Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 100 of 172
Found at i:33718797 original size:16 final size:16
Alignment explanation
Indices: 33718776--33718818 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
33718766 GTCATCAAAC
33718776 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
33718792 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
33718808 TTTCAGCTTTT
1 TTTCAGCTTTT
33718819 GCCGATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:33722608 original size:19 final size:19
Alignment explanation
Indices: 33722572--33722612 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33722562 AATCTAATAG
33722572 AAATGATGCAATGCAATGC
1 AAATGATGCAATGCAATGC
*
33722591 AAATGCATGGAATG-AATGC
1 AAATG-ATGCAATGCAATGC
33722610 AAA
1 AAA
33722613 AGAAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (19 bp):
AAATGATGCAATGCAATGC
Found at i:33725243 original size:27 final size:26
Alignment explanation
Indices: 33725206--33725313 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
33725196 AGCATGGCTG
* *
33725206 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
33725232 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* * *
33725259 CTAGAACATATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
33725286 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
33725313 C
1 C
33725314 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.16
27 52 0.74
28 7 0.10
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:33725289 original size:54 final size:53
Alignment explanation
Indices: 33725208--33725314 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 53
33725198 CATGGCTGCC
* * * *
33725208 AGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACT
1 AGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
* * *
33725261 AGAACATATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
1 AGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
33725315 TAACAGAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 9 0.20
54 37 0.80
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (53 bp):
AGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACT
Found at i:33725500 original size:22 final size:22
Alignment explanation
Indices: 33725472--33725535 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
33725462 GCAAATACAT
*
33725472 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
33725494 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
33725516 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
33725536 AAATAATTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:33725983 original size:27 final size:27
Alignment explanation
Indices: 33725926--33725984 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
33725916 GGTAAAATGG
* **
33725926 TAATTTTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAA
*
33725953 TAATTCTACCCTA-TAGGGATATTTCAA
1 TAATTCTACCCTACAAGGG-TATTTCAA
33725980 TAATT
1 TAATT
33725985 TTGTAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCAA
Found at i:33726053 original size:27 final size:27
Alignment explanation
Indices: 33726004--33726227 Score: 188
Period size: 27 Copynumber: 8.3 Consensus size: 27
33725994 GAGGGTAAAA
*
33726004 TGGTAATTCTATA-AATCG-GGGGTACTT
1 TGGTAATT-T-TACAATCGAGGGGTATTT
*
33726031 CGGTAATTTTACAAGTCGA-GGGTATTT
1 TGGTAATTTTACAA-TCGAGGGGTATTT
* *
33726058 TAGTAATTTTACAGGTCGA-GGGTATTT
1 TGGTAATTTTACA-ATCGAGGGGTATTT
** * * *
33726085 CAGCAATTTCACTAATC-ATGGGTATTT
1 TGGTAATTTTAC-AATCGAGGGGTATTT
* *
33726112 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
* *
33726139 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
* *
33726166 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
* * * *
33726193 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
*
33726220 TAGTAATT
1 TGGTAATT
33726228 CTACCCTACA
Statistics
Matches: 169, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 159 0.94
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
TGGTAATTTTACAATCGAGGGGTATTT
Found at i:33726162 original size:81 final size:81
Alignment explanation
Indices: 33726022--33726227 Score: 211
Period size: 81 Copynumber: 2.5 Consensus size: 81
33726012 CTATAAATCG
* * * * ***
33726022 GGGGTACTTCGGTAATTTTAC-AAGTCGAGGGTATTTTAGTAATTTTACAGGTCGAGGGTATTTC
1 GGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAGTAATTTTACAAACCGAGGGTATTTC
*
33726086 AGCAATTTCACTAA-TCA
65 AGCAATTTCACAAACT-A
* * *
33726103 TGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCGA-GGGTATTTC
* * *
33726167 GGTAATTTTACAAACTA
65 AGCAATTTCACAAACTA
* * *
33726184 GGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
1 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATT
33726228 CTACCCTACA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 97 0.94
82 5 0.05
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCGAGGGTATTTCA
GCAATTTCACAAACTA
Found at i:33726253 original size:54 final size:54
Alignment explanation
Indices: 33726033--33726253 Score: 158
Period size: 54 Copynumber: 4.1 Consensus size: 54
33726023 GGGTACTTCG
** * * ** * * *
33726033 GTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTAC-AGGTCGAGGGTATTTCA
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTCTACAAACTAG-GGGCATTTAA
* * * * * * * * **
33726087 GCAATTTCACTAATCATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTCTACAAACTAGGGGCATTTAA
* * * * **
33726141 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTCTACAAACTAGGGGCATTTAA
* **
33726195 GTAATTTTATAAACCAAGGGTATTTTAGTAATTCTACCCTAC-AGGGGCATTTAA
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTCTA-CAAACTAGGGGCATTTAA
33726249 GTAAT
1 GTAAT
33726254 ACTAGCCTAC
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
54 133 0.96
55 6 0.04
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTATTTTAGTAATTCTACAAACTAGGGGCATTTAA
Found at i:33726253 original size:81 final size:81
Alignment explanation
Indices: 33726104--33726253 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
33726094 CACTAATCAT
* * * * * **
33726104 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTCTACAAACCAGGGGCATTTAAG
33726169 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
* **
33726185 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTACCCTA-CAGGGGCATTTAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTCTA-CAAACCAGGGGCATTTAA
33726249 GTAAT
65 GTAAT
33726254 ACTAGCCTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 56 0.97
82 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTCTACAAACCAGGGGCATTTAAG
TAATTTTACAAACTAG
Found at i:33729138 original size:19 final size:19
Alignment explanation
Indices: 33729102--33729142 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33729092 AATCTAATAG
33729102 AAATGATGCAATGCAATGC
1 AAATGATGCAATGCAATGC
*
33729121 AAATGCATGGAATG-AATGC
1 AAATG-ATGCAATGCAATGC
33729140 AAA
1 AAA
33729143 AGAAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (19 bp):
AAATGATGCAATGCAATGC
Found at i:33731837 original size:24 final size:25
Alignment explanation
Indices: 33731810--33731859 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
33731800 GCCTAGCCTC
33731810 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* *
33731834 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
33731859 T
1 T
33731860 CTCGGTAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:33731851 original size:25 final size:25
Alignment explanation
Indices: 33731817--33731886 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
33731807 CTCTTTTAAT
* *
33731817 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
33731842 AACTGGGGCAAAGCCCTTCTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
33731867 AGCTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
33731887 AGCACTTCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:33732120 original size:27 final size:27
Alignment explanation
Indices: 33732090--33732172 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
33732080 GGCAAAATGG
* * * *
33732090 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
33732117 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
33732144 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
33732171 TA
1 TA
33732173 TTTTACAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:33732311 original size:27 final size:28
Alignment explanation
Indices: 33732157--33732338 Score: 162
Period size: 27 Copynumber: 6.8 Consensus size: 28
33732147 TTCTACCCTA
* *
33732157 CAGGGGTATTTCGAT-ATTTTACAAATC
1 CAGGGGTATTTTGGTAATTTTACAAATC
* * * *
33732184 GA-GAGTATTTTGATAATTTCACAAAT-
1 CAGGGGTATTTTGGTAATTTTACAAATC
*
33732210 CAGGGGTATTTTGGTAATTTTATAAA-C
1 CAGGGGTATTTTGGTAATTTTACAAATC
* *
33732237 CAGGGGTATTTTAGTAAATTTACAAA-C
1 CAGGGGTATTTTGGTAATTTTACAAATC
**
33732264 CAGGGGTATTTTGGTAATTTTACTGATC
1 CAGGGGTATTTTGGTAATTTTACAAATC
* **
33732292 GA-GGGTATTTTGGTAATTTTGTAAA-C
1 CAGGGGTATTTTGGTAATTTTACAAATC
* **
33732318 CAAGGGTATTTCAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
33732339 GTAAATTAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.10
27 111 0.88
28 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (28 bp):
CAGGGGTATTTTGGTAATTTTACAAATC
Found at i:33732377 original size:81 final size:81
Alignment explanation
Indices: 33732213--33732406 Score: 176
Period size: 81 Copynumber: 2.4 Consensus size: 81
33732203 CACAAATCAG
* * * **
33732213 GGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGTAAATTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAAATTTACAAACCAAGGGTAAATTGG
* *
33732278 TAATTTTACTGATCGA
66 TAATTCTACTAATCGA
* * ** **
33732294 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATTAAGGGTAAAATT-
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAAATTTACAAACCAAGGGT-AAATTG
*
33732358 GTAATTCTA-TAAATTGA
65 GTAATTCTACT-AATCGA
*** * * *
33732375 GGGTAAAATGGTAATTCTATAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTA
33732407 AAATGGTAAT
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
80 1 0.01
81 86 0.96
82 3 0.03
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAAATTTACAAACCAAGGGTAAATTGG
TAATTCTACTAATCGA
Found at i:33732378 original size:54 final size:54
Alignment explanation
Indices: 33732330--33732646 Score: 282
