Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 132 of 222
Found at i:42674062 original size:13 final size:13
Alignment explanation
Indices: 42674044--42674068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42674034 GATTACGTGC
42674044 TTAAAATAAAATT
1 TTAAAATAAAATT
42674057 TTAAAATAAAAT
1 TTAAAATAAAAT
42674069 GTAATTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAAAATAAAATT
Found at i:42689143 original size:28 final size:28
Alignment explanation
Indices: 42689112--42689257 Score: 118
Period size: 28 Copynumber: 5.2 Consensus size: 28
42689102 TTGAAAGATC
* *
42689112 TCCACTTATATGATAGTCCTGATAGACT
1 TCCACATATAAGATAGTCCTGATAGACT
* * *
42689140 TCCACATATAAGTTAGTCTTGATGGACT
1 TCCACATATAAGATAGTCCTGATAGACT
* * * *
42689168 TCCTCAT-TAAGAT-GTTCCTAACATACT
1 TCCACATATAAGATAG-TCCTGATAGACT
* *
42689195 TCCACATATAAGATAGTCTTGA-CGAACT
1 TCCACATATAAGATAGTCCTGATAG-ACT
* * **
42689223 TCCACATATGAGATAATCCTGACGGACT
1 TCCACATATAAGATAGTCCTGATAGACT
42689251 TCCACAT
1 TCCACAT
42689258 TTACGGTAAT
Statistics
Matches: 92, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 1 0.01
27 18 0.20
28 71 0.77
29 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (28 bp):
TCCACATATAAGATAGTCCTGATAGACT
Found at i:42697883 original size:18 final size:19
Alignment explanation
Indices: 42697839--42697904 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 19
42697829 TCTTTGTTTT
*
42697839 ATATTTA-TTT-TTAGTTTT
1 ATATTTATTTTCTTA-TTTG
42697857 ATAATTTATTTTCATTA-TTG
1 AT-ATTTATTTTC-TTATTTG
*
42697877 ATA-TTATTGTCTTATTTG
1 ATATTTATTTTCTTATTTG
42697895 ATATTTATTT
1 ATATTTATTT
42697905 ATTTATGTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
17 3 0.08
18 15 0.38
19 11 0.28
20 7 0.18
22 3 0.08
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (19 bp):
ATATTTATTTTCTTATTTG
Found at i:42700676 original size:20 final size:20
Alignment explanation
Indices: 42700639--42700684 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
42700629 TTATATTTTT
**
42700639 AATATATTTATGTGTTTATA
1 AATATATTTAAATGTTTATA
*
42700659 AATATATTTAAATTTTTATA
1 AATATATTTAAATGTTTATA
*
42700679 ATTATA
1 AATATA
42700685 ATCAATTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
AATATATTTAAATGTTTATA
Found at i:42702755 original size:25 final size:25
Alignment explanation
Indices: 42702727--42702775 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
42702717 ATTATAACCC
42702727 AAAAAGTTGACTTATTGAAAGAACT
1 AAAAAGTTGACTTATTGAAAGAACT
42702752 AAAAAGTTGACTTATTGAAAGAAC
1 AAAAAGTTGACTTATTGAAAGAAC
42702776 AAGAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (25 bp):
AAAAAGTTGACTTATTGAAAGAACT
Found at i:42703008 original size:21 final size:21
Alignment explanation
Indices: 42702984--42703024 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42702974 GTTTTAAAAG
*
42702984 TTTTATAATATTTT-AAAGAAT
1 TTTTAGAA-ATTTTCAAAGAAT
42703005 TTTTAGAAATTTTCAAAGAA
1 TTTTAGAAATTTTCAAAGAA
42703025 AAAGGAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTTAGAAATTTTCAAAGAAT
Found at i:42707150 original size:88 final size:88
Alignment explanation
Indices: 42706996--42707167 Score: 290
Period size: 88 Copynumber: 2.0 Consensus size: 88
42706986 GACAGGTACT
* ** *
42706996 TCCTTCGAACATACTAAGTTCACATCCTTATTTAGCATACATTTTCAATATTAACTCATTAATTC
1 TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATACATTTTCAATATTAACCCATTAATTC
42707061 TCTATATCCCTTCAAAGTTCACA
66 TCTATATCCCTTCAAAGTTCACA
* *
42707084 TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATATATTTTCAATATTAACCCATTACTTC
1 TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATACATTTTCAATATTAACCCATTAATTC
42707149 TCTATATCCCTTCAAAGTT
66 TCTATATCCCTTCAAAGTT
42707168 TTAAGAGTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (88 bp):
TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATACATTTTCAATATTAACCCATTAATTC
TCTATATCCCTTCAAAGTTCACA
Found at i:42707244 original size:27 final size:26
Alignment explanation
Indices: 42707214--42707312 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 26
42707204 ATTGGGAGAA
42707214 TGCCATAGAGGCTATTCTTTCAGAGTT
1 TGCCATA-AGGCTATTCTTTCAGAGTT
*
42707241 TGCCATAAAGTCTATTCTTTCAGAGTT
1 TGCCAT-AAGGCTATTCTTTCAGAGTT
**
42707268 CACCACTAAGGCTATTCTTAT-AGAGTT
1 TGCCA-TAAGGCTATTCTT-TCAGAGTT
*
42707295 TGACACAAAAGGCTATTC
1 TG-C-CATAAGGCTATTC
42707313 CTTATTGACA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
27 44 0.73
28 14 0.23
29 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (26 bp):
TGCCATAAGGCTATTCTTTCAGAGTT
Found at i:42711458 original size:21 final size:17
Alignment explanation
Indices: 42711416--42711451 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
42711406 GCTCATGTTG
42711416 AACAACACTCACAGACT
1 AACAACACTCACAGACT
42711433 AACAACACTCACAGACT
1 AACAACACTCACAGACT
42711450 AA
1 AA
42711452 GAGACAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.33, G:0.06, T:0.11
Consensus pattern (17 bp):
AACAACACTCACAGACT
Found at i:42724930 original size:46 final size:46
Alignment explanation
Indices: 42724823--42725081 Score: 288
Period size: 46 Copynumber: 5.6 Consensus size: 46
42724813 GGGCGTTACA
* * * **
42724823 TGGTCACTCGTTAGGGTTGAACCTACATGAATCAAATAAATAGTGC-
1 TGGTCACCCATTAGGGTTGAACCTACACGAATCGGAT-AATAGTGCT
* * *
42724869 CGGACCACCTATTAGGGTTGAACCTACACGAATCGGATAATAGTGCT
1 TGG-TCACCCATTAGGGTTGAACCTACACGAATCGGATAATAGTGCT
*
42724916 TGGTCACCCGTTAGGGTTGAACCTACACGAATCGGATAATAGTGCT
1 TGGTCACCCATTAGGGTTGAACCTACACGAATCGGATAATAGTGCT
* *
42724962 TGGTCACCCGTTAGGGTTGAACCTACACAAATCGGATAATAGTG-T
1 TGGTCACCCATTAGGGTTGAACCTACACGAATCGGATAATAGTGCT
* ** * * * * *
42725007 CTAGTCATTCATTAGGGTTGAACGTACATGAATCGAACAATAGTGCC
1 -TGGTCACCCATTAGGGTTGAACCTACACGAATCGGATAATAGTGCT
* *
42725054 TGGTCACTCATTCGGGTTGAACCTACAC
1 TGGTCACCCATTAGGGTTGAACCTACAC
42725082 AACAAATAGC
Statistics
Matches: 181, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.01
46 151 0.83
47 29 0.16
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (46 bp):
TGGTCACCCATTAGGGTTGAACCTACACGAATCGGATAATAGTGCT
Found at i:42724989 original size:92 final size:91
Alignment explanation
Indices: 42724823--42725083 Score: 326
Period size: 92 Copynumber: 2.8 Consensus size: 91
42724813 GGGCGTTACA
* * * *
42724823 TGGTCACTCGTTAGGGTTGAACCTACATGAATCAAATAAATAGTGCCGGACCACCTATTAGGGTT
1 TGGTCACTCGTTAGGGTTGAACCTACATGAATCGAAT-AATAGTGCTGG-TCACCCATTAGGGTT
*
42724888 GAACCTACACGAATCGGATAATAGTG-C
64 GAACCTACACAAATCGGATAATAGTGTC
* * * *
42724915 TTGGTCACCCGTTAGGGTTGAACCTACACGAATCGGATAATAGTGCTTGGTCACCCGTTAGGGTT
1 -TGGTCACTCGTTAGGGTTGAACCTACATGAATCGAATAATAGTGC-TGGTCACCCATTAGGGTT
42724980 GAACCTACACAAATCGGATAATAGTGTC
64 GAACCTACACAAATCGGATAATAGTGTC
* * * * * * *
42725008 TAGTCATTCATTAGGGTTGAACGTACATGAATCGAACAATAGTGCCTGGTCACTCATTCGGGTTG
1 TGGTCACTCGTTAGGGTTGAACCTACATGAATCGAATAATAGTG-CTGGTCACCCATTAGGGTTG
42725073 AACCTACACAA
65 AACCTACACAA
42725084 CAAATAGCCT
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
92 108 0.74
93 37 0.26
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (91 bp):
TGGTCACTCGTTAGGGTTGAACCTACATGAATCGAATAATAGTGCTGGTCACCCATTAGGGTTGA
ACCTACACAAATCGGATAATAGTGTC
Found at i:42725916 original size:129 final size:129
Alignment explanation
Indices: 42725768--42726024 Score: 469
Period size: 129 Copynumber: 2.0 Consensus size: 129
42725758 TAGTCTTATT
* *
42725768 TCCCATCAAAGCTTCAAACTCTACCATAAGCATTAAAAAACTTCAATTAACATCAATGGGAACTT
1 TCCCATCAAAGCTTCAAACTCTACCATAAGCATTAAAAAACTTCAATTAAAATCAATGGAAACTT
* * *
42725833 TAGAAATCTTTAACAGTTTTGAAAATAAAGATGCGAGTTAGCTAGGCCTAGTTGCAATGATCCA
66 TAGAAATCTTTAACAATTTTGAAAACAAAGATGCGAGTTAGCTAGGCCTAGTTGCAACGATCCA
42725897 TCCCATCAAAGCTTCAAACTCTACCATAAGCATTAAAAAACTTCAATTAAAATCAATGGAAACTT
1 TCCCATCAAAGCTTCAAACTCTACCATAAGCATTAAAAAACTTCAATTAAAATCAATGGAAACTT
42725962 TAGAAATCTTTAACAATTTTGAAAACAAAGATGCGAGTTAGCTAGGCCTAGTTGCAACGATCC
66 TAGAAATCTTTAACAATTTTGAAAACAAAGATGCGAGTTAGCTAGGCCTAGTTGCAACGATCC
