Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 46 of 320
Found at i:13230211 original size:45 final size:46
Alignment explanation
Indices: 13230102--13230225 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
13230092 GTGATAAGTG
* *
13230102 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
13230148 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
13230193 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
13230226 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:13240909 original size:20 final size:19
Alignment explanation
Indices: 13240888--13240924 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13240878 TTCTTTTTAT
13240888 TTTTA-TTTATTATTTATTA
1 TTTTATTTTATT-TTTATTA
13240907 TTTTATTTTATTTTTATT
1 TTTTATTTTATTTTTATT
13240925 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTATTTTTATTA
Found at i:13240914 original size:5 final size:5
Alignment explanation
Indices: 13240882--13240932 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
13240872 CAATCTTTCT
*
13240882 TTTTA TTTT- TATTTA TTATT- TATTA TTTTA TTTTA TTTTTA TTTTA
1 TTTTA TTTTA T-TTTA TT-TTA TTTTA TTTTA TTTTA -TTTTA TTTTA
13240928 TTTTA
1 TTTTA
13240933 GTTAAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 3 0.08
5 28 0.72
6 8 0.21
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:13240931 original size:11 final size:11
Alignment explanation
Indices: 13240882--13240931 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
13240872 CAATCTTTCT
13240882 TTTTATTTTTA
1 TTTTATTTTTA
13240893 -TTTATTATTTA
1 TTTTATT-TTTA
13240904 --TTA-TTTTA
1 TTTTATTTTTA
13240912 TTTTATTTTTA
1 TTTTATTTTTA
13240923 TTTTATTTT
1 TTTTATTTT
13240932 AGTTAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.11
9 1 0.03
10 12 0.34
11 18 0.51
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13242055 original size:118 final size:118
Alignment explanation
Indices: 13241847--13242076 Score: 327
Period size: 118 Copynumber: 1.9 Consensus size: 118
13241837 GTTTTCCATT
* * *
13241847 GTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAATCAGGGTAGGGTGCTTAGGTTGTCATTC
1 GTTATGAGCACAGCTCAAATCGTGACTGACTGAGTAATCAGGGTAGGGTGCTTAGGTTGTCATTC
*
13241912 TACTTCGCGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTAGCCGAG
66 TACTTCACGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTAGCCGAG
* * * *
13241965 GTTATGAGCATAGCTCAAATCGTGTCTGACTGAGTAA-CTGGGGTAGGGTGCTTGGGTTGTCATT
1 GTTATGAGCACAGCTCAAATCGTGACTGACTGAGTAATC-AGGGTAGGGTGCTTAGGTTGTCATT
* ****
13242029 CTACTTCACGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
65 CTACTTCACGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTA
13242077 ACCGGAAATA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
117 1 0.01
118 97 0.99
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (118 bp):
GTTATGAGCACAGCTCAAATCGTGACTGACTGAGTAATCAGGGTAGGGTGCTTAGGTTGTCATTC
TACTTCACGTCAAAAGGTTATGTGACGTGACAAGTAAAACTCCGCTAGCCGAG
Found at i:13242230 original size:18 final size:17
Alignment explanation
Indices: 13242203--13242245 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13242193 AATAAAATTT
13242203 AAATAAAAAAAGAAAAA
1 AAATAAAAAAAGAAAAA
* *
13242220 AAATCAAAAAAGGAAAA
1 AAATAAAAAAAGAAAAA
*
13242237 AAAGAAAAA
1 AAATAAAAA
13242246 GAAAAATAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (17 bp):
AAATAAAAAAAGAAAAA
Found at i:13243176 original size:37 final size:37
Alignment explanation
Indices: 13243133--13243308 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
13243123 TTTGACTACT
13243133 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
13243170 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
13243207 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
13243244 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
13243281 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
13243309 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:13243380 original size:45 final size:46
Alignment explanation
Indices: 13243271--13243394 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
13243261 GTGATAAGTG
* *
13243271 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
13243317 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
13243362 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
13243395 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:13250379 original size:37 final size:37
Alignment explanation
Indices: 13250338--13250513 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
13250328 TTTGACTACT
13250338 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
13250375 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
13250412 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
13250449 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
13250486 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
13250514 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:13250585 original size:45 final size:46
Alignment explanation
Indices: 13250476--13250599 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
13250466 GTGATAAGTG
* *
13250476 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
13250522 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
13250567 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
13250600 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:13257852 original size:21 final size:22
Alignment explanation
Indices: 13257826--13257872 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
13257816 CTCTGCTCAA
*
13257826 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
13257847 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
13257869 ACTC
1 ACTC
13257873 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:13264449 original size:44 final size:45
Alignment explanation
Indices: 13264338--13264449 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
13264328 TTCTGGAAAT
* * *
13264338 GAGTAAGACCATAGCTGAAAGACGCTATGGTATCATGATTCAAAC
1 GAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTCAAAC
**
13264383 GAGTAAGACTGTAGCT-ATAAGATGCTATGGCATCACGATTC-AAC
1 GAGTAAGACCATAGCTGA-AAGATGCTATGGCATCACGATTCAAAC
* **
13264427 GTGTAAGACCATAATTGAAAGAT
1 GAGTAAGACCATAGCTGAAAGAT
13264450 ATTATGACAA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
44 20 0.36
45 35 0.64
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTCAAAC
Found at i:13264886 original size:15 final size:15
Alignment explanation
Indices: 13264847--13264886 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
13264837 TAGCTATTCG
13264847 AAATGATTATATATA
1 AAATGATTATATATA
*
13264862 AAAAGA--ATATATA
1 AAATGATTATATATA
13264875 AAATGATTATAT
1 AAATGATTATAT
13264887 GAATCAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
AAATGATTATATATA
Found at i:13265860 original size:36 final size:36
Alignment explanation
Indices: 13265814--13265891 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
13265804 ATAAATTGTT
13265814 AATTG-AGGAAAATTATACTAATTGGGGAAGGACTA
1 AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
13265849 AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
1 AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
13265885 AATTGTA
1 AATTGTA
13265892 AAAACTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 5 0.12
36 37 0.88
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.28
Consensus pattern (36 bp):
AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
Found at i:13266348 original size:21 final size:21
Alignment explanation
Indices: 13266322--13266374 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
13266312 TTGTATTTAC
*
13266322 TTTCTGTTTAGCTC-TCATGAG
1 TTTCTGTTTAACTCAT-ATGAG
13266343 TTTCTG-TTAACTCATATGAG
1 TTTCTGTTTAACTCATATGAG
*
13266363 TTTCCGTTTAAC
1 TTTCTGTTTAAC
13266375 CCTAATGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (21 bp):
TTTCTGTTTAACTCATATGAG
Found at i:13266396 original size:42 final size:42
Alignment explanation
Indices: 13266349--13266429 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
13266339 TGAGTTTCTG
* * *
13266349 TTAACTCATATGAGTTTCCGTTTAACCCTAATGGATTTCCAT
1 TTAACTCATATGAGCTTCAGTTTAACCCTAATGCATTTCCAT
* * *
13266391 TTAACTCTTTTGAGCTTCAGTTTAACCCTTATGCATTTC
1 TTAACTCATATGAGCTTCAGTTTAACCCTAATGCATTTC
13266430 AGTTCAGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.43
Consensus pattern (42 bp):
TTAACTCATATGAGCTTCAGTTTAACCCTAATGCATTTCCAT
Found at i:13266430 original size:21 final size:20
Alignment explanation
Indices: 13266357--13266433 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
13266347 TGTTAACTCA
*
13266357 TATGAGTTTCCGTTTAACCCT
1 TATGA-TTTCAGTTTAACCCT
* *
13266378 AATGGATTTCCA-TTTAACTCT
1 TAT-GATTT-CAGTTTAACCCT
* *
13266399 TTTGAGCTTCAGTTTAACCCT
1 TATGA-TTTCAGTTTAACCCT
13266420 TATGCATTTCAGTT
1 TATG-ATTTCAGTT
13266434 CAGCTCCTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
20 4 0.10
21 34 0.81
22 4 0.10
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (20 bp):
TATGATTTCAGTTTAACCCT
Found at i:13266447 original size:42 final size:42