Period size: 54 Copynumber: 5.9 Consensus size: 54
33732320 AGGGTATTTC
* * * *
33732330 AGTAATTTTGTAAATTAAGGGTAAAATTGTAATTCTATAAATTGAGGGTAAAAT
1 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAAT
* * * *
33732384 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGCGTAAAAT
1 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAAT
* * * ** *
33732438 GGTAATTCTATAAATCGATGGTAAAATTCTAATTCTATAAATCGAGGG-AAAA-
1 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAAT
* * * * *
33732490 ACGATAATTCTGTAAATCGAGGGTAAAACGAT-ATTCTATAAATCGAGGGTAAAA-
1 A-G-TAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAAT
* * * ** *
33732544 CGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
1 AG-TAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAAT
* * * *** * *
33732599 GGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATTGAGGG
33732647 CATTTCAGTA
Statistics
Matches: 224, Mismatches: 34, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
53 49 0.22
54 174 0.78
55 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (54 bp):
AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAAT
Found at i:33732632 original size:27 final size:27
Alignment explanation
Indices: 33732347--33732621 Score: 381
Period size: 27 Copynumber: 10.2 Consensus size: 27
33732337 TTGTAAATTA
* *
33732347 AGGGTAAAATTGTAATTCTATAAATTG
1 AGGGTAAAATGGTAATTCTATAAATCG
33732374 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
33732401 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
33732428 AGCGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
* **
33732455 ATGGTAAAATTCTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
* * * *
33732482 AGGGAAAAACGATAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
* *
33732509 AGGGTAAAACGAT-ATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
* *
33732535 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
* *
33732562 AGGGTAAAATGGTAATTCTGTAAATCA
1 AGGGTAAAATGGTAATTCTATAAATCG
* *
33732589 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
33732616 AGGGTA
1 AGGGTA
33732622 CTTTGGTAAT
Statistics
Matches: 226, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 25 0.11
27 201 0.89
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTCTATAAATCG
Found at i:33734375 original size:27 final size:27
Alignment explanation
Indices: 33734345--33734488 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
33734335 TACTGAAATG
* *
33734345 CCCTCTATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
33734372 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * **
33734399 CCCTCAATTTACAAAATTATTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
33734426 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
33734453 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
33734480 CCCTCGATT
1 CCCTCGATT
33734489 GTGAAATTAC
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 93 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:33734416 original size:54 final size:54
Alignment explanation
Indices: 33734357--33734488 Score: 201
Period size: 54 Copynumber: 2.4 Consensus size: 54
33734347 CTCTATTTGT
* *
33734357 AAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCAATTTAC
1 AAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTAC
** * *
33734411 AAAATTATTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTAC
1 AAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTAC
*
33734465 AAAATTACCGTTTTACCCTCGATT
1 AAAATTACCATTTTACCCTCGATT
33734489 GTGAAATTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (54 bp):
AAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTAC
Found at i:33734535 original size:53 final size:52
Alignment explanation
Indices: 33734478--33734614 Score: 150
Period size: 53 Copynumber: 2.6 Consensus size: 52
33734468 ATTACCGTTT
* * * * *
33734478 TACCCTCGATTGTGAAATTACTGAAATACCCCTA-TAGGATAGAATTACCATAA
1 TACCCTAGTTTGTGAAATTACCGAAATACCCCTAGT-GCATA-AATTACCAAAA
* * *
33734531 TACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTCATAAATTACCAAAA
1 TACCC-TAGTTTGTGAAATTACCGAAATACCCCTAGTGCATAAATTACCAAAA
*
33734584 TACCACTGGTTTGTGAAATTACCGAAATACC
1 TACC-CTAGTTTGTGAAATTACCGAAATACC
33734615 TTCAATTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
53 41 0.59
54 28 0.40
55 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (52 bp):
TACCCTAGTTTGTGAAATTACCGAAATACCCCTAGTGCATAAATTACCAAAA
Found at i:33734550 original size:27 final size:27
Alignment explanation
Indices: 33734520--33734691 Score: 140
Period size: 27 Copynumber: 6.4 Consensus size: 27
33734510 TATAGGATAG
*
33734520 AATTACCATAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* **
33734547 AATTACCAAAATACCCCTAGTTCAT-A
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
33734573 AATTACCAAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
* *
33734600 AATTACCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCTT-AGTTTGTAA
* **
33734627 AATTACCAAAATACCTCTGA-TTTAAAA
1 AATTACCAAAATACC-CTTAGTTTGTAA
*
33734654 AATTA-CAGAAATACCCTT-GATTTGTAG
1 AATTACCA-AAATACCCTTAG-TTTGTAA
*
33734681 ATTTACCAAAA
1 AATTACCAAAA
33734692 CACTCTTGTA
Statistics
Matches: 115, Mismatches: 20, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.01
26 27 0.23
27 81 0.70
28 4 0.03
29 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:33734576 original size:80 final size:81
Alignment explanation
Indices: 33734492--33734674 Score: 180
Period size: 80 Copynumber: 2.3 Consensus size: 81
33734482 CTCGATTGTG
* *
33734492 AAATTACTGAAATACCCCT-ATAGGAT-AGAATTACC-ATAATACCCTT-AGTTTGTAAAATTAC
1 AAATTACAGAAATACCCCTGATAGG-TGA-AATTACCGA-AATA-CCTTCAATTTGTAAAATTAC
* *
33734553 CAAAATACCCCT-AGTTCAT
62 CAAAATACCCCTGAGTTAAA
* * **
33734572 AAATTACCA-AAATACCACTGGTTTGTGAAATTACCGAAATACCTTCAATTTGTAAAATTACCAA
1 AAATTA-CAGAAATACCCCTGATAGGTGAAATTACCGAAATACCTTCAATTTGTAAAATTACCAA
* *
33734636 AATACCTCTGATTTAAA
65 AATACCCCTGAGTTAAA
*
33734653 AAATTACAGAAATACCCTTGAT
1 AAATTACAGAAATACCCCTGAT
33734675 TTGTAGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
79 4 0.05
80 54 0.65
81 25 0.30
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACAGAAATACCCCTGATAGGTGAAATTACCGAAATACCTTCAATTTGTAAAATTACCAAA
ATACCCCTGAGTTAAA
Found at i:33734760 original size:27 final size:27
Alignment explanation
Indices: 33734730--33734790 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
33734720 GCCCCTAATA
33734730 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
33734757 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
33734784 GGTAAAA
1 GGTAAAA
33734791 TGATGAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:33735507 original size:9 final size:10
Alignment explanation
Indices: 33735495--33735587 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 10
33735485 TACGTGGGAT
33735495 ATGATAT-AC
1 ATGATATGAC
*
33735504 ATGAT-TGAT
1 ATGATATGAC
33735513 ATGATATGCAC
1 ATGATATG-AC
*
33735524 ATGATATG-T
1 ATGATATGAC
* *
33735533 ATAAAATGCAC
1 ATGATATG-AC
*
33735544 ATGATATG-T
1 ATGATATGAC
*
33735553 ATGAAATGCAC
1 ATGATATG-AC
33735564 ATGATATGA-
1 ATGATATGAC
*
33735573 ATGAAATGCAC
1 ATGATATG-AC
33735584 ATGA
1 ATGA
33735588 CGTATTCATA
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
8 1 0.02
9 31 0.50
10 4 0.06
11 26 0.42
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (10 bp):
ATGATATGAC
Found at i:33735527 original size:20 final size:21
Alignment explanation
Indices: 33735502--33735587 Score: 126
Period size: 20 Copynumber: 4.3 Consensus size: 21
33735492 GATATGATAT
*
33735502 ACATGAT-TGATATGATATGC
1 ACATGATATGATATGAAATGC
*
33735522 ACATGATATG-TATAAAATGC
1 ACATGATATGATATGAAATGC
33735542 ACATGATATG-TATGAAATGC
1 ACATGATATGATATGAAATGC
33735562 ACATGATATGA-ATGAAATGC
1 ACATGATATGATATGAAATGC
33735582 ACATGA
1 ACATGA
33735588 CGTATTCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
ACATGATATGATATGAAATGC
Found at i:33735529 original size:11 final size:11
Alignment explanation
Indices: 33735513--33735587 Score: 54
Period size: 11 Copynumber: 7.4 Consensus size: 11
33735503 CATGATTGAT
33735513 ATGATATGCAC
1 ATGATATGCAC
*
33735524 ATGATATG--T
1 ATGATATGCAC
* *
33735533 ATAAAATGCAC
1 ATGATATGCAC
*
33735544 ATGATATG--T
1 ATGATATGCAC
*
33735553 ATGAAATGCAC
1 ATGATATGCAC
33735564 ATGATATG-A-
1 ATGATATGCAC
*
33735573 ATGAAATGCAC
1 ATGATATGCAC
33735584 ATGA
1 ATGA
33735588 CGTATTCATA
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
9 20 0.43
10 2 0.04
11 25 0.53
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33735716 original size:52 final size:51
Alignment explanation
Indices: 33735638--33735773 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
33735628 GAGGAAGTGC
33735638 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCG
*
33735690 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
*
33735741 AAAAGGGCTT-TGCCCTAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
33735774 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 7 0.09
51 24 0.30
52 36 0.44
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
Found at i:33735735 original size:25 final size:26
Alignment explanation
Indices: 33735638--33735773 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
33735628 GAGGAAGTGC
33735638 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
33735664 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33735690 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
33735716 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
33735741 AAAAGGGCTT-TGCCCTAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
33735764 AAAAGAGGCT
1 AAAAG-GGCT
33735774 AGGCCTCCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.31
26 56 0.57
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:33736056 original size:31 final size:31
Alignment explanation
Indices: 33736021--33736135 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
33736011 CGTTTACAGT
*
33736021 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33736052 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33736083 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33736114 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33736136 TCAAGACTAA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
30 5 0.06