42726025 CAAAAACATA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (129 bp):
TCCCATCAAAGCTTCAAACTCTACCATAAGCATTAAAAAACTTCAATTAAAATCAATGGAAACTT
TAGAAATCTTTAACAATTTTGAAAACAAAGATGCGAGTTAGCTAGGCCTAGTTGCAACGATCCA
Found at i:42747496 original size:40 final size:40
Alignment explanation
Indices: 42747452--42747583 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
42747442 GCTACTCGTT
* * *
42747452 CAAATGCCTTCGGGACATAGCTCGG-TTATTGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
42747492 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
42747532 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCT
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
42747571 CAAACGCCTTCGG
1 CAAATGCCTTCGG
42747584 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.40
40 47 0.57
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:42747582 original size:79 final size:80
Alignment explanation
Indices: 42747452--42747636 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
42747442 GCTACTCGTT
* * * *
42747452 CAAATGCCTTCGGGACATAGCTCGGTTATTGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-AATTGTAACTCGCACAAACGCCTTC-GGATCTTAACCCG
* *
42747516 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* * **
42747532 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCTCAAACGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATT-GTAACTCGCACAAACGCCTTCGGATCTTAACCCGG
* *
42747596 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
42747612 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42747637 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 6 0.07
79 50 0.56
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTGTAACTCGCACAAACGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:42757950 original size:50 final size:48
Alignment explanation
Indices: 42757866--42757990 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 48
42757856 GAGACTCCAT
* *
42757866 GTAAGACCATGTCTAGGACATGGCATTGGTACCGAGATGAAAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCA-TGGCACCGAGATGAAA-GTCCCAC
* * * * *
42757916 GTAAGGCCATGTCTGGGACATGGCATGGACACCGATATGAGAGTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATGG-CACCGAGATGAAAGTCCCAC
** *
42757965 GTAAGACCACATCTGGGATATGGCAT
1 GTAAGACCATGTCTGGGACATGGCAT
42757991 TTGCAGTACA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 30 0.48
50 33 0.52
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATGGCACCGAGATGAAAGTCCCAC
Found at i:42760429 original size:174 final size:174
Alignment explanation
Indices: 42760139--42760487 Score: 689
Period size: 174 Copynumber: 2.0 Consensus size: 174
42760129 CTCGGTTATT
42760139 AGTGGCATGTAATAGGTGTAATGTAAATATGTGTTTGGTGTTGAACTTATGAATTTGTACATTTT
1 AGTGGCATGTAATAGGTGTAATGTAAATATGTGTTTGGTGTTGAACTTATGAATTTGTACATTTT
42760204 GATATGTTTATATGGATGTTGTATAAAAGTAAGTTAATATGGTAGTTTTGTTAAGTTGAATTCTA
66 GATATGTTTATATGGATGTTGTATAAAAGTAAGTTAATATGGTAGTTTTGTTAAGTTGAATTCTA
42760269 TTTAAGCTTATATATGTGAAGTGATGATGGACATGTCTAATATG
131 TTTAAGCTTATATATGTGAAGTGATGATGGACATGTCTAATATG
*
42760313 AGTGGCATGTAATAGGTGTAATGTAAATATTTGTTTGGTGTTGAACTTATGAATTTGTACATTTT
1 AGTGGCATGTAATAGGTGTAATGTAAATATGTGTTTGGTGTTGAACTTATGAATTTGTACATTTT
42760378 GATATGTTTATATGGATGTTGTATAAAAGTAAGTTAATATGGTAGTTTTGTTAAGTTGAATTCTA
66 GATATGTTTATATGGATGTTGTATAAAAGTAAGTTAATATGGTAGTTTTGTTAAGTTGAATTCTA
42760443 TTTAAGCTTATATATGTGAAGTGATGATGGACATGTCTAATATG
131 TTTAAGCTTATATATGTGAAGTGATGATGGACATGTCTAATATG
42760487 A
1 A
42760488 ATATGTTATA
Statistics
Matches: 174, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 174 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.43
Consensus pattern (174 bp):
AGTGGCATGTAATAGGTGTAATGTAAATATGTGTTTGGTGTTGAACTTATGAATTTGTACATTTT
GATATGTTTATATGGATGTTGTATAAAAGTAAGTTAATATGGTAGTTTTGTTAAGTTGAATTCTA
TTTAAGCTTATATATGTGAAGTGATGATGGACATGTCTAATATG
Found at i:42762703 original size:25 final size:27
Alignment explanation
Indices: 42762673--42762742 Score: 90
Period size: 25 Copynumber: 2.6 Consensus size: 27
42762663 GTTAGAAAAG
42762673 AAAGCCTTTGTGGAAAACCATG-A-AA
1 AAAGCCTTTGTGGAAAACCATGTAGAA
* **
42762698 AAAGCCTTTGTGAAAAACCATGTAGTG
1 AAAGCCTTTGTGGAAAACCATGTAGAA
42762725 AAAGCCTTTGTGGCAAAA
1 AAAGCCTTTGTGG-AAAA
42762743 AAAAAGGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 21 0.55
26 1 0.03
27 12 0.32
28 4 0.11
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (27 bp):
AAAGCCTTTGTGGAAAACCATGTAGAA
Found at i:42762850 original size:27 final size:27
Alignment explanation
Indices: 42762820--42762886 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
42762810 CTCTATTGCA
* * * *
42762820 AACTCTAAAGGAATGGTATTCATGGTG
1 AACTCTGAAGGAACGGTATGCATGGCG
42762847 AACTCTGAAGGAACGGTATGCATGGCG
1 AACTCTGAAGGAACGGTATGCATGGCG
*
42762874 AACTATGAAGGAA
1 AACTCTGAAGGAA
42762887 ATACCCTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (27 bp):
AACTCTGAAGGAACGGTATGCATGGCG
Found at i:42767056 original size:16 final size:16
Alignment explanation
Indices: 42767035--42767066 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42767025 GTTTTGTTGC
*
42767035 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
42767051 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
42767067 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:42767352 original size:51 final size:51
Alignment explanation
Indices: 42767294--42767484 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 51
42767284 CCGATTCACA
* * *
42767294 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACGCG
* * * *
42767345 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGTTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACGCG
* * * *
42767396 TAGTAGCCTACACATAGTACTAAACATGCGACCTATCA-T-TCTGGTACGCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACGCG
*
42767446 TAGTAGCCTGCACATAGTACTACACACATGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
42767485 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 4 0.03
50 40 0.35
51 68 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACGCG
Found at i:42767510 original size:101 final size:102
Alignment explanation
Indices: 42767290--42767476 Score: 234
Period size: 101 Copynumber: 1.8 Consensus size: 102
42767280 GATACCGATT
* ** * *
42767290 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTG
1 CACAGAGTAGCCAACACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTG
* * *
42767355 CACATAGTACTACACACGTGATCGAAGTTATCCGGTA
66 CACATAGTACTACACACATGATCCAACTTATCCGGTA
* * * * *
42767392 CGCATAGTAGCCTACACATAGTACTAAACATGCGACCTATCA-T-TCTGGTACGCGTAGTAGCCT
1 CACAGAGTAGCCAACACATAGTACTAAACATGCGACC-ATCACTATCTGATACACGTAGTAGCCT
42767455 GCACATAGTACTACACACATGA
65 GCACATAGTACTACACACATGA
42767477 CCATCACTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CACAGAGTAGCCAACACATAGTACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTG
CACATAGTACTACACACATGATCCAACTTATCCGGTA
Found at i:42769992 original size:18 final size:18
Alignment explanation
Indices: 42769969--42770008 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
42769959 ATATGAGCAA
42769969 AATATTTTATAAATCTCC
1 AATATTTTATAAATCTCC
42769987 AATATTTTATAAATCTCC
1 AATATTTTATAAATCTCC
42770005 AATA
1 AATA
42770009 ACATTCGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATTTTATAAATCTCC
Found at i:42772647 original size:15 final size:15
Alignment explanation
Indices: 42772618--42772655 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
42772608 GTTATTTTAC
*
42772618 TTAATTT-ATTTAGT
1 TTAATTTAACTTAGT
*
42772632 TTTATTTAACTTAGT
1 TTAATTTAACTTAGT
42772647 TTAATTTAA
1 TTAATTTAA
42772656 TTTCCACAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (15 bp):
TTAATTTAACTTAGT
Found at i:42779761 original size:29 final size:29
Alignment explanation
Indices: 42779719--42779882 Score: 154
Period size: 29 Copynumber: 5.7 Consensus size: 29
42779709 TATCGGGGAT
42779719 TATCGAATATGAAAAGGGATAGCTTCGGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
* ** *