Alignment explanation
Indices: 13266351--13266463 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
13266341 AGTTTCTGTT
* * * * * *
13266351 AACTCATATGAGTTTCCGTTTAACCCTAATGGATTTCCATTT
1 AACTCCTATGAGCTTCAGTTTAACCCTTATGCATTTCCATTC
* *
13266393 AACTCTTTTGAGCTTCAGTTTAACCCTTATGCATTT-CAGTTC
1 AACTCCTATGAGCTTCAGTTTAACCCTTATGCATTTCCA-TTC
* *
13266435 AGCTCCTATGAGCTTCCA-TTCAACCCTTA
1 AACTCCTATGAGCTT-CAGTTTAACCCTTA
13266464 AGGGTTTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 2 0.03
42 54 0.93
43 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.39
Consensus pattern (42 bp):
AACTCCTATGAGCTTCAGTTTAACCCTTATGCATTTCCATTC
Found at i:13267584 original size:73 final size:73
Alignment explanation
Indices: 13267505--13267653 Score: 235
Period size: 73 Copynumber: 2.0 Consensus size: 73
13267495 GAAATGAGAA
* * * * *
13267505 ATGTGAAATGTTAAATGAATAGATGTTGAATGAGTGATATATCTAATGTGTTTACTTGTATATGT
1 ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGACATATCTAATGCGTTTACATGTATATGT
13267570 TTTATAAC
66 TTTATAAC
* *
13267578 ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGGCATATCTATTGCGTTTACATGTATATGT
1 ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGACATATCTAATGCGTTTACATGTATATGT
13267643 TTTATAAC
66 TTTATAAC
13267651 ATG
1 ATG
13267654 AAAAGGTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (73 bp):
ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGACATATCTAATGCGTTTACATGTATATGT
TTTATAAC
Found at i:13270117 original size:3 final size:3
Alignment explanation
Indices: 13270111--13270150 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
13270101 AGAGAGAAGA
13270111 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13270151 GGTCATCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13270819 original size:39 final size:39
Alignment explanation
Indices: 13270776--13270854 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
13270766 GATTAAAGAC
13270776 TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
1 TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
*
13270815 TTAATTGTTAAGAGTACAAAATTAGATAAGTGAAATAGA
1 TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
13270854 T
1 T
13270855 ATTAATACGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.30
Consensus pattern (39 bp):
TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
Found at i:13278719 original size:16 final size:16
Alignment explanation
Indices: 13278698--13278730 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13278688 CTAGCATGGG
13278698 TTAATTT-TGAATTTCA
1 TTAATTTGTG-ATTTCA
13278714 TTAATTTGTGATTTCA
1 TTAATTTGTGATTTCA
13278730 T
1 T
13278731 GAAATAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (16 bp):
TTAATTTGTGATTTCA
Found at i:13291677 original size:18 final size:18
Alignment explanation
Indices: 13291645--13291683 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13291635 ACCTCTCATG
* *
13291645 TATCCTCCTCCTCAAATA
1 TATCCTCCACATCAAATA
*
13291663 TATCCTCCACATCAATTA
1 TATCCTCCACATCAAATA
13291681 TAT
1 TAT
13291684 GAAAACCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (18 bp):
TATCCTCCACATCAAATA
Found at i:13294537 original size:64 final size:64
Alignment explanation
Indices: 13294422--13294542 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
13294412 CAAGAATCAC
* *
13294422 CAAAACTTTACACACGTCGAACATGTAGCATTAACGTTAGCATCTATCACTCCATTAAGACCCT
1 CAAAACTTTACACACGTCGAACATGTAGCATTAACATTAGCACCTATCACTCCATTAAGACCCT
* * * * *
13294486 CAAAACTTTACATATGTCGAACATGTGGCATTATCATTAGGACCTGA-CACTCCATTA
1 CAAAACTTTACACACGTCGAACATGTAGCATTAACATTAGCACCT-ATCACTCCATTA
13294543 CACGGCCACC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
64 48 0.98
65 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (64 bp):
CAAAACTTTACACACGTCGAACATGTAGCATTAACATTAGCACCTATCACTCCATTAAGACCCT
Found at i:13296434 original size:18 final size:17
Alignment explanation
Indices: 13296400--13296458 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
13296390 CTGGAAACAT
13296400 ATTATGATTTAAAATTTTA
1 ATTAT-ATTT-AAATTTTA
13296419 ATTATATTATAAA-TTTA
1 ATTATATT-TAAATTTTA
*
13296436 GATTATATTTAATATTTTG
1 -ATTATATTTAA-ATTTTA
13296455 ATTA
1 ATTA
13296459 AATTGGTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 7 0.20
18 19 0.54
19 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTATATTTAAATTTTA
Found at i:13296784 original size:21 final size:21
Alignment explanation
Indices: 13296760--13296802 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13296750 TGGTTACTTC
13296760 CGTCAAATCATCACTAATAAG
1 CGTCAAATCATCACTAATAAG
* *
13296781 CGTCAAATCATCATTGATAAG
1 CGTCAAATCATCACTAATAAG
13296802 C
1 C
13296803 TTAAAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (21 bp):
CGTCAAATCATCACTAATAAG
Found at i:13297573 original size:3 final size:3
Alignment explanation
Indices: 13297565--13297598 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13297555 AAGGATCAAA
13297565 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13297599 TTACTTGCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13299810 original size:5 final size:5
Alignment explanation
Indices: 13299800--13299828 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13299790 TTTATTAGGG
13299800 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
13299829 GATATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:13300461 original size:18 final size:18
Alignment explanation
Indices: 13300438--13300472 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13300428 GTCAAATTTT
13300438 TTAAATAATAATTATAAA
1 TTAAATAATAATTATAAA
*
13300456 TTAAATTATAATTATAA
1 TTAAATAATAATTATAA
13300473 TTATCACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAATAATAATTATAAA
Found at i:13300707 original size:2 final size:2
Alignment explanation
Indices: 13300662--13300688 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13300652 TTTGTGCTTT
13300662 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13300689 TAGATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13301671 original size:43 final size:43
Alignment explanation
Indices: 13301613--13301800 Score: 261
Period size: 43 Copynumber: 4.4 Consensus size: 43
13301603 CCACCATTGC
* * *
13301613 TTTGCAGATAAAAACTACTACTGGGTTGTGGATGCATAACATA
1 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
** * *
13301656 TTTGTAGATAAAAACTACTTCTGGATTGTGGATGCATAACATA
1 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
13301699 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT-
1 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
** * *
13301741 TTTCACAGATAAAAACTACCACTAGGATGTGGATGCACAACATA
1 TTT-GTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
13301785 TTTGTAGATAAAAACT
1 TTTGTAGATAAAAACT
13301801 GTTGTGGATG
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 3 0.02
43 124 0.95
44 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (43 bp):
TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
Found at i:13301814 original size:35 final size:35
Alignment explanation
Indices: 13301768--13301938 Score: 173
Period size: 35 Copynumber: 4.7 Consensus size: 35
13301758 ACCACTAGGA
**
13301768 TGTGGATGCACAACATATTTGTAGATAAAAACTGT
1 TGTGGATGCACAACATATTTACAGATAAAAACTGT
* * * *
13301803 TGTGGATGCACAACATATTTGCAGATAATAATTAT
1 TGTGGATGCACAACATATTTACAGATAAAAACTGT
*
13301838 TGTGGATGCACAACAT-TTTCACAGATAAAAACTACCACTAGGC
1 TGTGGATGCACAACATATTT-ACAGAT--AAA--A--ACT--GT
* *
13301881 TGTAGATGTACAACATATTTACAGATAAAAACTGT
1 TGTGGATGCACAACATATTTACAGATAAAAACTGT
13301916 TGTGGATGCACAACATATTTACA
1 TGTGGATGCACAACATATTTACA
13301939 TATCGTCTCA
Statistics
Matches: 112, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
34 3 0.03
35 74 0.66
37 5 0.04
39 2 0.02
41 5 0.04
43 20 0.18
44 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (35 bp):
TGTGGATGCACAACATATTTACAGATAAAAACTGT
Found at i:13301922 original size:113 final size:113
Alignment explanation
Indices: 13301724--13301935 Score: 379
Period size: 113 Copynumber: 1.9 Consensus size: 113
13301714 TACCACTGGG
* *
13301724 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTGGATGCACAACATATTTG
1 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTAGATGCACAACATATTTA
*
13301789 TAGATAAAAACTGTTGTGGATGCACAACATATTTGCAGATAATAATTA
66 CAGATAAAAACTGTTGTGGATGCACAACATATTTGCAGATAATAATTA
* *
13301837 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGCTGTAGATGTACAACATATTTA
1 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTAGATGCACAACATATTTA
13301902 CAGATAAAAACTGTTGTGGATGCACAACATATTT
66 CAGATAAAAACTGTTGTGGATGCACAACATATTT
13301936 ACATATCGTC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 94 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (113 bp):
TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTAGATGCACAACATATTTA
CAGATAAAAACTGTTGTGGATGCACAACATATTTGCAGATAATAATTA
Found at i:13302038 original size:38 final size:38
Alignment explanation
Indices: 13301986--13302059 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
13301976 TGTAATAGAA