31 77 0.94
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33738617 original size:25 final size:25
Alignment explanation
Indices: 33738589--33738658 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
33738579 CTCTTTTAAT
*
33738589 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
33738614 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
33738639 AACTGGAGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
33738659 AGCACTTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:33738841 original size:27 final size:26
Alignment explanation
Indices: 33738811--33739001 Score: 193
Period size: 27 Copynumber: 7.1 Consensus size: 26
33738801 GGCAAAATGG
* * *
33738811 TAATTTTACCCCACAAGGGTATCTTGA
1 TAATTCTACCCTACAGGGGTAT-TTGA
*
33738838 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTT-GA
* *
33738865 TAATTCTACCCTACAGGGGAATTTCGG
1 TAATTCTACCCTACAGGGGTATTT-GA
*
33738892 TAATTCTACCCTACAGGGGTATTTCA
1 TAATTCTACCCTACAGGGGTATTTGA
* * *
33738918 GTAATTCTACCCTATAAGGGTATTTCA
1 -TAATTCTACCCTACAGGGGTATTTGA
* *
33738945 GTAATTCTACCCTATAGGGGTATTTCA
1 -TAATTCTACCCTACAGGGGTATTTGA
* *
33738972 GTAATTCTAACCTACAAGGGTATTTTGA
1 -TAATTCTACCCTACAGGGGTA-TTTGA
33739000 TA
1 TA
33739002 TTTTACAAAT
Statistics
Matches: 146, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 140 0.96
28 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (26 bp):
TAATTCTACCCTACAGGGGTATTTGA
Found at i:33738939 original size:81 final size:80
Alignment explanation
Indices: 33738809--33738996 Score: 259
Period size: 81 Copynumber: 2.3 Consensus size: 80
33738799 GGGGCAAAAT
* * * * *
33738809 GGTAATTTTACCCCACAAGGGTATCTTGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTAT-TTCATAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
33738874 CCTACAGGGGAATTTC
65 CCTACAGGGGAATTTC
* *
33738890 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCA-TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
* *
33738955 CCTATAGGGGTATTTC
65 CCTACAGGGGAATTTC
* *
33738971 AGTAATTCTAACCTACAAGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
33738997 TGATATTTTA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 3 0.03
81 91 0.97
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (80 bp):
GGTAATTCTACCCTACAAGGGTATTTCATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAGGGGAATTTC
Found at i:33739047 original size:27 final size:27
Alignment explanation
Indices: 33738986--33739194 Score: 190
Period size: 27 Copynumber: 7.8 Consensus size: 27
33738976 TTCTAACCTA
*
33738986 CAAGGGTATTTTGAT-ATTTTACAAAT
1 CAAGGGTATTTTGATAATTTTACAAAC
** * ** *
33739012 TGAGAGTATTTTGATAATTTCGCAAAT
1 CAAGGGTATTTTGATAATTTTACAAAC
*
33739039 CAAGGGTATTTT-AGTAATTTTACAAGC
1 CAAGGGTATTTTGA-TAATTTTACAAAC
* *
33739066 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGATAATTTTACAAAC
33739093 CAAGGGTATTTT-AGTAATTTTACAAAC
1 CAAGGGTATTTTGA-TAATTTTACAAAC
* * ** *
33739120 CAGGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGATAATTTTACAAAC
* * **
33739147 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAAC
* *
33739174 CAAGGGTATTTCGGTAATTTT
1 CAAGGGTATTTTGATAATTTT
33739195 GTAAATCGAG
Statistics
Matches: 147, Mismatches: 31, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
26 13 0.09
27 134 0.91
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGATAATTTTACAAAC
Found at i:33739078 original size:54 final size:54
Alignment explanation
Indices: 33739017--33739208 Score: 240
Period size: 54 Copynumber: 3.6 Consensus size: 54
33739007 CAAATTGAGA
* ** *
33739017 GTATTTTGATAATTTCGCAAATCAAGGGTATTTTAGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAGGG
*
33739071 GTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAGGG
** * * ** *
33739125 GTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAGGG
* ** *
33739179 GTATTTCGGTAATTTTGTAAATCGAGGGTA
1 GTATTTTGGTAATTTTACAAATCAAGGGTA
33739209 AAACGGTAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAGGG
Found at i:33739208 original size:81 final size:81
Alignment explanation
Indices: 33738989--33739208 Score: 237
Period size: 81 Copynumber: 2.7 Consensus size: 81
33738979 TAACCTACAA
* *** * * *
33738989 GGGTATTTTGAT-ATTTTACAAATTGAGAGTATTTTGATAATTTCGCAAATCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTAG
33739053 TAATTTTACAAGCCAG
66 TAATTTTACAAGCCAG
* * * * *
33739069 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTAG
* * *
33739134 TAATTTTACTGATCGA-
66 TAATTTTAC-AAGCCAG
** * * *
33739150 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCGGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTA
33739209 AAACGGTAAT
Statistics
Matches: 114, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 11 0.10
81 100 0.88
82 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGCAAATCAAGGGTATTTTAG
TAATTTTACAAGCCAG
Found at i:33739408 original size:27 final size:27
Alignment explanation
Indices: 33739186--33739397 Score: 316
Period size: 27 Copynumber: 7.9 Consensus size: 27
33739176 AGGGTATTTC
* * *
33739186 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAT
* *
33739213 GGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAT
*
33739240 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAT
33739267 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAT
* *
33739294 GGTAATTCTATAAATCGAAGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAT
*
33739321 GATAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAT
* *
33739348 AGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAT
*
33739375 GATAATTCTATAAATCGAGGGTA
1 GGTAATTCTATAAATCGAGGGTA
33739398 CTTTGGTAAT
Statistics
Matches: 172, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 172 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GGTAATTCTATAAATCGAGGGTAAAAT
Found at i:33739416 original size:27 final size:27
Alignment explanation
Indices: 33739069--33739416 Score: 234
Period size: 27 Copynumber: 12.9 Consensus size: 27
33739059 TACAAGCCAG
* * * *
33739069 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTAATTTGGTAATTTTATAAATCGA
* * * *
33739096 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTAATTTGGTAATTTTATAAATCGA
* *
33739122 GGGGTATTTTGGTAATTTTACT-GATCGA
1 -GGGTAATTTGGTAATTTTA-TAAATCGA
* * * *
33739150 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTAATTTGGTAATTTTATAAATCGA
*
33739177 GGGT-ATTTCGGTAATTTTGTAAATCGA
1 GGGTAATTT-GGTAATTTTATAAATCGA
*** *
33739204 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** * *
33739231 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** *
33739258 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** *
33739285 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
* *** * *
33739312 AGGTAAAACGATAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
** * *
33739339 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
*** * *
33739366 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAATTTGGTAATTTTATAAATCGA
* *
33739393 GGGTACTTTGGTAATTTTACAAAT
1 GGGTAATTTGGTAATTTTATAAAT
33739417 TTAGGATATT
Statistics
Matches: 279, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.02
27 270 0.97
28 3 0.01
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.34
Consensus pattern (27 bp):
GGGTAATTTGGTAATTTTATAAATCGA
Found at i:33741006 original size:16 final size:18
Alignment explanation
Indices: 33740982--33741026 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
33740972 TTGATTTAAT
*
33740982 TAATGATATATAT-AA-A
1 TAATAATATATATGAAGA
33740998 TAATAATATATATGAAGA
1 TAATAATATATATGAAGA
*
33741016 TACTAATATAT
1 TAATAATATAT
33741027 GAAAGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.48
17 2 0.08
18 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (18 bp):
TAATAATATATATGAAGA
Found at i:33742708 original size:93 final size:93
Alignment explanation
Indices: 33742580--33742750 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
33742570 GCCCATAAGT
* * *
33742580 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
33742645 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
33742673 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
33742738 CGAGTTCGGATGC
66 CGAGTTCGGATGC
33742751 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:33742747 original size:46 final size:46
Alignment explanation
Indices: 33742572--33742747 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
33742562 TGTAACCCGC
* * *
33742572 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33742618 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * * *
33742668 --TTCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33742711 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33742748 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33745924 original size:23 final size:24
Alignment explanation
Indices: 33745868--33745926 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
33745858 AAATAAATTA
* *
33745868 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
33745892 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
33745916 TTTTATTACAA
1 TTTTATTACAA
33745927 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:33747089 original size:34 final size:34
Alignment explanation
Indices: 33747046--33747110 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
33747036 TTGCGTAGAA
* *
33747046 AACAAGCTCTTTAAGTGCAGAAATAACCCAATAT
1 AACAAGCTCTTTAAATGCAGAAATAAACCAATAT
*
33747080 AACAAGCTCTTTAAATGCGGAAATAAACCAA
1 AACAAGCTCTTTAAATGCAGAAATAAACCAA
33747111 ATTAACTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (34 bp):
AACAAGCTCTTTAAATGCAGAAATAAACCAATAT
Found at i:33748961 original size:29 final size:30
Alignment explanation
Indices: 33748926--33749269 Score: 237
Period size: 29 Copynumber: 11.7 Consensus size: 30
33748916 GATGGTCGAA
* * *
33748926 ACCATCCCTTTTCATATTTGAT-GTTCATC
1 ACCATCCCTTTTCATAATCGATAGTTCGTC
* *
33748955 ACTATCCCTTTTCATTAATCGAT-GGTCGTC
1 ACCATCCCTTTTCA-TAATCGATAGTTCGTC
* ** *
33748985 ACCATCCCTTTTAATTAATTAATGGTT-GTC
1 ACCATCCCTTTTCA-TAATCGATAGTTCGTC
* * *
33749015 ACCATCCCTTTCCATATTCGATAG-TCATC
1 ACCATCCCTTTTCATAATCGATAGTTCGTC
*
33749044 ACCATCCCTTTTCATAGTCGATAG-TCGTC
1 ACCATCCCTTTTCATAATCGATAGTTCGTC
* **
33749073 ACCATCTCTTTTCATAATCGATAGTT-GAA
1 ACCATCCCTTTTCATAATCGATAGTTCGTC
