
1345672 AAAAAAATGACTTGGTTCGAACTATGCAGAA
1 AAAAAAATGACTTGGTTCGAACTATGCAGAA
1345703 AA
1 AA
1345705 GTTTGAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 6 0.20
32 24 0.80
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAAAAATGACTTGGTTCGAACTATGCAGAA
Found at i:1348597 original size:4 final size:4
Alignment explanation
Indices: 1348588--1348646 Score: 66
Period size: 4 Copynumber: 14.5 Consensus size: 4
1348578 TCTTTATCTC
* *
1348588 TATT TATT TATT TATT TATT TATT TGTT TATT TAAT T-TT TATT TCATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T-ATT
*
1348636 ATATT TCTT TA
1 -TATT TATT TA
1348647 AACAATTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
3 2 0.04
4 37 0.80
5 6 0.13
6 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:1350793 original size:3 final size:3
Alignment explanation
Indices: 1350785--1350862 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
1350775 ATACTAAACA
1350785 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1350833 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1350863 ATGCATAATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1354906 original size:20 final size:20
Alignment explanation
Indices: 1354881--1354931 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1354871 TGGAGCGTGG
1354881 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
1354901 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
1354921 GGGGAATCGGT
1 GGGGAATCGGT
1354932 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTAT
Found at i:1357539 original size:20 final size:20
Alignment explanation
Indices: 1357502--1357540 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1357492 AGATTGAGTG
* * *
1357502 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
1357522 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1357541 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:1357767 original size:20 final size:21
Alignment explanation
Indices: 1357721--1357781 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
1357711 TTCCCCTGTG
*
1357721 GGGGGAATTGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1357744 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
1357764 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1357782 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1365582 original size:90 final size:90
Alignment explanation
Indices: 1365471--1365640 Score: 279
Period size: 90 Copynumber: 1.9 Consensus size: 90
1365461 AAATTTTACA
* *
1365471 TCAATTAAAACACAAACTAAAATTAAAACATTTCTTGCTATTCAAAATCTATAACTAAGCTAAAC
1 TCAATTAAAACACAAACTAAAATTAAAACATTTCTTGATATTCAAAATCTATAACCAAGCTAAAC
1365536 ATTTCAGTATGACATAATTTGAAAT
66 ATTTCAGTATGACATAATTTGAAAT
* * *
1365561 TCAATTAAAACGA-AAACTAAAATTCAAACATTTCTTGATATTCAAAATCTATAACCCAGTTAAA
1 TCAATTAAAAC-ACAAACTAAAATTAAAACATTTCTTGATATTCAAAATCTATAACCAAGCTAAA
1365625 CATTTCAGTATGACAT
65 CATTTCAGTATGACAT
1365641 TGTTGAGTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
90 73 0.99
91 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (90 bp):
TCAATTAAAACACAAACTAAAATTAAAACATTTCTTGATATTCAAAATCTATAACCAAGCTAAAC
ATTTCAGTATGACATAATTTGAAAT
Found at i:1372692 original size:18 final size:19
Alignment explanation
Indices: 1372669--1372704 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1372659 CTATGTAAAG
*
1372669 GGGTATTGATACC-CTTTA
1 GGGTATTAATACCTCTTTA
1372687 GGGTATTAATACCTCTTT
1 GGGTATTAATACCTCTTT
1372705 TGCATTCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (19 bp):
GGGTATTAATACCTCTTTA
Found at i:1388898 original size:15 final size:15
Alignment explanation
Indices: 1388851--1388902 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
1388841 AAAAATAATG
1388851 TTTAATTTTAAAGTA
1 TTTAATTTTAAAGTA
* * *
1388866 -CT-ATTTAAAAAATA
1 TTTAATTT-TAAAGTA
1388880 TTTAATTTTAAAGTA
1 TTTAATTTTAAAGTA
1388895 TTTAATTT
1 TTTAATTT
1388903 GTCAATACTC
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 14 0.50
16 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (15 bp):
TTTAATTTTAAAGTA
Found at i:1389183 original size:277 final size:277
Alignment explanation
Indices: 1388685--1389235 Score: 862
Period size: 277 Copynumber: 2.0 Consensus size: 277
1388675 AAAATTTAAT
*
1388685 GTTTTATTATTTACTTTATAGTTGCAAAGGAATTGTTGTTATTCATTGAGGTCTCGGATTCGAGC
1 GTTTTATTATTTACTTTATAGTTGCAAAGGAATTGTTGCTATTCATTGAGGTCTCGGATTCGAGC
* ** *
1388750 ACTAAGAATGTTAGGGTTGTGAACATTCAATGTTAAATGATTGAGAGTTATTTTTAACGGATATT
66 ACTAAGAATATTAGGGCCGTGAACATTCAATGTCAAATGATTGAGAGTTATTTTTAACGGATATT
1388815 GTATTGTACCAATCCCATATTAATAAAAAAATAATGTTTAATTTTAAAGTACTATTTAAAAAATA
131 GTATTGTACCAATCCCATATTAATAAAAAAATAATGTTTAATTTTAAAGTACTATTTAAAAAATA
*
1388880 TTTAATTTTAAAGTATTTAATTTGTCAATACTCGTTTGTCAATTTATGAAAAGATACTTCAATTC
196 TTTAATTTTAAAGTATCTAATTTGTCAATACTCGTTTGTCAATTTATGAAAAGATACTTCAATTC
1388945 TGTTAAATTTGAATAAA
261 TGTTAAATTTGAATAAA
*
1388962 GTTTTATTATTTACTTTATAGTTGCAAATGAATTGTTGCTATTCATTGAGGTCTCGGATTCGAGC
1 GTTTTATTATTTACTTTATAGTTGCAAAGGAATTGTTGCTATTCATTGAGGTCTCGGATTCGAGC
*
1389027 ACTAAGAATATTAGGGCCGTGAGCATTCAATGTCAAATGATTGAGAGTTATTTTTTAACGGATAT
66 ACTAAGAATATTAGGGCCGTGAACATTCAATGTCAAATGATTGAGAGTTA-TTTTTAACGGATAT
* * *
1389092 TGTCTTGTACCAATCCTATATTAATAAAATAATAATGTTTAATTTTAAAGTACTATTT-AAAAA-
130 TGTATTGTACCAATCCCATATTAATAAAAAAATAATGTTTAATTTTAAAGTACTATTTAAAAAAT
*
1389155 A--T-A-TTT--A--AT-T--TTT-T-AATACTCGTTTGTCAATTTATGAAACGATACTTCAATT
195 ATTTAATTTTAAAGTATCTAATTTGTCAATACTCGTTTGTCAATTTATGAAAAGATACTTCAATT
*
1389207 CTGTTAAATCTGAATAAA
260 CTGTTAAATTTGAATAAA
1389225 GTTTTAATTAT
1 GTTTT-ATTAT
1389236 GATTATAAAG
Statistics
Matches: 260, Mismatches: 12, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
263 59 0.23
264 6 0.02
265 3 0.01
267 1 0.00
268 2 0.01