42779748 TATCGAATATGAAAAGGAATAATTTCAGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
* * *
42779777 TATCAAATATGAAAAGAGATAGCTTCAGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
* * *
42779806 TATCG-ATCATGAAAA-GGAT-GGTGACGAC
1 TATCGAAT-ATGAAAAGGGATAGCT-TCGGC
* * *
42779834 TTTCGAATATAAAAAGGAATAGCTTCGGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
* *
42779863 TATCGATTATGAAAACGGAT
1 TATCGAATATGAAAAGGGAT
42779883 GGTGACGACC
Statistics
Matches: 104, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
27 2 0.02
28 17 0.16
29 83 0.80
30 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.26
Consensus pattern (29 bp):
TATCGAATATGAAAAGGGATAGCTTCGGC
Found at i:42779941 original size:30 final size:29
Alignment explanation
Indices: 42779807--42779969 Score: 141
Period size: 29 Copynumber: 5.6 Consensus size: 29
42779797 AGCTTCAGCT
* *
42779807 ATCGATCATGAAAA-GGATGGTGACGACT
1 ATCGATTATGAAAAGGGATGGTGACGACC
* * * * * * * *
42779835 TTCGAATATAAAAAGGAATAGCT-TCGGCT
1 ATCGATTATGAAAAGGGAT-GGTGACGACC
*
42779864 ATCGATTATGAAAACGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
* * *
42779893 ATCAACTATGACAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACGACC
**
42779922 ATCGATTAATGAAAAGGGATGGTTTCGACC
1 ATCGATT-ATGAAAAGGGATGGTGACGACC
*
42779952 ATCGAATATGAAAAGGGA
1 ATCGATTATGAAAAGGGA
42779970 CGGTTACAGC
Statistics
Matches: 104, Mismatches: 27, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
28 12 0.12
29 65 0.62
30 27 0.26
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGACGACC
Found at i:42788681 original size:20 final size:19
Alignment explanation
Indices: 42788654--42788695 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
42788644 CTTTCCAAAT
42788654 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
42788673 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
42788693 TTT
1 TTT
42788696 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:42789495 original size:24 final size:24
Alignment explanation
Indices: 42789459--42789566 Score: 76
Period size: 25 Copynumber: 4.4 Consensus size: 24
42789449 ACGAGCTCTG
* * * *
42789459 AATCAGTATGCTCTTATGAGCTGT
1 AATCGGTAAGCTCTTACGAGCTGA
* *
42789483 AATCGGTAAGCTCATGCGAGCTGA
1 AATCGGTAAGCTCTTACGAGCTGA
42789507 ATATCGGTAAGCTCTCT-CGAGCTGA
1 A-ATCGGTAAGCTCT-TACGAGCTGA
** *
42789532 ATATCATTAAGCT-TTCTCGAGCTGA
1 A-ATCGGTAAGCTCTT-ACGAGCTGA
42789557 GAATCGGTAA
1 -AATCGGTAA
42789567 CCTTAATGAC
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
23 1 0.01
24 20 0.29
25 45 0.66
26 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (24 bp):
AATCGGTAAGCTCTTACGAGCTGA
Found at i:42789518 original size:25 final size:25
Alignment explanation
Indices: 42789476--42789566 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
42789466 ATGCTCTTAT
*
42789476 GAGCTGTA-ATCGGTAAGCTCAT-GC
1 GAGCTGAATATCGGTAAGCTC-TCGC
*
42789500 GAGCTGAATATCGGTAAGCTCTCTC
1 GAGCTGAATATCGGTAAGCTCTCGC
** * *
42789525 GAGCTGAATATCATTAAGCTTTCTC
1 GAGCTGAATATCGGTAAGCTCTCGC
42789550 GAGCTGAGA-ATCGGTAA
1 GAGCTGA-ATATCGGTAA
42789567 CCTTAATGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.14
25 48 0.84
26 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (25 bp):
GAGCTGAATATCGGTAAGCTCTCGC
Found at i:42797165 original size:16 final size:16
Alignment explanation
Indices: 42797138--42797174 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
42797128 TCTATTAACT
42797138 TTAAACCCAAAATTGA
1 TTAAACCCAAAATTGA
42797154 CTTAAA-CCAAAATTGA
1 -TTAAACCCAAAATTGA
42797170 TTAAA
1 TTAAA
42797175 ATACTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 10 0.50
17 5 0.25
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (16 bp):
TTAAACCCAAAATTGA
Found at i:42798504 original size:30 final size:28
Alignment explanation
Indices: 42798433--42798506 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 28
42798423 ATTGTATTTT
* *
42798433 GTTTTTTAATTCAATAAATGGATAAATTA
1 GTTTTTT-ATTAAATAAATGAATAAATTA
42798462 GTTTTGTATATTAAATAAATGAATAAATTA
1 GTTTT-T-TATTAAATAAATGAATAAATTA
42798492 GTAATTTTTATTAAA
1 GT--TTTTTATTAAA
42798507 AATTTTATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 5 0.13
30 29 0.74
31 2 0.05
32 3 0.08
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.46
Consensus pattern (28 bp):
GTTTTTTATTAAATAAATGAATAAATTA
Found at i:42799308 original size:16 final size:16
Alignment explanation
Indices: 42799287--42799318 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42799277 TAGTTTGCAC
42799287 TTTAAAATTTTAAAAA
1 TTTAAAATTTTAAAAA
*
42799303 TTTAAATTTTTAAAAA
1 TTTAAAATTTTAAAAA
42799319 ATTTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAATTTTAAAAA
Found at i:42799386 original size:31 final size:29
Alignment explanation
Indices: 42799349--42799419 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
42799339 GTTCAAAATT
42799349 TTATACTTTTAAAGTTTTTAAAATATTTTAA
1 TTATACTTTTAAA-TTTTTAAAA-ATTTTAA
* *
42799380 TTATACTCTTTTTAATTTTTGAAAATTTTAA
1 TTATA--CTTTTAAATTTTTAAAAATTTTAA
*
42799411 TTAAACTTT
1 TTATACTTT
42799420 CTTAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 4 0.11
31 16 0.46
32 8 0.23
33 7 0.20
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (29 bp):
TTATACTTTTAAATTTTTAAAAATTTTAA
Found at i:42800852 original size:5 final size:6
Alignment explanation
Indices: 42800839--42800868 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
42800829 AAAAATGTCG
42800839 TCTTTT TC-TTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
42800869 GTTAGGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:42801486 original size:129 final size:130
Alignment explanation
Indices: 42801329--42801579 Score: 334
Period size: 133 Copynumber: 1.9 Consensus size: 130
42801319 TTTGTTCAAT
* * *
42801329 ACCAGATTTGCCTTTATTCCCAGTGAAGC-AG-AG-A-A-ATATATAGAATACATA-TAGATATT
1 ACCAGATTTGCCTTTACTCCCAGTGAAGCAAGTAGTACACATA-ATA-AATACACATTAGATA-C
42801388 ATATATAAAAACTAATGGAACATTCATCAATATCCATGCTCACTAGTCATCATAATTGACTTAGT
63 ATATATAAAAACTAATGGAACATTCATC-A-ATCCATGCTCACTAGTCATCATAATTGACTTAGT
42801453 TTCAC
126 TTCAC
* *
42801458 ACCAGATTTGCCTTTACTCCTAGTGAAGCATAGTAGTACACATAATACATACACATTAGATACAT
1 ACCAGATTTGCCTTTACTCCCAGTGAAGCA-AGTAGTACACATAATAAATACACATTAGATACAT
* * *
42801523 ATATAAAACCTAATGGAACATTCATCAATCCGTGCTCACTAGTTATCATAATTGACT
65 ATATAAAAACTAATGGAACATTCATCAATCCATGCTCACTAGTCATCATAATTGACT
42801580 GATTAATTAA
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
129 27 0.25
131 30 0.28
132 3 0.03
133 34 0.32
134 10 0.09
135 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (130 bp):
ACCAGATTTGCCTTTACTCCCAGTGAAGCAAGTAGTACACATAATAAATACACATTAGATACATA
TATAAAAACTAATGGAACATTCATCAATCCATGCTCACTAGTCATCATAATTGACTTAGTTTCAC
Found at i:42803063 original size:15 final size:14
Alignment explanation
Indices: 42803030--42803073 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
42803020 ACATCAATTC
*
42803030 AAAAAGAAAAATTA
1 AAAAAGAAAAAATA
*
42803044 CAAAAGAAAATAATAA
1 AAAAAGAAAA-AAT-A
42803060 AAAAAGAAAAAATA
1 AAAAAGAAAAAATA
42803074 TGTGATGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 10 0.40
15 5 0.20
16 10 0.40
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (14 bp):
AAAAAGAAAAAATA
Found at i:42803893 original size:17 final size:18
Alignment explanation
Indices: 42803860--42803893 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42803850 ATTTTTTTTT
*
42803860 CTTTTATTTCTTCCAAAA
1 CTTTTACTTCTTCCAAAA
42803878 CTTTTACTTC-TCCAAA
1 CTTTTACTTCTTCCAAA
42803894 CTTCCAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (18 bp):
CTTTTACTTCTTCCAAAA
Found at i:42804044 original size:18 final size:17
Alignment explanation
Indices: 42804012--42804046 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42804002 CATTTTGTAC
*
42804012 TATTTATATTATTGAAT
1 TATTTATAATATTGAAT
42804029 TATTTAATAATATTGAAT
1 TATTT-ATAATATTGAAT
42804047 CTTTATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TATTTATAATATTGAAT