* *** *
33749102 ACTATTTATTTTCAT-ATACGATGGTT-GTC
1 ACCATCCCTTTTCATAAT-CGATAGTTCGTC
* * *
33749131 ACCATCCCTTTTCATAGTTGATGGTT-GTC
1 ACCATCCCTTTTCATAATCGATAGTTCGTC
* * *
33749160 ACCATCCCTTTTCATAGTTGAT-GGTCGTC
1 ACCATCCCTTTTCATAATCGATAGTTCGTC
* * *
33749189 ATCATCCCTTTTCATAGTCGATAG-TCAG-A
1 ACCATCCCTTTTCATAATCGATAGTTC-GTC
* * ***
33749218 ACTATCCCTTTTCATAATCGAT-GGTCAAA
1 ACCATCCCTTTTCATAATCGATAGTTCGTC
33749247 ACCATCCCTTTTCATTAATCGAT
1 ACCATCCCTTTTCA-TAATCGAT
33749270 GATCGTCGAT
Statistics
Matches: 258, Mismatches: 45, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.02
29 193 0.75
30 57 0.22
31 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (30 bp):
ACCATCCCTTTTCATAATCGATAGTTCGTC
Found at i:33749095 original size:58 final size:58
Alignment explanation
Indices: 33748926--33749269 Score: 287
Period size: 58 Copynumber: 5.9 Consensus size: 58
33748916 GATGGTCGAA
* * * * * * *
33748926 ACCATCCCTTTTCATATTTGATGTTCATCACTATCCCTTTTCATTAATCGATGGTCGTC
1 ACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTTCA-TAATCGATAGTCATC
* ** * * *
33748985 ACCATCCCTTTTAATTAATTAATGGTTGTCACCATCCCTTTCCATATTCGATAGTCATC
1 ACCATCCCTTTTCA-TAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCATC
* * * * *
33749044 ACCATCCCTTTTCATAGTCGATAGTCGTCACCATCTCTTTTCATAATCGATAGTTGA-A
1 ACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAG-TCATC
* *** * * * * **
33749102 ACTATTTATTTTCAT-ATACGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTTGTC
1 ACCATCCCTTTTCATAAT-CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCATC
* * * * **
33749160 ACCATCCCTTTTCATAGTTGATGGTCGTCATCATCCCTTTTCATAGTCGATAGTCAGA
1 ACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCATC
* ***
33749218 ACTATCCCTTTTCATAATCGATGGTCAAAACCATCCCTTTTCATTAATCGAT
1 ACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTTCA-TAATCGAT
33749270 GATCGTCGAT
Statistics
Matches: 221, Mismatches: 58, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
57 2 0.01
58 149 0.67
59 48 0.22
60 22 0.10
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (58 bp):
ACCATCCCTTTTCATAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCATC
Found at i:33749201 original size:87 final size:86
Alignment explanation
Indices: 33748928--33749270 Score: 310
Period size: 87 Copynumber: 3.9 Consensus size: 86
33748918 TGGTCGAAAC
* * *
33748928 CATCCCTTTTCATATTTGATGTTCATCACTATCCCTTTTCATTAATCGATGGTCGTCACCATCCC
1 CATCCCTTTTCATATTCGATGTT-ATCACCATCCCTTTTCA-TAGTCGATGGTCGTCACCATCCC
* * *
33748993 TTTTAATTAATTAATGGTTGTCAC
64 TTTTCA-TAATTGATGGTTGTCAA
* * * *
33749017 CATCCCTTTCCATATTCGATAGTCATCACCATCCCTTTTCATAGTCGATAGTCGTCACCATCTCT
1 CATCCCTTTTCATATTCGAT-GTTATCACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCT
* * *
33749082 TTTCATAATCGATAGTTG-AAA
65 TTTCATAATTGATGGTTGTCAA
*** * * * *
33749103 CTATTTATTTTCATATACGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTTGTCACCATCCC
1 C-ATCCCTTTTCATATTCGAT-GTTATCACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCC
* * *
33749168 TTTTCATAGTTGATGGTCGTCAT
64 TTTTCATAATTGATGGTTGTCAA
* * ** * * ***
33749191 CATCCCTTTTCATAGTCGATAGTCAGAACTATCCCTTTTCATAATCGATGGTCAAAACCATCCCT
1 CATCCCTTTTCATATTCGAT-GTTATCACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCT
*
33749256 TTTCATTAATCGATG
65 TTTCA-TAATTGATG
33749271 ATCGTCGATA
Statistics
Matches: 200, Mismatches: 50, Indels: 9
0.77 0.19 0.03
Matches are distributed among these distances:
86 2 0.01
87 128 0.64
88 34 0.17
89 34 0.17
90 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (86 bp):
CATCCCTTTTCATATTCGATGTTATCACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTT
TTCATAATTGATGGTTGTCAA
Found at i:33749230 original size:116 final size:115
Alignment explanation
Indices: 33748926--33749261 Score: 331
Period size: 116 Copynumber: 2.9 Consensus size: 115
33748916 GATGGTCGAA
* * * * ** *
33748926 ACCATCCCTTTTCATATTTGATGTTCATCACTATCCCTTTTCATTAATCGATGGTCGTCACCATC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCAC-ATCCCTTTTCA-TAATCGATAGTCGAAACTATC
* *
33748991 CCTTTTAATTAATTA--ATGGTTGTCACCATCCCTTTCCATATTCGATAGTCATC
64 CCTTTTCA-T-A-TACGATGGTTGTCACCATCCCTTTTCATATTCGATAGTCATC
* * * * **
33749044 ACCATCCCTTTTCATAGTCGATAGTCGTCACCATCTCTTTTCATAATCGATAGTTGAAACTATTT
1 ACCATCCCTTTTCATAGTTGATGGTCGTCA-CATCCCTTTTCATAATCGATAGTCGAAACTATCC
* * **
33749109 ATTTTCATATACGATGGTTGTCACCATCCCTTTTCATAGTT-GATGGTTGTC
65 CTTTTCATATACGATGGTTGTCACCATCCCTTTTCATA-TTCGATAGTCATC
*
33749160 ACCATCCCTTTTCATAGTTGATGGTCGTCATCATCCCTTTTCATAGTCGATAGTC-AGAACTATC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCA-CATCCCTTTTCATAATCGATAGTCGA-AACTATC
****
33749224 CCTTTTCATA-ATCGATGGTCAAAACCATCCCTTTTCAT
64 CCTTTTCATATA-CGATGGTTGTCACCATCCCTTTTCAT
33749262 TAATCGATGA
Statistics
Matches: 180, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
114 2 0.01
115 3 0.02
116 117 0.65
117 22 0.12
118 35 0.19
119 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.39
Consensus pattern (115 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTCACATCCCTTTTCATAATCGATAGTCGAAACTATCCC
TTTTCATATACGATGGTTGTCACCATCCCTTTTCATATTCGATAGTCATC
Found at i:33752738 original size:27 final size:27
Alignment explanation
Indices: 33752708--33752884 Score: 113
Period size: 27 Copynumber: 6.5 Consensus size: 27
33752698 ATATTGAGCC
* * * *
33752708 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCCACACAATCAAAT
**
33752735 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
33752762 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACACAAT-CAAAT
* *** *
33752790 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
33752817 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CACAATCAAAT
* * * *
33752844 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
*
33752871 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
33752885 TGTACAATTT
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 97 0.80
28 24 0.20
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCCACACAATCAAAT
Found at i:33752800 original size:55 final size:55
Alignment explanation
Indices: 33752708--33752884 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
33752698 ATATTGAGCC
* * * * *
33752708 CGCACACTCAGTGCTATACA-AT-CAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCAT-CATATCCATCTCGCACACTTAGTGCCACATAGTCAAAT
* * *
33752762 CGCACACTTAGTGCCA-CATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCATCATA-TCCATCTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
33752817 CGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCATCATATCCATCTCGCACACTTAGTGCCACATAGTCAAAT
*
33752871 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
33752885 TGTACAATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.55
55 43 0.42
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCCATCATATCCATCTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:33752847 original size:82 final size:81
Alignment explanation
Indices: 33752729--33752884 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
33752719 TGCTATACAA
* * * **
33752729 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGT-CAAATCGCA
33752794 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33752811 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
33752875 CCCTTAGTGC
65 CACTTAGTGC
33752885 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.29
82 45 0.71
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33755640 original size:21 final size:19
Alignment explanation
Indices: 33755616--33755658 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
33755606 GAAAGTAAAA
33755616 TAAAACAAAAGAAAAAGGAAT
1 TAAAACAAAA-AAAAA-GAAT
* *
33755637 TAAAATAAAACAAAAGAAT
1 TAAAACAAAAAAAAAGAAT
33755656 TAA
1 TAA
33755659 GAAATGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (19 bp):
TAAAACAAAAAAAAAGAAT
Found at i:33764978 original size:50 final size:50
Alignment explanation
Indices: 33764607--33764972 Score: 624
Period size: 50 Copynumber: 7.4 Consensus size: 50
33764597 ATATACACTT
*
33764607 TCACATCGGCCATTAGACCTTATCAC--ATATATACAC-TTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
*
33764654 TCACATCGGCCATTAGGCCTTA-CTATCAT-T-TCATATACTTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATC-A-CATATAT-ATACACTTTTCACATTCA
33764704 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
33764754 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
33764804 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
33764854 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
33764904 TCACATCGGCCATTAGGCCTTATCAC--ATATATACAC-TTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
33764951 TCACATCGGCCATTAGGCCTTA
1 TCACATCGGCCATTAGGCCTTA
33764973 CTATCATTTC
Statistics
Matches: 307, Mismatches: 3, Indels: 18
0.94 0.01 0.05
Matches are distributed among these distances:
46 1 0.00
47 55 0.18
48 12 0.04
49 9 0.03
50 228 0.74
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (50 bp):
TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTCACATTCA
Found at i:33772847 original size:21 final size:21
Alignment explanation
Indices: 33772803--33772847 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33772793 CTAAATCGAG
* * *
33772803 AACTTTGAAAAGTTTTGAAAA
1 AACTTAGAAAAATTTTCAAAA
*
33772824 AACTTAGAAAAATTTTCAAGA
1 AACTTAGAAAAATTTTCAAAA
33772845 AAC
1 AAC
33772848 AGGGTCACAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (21 bp):
AACTTAGAAAAATTTTCAAAA
Found at i:33789131 original size:29 final size:29
Alignment explanation
Indices: 33789104--33789205 Score: 127
Period size: 29 Copynumber: 3.5 Consensus size: 29
33789094 CATCTGGCCC
* *
33789104 AATTCACATTCT-TATGGCCTACCAGGCCC
1 AATTCACATT-TATATGGCCCATCAGGCCC
*
33789133 AATTCACATTTATATGGCCCATTAGGCCC
1 AATTCACATTTATATGGCCCATCAGGCCC
*
33789162 AATTCACATTTATATGGCCCATTAGGCCC
1 AATTCACATTTATATGGCCCATCAGGCCC
*
33789191 AGA-TCACATTCATAT
1 A-ATTCACATTTATAT
33789206 TCATGCTCAC
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
28 1 0.01
29 65 0.97
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (29 bp):
AATTCACATTTATATGGCCCATCAGGCCC
Found at i:33789161 original size:58 final size:57
Alignment explanation
Indices: 33789071--33789205 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 57