270 1 0.00
272 3 0.01
273 1 0.00
274 1 0.00
276 1 0.00
277 113 0.43
278 69 0.27
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (277 bp):
GTTTTATTATTTACTTTATAGTTGCAAAGGAATTGTTGCTATTCATTGAGGTCTCGGATTCGAGC
ACTAAGAATATTAGGGCCGTGAACATTCAATGTCAAATGATTGAGAGTTATTTTTAACGGATATT
GTATTGTACCAATCCCATATTAATAAAAAAATAATGTTTAATTTTAAAGTACTATTTAAAAAATA
TTTAATTTTAAAGTATCTAATTTGTCAATACTCGTTTGTCAATTTATGAAAAGATACTTCAATTC
TGTTAAATTTGAATAAA
Found at i:1395258 original size:18 final size:17
Alignment explanation
Indices: 1395235--1395268 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1395225 CAGTCTGTAT
1395235 TATTTTAATGATTTTATA
1 TATTTTAAT-ATTTTATA
*
1395253 TATTTTGATATTTTAT
1 TATTTTAATATTTTAT
1395269 TTAATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:1403506 original size:18 final size:17
Alignment explanation
Indices: 1403483--1403516 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1403473 CAGTCTGTAT
1403483 TATTTTAATGATTTTATA
1 TATTTTAAT-ATTTTATA
*
1403501 TATTTTGATATTTTAT
1 TATTTTAATATTTTAT
1403517 TTAATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:1404207 original size:23 final size:23
Alignment explanation
Indices: 1404172--1404226 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
1404162 TAAATGCACC
* *
1404172 GAAGTGCAACGTAGAATTACACT
1 GAAGTGCCACGTAGAATTACACA
* *
1404195 GAAGTGCCGCGTAGAATTGCACA
1 GAAGTGCCACGTAGAATTACACA
1404218 GAAGTGCCA
1 GAAGTGCCA
1404227 TATAAAATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (23 bp):
GAAGTGCCACGTAGAATTACACA
Found at i:1404675 original size:19 final size:21
Alignment explanation
Indices: 1404651--1404692 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
1404641 TCTCTTTCAT
1404651 ATATCTCATG-TCATGT-ATC
1 ATATCTCATGATCATGTAATC
*
1404670 ATATCTTATGATCATGTAATC
1 ATATCTCATGATCATGTAATC
1404691 AT
1 AT
1404693 GTTACTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 6 0.30
21 5 0.25
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (21 bp):
ATATCTCATGATCATGTAATC
Found at i:1410399 original size:20 final size:21
Alignment explanation
Indices: 1410376--1410428 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
1410366 TAGATATTGA
1410376 TATCGATACCCAGAGG-TTAG
1 TATCGATACCCAGAGGCTTAG
** *
1410396 TATCGATACTGAGGGGCTTAG
1 TATCGATACCCAGAGGCTTAG
*
1410417 TATTGATACCCA
1 TATCGATACCCA
1410429 TGAATACTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (21 bp):
TATCGATACCCAGAGGCTTAG
Found at i:1421534 original size:22 final size:22
Alignment explanation
Indices: 1421506--1421553 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1421496 ATCACTTATT
*
1421506 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCATGA
*
1421528 ATATATATGATGTTTATTATGA
1 ATATATATGATGTTTATCATGA
1421550 ATAT
1 ATAT
1421554 TATTTCGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (22 bp):
ATATATATGATGTTTATCATGA
Found at i:1429060 original size:21 final size:21
Alignment explanation
Indices: 1429036--1429075 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1429026 TCACGTCCTG
*
1429036 CACCCTTCTCTTTTTCTTCAT
1 CACCCTTCTCTTATTCTTCAT
* *
1429057 CACCTTTGTCTTATTCTTC
1 CACCCTTCTCTTATTCTTC
1429076 TCCTAAAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.35, G:0.03, T:0.53
Consensus pattern (21 bp):
CACCCTTCTCTTATTCTTCAT
Found at i:1431244 original size:13 final size:12
Alignment explanation
Indices: 1431226--1431255 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1431216 TTGCTATTTT
1431226 AAAAAAAAAAAC
1 AAAAAAAAAAAC
1431238 AAAAAAAAAAAC
1 AAAAAAAAAAAC
1431250 AAAAAA
1 AAAAAA
1431256 GCCAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:1435474 original size:19 final size:19
Alignment explanation
Indices: 1435450--1435494 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1435440 TAGGACACTT
1435450 ATCCATCTATTTTCCACAA
1 ATCCATCTATTTTCCACAA
1435469 ATCCATCTATTTTCCACAA
1 ATCCATCTATTTTCCACAA
1435488 ATCCATC
1 ATCCATC
1435495 CACACCATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCCATCTATTTTCCACAA
Found at i:1438132 original size:243 final size:243
Alignment explanation
Indices: 1437704--1438189 Score: 927
Period size: 243 Copynumber: 2.0 Consensus size: 243
1437694 TGAAATTAGT
1437704 TGCAGGACAAGATTATCTAAAAGAGAAGTAAGACAAATTTCTCAAATATGTTTCAAACAAGGACA
1 TGCAGGACAAGATTATCTAAAAGAGAAGTAAGACAAATTTCTCAAATATGTTTCAAACAAGGACA
1437769 TAACTCAAGGAAATGTCCTATTAAACAACAACCTTAACAGAAAACAACAGCACAACAGGAAACAA
66 TAACTCAAGGAAATGTCCTATTAAACAACAACCTTAACAGAAAACAACAGCACAACAGGAAACAA
1437834 CACCAAATGTAAATTAAAGTAGTCTTCCACCTAGTTTCTTATATGTTGCTAGGTATTCTCTATTA
131 CACCAAATGTAAATTAAAGTAGTCTTCCACCTAGTTTCTTATATGTTGCTAGGTATTCTCTATTA
1437899 AATGTGTACTAATAAATCATTTTCATCTTTGGTAAAGTTATCAAAGGG
196 AATGTGTACTAATAAATCATTTTCATCTTTGGTAAAGTTATCAAAGGG
* *
1437947 TGCAGGACAAGATTATCTAAAAGAGATGTAAGACAAATTTCTCAACTATGTTTCAAACAAGGACA
1 TGCAGGACAAGATTATCTAAAAGAGAAGTAAGACAAATTTCTCAAATATGTTTCAAACAAGGACA
* *
1438012 TAACTCAAGGAAATGTCCTATTAAACAACAACCTTAACAGAAAACAACATCACAATAGGAAACAA
66 TAACTCAAGGAAATGTCCTATTAAACAACAACCTTAACAGAAAACAACAGCACAACAGGAAACAA
*
1438077 CACCAAATGTAAATTAAATTAGTCTTCCACCTAGTTTCTTATATGTTGCTAGGTATTCTCTATTA
131 CACCAAATGTAAATTAAAGTAGTCTTCCACCTAGTTTCTTATATGTTGCTAGGTATTCTCTATTA
1438142 AATGTGTACTAATAAATCATTTTCATCTTTGGTAAAGTTATCAAAGGG
196 AATGTGTACTAATAAATCATTTTCATCTTTGGTAAAGTTATCAAAGGG
1438190 CTATAGTCAT
Statistics
Matches: 238, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 238 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (243 bp):
TGCAGGACAAGATTATCTAAAAGAGAAGTAAGACAAATTTCTCAAATATGTTTCAAACAAGGACA
TAACTCAAGGAAATGTCCTATTAAACAACAACCTTAACAGAAAACAACAGCACAACAGGAAACAA
CACCAAATGTAAATTAAAGTAGTCTTCCACCTAGTTTCTTATATGTTGCTAGGTATTCTCTATTA
AATGTGTACTAATAAATCATTTTCATCTTTGGTAAAGTTATCAAAGGG