Found at i:42806823 original size:47 final size:47
Alignment explanation
Indices: 42806753--42806846 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
42806743 TCGTGGAAGA
*
42806753 GAAGGGCTTTTCTTTAGGTGCTTTCAAAGAGGATGAAATAATGTTTT
1 GAAGGGCTTTTCTTTAAGTGCTTTCAAAGAGGATGAAATAATGTTTT
* * *
42806800 GAAGGGTTTTTTTTTAAGTGCTTTCAAAGAGGATGAAATCATGTTTT
1 GAAGGGCTTTTCTTTAAGTGCTTTCAAAGAGGATGAAATAATGTTTT
42806847 ATTTTACGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.40
Consensus pattern (47 bp):
GAAGGGCTTTTCTTTAAGTGCTTTCAAAGAGGATGAAATAATGTTTT
Found at i:42811676 original size:45 final size:45
Alignment explanation
Indices: 42811609--42811748 Score: 154
Period size: 45 Copynumber: 3.1 Consensus size: 45
42811599 TTCGTCTAAG
* * *
42811609 AATGAGTAAGACCATAGCTGAAAGATACTATGGCGTCATGATAAA
1 AATGAGTAAGAACATAGCTGAAAGATACTATGGCATCATGACAAA
* * *
42811654 AATGAGTAAGAACATAGTTGAAAGATGCTATGGCATCATGACAGA
1 AATGAGTAAGAACATAGCTGAAAGATACTATGGCATCATGACAAA
* * * * * * *
42811699 AATGAGTAAGACCATGGCTGAAAAACACCATGACATCATGATAAA
1 AATGAGTAAGAACATAGCTGAAAGATACTATGGCATCATGACAAA
*
42811744 CATGA
1 AATGA
42811749 CTAATGTAAC
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (45 bp):
AATGAGTAAGAACATAGCTGAAAGATACTATGGCATCATGACAAA
Found at i:42812893 original size:28 final size:29
Alignment explanation
Indices: 42812853--42812911 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
42812843 TCTTTGAATG
* *
42812853 TTTTCTTTGGATGTTTACCACAGA-GACA
1 TTTTCTTTGGATGGTTACCACAAAGGACA
*
42812881 TTTTCTTTGGATGGTTGCCACAAAGGACA
1 TTTTCTTTGGATGGTTACCACAAAGGACA
42812910 TT
1 TT
42812912 ATTTAGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTCTTTGGATGGTTACCACAAAGGACA
Found at i:42812954 original size:27 final size:28
Alignment explanation
Indices: 42812933--42813026 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 28
42812923 ACCATAAAGG
* * *
42812933 TTTTTTTTTCGTAGATAACCATAAAGGC
1 TTTTTTTTTCGTAGATCACCACAAAGAC
* * *
42812961 TTCCTTTTTT-GTAGATCGCCACAAAGCC
1 TT-TTTTTTTCGTAGATCACCACAAAGAC
* *
42812989 TTTATTTTTCATAGATCACCACAAAGAC
1 TTTTTTTTTCGTAGATCACCACAAAGAC
42813017 TTTTTTTTTC
1 TTTTTTTTTC
42813027 TGGCATGTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 5 0.09
28 42 0.79
29 6 0.11
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.44
Consensus pattern (28 bp):
TTTTTTTTTCGTAGATCACCACAAAGAC
Found at i:42816575 original size:14 final size:14
Alignment explanation
Indices: 42816556--42816587 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
42816546 TCCAAACACC
42816556 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42816570 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42816584 GGGC
1 GGGC
42816588 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:42821699 original size:14 final size:14
Alignment explanation
Indices: 42821680--42821711 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
42821670 TCCAAACACC
42821680 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42821694 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42821708 GGGC
1 GGGC
42821712 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:42831697 original size:137 final size:138
Alignment explanation
Indices: 42831445--42831718 Score: 338
Period size: 137 Copynumber: 2.0 Consensus size: 138
42831435 GGCTATAAAA
* *
42831445 TGGGTCTGCTCACACAAGCTGTCGGTCAGAATGTAAGCTACACGATGCTATTCACACAAGTTATC
1 TGGGTCTGATCACACAAGCTGTCAGTCAGAATGTAAGCTACACGATGCTATTCACACAAGTTATC
* * *
42831510 GAGTATTCGCAACTAATGCCAGATCTCAGCCATAGGTAGGACATTCAAGACCAGCACCCAAAACA
66 AAGTATTCGCAACTAATGCCAGAACTCAGCCACAGGTAGGACATTCAAGACCAGCACCCAAAACA
*
42831575 TGGTAACT
131 TCGTAACT
* * * * * *
42831583 TGGGTCTGATCACACAAGCTGTTAGTCGGAATGT-AGCTACACGGTGTTGCTT-ACACAAGTTGT
1 TGGGTCTGATCACACAAGCTGTCAGTCAGAATGTAAGCTACACGATGCT-ATTCACACAAGTTAT
*** * * * *
42831646 CAAGTATTCGCAAC-ACATGTTGGAACTCAGCCACCGGTAGGACATTTAAGACCAGCACTCGAAA
65 CAAGTATTCGCAACTA-ATGCCAGAACTCAGCCACAGGTAGGACATTCAAGACCAGCACCCAAAA
42831710 CATCGTAAC
129 CATCGTAAC
42831719 CCTAATGACA
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
136 1 0.01
137 82 0.71
138 32 0.28
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (138 bp):
TGGGTCTGATCACACAAGCTGTCAGTCAGAATGTAAGCTACACGATGCTATTCACACAAGTTATC
AAGTATTCGCAACTAATGCCAGAACTCAGCCACAGGTAGGACATTCAAGACCAGCACCCAAAACA
TCGTAACT
Found at i:42833841 original size:16 final size:16
Alignment explanation
Indices: 42833820--42833852 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
42833810 GTTCGTATAT
42833820 CATAAAACATAACTTA
1 CATAAAACATAACTTA
42833836 CATAAAACATAACTTA
1 CATAAAACATAACTTA
42833852 C
1 C
42833853 CATTTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
CATAAAACATAACTTA
Found at i:42836806 original size:35 final size:36
Alignment explanation
Indices: 42836734--42836818 Score: 111
Period size: 35 Copynumber: 2.4 Consensus size: 36
42836724 GTTTTAATCA
* *
42836734 CATGTTAAGCATGTTAATGTTCTGATATTTTGGCTCG
1 CATGTTAAGCATGTTAATATTCTGA-ATTTTGACTCG
*
42836771 CATGTTAAGCATGTTATTAATT-TG-ATTTTGACTCG
1 CATGTTAAGCATGTTAAT-ATTCTGAATTTTGACTCG
42836806 CATGTTAAGCATG
1 CATGTTAAGCATG
42836819 CCATGATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 23 0.52
37 19 0.43
38 2 0.05
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (36 bp):
CATGTTAAGCATGTTAATATTCTGAATTTTGACTCG
Found at i:42838247 original size:29 final size:29
Alignment explanation
Indices: 42838206--42838267 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
42838196 TAGATTTCTA
*
42838206 TATACTGTGAAACTTTAAATTCTGAAAAC
1 TATACTGTGAAACTCTAAATTCTGAAAAC
* * *
42838235 TATATTGTGAAACTCTAGATTTTGAAAAC
1 TATACTGTGAAACTCTAAATTCTGAAAAC
42838264 TATA
1 TATA
42838268 GATATTGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (29 bp):
TATACTGTGAAACTCTAAATTCTGAAAAC
Found at i:42840680 original size:25 final size:25
Alignment explanation
Indices: 42840646--42840698 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
42840636 TGAATTGATA
42840646 AATGGCTAGTTAGCATGTTTGGATT
1 AATGGCTAGTTAGCATGTTTGGATT
42840671 AATGGCTAGTTAGCATGTTTGGATT
1 AATGGCTAGTTAGCATGTTTGGATT
42840696 AAT
1 AAT
42840699 TGCCATGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (25 bp):
AATGGCTAGTTAGCATGTTTGGATT
Found at i:42852557 original size:29 final size:29
Alignment explanation
Indices: 42852511--42852694 Score: 226
Period size: 29 Copynumber: 6.3 Consensus size: 29
42852501 TCGTCAACCA
* *
42852511 ATGAAAAGGGATAACTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
42852540 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
42852569 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
42852598 ATGAAAAAGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
* * *
42852627 ATGAAAAGGGATAGCTTCGACTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
42852656 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
42852685 ATGAAAAGGG
1 ATGAAAAGGG
42852695 GTGGTGACGA
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
28 2 0.02
29 129 0.97
30 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:42852659 original size:87 final size:87
Alignment explanation
Indices: 42852536--42852725 Score: 308
Period size: 87 Copynumber: 2.2 Consensus size: 87
42852526 TTCGGCTATT
*
42852536 GAATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATG
1 GAATATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATG
42852601 AAAAAGGATGGTGACGACCATC
66 AAAAAGGATGGTGACGACCATC
* *
42852623 GAATATGAAAAGGGATAGCTTCGACTATTGATTATGAAAAGGGATAGCTTTGGCTATCGATTATG
1 GAATATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATG
* * *
42852688 AAAAGGGGTGGTGACGACCATT
66 AAAAAGGATGGTGACGACCATC
*
42852710 GATTAATGAAAAGGGA
1 GAAT-ATGAAAAGGGA
42852726 CGATTATAAC
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 84 0.88
88 11 0.12
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (87 bp):
GAATATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATG
AAAAAGGATGGTGACGACCATC
Found at i:42852713 original size:29 final size:29