33789061 TGGCCCACTT
*
33789071 GGCCCAATCTCATTCATATGGCCCATCTGGCCCAATTCACATTCT-TATGGCCTACCA
1 GGCCCAATCACATTCATATGGCCCATCTGGCCCAATTCACATT-TATATGGCCTACCA
* * **
33789128 GGCCCAATTCACATTTATATGGCCCAT-TAGGCCCAATTCACATTTATATGGCCCATTA
1 GGCCCAA-TCACATTCATATGGCCCATCT-GGCCCAATTCACATTTATATGGCCTACCA
33789186 GGCCCAGATCACATTCATAT
1 GGCCCA-ATCACATTCATAT
33789206 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
57 9 0.13
58 58 0.85
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (57 bp):
GGCCCAATCACATTCATATGGCCCATCTGGCCCAATTCACATTTATATGGCCTACCA
Found at i:33789286 original size:17 final size:18
Alignment explanation
Indices: 33789264--33789297 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33789254 TTCCTATTAT
33789264 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
33789281 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
33789298 TTAGGCCCAT
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:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:33789449 original size:8 final size:8
Alignment explanation
Indices: 33789412--33789454 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
33789402 GCAGCCAAAC
*
33789412 TTTCGACT
1 TTTCGGCT
*
33789420 TTTCGACT
1 TTTCGGCT
*
33789428 TTTCGGCA
1 TTTCGGCT
*
33789436 TGTCGGCT
1 TTTCGGCT
33789444 TTTCGGCT
1 TTTCGGCT
33789452 TTT
1 TTT
33789455 GCCGATCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.07, C:0.23, G:0.21, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:33790793 original size:44 final size:44
Alignment explanation
Indices: 33790741--33790827 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
33790731 TGAATGTGTG
*
33790741 AAAATTTCAAGCTTCAATTTGGTTGATTTCATGTGAATTTAGTT
1 AAAATTTCAAGCTTCAATTGGGTTGATTTCATGTGAATTTAGTT
33790785 AAAATTTCAAGCTTCAATTGGGTTGATTTCATGTGAATTTAGT
1 AAAATTTCAAGCTTCAATTGGGTTGATTTCATGTGAATTTAGT
33790828 CAATAGGACT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (44 bp):
AAAATTTCAAGCTTCAATTGGGTTGATTTCATGTGAATTTAGTT
Found at i:33790813 original size:22 final size:22
Alignment explanation
Indices: 33790744--33790815 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
33790734 ATGTGTGAAA
33790744 ATTTCAAGCTTCAATTTGGTTG
1 ATTTCAAGCTTCAATTTGGTTG
* * * *
33790766 ATTTCATG--TGAATTTAGTTAAA
1 ATTTCAAGCTTCAATTTGGTT--G
*
33790788 ATTTCAAGCTTCAATTGGGTTG
1 ATTTCAAGCTTCAATTTGGTTG
33790810 ATTTCA
1 ATTTCA
33790816 TGTGAATTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
20 9 0.24
22 20 0.54
24 8 0.22
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (22 bp):
ATTTCAAGCTTCAATTTGGTTG
Found at i:33809780 original size:5 final size:5
Alignment explanation
Indices: 33809772--33809796 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33809762 AAAATAAAAA
33809772 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
33809797 GGTTGGCATC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:33817186 original size:39 final size:39
Alignment explanation
Indices: 33817143--33817350 Score: 303
Period size: 39 Copynumber: 5.3 Consensus size: 39
33817133 TAATGGAGAA
33817143 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
33817182 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
33817221 TTATATCCAGGCTAAGTCCCGATGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
33817260 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
33817299 TTATATCCGGGCTAAAGTACCGCAA-GC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCG-AAGGCATTCGTGCTGGTG
*
33817338 TTATATCCCGGCT
1 TTATATCCGGGCT
33817351 TAAAGTCCTG
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
39 142 0.93
40 9 0.06
41 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:33842541 original size:20 final size:21
Alignment explanation
Indices: 33842501--33842541 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33842491 ACTTATATAA
* *
33842501 CTATCATCAAGCATTCAAAAT
1 CTATCATCAAACATCCAAAAT
33842522 CTATCATCAAACA-CCAAAAT
1 CTATCATCAAACATCCAAAAT
33842542 AATCATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.24
Consensus pattern (21 bp):
CTATCATCAAACATCCAAAAT
Found at i:33843485 original size:39 final size:39
Alignment explanation
Indices: 33843445--33843659 Score: 335
Period size: 39 Copynumber: 5.5 Consensus size: 39
33843435 GTTCACTTTT
* *
33843445 AAGCATATATCACATTACAT-ATATAATCACATAACATTT
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTC
*
33843484 AAGCATATATCACAATACTCATATAATCATATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
33843523 -AGCATATATCACAATACTCATATAATCTCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* **
33843561 AAACATATATCACAATACTCATATAATTGCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
33843600 AAGCATATATCATAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
33843639 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
33843660 AAAACATGTT
Statistics
Matches: 161, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
38 37 0.23
39 124 0.77
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:33843495 original size:22 final size:22
Alignment explanation
Indices: 33843442--33843497 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 22
33843432 CATGTTCACT
*
33843442 TTTAAGCATATATCACATTACA
1 TTTAAGCATATATCACATAACA
*
33843464 --T-A-TATA-ATCACATAACA
1 TTTAAGCATATATCACATAACA
33843481 TTTAAGCATATATCACA
1 TTTAAGCATATATCACA
33843498 ATACTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 10
0.67 0.08 0.26
Matches are distributed among these distances:
17 10 0.38
18 3 0.12
19 2 0.08
20 2 0.08
21 3 0.12
22 6 0.23
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (22 bp):
TTTAAGCATATATCACATAACA
Found at i:33843535 original size:77 final size:78
Alignment explanation
Indices: 33843445--33843659 Score: 335
Period size: 77 Copynumber: 2.8 Consensus size: 78
33843435 GTTCACTTTT
* *
33843445 AAGCATATATCACATTACAT-ATATAATCACATAACATTTAAGCATATATCACAATACTCATATA
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTCAAGCATATATCACAATACTCATATA
*
33843509 ATCATATAACATTC
65 ATCACATAACATTC
* *
33843523 -AGCATATATCACAATACTCATATAATCTCATAACATTCAAACATATATCACAATACTCATATAA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
**
33843587 TTGCATAACATTC
66 TCACATAACATTC
*
33843600 AAGCATATATCATAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCA
33843660 AAAACATGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
76 1 0.01
77 68 0.54
78 56 0.45
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (78 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
TCACATAACATTC
Found at i:33843595 original size:116 final size:117
Alignment explanation
Indices: 33843448--33843659 Score: 347
Period size: 116 Copynumber: 1.8 Consensus size: 117
33843438 CACTTTTAAG
* *
33843448 CATATATCACATTACATATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
1 CATATATCACAATACATATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCA
*
33843513 TATAACATTC-AGCATATATCACAATACTCATATAATCTCATAACATTCAAA
66 CATAACATTCAAGCATATATCACAATACTCATATAATCTCATAACATTCAAA
** *
33843564 CATATATCACAATAC-TCATATAATTGCATAACATTCAAGCATATATCATAATACTCATATAATC
1 CATATATCACAATACAT-ATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATC
33843628 ACATAACATTCAAGCATATATCACAATACTCA
65 ACATAACATTCAAGCATATATCACAATACTCA
33843660 AAAACATGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
115 1 0.01
116 67 0.76
117 20 0.23
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (117 bp):
CATATATCACAATACATATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCA
CATAACATTCAAGCATATATCACAATACTCATATAATCTCATAACATTCAAA
Found at i:33846033 original size:27 final size:27
Alignment explanation
Indices: 33845985--33846197 Score: 224
Period size: 27 Copynumber: 7.9 Consensus size: 27
33845975 GCGAGGCTGC
* *
33845985 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
33846012 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
33846038 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
33846065 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
33846092 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
33846119 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
33846146 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
33846173 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
33846198 GACGCTTCCT
Statistics
Matches: 157, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
26 11 0.07
27 139 0.89
28 7 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:33846085 original size:54 final size:54
Alignment explanation
Indices: 33846020--33846197 Score: 329
Period size: 54 Copynumber: 3.3 Consensus size: 54
33846010 TATAGATATT
*
33846020 GTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCATATCAGATAATC
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCATATCAGATAATC
33846074 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCATATCAGATAATC
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCATATCAGATAATC
* *
33846128 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCATATCAGATAATC
33846182 GTGGCATAGCCACCAG
1 GTGGCATAGCCACCAG
33846198 GACGCTTCCT
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCATATCAGATAATC
Found at i:33846365 original size:28 final size:26
Alignment explanation
Indices: 33846303--33846365 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
33846293 AAAGTAACCC
** * *
33846303 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
33846329 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
33846357 TAGGGGTAT
1 TAGGGGTAT
33846366 TTAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:33847831 original size:26 final size:26
Alignment explanation
Indices: 33847801--33847882 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
33847791 TGAAACTCCC
33847801 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
33847827 ATCATGAAACATTTACGTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33847853 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33847879 ATCA
1 ATCA
33847883 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33851339 original size:51 final size:51
Alignment explanation
Indices: 33851263--33851367 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
33851253 ATTACATTTA
*
33851263 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