Found at i:1438666 original size:2 final size:2
Alignment explanation
Indices: 1438659--1438694 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1438649 CTATAGTATG
1438659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1438695 CCTTCATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1439401 original size:50 final size:51
Alignment explanation
Indices: 1439335--1439527 Score: 205
Period size: 50 Copynumber: 3.8 Consensus size: 51
1439325 TTCATGCTAT
1439335 AAAAAGT-ATAGCACTTAACACATACTTACACCGATGTAAGTAAATAAAATA
1 AAAAAGTGA-AGCACTTAACACATACTTACACCGATGTAAGTAAATAAAATA
* * * ** *
1439386 AAAAAGT-AAGTACTTAATACATACATACAATGATGTAAGTGAATAAAATA
1 AAAAAGTGAAGCACTTAACACATACTTACACCGATGTAAGTAAATAAAATA
* * ** *
1439436 AAAAAGTGTAGCAC-TAACACATATTTACA-TTAGTGTAAGTGAATAAAATA
1 AAAAAGTGAAGCACTTAACACATACTTACACCGA-TGTAAGTAAATAAAATA
* * * *
1439486 AAAAAGTGTAGAACTTAACACATACCTACACCAATGTAAGTA
1 AAAAAGTGAAGCACTTAACACATACTTACACCGATGTAAGTA
1439528 TGTATATCTC
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
49 2 0.02
50 85 0.71
51 32 0.27
52 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.25
Consensus pattern (51 bp):
AAAAAGTGAAGCACTTAACACATACTTACACCGATGTAAGTAAATAAAATA
Found at i:1439526 original size:101 final size:101
Alignment explanation
Indices: 1439335--1439526 Score: 244
Period size: 101 Copynumber: 1.9 Consensus size: 101
1439325 TTCATGCTAT
* *
1439335 AAAAAGTATAGCACTTAACACATACTTACACCGATGTAAGTAAATAAAATAAAAAAGTAAGTACT
1 AAAAAGTATAGCACTTAACACATACTTACACAGATGTAAGTAAATAAAATAAAAAAGTAAGAACT
* **
1439400 TAATACATACATACAATGATGTAAGTGAATAAAATA
66 TAACACATACATACAACAATGTAAGTGAATAAAATA
* * * * *
1439436 AAAAAGTGTAGCAC-TAACACATATTTACATTAG-TGTAAGTGAATAAAATAAAAAAGTGTAGAA
1 AAAAAGTATAGCACTTAACACATACTTACA-CAGATGTAAGTAAATAAAATAAAAAAGT-AAGAA
* *
1439499 CTTAACACATACCTACACCAATGTAAGT
64 CTTAACACATACATACAACAATGTAAGT
1439527 ATGTATATCT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
100 37 0.48
101 40 0.52
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.25
Consensus pattern (101 bp):
AAAAAGTATAGCACTTAACACATACTTACACAGATGTAAGTAAATAAAATAAAAAAGTAAGAACT
TAACACATACATACAACAATGTAAGTGAATAAAATA
Found at i:1441388 original size:18 final size:18
Alignment explanation
Indices: 1441365--1441424 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
1441355 CGGAATTTAA
*
1441365 GATTACCGACGAGAATAG
1 GATTACCGGCGAGAATAG
*
1441383 GATTACCGGTGAGAATAG
1 GATTACCGGCGAGAATAG
* *
1441401 GATTACCGGCGGGAATAA
1 GATTACCGGCGAGAATAG
1441419 GATTAC
1 GATTAC
1441425 TGGGAATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (18 bp):
GATTACCGGCGAGAATAG
Found at i:1442815 original size:14 final size:14
Alignment explanation
Indices: 1442778--1442828 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
1442768 CGATAATCTG
*
1442778 ATGTTCATTCATTT
1 ATGTTCGTTCATTT
1442792 ATGTTCGTTCATTT
1 ATGTTCGTTCATTT
*
1442806 ATGATT-GTTCGTTT
1 ATG-TTCGTTCATTT
1442820 ATGTTCGTT
1 ATGTTCGTT
1442829 TGTTTATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 2 0.06
14 29 0.88
15 2 0.06
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.57
Consensus pattern (14 bp):
ATGTTCGTTCATTT
Found at i:1442833 original size:14 final size:14
Alignment explanation
Indices: 1442778--1442835 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
1442768 CGATAATCTG
* *
1442778 ATGTTCATTCATTT
1 ATGTTCGTTCGTTT
*
1442792 ATGTTCGTTCATTT
1 ATGTTCGTTCGTTT
1442806 ATGATT-GTTCGTTT
1 ATG-TTCGTTCGTTT
*
1442820 ATGTTCGTTTGTTT
1 ATGTTCGTTCGTTT
1442834 AT
1 AT
1442836 ATTTAACCCG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
13 2 0.05
14 35 0.90
15 2 0.05
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.59
Consensus pattern (14 bp):
ATGTTCGTTCGTTT
Found at i:1447033 original size:22 final size:21
Alignment explanation
Indices: 1446991--1447034 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1446981 TACGGAAGTA
*
1446991 CTGTAGCAGGGTATCGATTCC
1 CTGTAGCAGGGAATCGATTCC
*
1447012 CTGTAGCAGGAGAATCGGTTCC
1 CTGTAGCAGG-GAATCGATTCC
1447034 C
1 C
1447035 CTCTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (21 bp):
CTGTAGCAGGGAATCGATTCC
Found at i:1447856 original size:20 final size:20
Alignment explanation
Indices: 1447831--1447873 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
1447821 CGTTACTACA
1447831 TGGGCAAGCTAGAAGTATGG
1 TGGGCAAGCTAGAAGTATGG
1447851 TGGGCAAGCTAGAAGTATGG
1 TGGGCAAGCTAGAAGTATGG
1447871 TGG
1 TGG
1447874 ACAAATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.42, T:0.21
Consensus pattern (20 bp):
TGGGCAAGCTAGAAGTATGG
Found at i:1453105 original size:11 final size:11
Alignment explanation
Indices: 1453071--1453116 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
1453061 ATTTTACGGA
1453071 AGTACTGTAGC
1 AGTACTGTAGC
* *
1453082 AATATTGTAGC
1 AGTACTGTAGC
*
1453093 AGTATTGTAGC
1 AGTACTGTAGC
*
1453104 AGCACTGTAGC
1 AGTACTGTAGC
1453115 AG
1 AG
1453117 GGTATCAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (11 bp):
AGTACTGTAGC
Found at i:1456528 original size:21 final size:21
Alignment explanation
Indices: 1456504--1456564 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
1456494 CACTTGAGCA
1456504 AAATAAACAATATAGCTCTAC
1 AAATAAACAATATAGCTCTAC
* *
1456525 AAATACACACT-TGAG--C-A-
1 AAATAAACAATAT-AGCTCTAC
1456542 AAATAAACAATATAGCTCTAC
1 AAATAAACAATATAGCTCTAC
1456563 AA
1 AA
1456565 CAAAGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
17 11 0.37
18 2 0.07
19 2 0.07
20 2 0.07
21 13 0.43
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.21
Consensus pattern (21 bp):
AAATAAACAATATAGCTCTAC
Found at i:1456530 original size:38 final size:38
Alignment explanation
Indices: 1456488--1456564 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