Alignment explanation
Indices: 42852511--42852725 Score: 146
Period size: 29 Copynumber: 7.4 Consensus size: 29
42852501 TCGTCAACCA
* * * * * *
42852511 ATGAAAAGGGATAACTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTACGACCATCGATT
* * * *
42852540 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTACGACCATCGATT
** * *
42852569 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTACGACCATCGATT
* * *
42852598 ATGAAAAAGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-ACGACCATCGATT
* * *
42852627 ATGAAAAGGGATAGCTTCGACTATTGATT
1 ATGAAAAGGGATAGCTACGACCATCGATT
** * *
42852656 ATGAAAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTACGACCATCGATT
* * *
42852685 ATGAAAAGGGGT-GGTGACGACCATTGATT
1 ATGAAAAGGGATAGCT-ACGACCATCGATT
42852714 AATGAAAAGGGA
1 -ATGAAAAGGGA
42852726 CGATTATAAC
Statistics
Matches: 154, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.03
29 138 0.90
30 12 0.08
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTACGACCATCGATT
Found at i:42853293 original size:10 final size:10
Alignment explanation
Indices: 42853278--42853311 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
42853268 ACGTAATTGA
42853278 GATGTATTAT
1 GATGTATTAT
42853288 GATGTATTAT
1 GATGTATTAT
42853298 GATGTATTAT
1 GATGTATTAT
42853308 -ATGT
1 GATGT
42853312 GAGAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (10 bp):
GATGTATTAT
Found at i:42871957 original size:67 final size:67
Alignment explanation
Indices: 42871849--42871979 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
42871839 TTTATATTAC
** *
42871849 AGGGGATTTAGCCTGGACTGGTAATCCCGTTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
1 AGGGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
42871914 GT
66 GT
42871916 AGGGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 AGGGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
42871980 AAATTGAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (67 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCACTATAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
GT
Found at i:42875819 original size:17 final size:17
Alignment explanation
Indices: 42875798--42875842 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
42875788 GTATGTACAG
42875798 AAGTATGATTCGATTAT
1 AAGTATGATTCGATTAT
*
42875815 GAGTATTATGATTCGATTAT
1 -A--AGTATGATTCGATTAT
42875835 AAGTATGA
1 AAGTATGA
42875843 GTAAAGCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 1 0.04
20 15 0.65
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (17 bp):
AAGTATGATTCGATTAT
Found at i:42875826 original size:20 final size:20
Alignment explanation
Indices: 42875801--42875840 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
42875791 TGTACAGAAG
*
42875801 TATGATTCGATTATGAGTAT
1 TATGATTCGATTATAAGTAT
42875821 TATGATTCGATTATAAGTAT
1 TATGATTCGATTATAAGTAT
42875841 GAGTAAAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (20 bp):
TATGATTCGATTATAAGTAT
Found at i:42876226 original size:23 final size:23
Alignment explanation
Indices: 42876196--42876432 Score: 282
Period size: 23 Copynumber: 10.3 Consensus size: 23
42876186 AAACAGAGCT
*
42876196 TTTGTGGCATATT-TCATAATGCC
1 TTTGTGGCATATTCT-GTAATGCC
*
42876219 TTTATGGCATATTCTGTAATGCC
1 TTTGTGGCATATTCTGTAATGCC
* * *
42876242 TTTGTGACATATTCTTTAATGTC
1 TTTGTGGCATATTCTGTAATGCC
* *
42876265 TTTGTGG-AGTATTCTATAATGTC
1 TTTGTGGCA-TATTCTGTAATGCC
* * *
42876288 TTTATGGCATATTTTATAATGCC
1 TTTGTGGCATATTCTGTAATGCC
42876311 TTTGTGGCATATTCTGTAATGCC
1 TTTGTGGCATATTCTGTAATGCC
*
42876334 TTTGTGGCATATTCTGTAATGTC
1 TTTGTGGCATATTCTGTAATGCC
*
42876357 TTTGTGACATATTCTGTAATGCC
1 TTTGTGGCATATTCTGTAATGCC
*
42876380 TTTGTGGCATATTCTGTAATGAC
1 TTTGTGGCATATTCTGTAATGCC
** *
42876403 TTTACGACATATTCTGTAATGTCC
1 TTTGTGGCATATTCTGTAATG-CC
42876427 -TTGTGG
1 TTTGTGG
42876433 TAAGTTCTAT
Statistics
Matches: 184, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
22 1 0.01
23 180 0.98
24 3 0.02
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.46
Consensus pattern (23 bp):
TTTGTGGCATATTCTGTAATGCC
Found at i:42879684 original size:18 final size:19
Alignment explanation
Indices: 42879655--42879692 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
42879645 TACTAAGTTG
*
42879655 AAAATAAAAATAAATAAAT
1 AAAATAAAAATAAAAAAAT
42879674 AAAAT-AAAATAAAAAAAT
1 AAAATAAAAATAAAAAAAT
42879692 A
1 A
42879693 CTAGTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATAAAAATAAAAAAAT
Found at i:42880793 original size:20 final size:20
Alignment explanation
Indices: 42880768--42880834 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
42880758 ATAAAAAAAT
42880768 TCAAAATAATTTTTAAAGAC
1 TCAAAATAATTTTTAAAGAC
42880788 TCAAAATAATTTTTAAAGAC
1 TCAAAATAATTTTTAAAGAC
*
42880808 TCAAAATAATTTTTAAA-AT
1 TCAAAATAATTTTTAAAGAC
42880827 TCAAAATA
1 TCAAAATA
42880835 TTTATAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 9 0.20
20 37 0.80
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (20 bp):
TCAAAATAATTTTTAAAGAC
Found at i:42880844 original size:19 final size:20
Alignment explanation
Indices: 42880762--42880866 Score: 115
Period size: 20 Copynumber: 5.2 Consensus size: 20
42880752 AAAATTATAA
42880762 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
* *
42880782 AAAGACTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
* *
42880802 AAAGACTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
*
42880822 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTTT
* *
42880840 AAAAATTTAAAATTTATATTTT
1 AAAAATTCAAAA-TAAT-TTTT
42880862 AAAAA
1 AAAAA
42880867 AAATATAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
18 5 0.07
19 20 0.27
20 39 0.53
21 2 0.03
22 8 0.11
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:42881036 original size:16 final size:16
Alignment explanation
Indices: 42881015--42881045 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42881005 TTTGAATTTT
42881015 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
42881031 TTTCAAATTTATATG
1 TTTCAAATATATATG
42881046 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:42896635 original size:39 final size:40
Alignment explanation
Indices: 42896540--42896762 Score: 275
Period size: 39 Copynumber: 5.7 Consensus size: 40
42896530 TTGAATGATG
*
42896540 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
42896578 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
42896619 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
42896658 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
42896697 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
42896736 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42896763 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
39 95 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42896726 original size:79 final size:81
Alignment explanation
Indices: 42896540--42896762 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 81
42896530 TTGAATGATG
* * *
42896540 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
42896602 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAT
42896619 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
42896680 TTGTGCGAGTTACTAAT
65 TTGTGCGAGATACTAAT
* * * * *
42896697 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
42896761 TG
66 TG
42896763 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
78 47 0.37
79 56 0.44
80 25 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAT
Found at i:42896793 original size:79 final size:79
Alignment explanation
Indices: 42896592--42896795 Score: 206
Period size: 79 Copynumber: 2.6 Consensus size: 79
42896582 GGACTAAGAT
** * *
42896592 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAATTCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACT
*
42896655 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
42896670 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAATTCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