* * *
13301986 CAATTCAACGCTAGCAGTAGACATGCTTAACATGTATT
1 CAATTAAACACTAGCAATAGACATGCTTAACATGTATT
*
13302024 CAATTAAACACTAGCAATAGACATGCTTATCATGTA
1 CAATTAAACACTAGCAATAGACATGCTTAACATGTA
13302060 CTCTGTAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (38 bp):
CAATTAAACACTAGCAATAGACATGCTTAACATGTATT
Found at i:13309199 original size:43 final size:43
Alignment explanation
Indices: 13309147--13309240 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
13309137 CACCACTTTG
* *
13309147 CAAATAAAAACTACCACTAGG-TTGTGGGTGCACAACATATTTA
1 CAAATAAAAACTACCACT-GGACTGTGGATGCACAACATATTTA
*
13309190 CAGATAAAAACTACCACTGGACTGTGGATGCACAACATATTTA
1 CAAATAAAAACTACCACTGGACTGTGGATGCACAACATATTTA
13309233 CAAATAAA
1 CAAATAAA
13309241 CTGCCACTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (43 bp):
CAAATAAAAACTACCACTGGACTGTGGATGCACAACATATTTA
Found at i:13310672 original size:21 final size:21
Alignment explanation
Indices: 13310636--13310677 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13310626 TTGTGAATTT
*
13310636 GAAAACACTTTTTGACTTCAAA
1 GAAAACACTATTTGAC-TCAAA
13310658 GAAAACA-TATTTGACTCAAA
1 GAAAACACTATTTGACTCAAA
13310678 CACATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
GAAAACACTATTTGACTCAAA
Found at i:13312498 original size:19 final size:19
Alignment explanation
Indices: 13312466--13312510 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13312456 ATTTGTAAAT
13312466 ATATTATTAATATTTTTTC
1 ATATTATTAATATTTTTTC
*
13312485 TTATT-TTAATTATTTTTTC
1 ATATTATTAA-TATTTTTTC
13312504 ATATTAT
1 ATATTAT
13312511 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 17 0.77
20 1 0.05
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTATTAATATTTTTTC
Found at i:13312516 original size:19 final size:19
Alignment explanation
Indices: 13312466--13312516 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
13312456 ATTTGTAAAT
13312466 ATATTATTAA-TATTTTTTC
1 ATATTA-TAATTATTTTTTC
* *
13312485 TTATTTTAATTATTTTTTC
1 ATATTATAATTATTTTTTC
*
13312504 ATATTATATTTAT
1 ATATTATAATTAT
13312517 AAAATATTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTATAATTATTTTTTC
Found at i:13312866 original size:37 final size:36
Alignment explanation
Indices: 13312825--13312894 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
13312815 ATGTGTCAAG
*
13312825 AAAAAGGAAAAAAATCACTTAAAAATAT-TAAAAATAT
1 AAAAAGCAAAAAAATCA-TTAAAAA-ATCTAAAAATAT
* *
13312862 AAAAATCCAAAAAATCATTAAAAAATCTAAAAA
1 AAAAAGCAAAAAAATCATTAAAAAATCTAAAAA
13312895 AACTCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 2 0.07
36 13 0.45
37 14 0.48
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (36 bp):
AAAAAGCAAAAAAATCATTAAAAAATCTAAAAATAT
Found at i:13312886 original size:11 final size:11
Alignment explanation
Indices: 13312870--13312949 Score: 50
Period size: 11 Copynumber: 7.9 Consensus size: 11
13312860 ATAAAAATCC
13312870 AAAAAATCATT
1 AAAAAATCATT
*
13312881 AAAAAATC-TA
1 AAAAAATCATT
*
13312891 AAAAAACTCA-A
1 AAAAAA-TCATT
13312902 AAAAAATC-TT
1 AAAAAATCATT
13312912 --AAAA-C-TT
1 AAAAAATCATT
*
13312919 AAAAAATTATT
1 AAAAAATCATT
*
13312930 AAAAAA-CTTT
1 AAAAAATCATT
*
13312940 AAAATATCAT
1 AAAAAATCAT
13312950 AATATATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
7 3 0.06
8 4 0.07
9 4 0.07
10 16 0.30
11 27 0.50
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAAATCATT
Found at i:13312894 original size:10 final size:11
Alignment explanation
Indices: 13312870--13312915 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
13312860 ATAAAAATCC
*
13312870 AAAAAATCATT
1 AAAAAATCATA
13312881 AAAAAATC-TA
1 AAAAAATCATA
13312891 AAAAAACTCA-A
1 AAAAAA-TCATA
*
13312902 AAAAAATCTTA
1 AAAAAATCATA
13312913 AAA
1 AAA
13312916 CTTAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAAATCATA
Found at i:13315263 original size:41 final size:41
Alignment explanation
Indices: 13315218--13315300 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
13315208 ATTGAGTTAG
*
13315218 TATCGAGTTGAGTTGTGATATCAACTTAATCAACAATAATA
1 TATCGAGTTGAGTTGTGATATCAACTTAATCAACAACAATA
13315259 TATCGAGTTGAGTTGTGATATCAACTTAATCAACAACAATA
1 TATCGAGTTGAGTTGTGATATCAACTTAATCAACAACAATA
13315300 T
1 T
13315301 CAATATATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (41 bp):
TATCGAGTTGAGTTGTGATATCAACTTAATCAACAACAATA
Found at i:13317644 original size:12 final size:12
Alignment explanation
Indices: 13317627--13317651 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13317617 ACACTTGCTG
13317627 CTTTTCTTTTTT
1 CTTTTCTTTTTT
13317639 CTTTTCTTTTTT
1 CTTTTCTTTTTT
13317651 C
1 C
13317652 CTTAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
CTTTTCTTTTTT
Found at i:13327208 original size:22 final size:22
Alignment explanation
Indices: 13327180--13327266 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
13327170 CTCTGATTAT
13327180 TAGCACATTAGTGCTCTCTG-A
1 TAGCACATTAGTGCTCTCTGTA
13327201 CTAGCACATCT-GTGCTCTCTGTA
1 -TAGCACAT-TAGTGCTCTCTGTA
*
13327224 TAGCACTTTAGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
**
13327246 TAGCATTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
13327267 TCATTAGTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
21 1 0.02
22 57 0.95
23 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:13328982 original size:27 final size:26
Alignment explanation
Indices: 13328952--13329016 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
13328942 GTCAAAATTA
* *
13328952 ACCTTAGGGGTATAACGGTCATTTTGC
1 ACCTTAGGGGTAAAACGGTAATTTT-C
*
13328979 ACC-TAGGGGTAAAATGGTAATTTTC
1 ACCTTAGGGGTAAAACGGTAATTTTC
*
13329004 ATACTTAGGGGTA
1 A-CCTTAGGGGTA
13329017 GTTTAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.59
27 11 0.34
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (26 bp):
ACCTTAGGGGTAAAACGGTAATTTTC
Found at i:13333101 original size:35 final size:35
Alignment explanation
Indices: 13333062--13333128 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
13333052 TACATAGAAC
13333062 ATCTCAGAAGAAATTGTTAAATCTATTCAGCCAAT
1 ATCTCAGAAGAAATTGTTAAATCTATTCAGCCAAT
13333097 ATCTCAGAAGAAATTGTTAAATCTATTCAGCC
1 ATCTCAGAAGAAATTGTTAAATCTATTCAGCC
13333129 GTAACTGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (35 bp):
ATCTCAGAAGAAATTGTTAAATCTATTCAGCCAAT
Found at i:13336626 original size:30 final size:30
Alignment explanation
Indices: 13336591--13336647 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
13336581 AAAATCATAT
*
13336591 TTTGTCAAAATTACAATTTTGCCCCTAAAC
1 TTTGTCAAAATTACAATTTTCCCCCTAAAC
*
13336621 TTTGTCAAAATTACATTTTTCCCCCTA
1 TTTGTCAAAATTACAATTTTCCCCCTA
13336648 GACTCGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTGTCAAAATTACAATTTTCCCCCTAAAC
Found at i:13339679 original size:18 final size:19
Alignment explanation
Indices: 13339656--13339691 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13339646 AACTTGGCAC
*
13339656 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
13339674 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
13339692 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:13344398 original size:30 final size:30
Alignment explanation
Indices: 13344364--13344424 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13344354 TCCTTAACTC
13344364 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
13344394 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
13344424 A
1 A
13344425 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:13345698 original size:15 final size:14
Alignment explanation
Indices: 13345673--13345706 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13345663 ACAATTTTAC
13345673 TAAAATAACTAAAG
1 TAAAATAACTAAAG
*
13345687 TAAAAGTAACTAGAG
1 TAAAA-TAACTAAAG
13345702 TAAAA
1 TAAAA
13345707 AGGTTCTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (14 bp):
TAAAATAACTAAAG
Found at i:13351036 original size:26 final size:26
Alignment explanation
Indices: 13351007--13351081 Score: 150
Period size: 26 Copynumber: 2.9 Consensus size: 26
13350997 ATGTTTGTTC
13351007 ATTTGAATAAATGTAAGCATGATAGG
1 ATTTGAATAAATGTAAGCATGATAGG
13351033 ATTTGAATAAATGTAAGCATGATAGG
1 ATTTGAATAAATGTAAGCATGATAGG
13351059 ATTTGAATAAATGTAAGCATGAT
1 ATTTGAATAAATGTAAGCATGAT
13351082 TGTGATAGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (26 bp):
ATTTGAATAAATGTAAGCATGATAGG
Found at i:13352173 original size:18 final size:17
Alignment explanation
Indices: 13352140--13352178 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
13352130 TTGTATAAAT
13352140 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
13352158 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
13352175 TGTG
1 TGTG
13352179 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:13352431 original size:23 final size:23
Alignment explanation
Indices: 13352404--13352501 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
13352394 AGTGTTATTG
13352404 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
13352427 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13352450 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13352472 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13352495 ATCAGTG