1456478 ACACTAATCT
1456488 AATACACACTTGAGCAAAATAAACAATATAGCTCTACA
1 AATACACACTTGAGCAAAATAAACAATATAGCTCTACA
1456526 AATACACACTTGAGCAAAATAAACAATATAGCTCTACA
1 AATACACACTTGAGCAAAATAAACAATATAGCTCTACA
1456564 A
1 A
1456565 CAAAGAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.51, C:0.21, G:0.08, T:0.21
Consensus pattern (38 bp):
AATACACACTTGAGCAAAATAAACAATATAGCTCTACA
Found at i:1456933 original size:30 final size:30
Alignment explanation
Indices: 1456897--1457023 Score: 148
Period size: 30 Copynumber: 4.3 Consensus size: 30
1456887 TTACAAAAAA
*
1456897 GATCGATCCCAAACCTACTAGAATCCAAGT
1 GATCAATCCCAAACCTACTAGAATCCAAGT
* * *
1456927 GATCGATCCCAAACCTATTGGAATCCAAGT
1 GATCAATCCCAAACCTACTAGAATCCAAGT
* * *
1456957 GATCAATCTCAAACCTACTAGAATTCAAGG
1 GATCAATCCCAAACCTACTAGAATCCAAGT
* * * *
1456987 GATCAATCCTAAACCTACT-GGATCTAAGG
1 GATCAATCCCAAACCTACTAGAATCCAAGT
1457016 GATCAATC
1 GATCAATC
1457024 TTTTTTTTCA
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 15 0.18
30 69 0.82
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (30 bp):
GATCAATCCCAAACCTACTAGAATCCAAGT
Found at i:1457001 original size:60 final size:59
Alignment explanation
Indices: 1456897--1457024 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 59
1456887 TTACAAAAAA
* * * * * *
1456897 GATCGATCCCAAACCTACTAGAATCCAAGTGATCGATCCCAAACCTATTGGAATCCAAGT
1 GATCAATCTCAAACCTACTAGAATCCAAGGGATCAATCCCAAACCTACTGG-ATCCAAGG
* * *
1456957 GATCAATCTCAAACCTACTAGAATTCAAGGGATCAATCCTAAACCTACTGGATCTAAGG
1 GATCAATCTCAAACCTACTAGAATCCAAGGGATCAATCCCAAACCTACTGGATCCAAGG
1457016 GATCAATCT
1 GATCAATCT
1457025 TTTTTTTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 15 0.25
60 44 0.75
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (59 bp):
GATCAATCTCAAACCTACTAGAATCCAAGGGATCAATCCCAAACCTACTGGATCCAAGG
Found at i:1457059 original size:20 final size:20
Alignment explanation
Indices: 1457011--1457065 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
1457001 CTACTGGATC
* *
1457011 TAAGGGATCAATCTTTTTTT
1 TAAGGGATCGATCTTTTTGT
1457031 TCAAGGGGATCGATCTTTTTGT
1 T-AA-GGGATCGATCTTTTTGT
*
1457053 TAAGGGATTGATC
1 TAAGGGATCGATC
1457066 ATTTGAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.33
21 4 0.13
22 16 0.53
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (20 bp):
TAAGGGATCGATCTTTTTGT
Found at i:1459375 original size:20 final size:21
Alignment explanation
Indices: 1459350--1459394 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1459340 CGGTCTAACA
*
1459350 GGATCGCTCCTTTGC-AAAAG
1 GGATCGATCCTTTGCAAAAAG
*
1459370 GGATCGATCTTTTGCAAAAAG
1 GGATCGATCCTTTGCAAAAAG
1459391 GGAT
1 GGAT
1459395 AAATACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (21 bp):
GGATCGATCCTTTGCAAAAAG
Found at i:1459848 original size:14 final size:13
Alignment explanation
Indices: 1459826--1459860 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
1459816 AATAAAAATA
*
1459826 TAAAATAAATTAT
1 TAAAATAAATCAT
1459839 TAATAATAAATCAT
1 TAA-AATAAATCAT
1459853 TAAAATAA
1 TAAAATAA
1459861 TTTTTTAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATAAATCAT
Found at i:1461862 original size:20 final size:20
Alignment explanation
Indices: 1461839--1461890 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1461829 AAGCTCCAAA
1461839 TATTTTTTCAAAATTTC-ATT
1 TATTTTTTCAAAA-TTCAATT
*
1461859 TATTGTTTCAAAATTCAATT
1 TATTTTTTCAAAATTCAATT
*
1461879 TA-ATTTTCAAAA
1 TATTTTTTCAAAA
1461891 GAGAATCACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTTTCAAAATTCAATT
Found at i:1463826 original size:42 final size:42
Alignment explanation
Indices: 1463766--1463853 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
1463756 CCGTTACACA
* *
1463766 AAAGGGATTGATATTTTTCATTGAAGGATCGATCCTTTTGGT
1 AAAGGGATTGATACTTTTCATCGAAGGATCGATCCTTTTGGT
* * * * * *
1463808 AAAGGGATTGATCCTTTTCCTCGAGGGATTGATTCTTTTTGT
1 AAAGGGATTGATACTTTTCATCGAAGGATCGATCCTTTTGGT
1463850 AAAG
1 AAAG
1463854 TGATCAATCT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (42 bp):
AAAGGGATTGATACTTTTCATCGAAGGATCGATCCTTTTGGT
Found at i:1463936 original size:21 final size:21
Alignment explanation
Indices: 1463889--1463936 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1463879 CAAGGAATTG
* *
1463889 ATCCTTT-TTCAAAGGGGTAA
1 ATCCTTTAGTCAAAGGGATAA
*
1463909 ATCCTTTAGTCAAAGGGATGA
1 ATCCTTTAGTCAAAGGGATAA
*
1463930 ATTCTTT
1 ATCCTTT
1463937 TGGTAAGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (21 bp):
ATCCTTTAGTCAAAGGGATAA
Found at i:1465695 original size:16 final size:16
Alignment explanation
Indices: 1465674--1465706 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1465664 TCTATGTTGC
*
1465674 GAACAAGAATGGAAAT
1 GAACAAGAATAGAAAT
1465690 GAACAAGAATAGAAAT
1 GAACAAGAATAGAAAT
1465706 G
1 G
1465707 GGAATGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.24, T:0.12
Consensus pattern (16 bp):
GAACAAGAATAGAAAT
Found at i:1467691 original size:12 final size:12
Alignment explanation
Indices: 1467648--1467702 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
1467638 CAAAGTATTT
1467648 TTATTTTACTTG
1 TTATTTTACTTG
1467660 TTCATTTT-C-TG
1 TT-ATTTTACTTG
1467671 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
1467685 TTATTTTCCTTG
1 TTATTTTACTTG
1467697 TT-TTTT
1 TTATTTT
1467703 TCAGGTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
11 8 0.22
12 18 0.49
13 8 0.22
14 3 0.08
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:1476179 original size:23 final size:20
Alignment explanation
Indices: 1476125--1476206 Score: 67
Period size: 20 Copynumber: 3.9 Consensus size: 20
1476115 TTTTGGTGCA
*
1476125 GAGGGAATCGATACCCCCAT
1 GAGGGAATCGATTCCCCCAT
* *
1476145 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCC-AT