42896734 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
*
42896750 CCGAAGGCATTTGAACGAG-GAGCT-ATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAT-TCCGGGTTAAATCCCGAAGG
42896796 TACGTGATTT
Statistics
Matches: 109, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 35 0.32
79 50 0.46
80 23 0.21
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAATTCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:42898797 original size:14 final size:14
Alignment explanation
Indices: 42898778--42898806 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42898768 GCAATGAATA
42898778 TAAAGAAGAACACT
1 TAAAGAAGAACACT
42898792 TAAAGAAGAACACT
1 TAAAGAAGAACACT
42898806 T
1 T
42898807 GAGCTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (14 bp):
TAAAGAAGAACACT
Found at i:42899534 original size:32 final size:33
Alignment explanation
Indices: 42899496--42899558 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
42899486 TAGATTGCTC
* *
42899496 CCCCTTA-ATAATAGTCATTTTCAATTTAAGCT
1 CCCCTTATATAAAAATCATTTTCAATTTAAGCT
42899528 CCCCTTATATAAAAATCATTTTCAATTTAAG
1 CCCCTTATATAAAAATCATTTTCAATTTAAG
42899559 GCATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.40
Consensus pattern (33 bp):
CCCCTTATATAAAAATCATTTTCAATTTAAGCT
Found at i:42919179 original size:28 final size:28
Alignment explanation
Indices: 42919148--42919203 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
42919138 TATAATCAAA
* *
42919148 TCATATAAACAATTTATATATTCATTTT
1 TCATATAAACAATTCATATACTCATTTT
* *
42919176 TCATATAATCGATTCATATACTCATTTT
1 TCATATAAACAATTCATATACTCATTTT
42919204 ATATATTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (28 bp):
TCATATAAACAATTCATATACTCATTTT
Found at i:42919207 original size:13 final size:13
Alignment explanation
Indices: 42919160--42919222 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
42919150 ATATAAACAA
42919160 TTTATATATTCATT
1 TTTATATATTCA-T
*
42919174 TTTCATATAATCGA-
1 TTT-ATATATTC-AT
* *
42919188 TTCATATACTCAT
1 TTTATATATTCAT
42919201 TTTATATATTCAT
1 TTTATATATTCAT
*
42919214 TTTCTATAT
1 TTTATATAT
42919223 AACTGATTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 1 0.03
13 26 0.65
14 5 0.12
15 7 0.17
16 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.02, T:0.56
Consensus pattern (13 bp):
TTTATATATTCAT
Found at i:42919258 original size:41 final size:42
Alignment explanation
Indices: 42919104--42919258 Score: 169
Period size: 41 Copynumber: 3.8 Consensus size: 42
42919094 TCCATATGCC
* * *
42919104 CGATTCTTAAAATCATTTTGTATA-TC-TATTTC-CATATAAT
1 CGATTCATATAATCATTTTATATATTCAT-TTTCTCATATAAT
* * * *
42919144 CAAATCATATAAACAATTTATATATTCATTTT-TCATATAAT
1 CGATTCATATAATCATTTTATATATTCATTTTCTCATATAAT
*
42919185 CGATTCATATACTCATTTTATATATTCATTTTCT-ATATAA-
1 CGATTCATATAATCATTTTATATATTCATTTTCTCATATAAT
*
42919225 CTGATTCATATAATCATTTTATAAATTCATTTTC
1 C-GATTCATATAATCATTTTATATATTCATTTTC
42919259 CACCCGATGA
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
40 18 0.19
41 76 0.79
42 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (42 bp):
CGATTCATATAATCATTTTATATATTCATTTTCTCATATAAT
Found at i:42920630 original size:20 final size:20
Alignment explanation
Indices: 42920605--42920643 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
42920595 TTGCTTTTTC
42920605 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
42920625 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
42920644 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:42920978 original size:50 final size:50
Alignment explanation
Indices: 42920836--42921030 Score: 176
Period size: 50 Copynumber: 3.9 Consensus size: 50
42920826 GATAATAACA
* * ** * * * *
42920836 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCT-GTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTAG
* * * * ** ** *
42920885 TGCCAATGTCATATCCCAGATATGGTCTTACATTGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTAG
* * * * *
42920935 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTAG
*
42920985 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
42921031 ACCTCAATAA
Statistics
Matches: 115, Mismatches: 30, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
49 36 0.31
50 79 0.69
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATTAG
Found at i:42923445 original size:74 final size:74
Alignment explanation
Indices: 42923324--42923472 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
42923314 ATGCTCTTAA
*
42923324 AATTTGGGCACATTATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATTGGA
1 AATTTGGGCACATTATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATCGGA
42923389 ACCTACTTG
66 ACCTACTTG
42923398 AATTTGGGCACATTATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATCGGA
1 AATTTGGGCACATTATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATCGGA
42923463 ACCTACTTG
66 ACCTACTTG
42923472 A
1 A
42923473 TCGGATTCAG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (74 bp):
AATTTGGGCACATTATGAATAGCCCTTAGATCGGTGGCTAGAACATTACTCTGTAGTTCATCGGA
ACCTACTTG
Found at i:42925176 original size:14 final size:12
Alignment explanation
Indices: 42925131--42925178 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
42925121 CATATCTATC
42925131 CATATAAACATTT
1 CATAT-AACATTT
*
42925144 CATATACACAATT
1 CATATA-ACATTT
42925157 CATATAACTATTT
1 CATATAAC-ATTT
42925170 CCATATAAC
1 -CATATAAC
42925179 GGTTTCGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 3 0.10
13 19 0.63
14 8 0.27
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (12 bp):
CATATAACATTT
Found at i:42929788 original size:40 final size:38
Alignment explanation
Indices: 42929725--42929872 Score: 172
Period size: 40 Copynumber: 3.8 Consensus size: 38
42929715 CGTGCCCCTG
* * *
42929725 TTGTACTTCGTTACCTCC-GAATGCACATACGTGCCATT
1 TTGTACTTCGGTACC-CCTAAATGCACATACATGCCATT
42929763 ACTTGTACTTCGGTACCCCTAAATGCACATACATGCCCTATT
1 --TTGTACTTCGGTACCCCTAAATGCACATACATG-CC-ATT
* * *
42929805 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTG
1 TTGTACTTCGGTACCCCTAAATGCACATACATG-CCATT
*
42929844 TTGTACTTCAGTACCCCTAAATGCACATA
1 TTGTACTTCGGTACCCCTAAATGCACATA
42929873 TGTTCCCCTA
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
39 30 0.31
40 62 0.64
41 2 0.02
42 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (38 bp):
TTGTACTTCGGTACCCCTAAATGCACATACATGCCATT
Found at i:42929859 original size:39 final size:39
Alignment explanation
Indices: 42929703--42929928 Score: 231
Period size: 39 Copynumber: 5.7 Consensus size: 39
42929693 AATTATTGTA
*
42929703 TGAATACACATACGTGCCCCTGTTGTACTTC-GTTACCTCC
1 TGAATGCACATACGTGCCCCTGTTGTACTTCAG-TACC-CC
** * *
42929743 -GAATGCACATACGTGCCATTACTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCT-GTTGTACTTCAGTACCCC
* * * * *
42929782 TAAATGCACATACATGCCCTATTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCC-CTGTTGTACTTCAGTACCCC
*
42929822 TGAATGCACATACATGCCCCTGTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTGTACTTCAGTACCCC
* * * * * *
42929861 TAAATGCACATATGTTCCCCTATTGTACTTGAGTACCTC
1 TGAATGCACATACGTGCCCCTGTTGTACTTCAGTACCCC
* *
42929900 TGTATGGACATACGTGCCCCTGTTGTACT
1 TGAATGCACATACGTGCCCCTGTTGTACT
42929929 GCGGTACATA
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
39 91 0.58
40 63 0.40
41 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.32
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCCTGTTGTACTTCAGTACCCC
Found at i:42930245 original size:23 final size:22
Alignment explanation
Indices: 42930207--42930249 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
42930197 ATAGATAAAT
42930207 ATGTAGTTCTTAAATGTGGATAG
1 ATGTAGTTCTTAAATG-GGATAG
42930230 ATGTAGTTCATT-AATGGGAT
1 ATGTAGTTC-TTAAATGGGAT
42930250 GTGTGTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.40
Consensus pattern (22 bp):
ATGTAGTTCTTAAATGGGATAG
Found at i:42948388 original size:27 final size:27
Alignment explanation
Indices: 42948112--42948379 Score: 364
Period size: 27 Copynumber: 9.9 Consensus size: 27