33851314 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
33851365 TCA
1 TCA
33851368 TTGATCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:33864645 original size:43 final size:41
Alignment explanation
Indices: 33864586--33864742 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 41
33864576 ATATCGTACA
*
33864586 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AATCACAT-TCG
* * * *
33864629 ATGCCACTGTCTCAGACAG-GGTCATACACGAATCACAATTACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGAATCAC-ATT-CG
* *
33864672 ATGCCAATGTCCCAGACATGGTCTTACTTGAAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AATCACAT-TCG
33864715 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
33864743 CGAGAACACA
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 7 0.07
43 80 0.84
44 8 0.08
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAATCACATTCG
Found at i:33864731 original size:86 final size:86
Alignment explanation
Indices: 33864586--33864745 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 86
33864576 ATATCGTACA
* * * * *
33864586 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCGATGCCACTGTCTCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCCCAGAC-GTGG
33864650 TCATACACGAATCACAATTACG
65 TCATACACGAATCACAATTACG
* *
33864672 ATGCCAATGTCCCAGACATGGTCTTACTTGAAATCACATATCGATGCCAATGTCCCAGACGTGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCCCAGACGTGGT
*
33864737 CTTACACGA
66 CATACACGA
33864746 GAACACATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
85 1 0.02
86 64 0.98
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCCCAGACGTGGT
CATACACGAATCACAATTACG
Found at i:33870182 original size:16 final size:15
Alignment explanation
Indices: 33870157--33870192 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
33870147 AACATCTCAT
*
33870157 AAAAATAAAGAATAC
1 AAAAATAAAGAAAAC
33870172 AAAACATAAAGAAAAC
1 AAAA-ATAAAGAAAAC
33870188 AAAAA
1 AAAAA
33870193 AACTCCTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (15 bp):
AAAAATAAAGAAAAC
Found at i:33892283 original size:26 final size:26
Alignment explanation
Indices: 33892254--33892313 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
33892244 CCCTCAGCTT
* *
33892254 AATTTTGACGATTTTACCCTTGGTAA
1 AATTTTGACGATTTTACCCCTAGTAA
*
33892280 AATTTTGACGATTTTGCCCCTAGTAA
1 AATTTTGACGATTTTACCCCTAGTAA
33892306 AATTTTGA
1 AATTTTGA
33892314 GAAAATATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (26 bp):
AATTTTGACGATTTTACCCCTAGTAA
Found at i:33892476 original size:12 final size:12
Alignment explanation
Indices: 33892459--33892499 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
33892449 CAAATGGATT
*
33892459 ATTTTCATTTTC
1 ATTTTCATTTCC
33892471 ATTTTCATTTCC
1 ATTTTCATTTCC
* *
33892483 ATTTCCATATCC
1 ATTTTCATTTCC
33892495 ATTTT
1 ATTTT
33892500 TGGAAACCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTCATTTCC
Found at i:33897380 original size:6 final size:6
Alignment explanation
Indices: 33897369--33897399 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
33897359 AAAGGGCACA
33897369 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
33897400 TAATTTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:33908758 original size:5 final size:5
Alignment explanation
Indices: 33908742--33908780 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
33908732 CCAAAAGGAA
33908742 AAAAG -AAA- AAAAG AAAAG AAAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG
33908781 TAAGAAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 6 0.19
5 20 0.65
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:33908764 original size:21 final size:21
Alignment explanation
Indices: 33908734--33908780 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
33908724 CAACCACTCC
*
33908734 AAAAGGAAAAA-AGAAAAAAAG
1 AAAA-GAAAAAGAAAAAAAAAG
*
33908755 AAAAGAAAAAGAAAAGAAAAG
1 AAAAGAAAAAGAAAAAAAAAG
33908776 AAAAG
1 AAAAG
33908781 TAAGAAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAAAAG
Found at i:33908765 original size:11 final size:11
Alignment explanation
Indices: 33908749--33908780 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
33908739 GAAAAAAGAA
33908749 AAAAAGAAAAG
1 AAAAAGAAAAG
33908760 AAAAAGAAAAG
1 AAAAAGAAAAG
33908771 -AAAAGAAAAG
1 AAAAAGAAAAG
33908781 TAAGAAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:33912072 original size:3 final size:3
Alignment explanation
Indices: 33912064--33912115 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
33912054 CCCGCGTTGT
33912064 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33912112 TTA T
1 TTA T
33912116 AAATTTAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33914464 original size:11 final size:10
Alignment explanation
Indices: 33914450--33914506 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 10
33914440 ATTTATGATT
33914450 TGAATATGAAA
1 TGAA-ATGAAA
33914461 TGAAATTGAAA
1 TGAAA-TGAAA
*
33914472 TGAGAATGATA
1 TGA-AATGAAA
33914483 TGAAAATGGAAA
1 TG-AAAT-GAAA
*
33914495 TGAAACGAAA
1 TGAAATGAAA
33914505 TG
1 TG
33914507 GATGTTACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.18
11 24 0.62
12 8 0.21
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (10 bp):
TGAAATGAAA
Found at i:33914495 original size:6 final size:5
Alignment explanation
Indices: 33914450--33914506 Score: 51
Period size: 5 Copynumber: 10.4 Consensus size: 5
33914440 ATTTATGATT
*
33914450 TGAATA TGAAA TGAAA TTGAAA TGAGAA TGATA TGAAAA TGGAAA TGAAA
1 TGAA-A TGAAA TGAAA -TGAAA TGA-AA TGAAA TG-AAA T-GAAA TGAAA
*
33914500 CGAAA TG
1 TGAAA TG
33914507 GATGTTACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 21 0.49
6 21 0.49
7 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (5 bp):
TGAAA
Found at i:33916212 original size:9 final size:9
Alignment explanation
Indices: 33916198--33916222 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33916188 CTAAATTGGA
33916198 AATTAAATT
1 AATTAAATT
33916207 AATTAAATT
1 AATTAAATT
33916216 AATTAAA
1 AATTAAA
33916223 AGATGATAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:33917218 original size:57 final size:58
Alignment explanation
Indices: 33917100--33917236 Score: 179
Period size: 57 Copynumber: 2.4 Consensus size: 58
33917090 GCTAACAGGG
* * * * **
33917100 TTTAGCCTGGACTGGTAATCCTGATATAATCTCTCTTGAGCATATGTTACAATTAGGA
1 TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTTAAGCATATATTACAAAAAGGA
* *
33917158 TTTAGCCTGGACTGATAATCCTAAT-TGAGCTCT-TCTAAGCATATATTACAAAAAGGA
1 TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCT-TAAGCATATATTACAAAAAGGA
33917215 TTTAGCCTGGACTGGTAATCCT
1 TTTAGCCTGGACTGGTAATCCT
33917237 GTTATATGTT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 1 0.01
57 45 0.65
58 23 0.33
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (58 bp):
TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTTAAGCATATATTACAAAAAGGA
Found at i:33923481 original size:53 final size:53
Alignment explanation
Indices: 33923401--33923506 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
33923391 AAATACTATC
* *
33923401 GAGTATCGGTATCGGCATTCCGTAGAAGATGGTTAAGACACGTGATTGGGAAA
1 GAGTATCGGTATCGACATTCCGTAGAAGATGGTTAAGACACATGATTGGGAAA
*
33923454 GAGTATCGGTATCGACATTCCGTAGAAGATGGTTGAGACACATGATTGGGAAA
1 GAGTATCGGTATCGACATTCCGTAGAAGATGGTTAAGACACATGATTGGGAAA
33923507 AAGGTCCCGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (53 bp):
GAGTATCGGTATCGACATTCCGTAGAAGATGGTTAAGACACATGATTGGGAAA
Found at i:33925406 original size:21 final size:21
Alignment explanation
Indices: 33925378--33925471 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
33925368 GTACATCATC
33925378 AACAGAAGCTCAT-AGAGCTG
1 AACAGAAGCTCATGAGAGCTG
* *
33925398 ATTCAGAAGCTCGTGAGAGCTG
1 A-ACAGAAGCTCATGAGAGCTG
* *
33925420 AACAGAAGCTCGTGAGAGCCG
1 AACAGAAGCTCATGAGAGCTG
* * *
33925441 AATAGAAGCTCGTGAGAGTTG
1 AACAGAAGCTCATGAGAGCTG
33925462 AACAGAAGCT
1 AACAGAAGCT
33925472 TGTAAGAACT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
20 1 0.02
21 55 0.86
22 8 0.12
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATGAGAGCTG
Found at i:33925448 original size:42 final size:42
Alignment explanation
Indices: 33925378--33925471 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
33925368 GTACATCATC
* *
33925378 AACAGAAGCTCATAGAGCTGATTCAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCATAGAGCCGAATCAGAAGCTCGTGAGAGCTG
* *
33925420 AACAGAAGCTCGTGAGAGCCGAAT-AGAAGCTCGTGAGAGTTG
1 AACAGAAGCTCAT-AGAGCCGAATCAGAAGCTCGTGAGAGCTG
33925462 AACAGAAGCT
1 AACAGAAGCT
33925472 TGTAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 39 0.83
43 8 0.17
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAGAGCCGAATCAGAAGCTCGTGAGAGCTG
Found at i:33927287 original size:44 final size:45
Alignment explanation
Indices: 33927199--33927287 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
33927189 AGAACAGAAA
*
33927199 TGAGCCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGACATTGGAGACAGGAT
* *
33927245 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGA
33927288 AAAATTCATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAT
Found at i:33927298 original size:44 final size:45
Alignment explanation
Indices: 33927201--33927306 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
33927191 AACAGAAATG
* ***
33927201 AGCCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGACATTGGAGACAGGAAAA
* *
33927247 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAAAA
1 AGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAAAA
**
33927291 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
33927307 GTCAAAGACA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 33 0.63
46 19 0.37
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAAAA
Found at i:33931432 original size:55 final size:55
Alignment explanation
Indices: 33931360--33931522 Score: 191
Period size: 55 Copynumber: 3.0 Consensus size: 55
33931350 TCTTCTTAAT
* * * * * * *
33931360 TGTTAGAATACTGCTTCTTTTGATTTGATTTTTTATATGCTTAAATCTATTGTCA
1 TGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCA
* *
33931415 TGTTGGAATACTACTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTTA
1 TGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCA
* * * * * *