1476166 GAAAGGGAATCGATTCCCCTCA-
1 G--AGGGAATCGATTCCCC-CAT
* *
1476188 CAGGGGAATCGATACCCCC
1 GA-GGGAATCGATTCCCCC
1476207 CTGGGGTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
20 18 0.36
21 16 0.32
23 15 0.30
24 1 0.02
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.17
Consensus pattern (20 bp):
GAGGGAATCGATTCCCCCAT
Found at i:1477573 original size:21 final size:21
Alignment explanation
Indices: 1477531--1477573 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1477521 TTTCTGGGTT
* *
1477531 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1477552 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1477573 A
1 A
1477574 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1477621 original size:47 final size:47
Alignment explanation
Indices: 1477552--1477663 Score: 224
Period size: 47 Copynumber: 2.4 Consensus size: 47
1477542 TACCCATTCA
1477552 AGGGGAATCGATACCCCCTCAACGAATATGAATTTCCAGAAGGCTAG
1 AGGGGAATCGATACCCCCTCAACGAATATGAATTTCCAGAAGGCTAG
1477599 AGGGGAATCGATACCCCCTCAACGAATATGAATTTCCAGAAGGCTAG
1 AGGGGAATCGATACCCCCTCAACGAATATGAATTTCCAGAAGGCTAG
1477646 AGGGGAATCGATACCCCC
1 AGGGGAATCGATACCCCC
1477664 ATGGGGGAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (47 bp):
AGGGGAATCGATACCCCCTCAACGAATATGAATTTCCAGAAGGCTAG
Found at i:1477716 original size:67 final size:69
Alignment explanation
Indices: 1477600--1477752 Score: 220
Period size: 67 Copynumber: 2.2 Consensus size: 69
1477590 GAAGGCTAGA
* *
1477600 GGGGAATCGATACCCCCTCAACGAATATGAATTTCCAGAAGGCTAGAGGGGAATCGATACCCCC-
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAAGGCTAGAGGGGAATCGATACCCCCA
*
1477664 A-TG
66 AGGG
* * * *
1477667 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAAGGCTAGAGGGGAATCGATACCCCCA
1477732 AGGG
66 AGGG
*
1477736 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
1477753 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
67 58 0.76
68 1 0.01
69 17 0.22
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAAGGCTAGAGGGGAATCGATACCCCCA
AGGG
Found at i:1478505 original size:149 final size:149
Alignment explanation
Indices: 1478230--1478533 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
1478220 GGGTAGAGGG
*
1478230 TCTATGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1478295 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
*
1478360 TATGGCACTACGGTGTAAT
131 TATGGCACTACGGTGCAAT
1478379 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1478444 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1478509 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1478528 TCTACG
1 TCTACG
1478534 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1478556 original size:23 final size:23
Alignment explanation
Indices: 1478512--1478556 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1478502 ATCATTATAT
*
1478512 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* * *
1478535 GGCACTTCGGTGTATTTATACG
1 GGCACTACGGTGCAATTATACG
1478557 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1484657 original size:21 final size:21
Alignment explanation
Indices: 1484615--1484657 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1484605 TTTCTGGGTT
* *
1484615 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1484636 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1484657 A
1 A
1484658 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1484719 original size:67 final size:69
Alignment explanation
Indices: 1484637--1484789 Score: 220
Period size: 67 Copynumber: 2.2 Consensus size: 69
1484627 ACCCATTCAA
* *
1484637 GGGGAATCGATACCCCCTCAACGAATATGAATTTCCAGAAGGCTAGAGGGGAATCGATACCCCC-
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAAGGCTAGAGGGGAATCGATACCCCCA
*
1484701 A-TG
66 AGGG
* * * *
1484704 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAAGGCTAGAGGGGAATCGATACCCCCA
1484769 AGGG
66 AGGG
*
1484773 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
1484790 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
67 58 0.76
68 1 0.01
69 17 0.22
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAAGGCTAGAGGGGAATCGATACCCCCA
AGGG
Found at i:1485537 original size:149 final size:149
Alignment explanation
Indices: 1485267--1485570 Score: 608
Period size: 149 Copynumber: 2.0 Consensus size: 149
1485257 GGGTAGAGGG
1485267 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1485332 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1485397 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1485416 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1485481 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
1485546 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1485565 TCTACG
1 TCTACG
1485571 GGGCACTTCG
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 155 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1485593 original size:23 final size:23
Alignment explanation
Indices: 1485549--1485593 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1485539 ATCATTATAT
*
1485549 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
1485572 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1485594 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1492363 original size:202 final size:203
Alignment explanation
Indices: 1492017--1492421 Score: 803
Period size: 202 Copynumber: 2.0 Consensus size: 203
1492007 TGTGGAGACG
1492017 ATACTCACTTATCACTGTATTACTTGTTCGATTGTGTATACTTGCACATATATCCGCACCCATAT
1 ATACTCACTTATCACTGTATTACTTGTTCGATTGTGTATACTTGCACATATATCCGCACCCATAT
1492082 TTAGACTCATATCGAGCGGACACTGGTCTAACCGTTGCCCCATTGGGGTTGAGGATTGTCATGCC
66 TTAGACTCATATCGAGCGGACACTGGTCTAACCGTTGCCCCATTGGGGTTGAGGATTGTCATGCC
1492147 TGAGAACGTTGTCCAGGAGGATAGTGGTACAAGGATCACTATTGACACGTCTAAAGAATCCTCAG