42948102 GTTATGACGA
*
42948112 AAATA-CCTCCATAGGGTAAAATGATCG
1 AAATACCCT-CATAGGGTAAAATGACCG
*
42948139 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCG
*
42948166 AAATACCCACATAGGGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCG
* *
42948193 AAATACCCTCATAGGGTAGAATAACCG
1 AAATACCCTCATAGGGTAAAATGACCG
* *
42948220 AAATACCCTCATAGGGTAACATGATCG
1 AAATACCCTCATAGGGTAAAATGACCG
* * *
42948247 AAATACCC-CTATAGGATAGAATGATCG
1 AAATACCCTC-ATAGGGTAAAATGACCG
42948274 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCG
42948301 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCG
* *
42948328 AAATACCC-CTATAGAGTAAAATGACCT
1 AAATACCCTC-ATAGGGTAAAATGACCG
42948355 AAATA-CCTCCATAGGGTAAAATGAC
1 AAATACCCT-CATAGGGTAAAATGAC
42948380 TGTTATACCG
Statistics
Matches: 216, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.02
27 208 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATGACCG
Found at i:42960748 original size:24 final size:21
Alignment explanation
Indices: 42960709--42960788 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 21
42960699 ATAAGACTAC
42960709 AAAAAAAATAAAAGAAAAATA
1 AAAAAAAATAAAAGAAAAATA
42960730 AAAAGAAAGATAATAAGAAAAATA
1 AAAA-AAA-ATAA-AAGAAAAATA
* * *
42960754 AACAATAACTAAATAAAATAAATA
1 AA-AAAAAATAAA-AGAA-AAATA
*
42960778 AAATAAAATAA
1 AAAAAAAATAA
42960789 TAAAAAGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
21 4 0.09
22 4 0.09
23 16 0.34
24 21 0.45
25 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAAAAATAAAAGAAAAATA
Found at i:42960783 original size:14 final size:13
Alignment explanation
Indices: 42960764--42960793 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
42960754 AACAATAACT
42960764 AAATAAAATAAATA
1 AAATAAAAT-AATA
42960778 AAATAAAATAATA
1 AAATAAAATAATA
42960791 AAA
1 AAA
42960794 AGAAAAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:42962394 original size:50 final size:49
Alignment explanation
Indices: 42962259--42962492 Score: 175
Period size: 50 Copynumber: 4.7 Consensus size: 49
42962249 ACATGCCAAA
* ** * * * * *
42962259 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-ATTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATTTGGTT-CCCAT
* * * * * **
42962308 GTCATATCCCGGATATGGTCTTACATGGGAGTTCTCATATTGGTTCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-TTGGTTCCCAT
* *** * * *
42962358 GCCATGTCTCAGACATGGTCTTTTGGGGGACCTCTCAGCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCA-TTTGGTTCCCAT
* * *
42962408 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATTTCGGTT-CCAGC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATTT-GGTTCCCA-T
*
42962458 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
42962493 TTACCCAAAT
Statistics
Matches: 145, Mismatches: 35, Indels: 9
0.77 0.19 0.05
Matches are distributed among these distances:
49 34 0.23
50 109 0.75
51 2 0.01
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATTTGGTTCCCAT
Found at i:42994264 original size:19 final size:21
Alignment explanation
Indices: 42994218--42994273 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
42994208 CACGGGTTGG
* *
42994218 TCACACTGGCGTTTGTGGCCT
1 TCACACAGGCGTGTGTGGCCT
42994239 TCACACAGGCGTGTGTGGCCT
1 TCACACAGGCGTGTGTGGCCT
* **
42994260 CCACATGGGCGTGT
1 TCACACAGGCGTGT
42994274 AGACCCCCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.29, G:0.32, T:0.27
Consensus pattern (21 bp):
TCACACAGGCGTGTGTGGCCT
Found at i:42996472 original size:31 final size:30
Alignment explanation
Indices: 42996437--42996495 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
42996427 ATTAATAATT
*
42996437 TCAAATAT-ATATAATTAATATTTTGTATGAA
1 TCAAAT-TCATAT-ATTAATATTTTCTATGAA
*
42996468 TCAAATTCATATATTAATTTTTTCTATG
1 TCAAATTCATATATTAATATTTTCTATG
42996496 TTCTCTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (30 bp):
TCAAATTCATATATTAATATTTTCTATGAA
Found at i:43017064 original size:29 final size:29
Alignment explanation
Indices: 43017032--43017087 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
43017022 ACTTAATTTG
43017032 GTTTAGGGTTAAAACCCACACCTGATCTA
1 GTTTAGGGTTAAAACCCACACCTGATCTA
* *
43017061 GTTTAGTGTTAAAACTCACACCTGATC
1 GTTTAGGGTTAAAACCCACACCTGATC
43017088 ATAGATCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (29 bp):
GTTTAGGGTTAAAACCCACACCTGATCTA
Found at i:43022511 original size:21 final size:21
Alignment explanation
Indices: 43022468--43022512 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
43022458 TATTTATATG
*
43022468 TATGATAATATTATTTATCTT
1 TATGATAATATTATATATCTT
*
43022489 TATGATAACT-TTATATATTTT
1 TATGATAA-TATTATATATCTT
43022510 TAT
1 TAT
43022513 TTTCTTACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TATGATAATATTATATATCTT
Found at i:43023019 original size:7 final size:7
Alignment explanation
Indices: 43023007--43023037 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
43022997 TTTCAAACCT
43023007 AATTCCA
1 AATTCCA
43023014 AATTCCA
1 AATTCCA
43023021 AATTCCA
1 AATTCCA
43023028 AATTCCA
1 AATTCCA
43023035 AAT
1 AAT
43023038 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTCCA
Found at i:43032014 original size:47 final size:47
Alignment explanation
Indices: 43031935--43032102 Score: 304
Period size: 47 Copynumber: 3.6 Consensus size: 47
43031925 TATTTGAATA
43031935 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
43031984 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43032031 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43032078 AATGTGAAAG-GTA-ATATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
43032103 TGAAAGTGTA
Statistics
Matches: 119, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
45 12 0.10
46 3 0.03
47 92 0.77
49 12 0.10
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43032107 original size:21 final size:23
Alignment explanation
Indices: 43032070--43032125 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
43032060 CTAATGGCCG
43032070 ATGTGATGAATGTGAAAG-GTA-AT
1 ATGTGAT-AA-GTGAAAGTGTATAT
43032093 ATGTGATAAGTGAAAGTGTATAT
1 ATGTGATAAGTGAAAGTGTATAT
43032116 ATGTGATAAG
1 ATGTGATAAG
43032126 GCCTAATGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.23
22 5 0.16
23 19 0.61
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (23 bp):
ATGTGATAAGTGAAAGTGTATAT
Found at i:43032108 original size:68 final size:69
Alignment explanation
Indices: 43032023--43032170 Score: 257
Period size: 68 Copynumber: 2.2 Consensus size: 69
43032013 CTAATGGCCG
43032023 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGAT-AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
43032088 -GTAAT
65 TGT-AT
43032093 ATGTGATAA-GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 ATGTGATAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
43032157 GTAT
66 GTAT
43032161 ATGT-ATAATG
1 ATGTGATAATG
43032171 GCCGATGTGA
Statistics
Matches: 76, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
67 4 0.05
68 61 0.80
69 4 0.05
70 7 0.09
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.31
Consensus pattern (69 bp):
ATGTGATAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTAT
Found at i:43032469 original size:37 final size:37
Alignment explanation
Indices: 43032368--43032469 Score: 159
Period size: 37 Copynumber: 2.8 Consensus size: 37
43032358 CCGAGCTCTA
*
43032368 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
43032405 AAGACTCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
43032442 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
43032470 CGTCTGAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:43037751 original size:30 final size:30
Alignment explanation
Indices: 43037711--43037776 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
43037701 TTAATTTCTG
* *
43037711 AGCTTTGGGGCAGAAGTGTAATTATGTAAA
1 AGCTTAGGGGCAAAAGTGTAATTATGTAAA
* * *
43037741 AGCTTAGGGGCAAAATTGTAATTTTGTCAA
1 AGCTTAGGGGCAAAAGTGTAATTATGTAAA
43037771 AG-TTAG
1 AGCTTAG