1 ATCAGTG
13352502 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13352470 original size:45 final size:45
Alignment explanation
Indices: 13352406--13352494 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
13352396 TGTTATTGAT
* *
13352406 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
13352451 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
13352495 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:13356264 original size:22 final size:22
Alignment explanation
Indices: 13356236--13356302 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
13356226 TCTCTGATTA
13356236 TTAGCACATTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
13356258 TTAGCACATTCA-TGCTCTCTGT
1 TTAGCACATT-AGTGCTCTCTGT
* * *
13356280 ATAGCACCTCAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
13356302 T
1 T
13356303 CATTAATGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:13358693 original size:14 final size:14
Alignment explanation
Indices: 13358674--13358704 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13358664 TTTGATTGGT
*
13358674 GGAAAATATTTTCC
1 GGAAAATATTTTAC
13358688 GGAAAATATTTTAC
1 GGAAAATATTTTAC
13358702 GGA
1 GGA
13358705 TTTTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:13359202 original size:27 final size:27
Alignment explanation
Indices: 13359115--13359213 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
13359105 AAAGGTATAT
13359115 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
13359142 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
13359171 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
13359198 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
13359214 AGAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.45
28 14 0.25
29 9 0.16
30 1 0.02
31 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:13361313 original size:26 final size:26
Alignment explanation
Indices: 13361284--13361338 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
13361274 GTACATCCTC
13361284 AAACT-ATAATCTATAATCTAGATATT
1 AAACTGAT-ATCTATAATCTAGATATT
* * *
13361310 AAACTGGTCTCTATAATCTAGATTTT
1 AAACTGATATCTATAATCTAGATATT
13361336 AAA
1 AAA
13361339 TTGGTCTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (26 bp):
AAACTGATATCTATAATCTAGATATT
Found at i:13361343 original size:26 final size:26
Alignment explanation
Indices: 13361293--13361351 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
13361283 CAAACTATAA
13361293 TCTATAATCTAGATATTAAACTGGTC
1 TCTATAATCTAGATATTAAACTGGTC
* *
13361319 TCTATAATCTAGATTTTAAATTGGTC
1 TCTATAATCTAGATATTAAACTGGTC
13361345 TCTATAA
1 TCTATAA
13361352 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
TCTATAATCTAGATATTAAACTGGTC
Found at i:13361694 original size:14 final size:15
Alignment explanation
Indices: 13361672--13361748 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
13361662 CAATCAAACA
13361672 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
13361686 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
13361701 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
13361721 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
13361735 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
13361749 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:13361713 original size:20 final size:20
Alignment explanation
Indices: 13361688--13361727 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13361678 AATATTTTCC
*
13361688 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
13361708 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
13361728 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:13361733 original size:34 final size:35
Alignment explanation
Indices: 13361676--13361742 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13361666 CAAACACCAG
*
13361676 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
13361711 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
13361743 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:13361749 original size:14 final size:14
Alignment explanation
Indices: 13361711--13361750 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13361701 ACAGAAAAGT
*
13361711 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
13361725 AAATCATTTTACGG
1 AAAACATTTTACAG
13361739 AAAACATTTTAC
1 AAAACATTTTAC
13361751 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:13363946 original size:7 final size:7
Alignment explanation
Indices: 13363934--13363965 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
13363924 TATATTTATT
13363934 TTAAATA
1 TTAAATA
13363941 TTAAATA
1 TTAAATA
13363948 TTAAATA
1 TTAAATA
13363955 TTAAATA
1 TTAAATA
13363962 TTAA
1 TTAA
13363966 TTTTCTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAAATA
Found at i:13364504 original size:22 final size:22
Alignment explanation
Indices: 13364474--13364528 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
13364464 CATTTTTTGG
13364474 ATTACAATACAATTTAAACATAC
1 ATTA-AATACAATTTAAACATAC
*
13364497 ATTAAATACAATTTAAACATAG
1 ATTAAATACAATTTAAACATAC
13364519 ATTAAATACA
1 ATTAAATACA
13364529 TCACTTGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTAAATACAATTTAAACATAC
Found at i:13367110 original size:26 final size:26
Alignment explanation
Indices: 13367080--13367154 Score: 62
Period size: 26 Copynumber: 2.9 Consensus size: 26
13367070 GCAGCTCTTA
*
13367080 TGAGCGTCC-CATTATATGACTCTTTG
1 TGAGCGTCCTCATTA-AAGACTCTTTG
* * *
13367106 TGAGCTTCCTGATTAAAGGCTCTTTG
1 TGAGCGTCCTCATTAAAGACTCTTTG
* * * *
13367132 TGAGCTTCTTAATTAATGACTCT
1 TGAGCGTCCTCATTAAAGACTCT
13367155 CCGGAGCTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (26 bp):
TGAGCGTCCTCATTAAAGACTCTTTG
Found at i:13367258 original size:24 final size:24
Alignment explanation
Indices: 13367231--13367292 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
13367221 TGGCTCTTCG
*
13367231 GAGCTACCTGTTATTAGCTCTTAT
1 GAGCTTCCTGTTATTAGCTCTTAT
* *
13367255 GAGCTTCCTGATTA-TGGCTCTTTT
1 GAGCTTCCTG-TTATTAGCTCTTAT
*
13367279 GAGCTTCCCGTTAT
1 GAGCTTCCTGTTAT
13367293 ACATTCCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (24 bp):
GAGCTTCCTGTTATTAGCTCTTAT
Found at i:13367283 original size:73 final size:74
Alignment explanation
Indices: 13367106--13367288 Score: 169
Period size: 73 Copynumber: 2.5 Consensus size: 74
13367096 TGACTCTTTG
* ***
13367106 TGAGCTTCCTGATTAAAGGCTCTTTGTGAGCTTCTTAATTAATGACTCTCCGGAGCTACCTGATA
1 TGAGCTTCCTGATT-ATGGCTCTTT-TGAGCTTCCCGATTAATGACTCTCCGGAGCTACCTGATA
13367171 TGACTTGCTTA
64 TGACTTGCTTA
* * *** * * *
13367182 --AACTT-CTCGATATATGGCTATCAGGAGCTTCCCGATTAATGGCTCTTCGGAGCTACCTGTTA
1 TGAGCTTCCT-GAT-TATGGCTCTTTTGAGCTTCCCGATTAATGACTCTCCGGAGCTACCTGATA
*
13367244 TTAGC-T-CTTA
64 TGA-CTTGCTTA
13367254 TGAGCTTCCTGATTATGGCTCTTTTGAGCTTCCCG
1 TGAGCTTCCTGATTATGGCTCTTTTGAGCTTCCCG
13367289 TTATACATTC
Statistics
Matches: 83, Mismatches: 18, Indels: 15
0.72 0.16 0.13
Matches are distributed among these distances:
72 4 0.05
73 55 0.66
74 21 0.25
75 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (74 bp):
TGAGCTTCCTGATTATGGCTCTTTTGAGCTTCCCGATTAATGACTCTCCGGAGCTACCTGATATG
ACTTGCTTA
Found at i:13372737 original size:77 final size:77
Alignment explanation
Indices: 13372610--13372764 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
13372600 CCATTAGCCT
13372610 GTGTACTGTTATTTATAAGATTATTGCCAAGACAGTGGCTAATCGTTTCCAAAAGGTTTTGGAAG
1 GTGTACTGTTATTTATAAGATTATTGCCAAGACAGTGGCTAATCGTTTCCAAAAGGTTTTGGAAG
13372675 AGTGCATTGATG
66 AGTGCATTGATG
13372687 GTGTACTGTTATTTATAAGATTATTGCCAAGACAGTGGCTAATCGTTTCCAAAAGGTTTTGGAAG
1 GTGTACTGTTATTTATAAGATTATTGCCAAGACAGTGGCTAATCGTTTCCAAAAGGTTTTGGAAG
13372752 AGTGCATTGATG
66 AGTGCATTGATG
13372764 G
1 G
13372765 CGCCTAAAGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (77 bp):
GTGTACTGTTATTTATAAGATTATTGCCAAGACAGTGGCTAATCGTTTCCAAAAGGTTTTGGAAG
AGTGCATTGATG
Found at i:13376832 original size:46 final size:46
Alignment explanation
Indices: 13376779--13376915 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
13376769 TATATATACA
* * * * *
13376779 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCAAATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
13376825 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
13376871 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
13376916 ATACACTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:13376960 original size:47 final size:47
Alignment explanation
Indices: 13376889--13377126 Score: 325
Period size: 47 Copynumber: 5.1 Consensus size: 47
13376879 ACACATTTCG
* * * * * *
13376889 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
13376936 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
13376983 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
13377030 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * * **
13377077 CATTTGTCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
13377124 CAT
1 CAT