131 TGAGAACGTTGTCCAGGAGGATAGTGGTACAAGGATCACTATTGACACGTCTAAAGAATCCTCAG
1492212 AT-GTGTT
196 ATGGTGTT
1492219 ATACTCACTTATCACTGTATTACTTGTTCGATTGTGTATACTTGCACATATATCCGCACCCATAT
1 ATACTCACTTATCACTGTATTACTTGTTCGATTGTGTATACTTGCACATATATCCGCACCCATAT
1492284 TTAGACTCATATCGAGCGGACACTGGTCTAACCGTTGCCCCATTGGGGTTGAGGATTGTCATGCC
66 TTAGACTCATATCGAGCGGACACTGGTCTAACCGTTGCCCCATTGGGGTTGAGGATTGTCATGCC
1492349 TGAGAACGTTGTCCAGGAGGATAGTGGTACAAGGATCACTATTGACACGTCTAAAGAATCCTCAG
131 TGAGAACGTTGTCCAGGAGGATAGTGGTACAAGGATCACTATTGACACGTCTAAAGAATCCTCAG
1492414 ATGGTGTT
196 ATGGTGTT
1492422 GTAAATGGTA
Statistics
Matches: 202, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
202 197 0.98
203 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (203 bp):
ATACTCACTTATCACTGTATTACTTGTTCGATTGTGTATACTTGCACATATATCCGCACCCATAT
TTAGACTCATATCGAGCGGACACTGGTCTAACCGTTGCCCCATTGGGGTTGAGGATTGTCATGCC
TGAGAACGTTGTCCAGGAGGATAGTGGTACAAGGATCACTATTGACACGTCTAAAGAATCCTCAG
ATGGTGTT
Found at i:1497676 original size:22 final size:21
Alignment explanation
Indices: 1497648--1497689 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1497638 GGATGCGGAA
1497648 TTGATGGTCA-TGATGGATGAAG
1 TTGATGGT-ATTGAT-GATGAAG
1497670 TTGATGGTATTGATGATGAA
1 TTGATGGTATTGATGATGAA
1497690 ATGGAGATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (21 bp):
TTGATGGTATTGATGATGAAG
Found at i:1499250 original size:56 final size:56
Alignment explanation
Indices: 1499164--1499275 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
1499154 GTATGTCATG
1499164 AAGAAAGTTAGTGCTAGACAGGATCATATCATCCTTCCCTTCTTTTAGGCAATTTT
1 AAGAAAGTTAGTGCTAGACAGGATCATATCATCCTTCCCTTCTTTTAGGCAATTTT
1499220 AAGAAAGTTAGTGCTAGACAGGATCATATCATCCTTCCCTTCTTTTAGGCAATTTT
1 AAGAAAGTTAGTGCTAGACAGGATCATATCATCCTTCCCTTCTTTTAGGCAATTTT
1499276 TCCTCAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (56 bp):
AAGAAAGTTAGTGCTAGACAGGATCATATCATCCTTCCCTTCTTTTAGGCAATTTT
Found at i:1508192 original size:43 final size:44
Alignment explanation
Indices: 1508097--1508196 Score: 184
Period size: 44 Copynumber: 2.3 Consensus size: 44
1508087 TTTAAGTCAT
1508097 AATAATTTAATTTTTGCCAAAATTTTAAAATTTGATCACTTTTC
1 AATAATTTAATTTTTGCCAAAATTTTAAAATTTGATCACTTTTC
*
1508141 AATAATTTAATTTTTGCTAAAATTTTAAAATTT-ATCACTTTTC
1 AATAATTTAATTTTTGCCAAAATTTTAAAATTTGATCACTTTTC
1508184 AATAATTTAATTT
1 AATAATTTAATTT
1508197 CCTAATTTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 23 0.42
44 32 0.58
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (44 bp):
AATAATTTAATTTTTGCCAAAATTTTAAAATTTGATCACTTTTC
Found at i:1515401 original size:2 final size:2
Alignment explanation
Indices: 1515394--1515439 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1515384 AGTTATTAGA
1515394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1515436 AT AT
1 AT AT
1515440 TGAAACAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1516892 original size:4 final size:4
Alignment explanation
Indices: 1516883--1516910 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1516873 ATGTCTTTTA
1516883 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1516911 TTCTTTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:1520298 original size:24 final size:24
Alignment explanation
Indices: 1520231--1520300 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 24
1520221 TATCATAAAA
* *
1520231 TATGACATAAATTAAGTGACAAAT
1 TATGACATTAATTAAGTGACCAAT
** *
1520255 TATGTTATT-A-GAAGTGACCAAT
1 TATGACATTAATTAAGTGACCAAT
1520277 TATGACATTAATTAAGTGACCAAT
1 TATGACATTAATTAAGTGACCAAT
1520301 AATGTTTTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 17 0.47
23 2 0.06
24 17 0.47
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (24 bp):
TATGACATTAATTAAGTGACCAAT
Found at i:1523674 original size:17 final size:17
Alignment explanation
Indices: 1523652--1523708 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
1523642 CATTTTTTAA
1523652 TATTTTAATAATAATAT
1 TATTTTAATAATAATAT
*
1523669 TATTTTAATAAGTAATTAA
1 TATTTTAATAA-TAA-TAT
*
1523688 TATAATTAATAAT-ATAT
1 TAT-TTTAATAATAATAT
1523705 TATT
1 TATT
1523709 CTCATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 6 0.18
20 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TATTTTAATAATAATAT
Found at i:1528146 original size:18 final size:18
Alignment explanation
Indices: 1528120--1528154 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1528110 ACTGAATATT
*
1528120 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1528138 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1528155 GTTAATCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1535010 original size:18 final size:18
Alignment explanation
Indices: 1534987--1535021 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1534977 TGAATATTTG
1534987 TCCCGAAAGACCACTATA
1 TCCCGAAAGACCACTATA
*
1535005 TCCCGAAGGACCACTAT
1 TCCCGAAAGACCACTAT
1535022 GTCTCAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (18 bp):
TCCCGAAAGACCACTATA
Found at i:1535031 original size:18 final size:18
Alignment explanation
Indices: 1534995--1535037 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1534985 TGTCCCGAAA
*
1534995 GACCACTATATCCCGAAG
1 GACCACTATATCCCAAAG
* *
1535013 GACCACTATGTCTCAAAG
1 GACCACTATATCCCAAAG
1535031 GACCACT
1 GACCACT
1535038 GTTAATCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (18 bp):
GACCACTATATCCCAAAG
Found at i:1542795 original size:4 final size:4
Alignment explanation
Indices: 1542786--1543604 Score: 1079
Period size: 4 Copynumber: 202.8 Consensus size: 4
1542776 TTATTTTTGG
* * * *
1542786 ATGT ATGT ATGC ATGT ATGT ATGC ATGT ATGC ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1542834 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT GCATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT --ATGT