33931470 TATTGAAATACTAATTCTTTTAAATAGATTGGTTATATGTTTAAATCGATTGT
1 TGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGT
33931523 TACATAGCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 93 1.00
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (55 bp):
TGTTGGAATACTACTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCA
Found at i:33937051 original size:19 final size:20
Alignment explanation
Indices: 33937014--33937051 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33937004 ATAAGGTGGT
33937014 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
33937034 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
33937052 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:33939258 original size:34 final size:34
Alignment explanation
Indices: 33939213--33939280 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
33939203 TGCAGCCAGT
*
33939213 GTAGGGCACTCGAGATTTGTTAAACCCGAGTGCC
1 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCC
33939247 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCC
1 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCC
33939281 AGCGGTGTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (34 bp):
GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCC
Found at i:33944234 original size:46 final size:46
Alignment explanation
Indices: 33944184--33944303 Score: 240
Period size: 46 Copynumber: 2.6 Consensus size: 46
33944174 TGGTTGAGCA
33944184 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
33944230 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
33944276 TCCGAACTCGTTGAGTTGAGTCCGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT
33944304 ATGGAATCGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33944693 original size:68 final size:70
Alignment explanation
Indices: 33944621--33944750 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 70
33944611 ATACTATGTA
* * * *
33944621 GTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CCATGTAGACAAGAGAGCTACGAGAGAG
1 GTAGCTAGGCCACATGTGTGATTCAAGGGAAGGA-CACCATGTAGACAAGAGAGCTACGAGAGAG
33944683 ATAAAT
65 ATAAAT
* *
33944689 GTAGCTAGGCCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 GTAGCTAGGCCACATGTGTGATT-CAAGGGAAGGACACCATGTAGACAAGAGAGCTACGAGA
33944751 CAAATCGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
68 19 0.37
69 1 0.02
70 1 0.02
71 31 0.60
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGCCACATGTGTGATTCAAGGGAAGGACACCATGTAGACAAGAGAGCTACGAGAGAGA
TAAAT
Found at i:33953982 original size:45 final size:45
Alignment explanation
Indices: 33953918--33954008 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
33953908 TTTCAAATTC
*
33953918 TGCTGAACCTACAAGGGAAATGAGCACAATTAATTAAAATATATA
1 TGCTGAACCTACAAGGGAAATGAACACAATTAATTAAAATATATA
33953963 TGCTGAACCTACAAGGGAAATGAACACAATTAATTAAAATATATA
1 TGCTGAACCTACAAGGGAAATGAACACAATTAATTAAAATATATA
33954008 T
1 T
33954009 TCATTCTAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (45 bp):
TGCTGAACCTACAAGGGAAATGAACACAATTAATTAAAATATATA
Found at i:33956254 original size:18 final size:17
Alignment explanation
Indices: 33956233--33956294 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
33956223 ATACTCACTC
33956233 TCTTTTTCAATCTTCTTT
1 TCTTTTTCAAT-TTCTTT
** *
33956251 TCTTGATCAATTTTTTT
1 TCTTTTTCAATTTCTTT
33956268 TCTTTTTCAATTTCATTTT
1 TCTTTTTCAATTTC--TTT
33956287 TCTTTTTC
1 TCTTTTTC
33956295 TCACTTTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 16 0.44
18 9 0.25
19 11 0.31
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.68
Consensus pattern (17 bp):
TCTTTTTCAATTTCTTT
Found at i:33956302 original size:21 final size:19
Alignment explanation
Indices: 33956235--33956318 Score: 68
Period size: 17 Copynumber: 4.4 Consensus size: 19
33956225 ACTCACTCTC
33956235 TTTTTCAATCTTC-TTTTC-
1 TTTTTCAAT-TTCTTTTTCT
**
33956253 TTGATCAATTT-TTTTTC-
1 TTTTTCAATTTCTTTTTCT
33956270 TTTTTCAATTTCATTTTTCT
1 TTTTTCAATTTC-TTTTTCT
*
33956290 TTTTCTCACTTTCTTTTTACT
1 TTTT-TCAATTTCTTTTT-CT
33956311 TTCTTTCA
1 TT-TTTCA
33956319 CACTATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
17 16 0.30
18 7 0.13
19 6 0.11
20 9 0.17
21 14 0.26
22 2 0.04
ACGTcount: A:0.13, C:0.19, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTTCAATTTCTTTTTCT
Found at i:33956319 original size:21 final size:20
Alignment explanation
Indices: 33956264--33956332 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
33956254 TGATCAATTT
*
33956264 TTTTTC-TTTTTCAATTTCA
1 TTTTTCTTTTTTCACTTTCA
33956283 TTTTTCTTTTTCTCACTTTC-
1 TTTTTCTTTTT-TCACTTTCA
**
33956303 TTTTTACTTTCTTTCACACT-A
1 TTTTT-CTTT-TTTCACTTTCA
33956324 TTTTTCTTT
1 TTTTTCTTT
33956333 CATTTCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
19 6 0.14
20 13 0.31
21 21 0.50
22 2 0.05
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTCTTTTTTCACTTTCA
Found at i:33957261 original size:19 final size:18
Alignment explanation
Indices: 33957228--33957263 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33957218 ACTTCTCACC
*
33957228 TTTTTTTATATTTCAAAA
1 TTTTTTTATACTTCAAAA
33957246 TTTTTTTATAACTTCAAA
1 TTTTTTTAT-ACTTCAAA
33957264 GTAATGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTTATACTTCAAAA
Found at i:33960488 original size:33 final size:33
Alignment explanation
Indices: 33960451--33960522 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
33960441 CCCACAATGC
*
33960451 TACTGTATAGGGCTAAGGCCCAAACTGTACTGT
1 TACTGTATAGGGCTAAGGCCCAAACTGTACTGA
* ** *
33960484 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAGGCCCAAACTGTACTGA
33960517 TACTGT
1 TACTGT
33960523 GTTGTTTACT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAAACTGTACTGA
Found at i:33961625 original size:20 final size:21
Alignment explanation
Indices: 33961582--33961625 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
33961572 TATATTCATT
*
33961582 CTAGACATATTTAAACAACAA
1 CTAGACATACTTAAACAACAA
* *
33961603 CTAGACA-ACTTAAATAACTA
1 CTAGACATACTTAAACAACAA
33961623 CTA
1 CTA
33961626 ACCAATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (21 bp):
CTAGACATACTTAAACAACAA
Found at i:33963479 original size:27 final size:27
Alignment explanation
Indices: 33963441--33963496 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
33963431 ATTAAACAGA
*
33963441 TAGGTGAGTTTACGAGAACTCAGTGTG
1 TAGGTGAGTTTACGAAAACTCAGTGTG
*
33963468 TAGGTGAGTTTATGAAAACTCAGTGTG
1 TAGGTGAGTTTACGAAAACTCAGTGTG
33963495 TA
1 TA
33963497 ATCCCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (27 bp):
TAGGTGAGTTTACGAAAACTCAGTGTG
Found at i:33964022 original size:27 final size:27
Alignment explanation
Indices: 33963992--33964055 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
33963982 GGGGTTAAAT
*
33963992 AGTCATTTTAGCACATAAGGGCAAAGC
1 AGTCATTTTACCACATAAGGGCAAAGC
* *
33964019 AGTCATGTTACCTCATAAGGGCAAAGC
1 AGTCATTTTACCACATAAGGGCAAAGC
33964046 AGTCATTTTA
1 AGTCATTTTA
33964056 TTGATTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
AGTCATTTTACCACATAAGGGCAAAGC
Found at i:33971370 original size:141 final size:142
Alignment explanation
Indices: 33971097--33971380 Score: 543
Period size: 141 Copynumber: 2.0 Consensus size: 142
33971087 AAGATCCTAG
33971097 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
1 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
33971162 GTGTTTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACA
66 GTG-TTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACA
33971227 TCTTTTTCTAAGT
130 TCTTTTTCTAAGT
*
33971240 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACTCAT
1 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
33971305 GTG-TGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACAT
66 GTGTTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACAT
33971369 CTTTTTCTAAGT
131 CTTTTTCTAAGT
33971381 GATTTTTTTG
Statistics
Matches: 140, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 73 0.52
143 67 0.48
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (142 bp):
AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
GTGTTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACAT
CTTTTTCTAAGT
Found at i:33972177 original size:48 final size:48
Alignment explanation
Indices: 33971926--33972202 Score: 237
Period size: 48 Copynumber: 5.8 Consensus size: 48
33971916 GGGTCGATGA
* * * * ** *
33971926 GATCCCGTATAAGACCATATCTGGGATATGGCATCAGCATCGATATAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
33971974 GATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATC-ATTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA-TATGT
* * *
33972022 GATTCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * * *
33972070 G-TACATCGTGTAAGACCA-GAGCTGGG-CTATCGG-GTTTG-AT--ATGTGT
1 GAT-C-CCATGTAAGACCATG-TCTGGGAC-AT-GGCATTGGCATCGATATGT
33972116 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
** * * * *
33972164 GGCCCCATGTAAGACCATATCCGGGATATGGCATCGGCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33972203 CCCTATTATG
Statistics
Matches: 182, Mismatches: 33, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
44 2 0.01
45 21 0.12
46 10 0.05
47 3 0.02
48 123 0.68
49 21 0.12
50 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:33974408 original size:28 final size:26
Alignment explanation
Indices: 33974346--33974415 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
33974336 ATTGTAGTTA
33974346 AATGTAAATATTACATATTTTTTTGT
1 AATGTAAATATTACATATTTTTTTGT
*
33974372 AATGTAAATATTATATATTTTTTTGT
1 AATGTAAATATTACATATTTTTTTGT
*
33974398 AATGTAAAAATATACATA
1 AATGTAAATAT-TACATA
33974416 AGCTATAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 35 0.88
27 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (26 bp):
AATGTAAATATTACATATTTTTTTGT
Found at i:33977320 original size:24 final size:24
Alignment explanation
Indices: 33977293--33977343 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
33977283 CCCATGACCG
33977293 AAACATCAAAGAAAGAAAAGAAAT
1 AAACATCAAAGAAAGAAAAGAAAT
*
33977317 AAACATCAAAGAAAGAAAATAAAT
1 AAACATCAAAGAAAGAAAAGAAAT
33977341 AAA
1 AAA
33977344 GCTTTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.10
Consensus pattern (24 bp):
AAACATCAAAGAAAGAAAAGAAAT
Found at i:33978226 original size:24 final size:24
Alignment explanation