13377127 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 173 0.99
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:13377663 original size:9 final size:9
Alignment explanation
Indices: 13377649--13377676 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13377639 TTTTACTGCT
13377649 TGACTACTC
1 TGACTACTC
13377658 TGACTACTC
1 TGACTACTC
13377667 TGACTACTC
1 TGACTACTC
13377676 T
1 T
13377677 TCACTAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (9 bp):
TGACTACTC
Found at i:13379528 original size:19 final size:21
Alignment explanation
Indices: 13379504--13379549 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
13379494 TTTCTAAAAT
13379504 TAAAAAGT-TAAAAA-ATA-AA
1 TAAAAA-TCTAAAAATATATAA
13379523 TAAAAATCTAAAAATATATAA
1 TAAAAATCTAAAAATATATAA
13379544 TAAAAA
1 TAAAAA
13379550 ACTTGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 3 0.12
21 8 0.33
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAAAATCTAAAAATATATAA
Found at i:13379528 original size:20 final size:20
Alignment explanation
Indices: 13379512--13379549 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13379502 ATTAAAAAGT
13379512 TAAAAA-ATAAATAAAAATC
1 TAAAAATATAAATAAAAATC
13379531 TAAAAATATATAATAAAAA
1 TAAAAATATA-AATAAAAA
13379550 ACTTGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAATATAAATAAAAATC
Found at i:13379560 original size:12 final size:14
Alignment explanation
Indices: 13379545--13379573 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13379535 AATATATAAT
13379545 AAAA-AACTTGCAA
1 AAAAGAACTTGCAA
13379558 AAAAGAACTTGCAA
1 AAAAGAACTTGCAA
13379572 AA
1 AA
13379574 TTTGCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (14 bp):
AAAAGAACTTGCAA
Found at i:13380025 original size:24 final size:23
Alignment explanation
Indices: 13379990--13380034 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
13379980 AATTGTTGGA
*
13379990 TTTATTTAATAA-CTTTTTAATT
1 TTTATTTAATAATCTATTTAATT
13380012 TTTATATTACATAATCTATTTAA
1 TTTAT-TTA-ATAATCTATTTAA
13380035 AGAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 3 0.16
24 4 0.21
25 7 0.37
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATTTAATAATCTATTTAATT
Found at i:13384444 original size:74 final size:72
Alignment explanation
Indices: 13384244--13384538 Score: 385
Period size: 72 Copynumber: 3.9 Consensus size: 72
13384234 TGATGCTTTT
13384244 ATTTCTG-TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
13384308 TAATTTCA
65 TATTTTCA
* * * *
13384316 ATTTCTGTTTTCAAAATTTAACTCATACTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
13384381 ATTTTCA
66 ATTTTCA
**
13384388 ATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTG-TTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
13384453 GTATTTTCA
64 GTATTTTCA
13384462 ATTTCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 A----T-TTC------TG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
13384527 ACACGTTGAGGT
54 ACACGTTGAGGT
13384539 TTTCAAAATT
Statistics
Matches: 195, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
72 65 0.33
73 13 0.07
74 55 0.28
78 1 0.01
79 3 0.02
84 51 0.26
85 7 0.04
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
ATTTTCA
Found at i:13384526 original size:84 final size:85
Alignment explanation
Indices: 13384384--13384538 Score: 267
Period size: 84 Copynumber: 1.8 Consensus size: 85
13384374 TTGAGGTATT
* **
13384384 TTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13384449 TGAGGTATTTTCAATTTCTG
66 TGAGGTATTTTCAATTTCTG
*
13384469 TTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13384533 TGAGGT
66 TGAGGT
13384539 TTTCAAAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 51 0.77
85 15 0.23
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (85 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTATTTTCAATTTCTG
Found at i:13384569 original size:57 final size:57
Alignment explanation
Indices: 13384481--13384595 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
13384471 CAATTTATGT
13384481 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* * *
13384538 TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
13384595 T
1 T
13384596 ATTTTCAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (57 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
Found at i:13384622 original size:72 final size:72
Alignment explanation
Indices: 13384537--13384904 Score: 466
Period size: 72 Copynumber: 5.0 Consensus size: 72
13384527 ACACGTTGAG
* * *
13384537 GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTGAGGTATTTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
13384602 AATTTCT
66 AATTTCT
* * *
13384609 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGGTAATTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
13384674 AATTTCT
66 AATTTCT
*
13384681 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
13384746 AATTTCT
66 AATTTCT
* ** * * *
13384753 GTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGGACACGCTGAGGT
1 G-TTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
*
13384818 AATTTCAATTTCT
60 ATTTTCAATTTCT
* * * ** *
13384831 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAAGTCACACGCTGAGGTAT
1 GTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGGTAT
13384896 TTTCAATTT
62 TTTCAATTT
13384905 TTTGGCTTTT
Statistics
Matches: 265, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
72 137 0.52
73 5 0.02
74 38 0.14
76 22 0.08
77 4 0.02
78 59 0.22
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (72 bp):
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
AATTTCT
Found at i:13384939 original size:152 final size:146
Alignment explanation
Indices: 13384541--13384949 Score: 484
Period size: 144 Copynumber: 2.7 Consensus size: 146
13384531 GTTGAGGTTT
* * * *
13384541 TCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATG-ACACGTTGAGGTATTTTCAAT
1 TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAAT
* * ** *
13384605 TTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGGTA
66 TTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTA
*
13384669 ATTTCAATTTCTGTTT
131 ATTTCAATTTCTGTTG
* *
13384685 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACATGCTGAGGTATTTTCAAT
1 TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAAT
* * * *
13384749 TTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGGACACGCTG
66 TTCTGTTTTT-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTG
13384814 AGGTAATTTCAATTTCTGTTG
126 AGGTAATTTCAATTTCTGTTG
* ** *
13384835 TCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAAGTCACACGCTGAGGTATTTTC
1 TC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGT-ACACGCTGAGGTATTTTC
* *
13384900 AATTTTTTGGCTTTTTTAAAAATCAACTCATAATT-CGAGAGGTGAGTTAA
63 AA-TTTCT-G-TTTTTAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTAA
13384950 ACTTCGGGTA
Statistics
Matches: 228, Mismatches: 23, Indels: 20
0.84 0.08 0.07
Matches are distributed among these distances:
144 65 0.29
145 4 0.02
150 63 0.28
152 64 0.28
153 3 0.01
154 19 0.08
155 4 0.02
156 1 0.00
157 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (146 bp):
TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTACACGCTGAGGTATTTTCAAT
TTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTA
ATTTCAATTTCTGTTG
Found at i:13384948 original size:78 final size:73
Alignment explanation
Indices: 13384538--13384949 Score: 425
Period size: 72 Copynumber: 5.5 Consensus size: 73
13384528 CACGTTGAGG
* * * ** * * *
13384538 TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTGAGGTATTTTCA
1 TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCA
13384603 ATTTCTG-
66 ATTTCTGT
* * ** * *
13384610 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCA
13384675 ATTTCTG-
66 ATTTCTGT
* * ** * *
13384682 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCA
13384747 ATTTCTGT
66 ATTTCTGT
* * * * *
13384755 TTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGGACACGCTGAGGTAA
1 TTTT-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAT
13384820 TTTCAATTTCTGT
61 TTTCAATTTCTGT
** *
13384833 TGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAAGTCACACGCTGAGGTATTT
1 T-TTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAG--ACACGCTGAGGTATTT
*
13384898 TCAATTTTTTGGCT
63 TCAA-TTTCT-G-T
*
13384912 TTTTTAAAAATCAACTCATAATT-CGAGAGGTGAGTTAA
1 TTTTAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTAA
13384950 ACTTCGGGTA
Statistics
Matches: 297, Mismatches: 30, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
72 136 0.46
73 4 0.01
74 37 0.12
76 19 0.06
77 4 0.01
78 91 0.31
79 6 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (73 bp):
TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCA
ATTTCTGT
Found at i:13385498 original size:16 final size:15
Alignment explanation
Indices: 13385476--13385530 Score: 85
Period size: 15 Copynumber: 3.6 Consensus size: 15
13385466 AAAAAAGAGC
13385476 CAAAAAAAATTTCAG
1 CAAAAAAAATTTCAG
13385491 CAAAAAAAA-TTCTAG
1 CAAAAAAAATTTC-AG
13385506 CAAAAAAAATTTCCAG
1 CAAAAAAAATTT-CAG