* * *
1542884 ATGC ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
1542932 ATGT ATGT ATGT ATGC ATGT ATGT A--T ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1542978 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1543026 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1543074 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
1543122 ATGT A--T ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
1543168 ATGT ATGC ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1543216 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1543264 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
1543312 ATGT ATGT GCATGC ATGC ATGT ATGT ATGC ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT --ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * ** * *
1543362 ATGT ATGT ATGT GCATGC ATGT ATGT ATGC ATAC ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT --ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * ** * *
1543412 ATGT ATGT ATGT GCATGC ATGT ATGT ATGC ATAC ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT --ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * ** * * *
1543462 ATGT ATGT ATGT GCATGC ATGT ATGT ATGC ATAC ATGC ATGT ATGC ATGC
1 ATGT ATGT ATGT --ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
1543512 ATCT ATGT ATGT ATGT ATGC ATGT ATGC ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
1543560 ATGT ATGT ATGT ATGT ATGT ATGT GCATGC AAGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT --ATGT ATGT ATGT ATGT ATG
1543605 AACTATATAA
Statistics
Matches: 725, Mismatches: 74, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
2 4 0.01
4 703 0.97
6 18 0.02
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:1543716 original size:50 final size:47
Alignment explanation
Indices: 1543635--1543730 Score: 124
Period size: 50 Copynumber: 2.0 Consensus size: 47
1543625 TTATAAATTA
*
1543635 TAATTTATATTAATATAGTATATATATGTATGTAT-AACTAATATAAG
1 TAATCTATATTAATATAGTATATATATGTATGTATGAACT-ATATAAG
1543682 TAATCTATATTATATATAGTATGCA-AGTATGTATGTATGAACTATATAA
1 TAATCTATATTA-ATATAGTAT--ATA-TATGTATGTATGAACTATATAA
1543731 AATATATAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
47 11 0.26
48 9 0.21
49 1 0.02
50 18 0.42
51 4 0.09
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (47 bp):
TAATCTATATTAATATAGTATATATATGTATGTATGAACTATATAAG
Found at i:1543906 original size:123 final size:116
Alignment explanation
Indices: 1543584--1543938 Score: 638
Period size: 116 Copynumber: 3.0 Consensus size: 116
1543574 GTATGTATGT
1543584 GCATGCAAGTATGTATGTATGAACTATATAAAATATATAGTTTATAAATTATAATTTATATTAAT
1 GCATGCAAGTATGTATGTATGAACTATATAAAATATATAGTTTATAAATTATAATTTATATTAAT
1543649 ATAGTATATATATGTATGTATAACTAATATAAGTAATCTATATTATATATA
66 ATAGTATATATATGTATGTATAACTAATATAAGTAATCTATATTATATATA
*
1543700 GTATGCAAGTATGTATGTATGAACTATATAAAATATATAGTTTATAAATTATAATTTATATTAAT
1 GCATGCAAGTATGTATGTATGAACTATATAAAATATATAGTTTATAAATTATAATTTATATTAAT
1543765 ATAGTATATATATGTATGTATAACTAATATAAGTAATCTATATTATATATA
66 ATAGTATATATATGTATGTATAACTAATATAAGTAATCTATATTATATATA
1543816 GCATGCAAGTATGTATGTATGAACTATATAAAATATATAGTTTATAAATTATAATTTATAATTTA
1 GCATGCAAGTATGTATGTATGAACTATATAAAATATATAG-TT-T--A-TA-AA-TTATAATTTA
1543881 TATTAATATAGTATATATATGTATGTATAACTAATATAAGTAATCTATATTATATATA
59 TATTAATATAGTATATATATGTATGTATAACTAATATAAGTAATCTATATTATATATA
1543939 TATATATATA
Statistics
Matches: 230, Mismatches: 2, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
116 154 0.67
117 2 0.01
118 1 0.00
120 1 0.00
121 2 0.01
122 2 0.01
123 68 0.30
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (116 bp):
GCATGCAAGTATGTATGTATGAACTATATAAAATATATAGTTTATAAATTATAATTTATATTAAT
ATAGTATATATATGTATGTATAACTAATATAAGTAATCTATATTATATATA
Found at i:1543938 original size:2 final size:2
Alignment explanation
Indices: 1543926--1543988 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
1543916 ATAAGTAATC
1543926 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1543967 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1543989 GAAACACTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1544201 original size:37 final size:39
Alignment explanation
Indices: 1544136--1544211 Score: 113
Period size: 37 Copynumber: 2.0 Consensus size: 39
1544126 ATAAACCATG
1544136 TATAGTATATATAAACTATATATATATAAA-ACCTATATA
1 TATAGTATATATAAACTATATATATATAAACA-CTATATA
*
1544175 TATA-TATATATATA-TATATATATATAAACACTATATA
1 TATAGTATATATAAACTATATATATATAAACACTATATA
1544212 AAGTAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
37 21 0.60
38 10 0.29
39 4 0.11
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (39 bp):
TATAGTATATATAAACTATATATATATAAACACTATATA
Found at i:1544211 original size:2 final size:2
Alignment explanation
Indices: 1544136--1544200 Score: 69
Period size: 2 Copynumber: 32.0 Consensus size: 2
1544126 ATAAACCATG
* * **
1544136 TA TA GTA TA TA TA AA CTA TA TA TA TA TA -A AA CC TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1544179 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1544201 AACACTATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 1 0.02
2 50 0.93
3 3 0.06
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1544228 original size:37 final size:36
Alignment explanation
Indices: 1544152--1544246 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 36
1544142 ATATATAAAC
* *
1544152 TATATATATATAAAAC-CTATATATATATATATATA
1 TATATATATATAAAACACTATATAAATAAATATATA
1544187 TATATATATATATAAACACTATATAAAGTAAAT-TACT-
1 TATATATATATA-AAACACTATATAAA-TAAATATA-TA
*
1544224 TATATAGTTTATAGAAACACTAT
1 TATATA-TATATA-AAACACTAT
1544247 GCATAAACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