Indices: 33978199--33978245 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
33978189 TTAATTTGTG
33978199 TAAGACAACGTCTGGGATGTTGGA
1 TAAGACAACGTCTGGGATGTTGGA
*
33978223 TAAGACCACGTCTGGGATGTTGG
1 TAAGACAACGTCTGGGATGTTGG
33978246 CATCGATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (24 bp):
TAAGACAACGTCTGGGATGTTGGA
Found at i:33978355 original size:43 final size:43
Alignment explanation
Indices: 33978223--33978446 Score: 258
Period size: 43 Copynumber: 5.3 Consensus size: 43
33978213 GGATGTTGGA
* *
33978223 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* * * * * * *
33978266 TAAGACCATGTCTAGGACATCGGTATCG-TATTTGATTCA-TG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
*
33978307 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* * * * *
33978350 TAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTCA-TG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* *
33978391 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
*
33978434 TAAGACCATGTCT
1 TAAGACCACGTCT
33978447 TGGATATTAG
Statistics
Matches: 145, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
41 50 0.34
42 34 0.23
43 61 0.42
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
Found at i:33978368 original size:84 final size:84
Alignment explanation
Indices: 33978223--33978471 Score: 408
Period size: 84 Copynumber: 3.0 Consensus size: 84
33978213 GGATGTTGGA
*
33978223 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
*
33978288 GTATCGTATTTGATTCATG
66 GCATCGTATTTGATTCATG
* * *
33978307 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTGTAAGACCATGTCTGGGACATCG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
33978372 GCATCGTATTTGATTCATG
66 GCATCGTATTTGATTCATG
* * * **
33978391 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTTGGATATTA
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
33978456 GCATCGTATTTGATTC
66 GCATCGTATTTGATTC
33978472 GTGATGTGAT
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 153 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (84 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
GCATCGTATTTGATTCATG
Found at i:33978460 original size:43 final size:41
Alignment explanation
Indices: 33978223--33978474 Score: 252
Period size: 43 Copynumber: 6.0 Consensus size: 41
33978213 GGATGTTGGA
**
33978223 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-TATGTGATT-CGTG
* * * * * *
33978266 TAAGACCATGTCTAGGACATCGGTATCGTATTTGATTCATG
1 TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
* * *
33978307 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-TATGTGATT-CGTG
* * * *
33978350 TAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCATG
1 TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
* *
33978391 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-TATGTGATT-CGTG
* * * * *
33978434 TAAGACCATGTCTTGGATATTAGCATCGTATTTGATTCGTG
1 TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
33978475 ATGTGATCCG
Statistics
Matches: 168, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
41 55 0.33
42 40 0.24
43 73 0.43
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
Found at i:33982315 original size:50 final size:48
Alignment explanation
Indices: 33982196--33982513 Score: 223
Period size: 46 Copynumber: 6.7 Consensus size: 48
33982186 TGGGGTAAGT
* **
33982196 TGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCATCG
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
* * *
33982244 AGGCTGATGCCATGTCCCAGACATGGTCTTACACTAACTCTTGCAT-ATCCG
1 TGTC-GATGCCATGTCCCAGACATGGTCTTACACTAACT-AT-CATCAT-CG
* *
33982295 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CATC-TCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
* * ** *
33982340 TAGCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTC-TCG
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTAT-CATCATCG
* * * * **
33982386 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATCTTAA
1 -TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTA-TCATCATCG
* ** * *
33982433 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
* *
33982480 TGGTCGATG-CATGTCCTAGACAT-ATCTTACACTA
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACACTA
33982514 GCCCACGAGA
Statistics
Matches: 221, Mismatches: 32, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
44 11 0.05
45 16 0.07
46 66 0.30
47 30 0.14
48 25 0.11
49 31 0.14
50 35 0.16
51 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
Found at i:33982394 original size:46 final size:47
Alignment explanation
Indices: 33982199--33982470 Score: 245
Period size: 46 Copynumber: 5.7 Consensus size: 47
33982189 GGTAAGTTGT
* *
33982199 CGATGCCATGTCCTAGACATGGTCTTACACTGGC-TATCATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TC-AAGC
* ** * * ** *
33982248 TGATGCCATGTCCCAGACATGGTCTTACACTAACTCTTGCATATCCGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT--GGCTTACATCT-CAAGC
*
33982298 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCA-AGC
* * *
33982344 CGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AAGC
* * *
33982390 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-CATCTTAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCAA-GC
33982436 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
33982471 CTCATAATGT
Statistics
Matches: 182, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 59 0.32
47 16 0.09
48 13 0.07
49 29 0.16
50 32 0.18
51 5 0.03
52 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGC
Found at i:33982454 original size:138 final size:145
Alignment explanation
Indices: 33982199--33982467 Score: 374
Period size: 138 Copynumber: 1.9 Consensus size: 145
33982189 GGTAAGTTGT
* *
33982199 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCATCGAGGCTGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAG
* ** *
33982264 ACATGGTCTTACACTAACTCTTGCATATCCGTGTCGATGCCATGTCCCAGACATGGTCTTACACT
66 ACATGGTCTTACACTAACACTTGCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
33982329 GACACATCTCATAGC
131 GACACATCTCATAGC
* *
33982344 CGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTC-TCGAGGCCGATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATCATCGAGGCCGATGCCATGTCCCA
* * *
33982404 GACAT-GTCTTACACTAGCAC-T-CATCTTAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
65 GACATGGTCTTACACTAACACTTGCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
33982466 TG
130 TG
33982468 GCTCTCATAA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 38 0.34
139 1 0.01
140 13 0.12
141 14 0.12
142 12 0.11
143 16 0.14
144 13 0.12
145 5 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (145 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAACACTTGCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
GACACATCTCATAGC
Found at i:33982488 original size:94 final size:97
Alignment explanation
Indices: 33982197--33982515 Score: 324
Period size: 94 Copynumber: 3.4 Consensus size: 97
33982187 GGGGTAAGTT
* * ** * *
33982197 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTA-TCATCATCGAGGCTGATGCCATGTCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCATC-TTAATGCCGATGCCATGTCC
** *
33982261 CAGACATGGTCTTACACTAACTCTTGCATATCCGT-
64 CAGACATGGTCTTACACTGGCTC-TACATAT-CGTG
* *
33982296 GTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TCATAGCCGATG-CATGTCCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAAT-GCCGATGCCATGTCCC
* * * *
33982357 AGACAT-GTCTTACATTGGCT-TACGTCTCGAG
65 AGACATGGTCTTACACTGGCTCTACATATCGTG
*
33982388 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCA
33982451 GACATGGTCTTACACTGGCTCT-CATAAT-GTG
66 GACATGGTCTTACACTGGCTCTACAT-ATCGTG
* *
33982482 GTCGATG-CATGTCCTAGACAT-ATCTTACACTAGC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
33982516 CCACGAGAAC
Statistics
Matches: 187, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
90 10 0.05
91 17 0.09
92 23 0.12
93 17 0.09
94 59 0.32
95 17 0.09
96 7 0.04
97 4 0.02
98 1 0.01
99 32 0.17
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (97 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCTACATATCGTG
Found at i:33984242 original size:47 final size:46
Alignment explanation
Indices: 33984163--33984256 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 46
33984153 GATCTGAATC
* **
33984163 ACTCTTTCTGACTGACCGTCAATTTGCTGGTGAAATGCAATGCTAA
1 ACTCTTTCCGACTGACCGTCAATTTGAGGGTGAAATGCAATGCTAA
*** **
33984209 ANCTCTTTCCGACTGACCGTTGGTTTGAGGGTGAAATGCGGTGCTAA
1 A-CTCTTTCCGACTGACCGTCAATTTGAGGGTGAAATGCAATGCTAA
33984256 A
1 A
33984257 ATTCAATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
46 1 0.03
47 38 0.97
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.31
Consensus pattern (46 bp):
ACTCTTTCCGACTGACCGTCAATTTGAGGGTGAAATGCAATGCTAA
Found at i:34006227 original size:45 final size:45
Alignment explanation
Indices: 34006163--34006252 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
34006153 AAGTGTGGTC
*
34006163 GTGTAGTCCACATGGGCTAGGCTGAGTTGGGCGTGTGGGCCCACA
1 GTGTAGGCCACATGGGCTAGGCTGAGTTGGGCGTGTGGGCCCACA
34006208 GTGTAGGCCACATGGGCTAGGCTGAGTTGGGCGTGTGGGCCCACA
1 GTGTAGGCCACATGGGCTAGGCTGAGTTGGGCGTGTGGGCCCACA
34006253 CGAGCATGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.16, C:0.22, G:0.41, T:0.21
Consensus pattern (45 bp):
GTGTAGGCCACATGGGCTAGGCTGAGTTGGGCGTGTGGGCCCACA
Found at i:34006388 original size:20 final size:20
Alignment explanation
Indices: 34006346--34006390 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34006336 AAGCTGGCCT
* *
34006346 AGCTCAATTCCAGCTCGTTG
1 AGCTCAATTCCAGCTCATCG
*
34006366 AGCTCAATTCTAGCTCATCG
1 AGCTCAATTCCAGCTCATCG
34006386 AGCTC
1 AGCTC
34006391 GTTTTCATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (20 bp):
AGCTCAATTCCAGCTCATCG
Found at i:34010053 original size:30 final size:30
Alignment explanation
Indices: 34009978--34010064 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
34009968 GGAATGTACC
* *
34009978 TTTAGCTCGTGAGCTAAAGTTGAGCTGAGG
1 TTTAGCTCGTGAGCTGAAGTTGAGCTAAGG
* * * * *
34010008 CTAAACTCCTAAGCTGAAGTTGAGCTAAGG
1 TTTAGCTCGTGAGCTGAAGTTGAGCTAAGG
34010038 TTTAGCTCGTGAGCTGAA-TATGAGCTA
1 TTTAGCTCGTGAGCTGAAGT-TGAGCTA
34010065 GGAGTGAGCT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (30 bp):
TTTAGCTCGTGAGCTGAAGTTGAGCTAAGG
Done.