13385522 CAAAAAAAA
1 CAAAAAAAA
13385531 ACCAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.08
15 20 0.54
16 13 0.35
17 1 0.03
ACGTcount: A:0.64, C:0.15, G:0.05, T:0.16
Consensus pattern (15 bp):
CAAAAAAAATTTCAG
Found at i:13386100 original size:15 final size:16
Alignment explanation
Indices: 13386067--13386100 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13386057 TTTTATTTGT
13386067 AATTGGTCTAAACAAA
1 AATTGGTCTAAACAAA
*
13386083 AATTGGTCTTAA-AAA
1 AATTGGTCTAAACAAA
13386098 AAT
1 AAT
13386101 AAAAAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTGGTCTAAACAAA
Found at i:13386356 original size:17 final size:17
Alignment explanation
Indices: 13386326--13386358 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13386316 CTATATTATA
13386326 TACATATATATATTTTG
1 TACATATATATATTTTG
13386343 TACATATCAT-TATTTT
1 TACATAT-ATATATTTT
13386359 ATATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (17 bp):
TACATATATATATTTTG
Found at i:13386497 original size:3 final size:3
Alignment explanation
Indices: 13386489--13386514 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13386479 TTTATGTACA
13386489 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
13386515 CCAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:13396416 original size:72 final size:74
Alignment explanation
Indices: 13396299--13396593 Score: 357
Period size: 72 Copynumber: 3.9 Consensus size: 74
13396289 TGATGCTTTT
*
13396299 ATTTCTG--TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAG
1 ATTTCTGATTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
13396362 GTAATTTCA
66 GTATTTTCA
* *
13396371 ATTTCT-ATTTTC-AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACATTGAG
1 ATTTCTGATTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
13396434 GTATTTTCA
66 GTATTTTCA
* * * ** *
13396443 ATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGATACGTTGAG
1 ATTTCTGATTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
13396508 GTATTTTCA
66 GTATTTTCA
*
13396517 ATTTCTGTTCAATTTATGTTTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGTCTCAA
1 ATTTCTG--------A---TTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
13396581 GACACGTTGAGGT
55 GACACGTTGAGGT
13396594 TTTCAAAATT
Statistics
Matches: 190, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
72 67 0.35
73 9 0.05
74 60 0.32
84 44 0.23
85 10 0.05
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (74 bp):
ATTTCTGATTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
GTATTTTCA
Found at i:13396581 original size:84 final size:85
Alignment explanation
Indices: 13396439--13396593 Score: 249
Period size: 84 Copynumber: 1.8 Consensus size: 85
13396429 TTGAGGTATT
* ** *
13396439 TTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGATACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13396504 TGAGGTATTTTCAATTTCTG
66 TGAGGTATTTTCAATTTCTG
* *
13396524 TTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGTCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13396588 TGAGGT
66 TGAGGT
13396594 TTTCAAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
84 49 0.77
85 15 0.23
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (85 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTATTTTCAATTTCTG
Found at i:13396624 original size:57 final size:57
Alignment explanation
Indices: 13396536--13396650 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
13396526 CAATTTATGT
*
13396536 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGTCTCAAGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
13396593 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
13396650 T
1 T
13396651 ATTTTCAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (57 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
Found at i:13396636 original size:141 final size:130
Alignment explanation
Indices: 13396524--13396871 Score: 410
Period size: 144 Copynumber: 2.5 Consensus size: 130
13396514 TCAATTTCTG
* *
13396524 TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGTCTCAAGACACGTT
1 TTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
*
13396589 GAGGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
65 GAGGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
13396653 T
130 T
*
13396654 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
1 TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
* *
13396719 AGGTAATTTCAATTTCTGCTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTAAGA
66 AGGT--TTTCAA-----------AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
* *
13396784 CATGCTGAGGTATT
117 CACGTTGAGGTATT
*
13396798 TTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTCAATTTCTG-TTTTC----AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
13396863 TGCTGAGGT
61 CGTTGAGGT
13396872 ATTTTCCATT
Statistics
Matches: 186, Mismatches: 12, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
129 56 0.30
130 10 0.05
131 4 0.02
132 1 0.01
143 3 0.02
144 58 0.31
145 5 0.03
149 49 0.26
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (130 bp):
TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
AGGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATT
Found at i:13396855 original size:77 final size:74
Alignment explanation
Indices: 13396598--13397036 Score: 526
Period size: 72 Copynumber: 5.9 Consensus size: 74
13396588 TGAGGTTTTC
* *
13396598 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
13396663 TGTTTTC--
66 TGTTTTCAA
* * *
13396670 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
13396735 TGCTTTC--
66 TGTTTTCAA
* * * *
13396742 AAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
13396807 TGTTTTTCAAAA
66 TG-TTTTC--AA
* * * *
13396819 AAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCCATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
13396884 TATCTTTCAAAAA
66 TGT-TTTC---AA
* ** * * *
13396897 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
13396962 TGTTGTCAA
66 TGTTTTCAA
* ** * *
13396971 AAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATT
13397036 T
64 T
13397037 TTTGGCTTTT
Statistics
Matches: 329, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
72 132 0.40
73 4 0.01
74 40 0.12
76 23 0.07
77 67 0.20
78 63 0.19
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTTCAA
Found at i:13397107 original size:78 final size:78
Alignment explanation
Indices: 13396897--13397114 Score: 209
Period size: 78 Copynumber: 2.8 Consensus size: 78
13396887 CTTTCAAAAA
* * * * * *
13396897 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAA-T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGTCACACGCCGAGCTATTTTCAATT
***
13396959 TTTT-G-TTGTCAA
66 TTTTGGCTT-TTTT
* * * *
13396971 AAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGTCACACGCCGAGCTATTTTCAATT
13397036 TTTTGGCTTTTTT
66 TTTTGGCTTTTTT
* *
13397049 AAAAATCAACTCATAATT-CGAGAGGTGAGTTAAACTTCGGGT-AGCATC-CCGAGCTATTTTCA
1 AAAAATCAACTCAT-ATTGCGAGAGGTGAGTTAAACCTCAGGTCA-CA-CGCCGAGCTATTTTCA
13397111 ATTT
63 ATTT
13397115 CTTGTTTTTC
Statistics
Matches: 123, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
74 38 0.31
76 19 0.15
77 6 0.05
78 54 0.44
79 6 0.05
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGTCACACGCCGAGCTATTTTCAATT
TTTTGGCTTTTTT
Found at i:13397631 original size:16 final size:15
Alignment explanation
Indices: 13397610--13397662 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
13397600 AAAAAGAGCC
13397610 AAAAAAATTTCAGCA
1 AAAAAAATTTCAGCA
*
13397625 AAAAAAATTCCAGCA
1 AAAAAAATTTCAGCA
13397640 AAAAAAATTTCTAGCA
1 AAAAAAATTTC-AGCA
13397656 AAAAAAA
1 AAAAAAA
13397663 ACCAAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
15 24 0.69
16 11 0.31
ACGTcount: A:0.64, C:0.13, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAAATTTCAGCA
Found at i:13398223 original size:15 final size:16
Alignment explanation
Indices: 13398190--13398223 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13398180 TTTTATTTGT
13398190 AATTGGTCTAAACAAA
1 AATTGGTCTAAACAAA
*
13398206 AATTGGTCTTAA-AAA
1 AATTGGTCTAAACAAA
13398221 AAT
1 AAT
13398224 AAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTGGTCTAAACAAA
Found at i:13402326 original size:27 final size:27
Alignment explanation
Indices: 13402310--13402396 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
13402300 CGACTTGTGA
*
13402310 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
13402337 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
13402364 AATTACCCTTTTATCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
13402391 AATTAC
1 AATTAC
13402397 TAAAATACCC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:13402419 original size:27 final size:26
Alignment explanation
Indices: 13402389--13402625 Score: 208
Period size: 27 Copynumber: 8.8 Consensus size: 26
13402379 CTCGATTTAC
*
13402389 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCT-GTTTGT
*
13402416 AAAATTACCAAAATACTCCTGATTTGT
1 AAAATTACCAAAATACCCCTG-TTTGT
*