35 12 0.24
36 4 0.08
37 16 0.31
38 19 0.37
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (36 bp):
TATATATATATAAAACACTATATAAATAAATATATA
Found at i:1544299 original size:7 final size:7
Alignment explanation
Indices: 1544289--1544356 Score: 64
Period size: 7 Copynumber: 9.7 Consensus size: 7
1544279 TTTATAGAAA
1544289 CCTAAAC
1 CCTAAAC
*
1544296 CCTAAAT
1 CCTAAAC
*
1544303 CATAAAC
1 CCTAAAC
*
1544310 TCTAAAC
1 CCTAAAC
*
1544317 CTTAAAC
1 CCTAAAC
*
1544324 CATAAAC
1 CCTAAAC
* *
1544331 ACTAACC
1 CCTAAAC
1544338 CCTAAAC
1 CCTAAAC
*
1544345 CATAAAC
1 CCTAAAC
1544352 CCTAA
1 CCTAA
1544357 TATAAATGGA
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:1544356 original size:21 final size:21
Alignment explanation
Indices: 1544289--1544356 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
1544279 TTTATAGAAA
*
1544289 CCTAAACCCTAAATCATAAAC
1 CCTAAACCCTAAACCATAAAC
* *
1544310 TCTAAACCTTAAACCATAAAC
1 CCTAAACCCTAAACCATAAAC
* *
1544331 ACTAACCCCTAAACCATAAAC
1 CCTAAACCCTAAACCATAAAC
1544352 CCTAA
1 CCTAA
1544357 TATAAATGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (21 bp):
CCTAAACCCTAAACCATAAAC
Found at i:1544716 original size:2 final size:2
Alignment explanation
Indices: 1544599--1544697 Score: 180
Period size: 2 Copynumber: 48.5 Consensus size: 2
1544589 TTTATGAACC
1544599 AT AT AT AGT AT AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
1544643 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1544685 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1544698 AAGTAAATTC
Statistics
Matches: 95, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 91 0.96
3 4 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1544782 original size:7 final size:7
Alignment explanation
Indices: 1544772--1544846 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
1544762 TAATTTATAA
1544772 AAACCTT
1 AAACCTT
1544779 AAACCTT
1 AAACCTT
*
1544786 AAACCCT
1 AAACCTT
* * *
1544793 AGATCAT
1 AAACCTT
*
1544800 AATCCTT
1 AAACCTT
1544807 AAACCTT
1 AAACCTT
*
1544814 AAACTTT
1 AAACCTT
* *
1544821 AAATCAT
1 AAACCTT
1544828 AAACAC-T
1 AAAC-CTT
*
1544835 AAACCAT
1 AAACCTT
1544842 AAACC
1 AAACC
1544847 CTAATATAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
6 1 0.02
7 50 0.96
8 1 0.02
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (7 bp):
AAACCTT
Found at i:1544815 original size:28 final size:28
Alignment explanation
Indices: 1544772--1544850 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
1544762 TAATTTATAA
*
1544772 AAACCTTAAACCTTAAACCCTAGATCAT
1 AAACCTTAAACCTTAAACCCTAAATCAT
* **
1544800 AATCCTTAAACCTTAAACTTTAAATCAT
1 AAACCTTAAACCTTAAACCCTAAATCAT
*
1544828 AAACAC-TAAACCATAAACCCTAA
1 AAAC-CTTAAACCTTAAACCCTAA
1544851 TATAAATGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 41 0.98
29 1 0.02
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (28 bp):
AAACCTTAAACCTTAAACCCTAAATCAT
Found at i:1545034 original size:14 final size:14
Alignment explanation
Indices: 1545015--1545061 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
1545005 ATTTTTTCTT
1545015 TATATAAATTAAAC
1 TATATAAATTAAAC
1545029 TATAT-AATT----
1 TATATAAATTAAAC
1545038 TATATAAATTAAAC
1 TATATAAATTAAAC
*
1545052 TATATTAATT
1 TATATAAATT
1545062 TCCTTTGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:1545040 original size:23 final size:24
Alignment explanation
Indices: 1545013--1545062 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
1545003 TTATTTTTTC
1545013 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
1545036 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
1545060 TTT
1 TTT
1545063 CCTTTGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:1545367 original size:16 final size:16
Alignment explanation
Indices: 1545343--1545413 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
1545333 CGGATTATTT
1545343 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
1545359 ACAGATCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* *
1545375 ACAGGTAAGGTTGAAA
1 ACAGGTCAGGTTAAAA
*
1545391 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
1545407 ACAGGTC
1 ACAGGTC
1545414 GGGTAATACC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:1545448 original size:42 final size:42
Alignment explanation
Indices: 1545401--1545484 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
1545391 ACAGGTCAGG
1545401 TTGAAAACAGGTCGGGTAATACCAGTTATTTACCAGTTCAAT
1 TTGAAAACAGGTCGGGTAATACCAGTTATTTACCAGTTCAAT
1545443 TTGAAAACAGGTCGGGTAATACCAGTTATTTACCAGTTCAAT
1 TTGAAAACAGGTCGGGTAATACCAGTTATTTACCAGTTCAAT
1545485 CTCGGGTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (42 bp):
TTGAAAACAGGTCGGGTAATACCAGTTATTTACCAGTTCAAT
Found at i:1549862 original size:59 final size:59
Alignment explanation
Indices: 1549770--1549889 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
1549760 GCATCAACAT
* *
1549770 ATGCAGCGTGGAACCTCCTGAAAAACTATACATTCAAATGCAAAAGTAAGTCAGATTCC
1 ATGCAGCGTGGAACCTCCTGAAAAAATATACATTCAAATGCAAAAATAAGTCAGATTCC
*
1549829 ATGCAGCGTGGAACCTCCTGAAAAAATATACATTCAAATGCAAAAATAAGTCGGATTCC
1 ATGCAGCGTGGAACCTCCTGAAAAAATATACATTCAAATGCAAAAATAAGTCAGATTCC
1549888 AT
1 AT
1549890 AATAATATGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (59 bp):
ATGCAGCGTGGAACCTCCTGAAAAAATATACATTCAAATGCAAAAATAAGTCAGATTCC
Found at i:1551820 original size:11 final size:11
Alignment explanation
Indices: 1551804--1551846 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1551794 ATATGTTCTA
1551804 TTAATTTAATT
1 TTAATTTAATT
**
1551815 TTAATTTAAAAA
1 TTAATTT-AATT
*
1551827 ATAATTTAATT
1 TTAATTTAATT
1551838 TTAATTTAA
1 TTAATTTAA
1551847 AAAATAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAATTTAATT
Done.