13402443 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCT-GTTTGT
*
13402470 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCT-GTTTGT
13402497 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTG-TTTGT
* * *
13402524 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-G-TTTGT
* * * * **
13402551 AAAA-TATCGAAATACCACTATAGGGT
1 AAAATTACCAAAATACCCCTGT-TTGT
* * **
13402577 AGAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGT-TTGT
* *
13402604 AGAATTACCGAAATACCCCTGT
1 AAAATTACCAAAATACCCCTGT
13402626 AGGGTAGAAT
Statistics
Matches: 182, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.01
26 19 0.10
27 161 0.88
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTGTTTGT
Found at i:13402550 original size:81 final size:80
Alignment explanation
Indices: 13402378--13402555 Score: 241
Period size: 81 Copynumber: 2.2 Consensus size: 80
13402368 ACCCTTTTAT
** * * *
13402378 CCTCGATTTACAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACTCCTGATTTGT
1 CCTCGATTTGTAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTGT
13402443 AAAATTACTAAAATA
66 AAAATTACTAAAATA
* * *
13402458 CCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTG
1 CCTCGA-TTTGTAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTG
*
13402523 TGAAATTA-TCAAAATA
65 TAAAATTACT-AAAATA
13402539 CTCTCGATTTGTAAAAT
1 C-CTCGATTTGTAAAAT
13402556 ATCGAAATAC
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 5 0.06
81 76 0.90
82 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (80 bp):
CCTCGATTTGTAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTGT
AAAATTACTAAAATA
Found at i:13402551 original size:54 final size:55
Alignment explanation
Indices: 13402389--13402555 Score: 243
Period size: 54 Copynumber: 3.1 Consensus size: 55
13402379 CTCGATTTAC
13402389 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACTC-CTGATTTGT
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACTCTCTGATTTGT
* **
13402443 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATAC-CCCTGGCTTGT
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACTCTCTGATTTGT
* * *
13402497 AAAATTACCAAAATACCCCT-GATTTGTGAAATTATCAAAATACTCTC-GATTTGT
1 AAAATTACTAAAATACCCCTAG-TTTGTAAAATTACCAAAATACTCTCTGATTTGT
13402551 AAAAT
1 AAAAT
13402556 ATCGAAATAC
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
53 2 0.02
54 98 0.96
55 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (55 bp):
AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACTCTCTGATTTGT
Found at i:13402626 original size:27 final size:27
Alignment explanation
Indices: 13402558--13402800 Score: 326
Period size: 27 Copynumber: 9.0 Consensus size: 27
13402548 TGTAAAATAT
* *
13402558 CGAAATACCACTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13402585 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13402612 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
13402639 TGAAATAACCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
13402666 CTAAATACCTCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
13402693 TGAAATACCTCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
** * *
13402720 CGAAATACCATTGTAGGATAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13402747 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
13402774 CGAGATACCCTTGT-GGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
13402800 C
1 C
13402801 ATTTTGCCCC
Statistics
Matches: 190, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 12 0.06
27 178 0.94
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:13405787 original size:24 final size:24
Alignment explanation
Indices: 13405731--13405802 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
13405721 AGGAAGTGCG
*
13405731 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
* *
13405755 AAAAAAGGCTTTGCCCCAGTTATT
1 AAAAGAGGCTTTGCCCCAGTTATC
**
13405779 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
13405803 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:13411538 original size:177 final size:177
Alignment explanation
Indices: 13411236--13412051 Score: 1100
Period size: 177 Copynumber: 4.7 Consensus size: 177
13411226 ACAGCGGAGT
* * * *
13411236 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGGTGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
* * * * *
13411301 ATCTCCATGTATTGGCAATGGAGCAGATTTTAGCCACCAGTCTTATCTTTCTGTGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
*
13411366 AGTAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
131 AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * * * * *
13411413 AAACTGAAAATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
* * * * * *
13411478 ATCTCTATGTACCGGCAATGGAGCAGATTTTAGCCACCAACCTTATCTTTCTGAGGTAGCAAAAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* * * *
13411543 AGCAAGTTAAAGATACAAGTCTTATCTTCCTAAGATAGCAAGGAAGC
131 AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* *
13411590 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACGGTGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
13411655 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* * *
13411720 AGCAGGTTGAGGATATAAG--------TCCTGAGGTAGTAAGGAAGC
131 AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* *
13411759 GGACTG-AAATT--TG--CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
* * * **
13411819 ATCTCCATGTATCGATAATAGAGCAGATTTTAACCATTAGCCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* * * *
13411884 AGCAGGTTGAGGATACAAGTCTTATATTCCTGAAGCAGCAAGGAAGC
131 AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * *
13411931 AGACTAAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAAAGACGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
* * *
13411996 ATCTCCATGTATCGATAATGGAGCAGATTTTAAGCCACTAGCCTTATCTCCCTGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTT-AGCCACCAGCCTTATCTCTCTGAG
13412052 TTGCAGTGGA
Statistics
Matches: 562, Mismatches: 63, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
164 123 0.22
166 1 0.00
168 5 0.01
169 22 0.04
172 21 0.04
173 5 0.01
175 1 0.00
177 363 0.65
178 21 0.04
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (177 bp):
AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTT
ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
Found at i:13411950 original size:341 final size:345
Alignment explanation
Indices: 13411236--13412051 Score: 1111
Period size: 341 Copynumber: 2.3 Consensus size: 345
13411226 ACAGCGGAGT
* *
13411236 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGGTGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGACGGTGAATCTT
* * * * *
13411301 ATCTCCATGTATTGGCAATGGAGCAGATTTTAGCCACCAGTCTTATCTTTCTGTGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
*
13411366 AGTAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTGAAAATTACAGAT
131 AGCAGGTTGAAGATACAAG-------TTCCTGAGGTAGCAAGGAAGCAAACTGAAAATTA-AGA-
* * * * *
13411431 TTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCTATGTACCGGCAA
187 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCATGTACCGACAA
* * *
13411496 TGGAGCAGATTTTAGCCACCAACCTTATCTTTCTGAGGTAGCAAAAGAGCAAGTTAAAGATACAA
252 TAGAGCAGATTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGTTAAAGATACAA
* *
13411561 GTCTTATCTTCCTAAGATAGCAAGGAAGC
317 GTCTTATATTCCTAAGACAGCAAGGAAGC
* *
13411590 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACGGTGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGACGGTGAATCTT
13411655 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* * * ** *
13411720 AGCAGGTTGAGGATATAAG-TCCTGAGGTAGTAAGGAAGCGGACTG-AAATT-TG-CTTATCTCC
131 AGCAGGTTGAAGATACAAGTTCCTGAGGTAGCAAGGAAGCAAACTGAAAATTAAGACTTATCTCC
* * *
13411781 CTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTCCATGTATCGATAATAGAGCAGA
196 CTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCATGTACCGACAATAGAGCAGA
** * * * * *
13411846 TTTTAACCATTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAGGATACAAGTCTTATAT
261 TTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGTTAAAGATACAAGTCTTATAT
13411911 TCCTGAAG-CAGCAAGGAAGC
326 TCCT-AAGACAGCAAGGAAGC
* * * *
13411931 AGACTAAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAAAGACGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGACGGTGAATCTT
* * *
13411996 ATCTCCATGTATCGATAATGGAGCAGATTTTAAGCCACTAGCCTTATCTCCCTGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTT-AGCCACCAGCCTTATCTCTCTGAG
13412052 TTGCAGTGGA
Statistics
Matches: 416, Mismatches: 44, Indels: 16
0.87 0.09 0.03
Matches are distributed among these distances:
341 225 0.54
342 25 0.06
343 1 0.00
345 5 0.01
346 23 0.06
354 137 0.33
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (345 bp):
AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGACGGTGAATCTT
ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
AGCAGGTTGAAGATACAAGTTCCTGAGGTAGCAAGGAAGCAAACTGAAAATTAAGACTTATCTCC
CTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCATGTACCGACAATAGAGCAGA
TTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGTTAAAGATACAAGTCTTATAT
TCCTAAGACAGCAAGGAAGC
Found at i:13417308 original size:21 final size:21
Alignment explanation
Indices: 13417282--13417340 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
13417272 AACAGAACCA
*
13417282 CTGATGTGGCAAGTTAACTAG
1 CTGATGTGGCCAGTTAACTAG
13417303 CTGATGTGGCCAGTTAACTAG
1 CTGATGTGGCCAGTTAACTAG
*
13417324 TTGATGTGGCCAGTTAA
1 CTGATGTGGCCAGTTAA
13417341 TTTGCTACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (21 bp):
CTGATGTGGCCAGTTAACTAG
Found at i:13418637 original size:21 final size:21
Alignment explanation
Indices: 13418613--13418652 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13418603 CAACATGGCA
13418613 AGTTAA-TTGGCCACATCAGTT
1 AGTTAACTT-GCCACATCAGTT
13418634 AGTTAACTTGCCACATCAG
1 AGTTAACTTGCCACATCAG
13418653 CGGTTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
AGTTAACTTGCCACATCAGTT
Found at i:13428008 original size:116 final size:116
Alignment explanation
Indices: 13427761--13427993 Score: 457
Period size: 116 Copynumber: 2.0 Consensus size: 116
13427751 ACATCAGCAC
13427761 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
1 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
13427826 TTAGTCTTCTTGAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
66 TTAGTCTTCTTGAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
13427877 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
1 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
*
13427942 TTAGTCTTCTTGAAATAGCCAAAAATGATCACCATGGTTTGAGATGAAATG
66 TTAGTCTTCTTGAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
13427993 A
1 A
13427994 AACTTTTTCT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (116 bp):
ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
TTAGTCTTCTTGAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
Found at i:13429456 original size:16 final size:17
Alignment explanation
Indices: 13429424--13429456 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13429414 TTTATAAGTA
*
13429424 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
13429441 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
13429457 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:13429868 original size:92 final size:92
Alignment explanation
Indices: 13429742--13430014 Score: 395
Period size: 92 Copynumber: 3.0 Consensus size: 92
13429732 TTTGACATGA
* * * *
13429742 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCCAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
13429807 CATGGTCTTATTCTTTTCATGTCACGT
66 CATGGTCTTATTCGTTTCATATCACGT
* * *
13429834 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
13429899 CATGGTCTTATTCGTTTCATATCACGT
66 CATGGTCTTATTCGTTTCATATCACGT
* * *
13429926 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
** *
13429990 CCATGGTCTTACACATTTCATATCA
65 CCATGGTCTTATTCGTTTCATATCA
13430015 GAGAGCACAC
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 3 0.02
92 159 0.98
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCGTTTCATATCACGT
Found at i:13430015 original size:46 final size:46
Alignment explanation
Indices: 13429742--13430014 Score: 359
Period size: 46 Copynumber: 5.9 Consensus size: 46
13429732 TTTGACATGA
* * * * *
13429742 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * * *
13429788 TGCCATGGTATCTTTCCACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *** *
13429834 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13429880 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13429926 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
13429972 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
13430015 GAGAGCACAC
Statistics
Matches: 205, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 201 0.98
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:13438590 original size:66 final size:66
Alignment explanation
Indices: 13438484--13438612 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
13438474 CCATTTTCTA
* *
13438484 ATAATTGAAAATTACCAGTCACGCAGAGTATACTCTAAGAACTTCATACAGAATATGTTCAGATG
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTAAGAACTTCATACAGAATACGTTCAGATG
13438549 G
66 G
* * * * *
13438550 ATAATTGAAAATTACCGGTCAAGCGGAGTGTATTCTAAGAACTTCATACTGAATACGTTCAGA
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTAAGAACTTCATACAGAATACGTTCAGA
13438613 CTTCAGACAG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (66 bp):
ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTAAGAACTTCATACAGAATACGTTCAGATG
G
Found at i:13451410 original size:17 final size:18
Alignment explanation
Indices: 13451367--13451411 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
13451357 CTCCTCTAAC
*
13451367 CTATTATTATTATTTATT
1 CTATTATTACTATTTATT
*
13451385 AT-TTATTACTATTTATT
1 CTATTATTACTATTTATT
13451402 CTATT-TTACT
1 CTATTATTACT
13451412 TATTACTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (18 bp):
CTATTATTACTATTTATT
Found at i:13453080 original size:15 final size:15
Alignment explanation
Indices: 13453060--13453091 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13453050 AGTCCATTTA
*
13453060 TTTTATTTCTTTTTC
1 TTTTATTTATTTTTC
13453075 TTTTATTTATTTTTC
1 TTTTATTTATTTTTC
13453090 TT
1 TT
13453092 AAGACTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTATTTTTC
Found at i:13455558 original size:21 final size:20
Alignment explanation
Indices: 13455532--13455575 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 20
13455522 AAGTCCTTGT
13455532 TTAAGAGTAAATCTTCCATAA
1 TTAAGAG-AAATCTTCCATAA
13455553 TT-A-AGAAATCTTCCATAA
1 TTAAGAGAAATCTTCCATAA
13455571 TTAAG
1 TTAAG
13455576 CGGAGTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 15 0.71
19 3 0.14
20 1 0.05
21 2 0.10
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (20 bp):
TTAAGAGAAATCTTCCATAA
Found at i:13455563 original size:18 final size:18
Alignment explanation
Indices: 13455540--13455575 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13455530 GTTTAAGAGT
13455540 AAATCTTCCATAATTAAG
1 AAATCTTCCATAATTAAG
13455558 AAATCTTCCATAATTAAG
1 AAATCTTCCATAATTAAG
13455576 CGGAGTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
AAATCTTCCATAATTAAG
Found at i:13456504 original size:3 final size:3
Alignment explanation
Indices: 13456496--13456525 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13456486 AATTTGAAGT
13456496 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13456526 GTTGGTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13457950 original size:29 final size:29
Alignment explanation
Indices: 13457917--13457977 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
13457907 TATAGGTGAA
13457917 GATTTTAAATCCACAAATAAAATTTTAAG
1 GATTTTAAATCCACAAATAAAATTTTAAG
*
13457946 GATTTTAAATTCACAAATAAAATTTTAAG
1 GATTTTAAATCCACAAATAAAATTTTAAG
13457975 GAT
1 GAT
13457978 AATTCGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (29 bp):
GATTTTAAATCCACAAATAAAATTTTAAG
Found at i:13467950 original size:29 final size:29
Alignment explanation
Indices: 13467918--13467981 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
13467908 ATAAAAGAAC
* *
13467918 CATTAGAAGAATCACAAGAAAAACTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
*
13467947 CATTAAAAGAATCAAAAGAAAACCTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
*
13467976 CGTTAA
1 CATTAA
13467982 CCAAAGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (29 bp):
CATTAAAAGAATCAAAAGAAAAACTGATT
Found at i:13474238 original size:24 final size:24
Alignment explanation
Indices: 13474211--13474275 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
13474201 GTAGCCTGTC
*
13474211 GGGACAGTAAACATGAGGTCTGCT
1 GGGACAGTAAACATGAGGTCTACT
*
13474235 GGGACCGTAAACATGAGGTCTACT
1 GGGACAGTAAACATGAGGTCTACT
* *
13474259 GGGACTGTAAACTTGAG
1 GGGACAGTAAACATGAG
13474276 AACTCTCTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (24 bp):
GGGACAGTAAACATGAGGTCTACT
Found at i:13474757 original size:21 final size:21
Alignment explanation
Indices: 13474733--13474776 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13474723 ACCTTTTCTA
*
13474733 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
*
13474754 AAGTTAAAAGGCAAAACTATT
1 AAGTTAAAAGGCAAAACCATT
13474775 AA
1 AA
13474777 ATAATCTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:13474823 original size:21 final size:22
Alignment explanation
Indices: 13474799--13474849 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
13474789 TTCATCTACG
*
13474799 AGTTAAAATTCAAAACCA-TAA
1 AGTTAAAAGTCAAAACCATTAA
13474820 AGTTAAAAGTCAAAACCATTAA
1 AGTTAAAAGTCAAAACCATTAA
13474842 A-TTAAAAG
1 AGTTAAAAG
13474850 GCAACACTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.24
Consensus pattern (22 bp):
AGTTAAAAGTCAAAACCATTAA
Found at i:13485159 original size:23 final size:25
Alignment explanation
Indices: 13485133--13485179 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13485123 TATCATTCAT
*
13485133 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
13485156 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
13485180 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Done.