43037777 AGTCGAGGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (30 bp):
AGCTTAGGGGCAAAAGTGTAATTATGTAAA
Found at i:43038220 original size:50 final size:50
Alignment explanation
Indices: 43038120--43038357 Score: 260
Period size: 50 Copynumber: 4.6 Consensus size: 50
43038110 GATGAGATCT
* * *
43038120 CATGTAAGACCATGTTTGGGAAATGGCATTAGCACCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACC---GAG---ATGAGAGGTCC
43038176 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
43038226 CAAGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * * ** *
43038276 CCCGTAAGACCATGTCTAGGACATGGCATGGGCACCTATATGAGAAATCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
43038326 CATGTAAGACCATATCTGGGATATGACATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
43038358 TAATACACGA
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 124 0.77
53 3 0.02
56 33 0.21
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:43042315 original size:51 final size:51
Alignment explanation
Indices: 43042252--43042376 Score: 144
Period size: 51 Copynumber: 2.5 Consensus size: 51
43042242 GCATGGATTG
* **
43042252 TGTGTAGGCTACTATGTAAAT-GTGAAAGTGATGGTCACGTGTGTAGTACTA
1 TGTGTAGGCTACTATGTAAATCG-GAAAGTAATGGTCACACGTGTAGTACTA
* * ** **
43042303 TGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACACGTGTAGTACTA
1 TGTGTAGGCTACTATGTAAATCGGAAAGTAATGGTCACACGTGTAGTACTA
*
43042354 TGTGTAGGCTACTATGTGAATCG
1 TGTGTAGGCTACTATGTAAATCG
43042377 AACATCATTG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.32
Consensus pattern (51 bp):
TGTGTAGGCTACTATGTAAATCGGAAAGTAATGGTCACACGTGTAGTACTA
Found at i:43042464 original size:45 final size:45
Alignment explanation
Indices: 43042378--43042464 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
43042368 TGTGAATCGA
* * *
43042378 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACTGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACTGG
*
43042423 ACATCATTGATTAATAAGGTGGTTGGTATGTGCTAAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCAC
43042465 CGAGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACTGG
Found at i:43050118 original size:29 final size:29
Alignment explanation
Indices: 43050030--43050118 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
43050020 CAATTTTTAG
* *
43050030 GGGTTCTAAAAAAATAA-TTTGTACAAGAT
1 GGGTTCTGAAAAAATAATTTTG-ACGAGAT
* *
43050059 GGGTTCTGAAAAAATTAATTTTGAGGTGAT
1 GGGTTCTGAAAAAA-TAATTTTGACGAGAT
* * *
43050089 GTGTTTTGAAGAAATAATTTTGACGAGAT
1 GGGTTCTGAAAAAATAATTTTGACGAGAT
43050118 G
1 G
43050119 CGTTGAGTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 27 0.55
30 18 0.37
31 4 0.08
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTGACGAGAT
Found at i:43052366 original size:16 final size:17
Alignment explanation
Indices: 43052339--43052374 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
43052329 AGAGAGTTGA
43052339 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
43052356 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
43052372 GAG
1 GAG
43052375 GGATGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.53, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:43057477 original size:24 final size:25
Alignment explanation
Indices: 43057445--43057501 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
43057435 TTGCTCAGAG
* *
43057445 GAGCTTACT-ATTTACAGCTCGTAA
1 GAGCATACTAATTCACAGCTCGTAA
* * *
43057469 GAGTATACTAATTCAGAGCTCGTAT
1 GAGCATACTAATTCACAGCTCGTAA
43057494 GAGCATAC
1 GAGCATAC
43057502 ATGTATAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (25 bp):
GAGCATACTAATTCACAGCTCGTAA
Found at i:43060442 original size:20 final size:20
Alignment explanation
Indices: 43060417--43060454 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43060407 TTTTTCCACA
* *
43060417 TATAATATATACTAAATAAT
1 TATAATAAATAATAAATAAT
43060437 TATAATAAATAATAAATA
1 TATAATAAATAATAAATA
43060455 TCATTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAATAAATAATAAATAAT
Found at i:43060445 original size:13 final size:14
Alignment explanation
Indices: 43060418--43060450 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
43060408 TTTTCCACAT
*
43060418 ATAATATATACTAA
1 ATAATATATAATAA
43060432 ATAAT-TATAATAA
1 ATAATATATAATAA
43060445 ATAATA
1 ATAATA
43060451 AATATCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATATATAATAA
Found at i:43063237 original size:15 final size:16
Alignment explanation
Indices: 43063208--43063237 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43063198 ATAAAAGAAT
43063208 AATTTAGATAAAATAG
1 AATTTAGATAAAATAG
43063224 AATTTAGA-AAAATA
1 AATTTAGATAAAATA
43063238 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (16 bp):
AATTTAGATAAAATAG
Found at i:43063242 original size:13 final size:13
Alignment explanation
Indices: 43063205--43063247 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
43063195 ATAATAAAAG
43063205 AATAATTTAGATAA
1 AATAATTTAGA-AA
43063219 AATAGAATTTAGAAA
1 AAT--AATTTAGAAA
43063234 AATAATTTAAGAAA
1 AATAATTT-AGAAA
43063248 CTAGGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.19
14 8 0.31
15 5 0.19
16 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (13 bp):
AATAATTTAGAAA
Found at i:43069016 original size:28 final size:28
Alignment explanation
Indices: 43068948--43069045 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
43068938 CATGAGATTG
* * * *
43068948 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43068977 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43069005 GCACTAAGTGTGCAAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43069032 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43069046 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43069059 original size:29 final size:27
Alignment explanation
Indices: 43068976--43069059 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
43068966 TAAATTGTAC
** *
43068976 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTAATTATAT
* *
43069004 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTAATTATAT
* *
43069031 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-AACTTAAT-TATAT
43069060 TTTGAATCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.50
28 19 0.40
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTAATTATAT
Found at i:43077080 original size:27 final size:28
Alignment explanation
Indices: 43076996--43077093 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
43076986 CATGAGATTG
* * * *
43076996 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
43077025 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43077053 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43077080 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43077094 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43077104 original size:27 final size:27
Alignment explanation
Indices: 43077024--43077106 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
43077014 TAAATTGTAC
* * *
43077024 AGCACTAAGTGTGTGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43077052 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43077079 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43077106 A
1 A
43077107 TTTTGAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43077107 original size:29 final size:27
Alignment explanation
Indices: 43076996--43077107 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
43076986 CATGAGATTG
** * *
43076996 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
43077025 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43077053 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43077080 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43077108 TTTGAATCAC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43092367 original size:39 final size:39
Alignment explanation
Indices: 43092319--43092535 Score: 330
Period size: 39 Copynumber: 5.6 Consensus size: 39
43092309 CATATTCACT
* * *
43092319 TTTAGGCATATATCACATTACACATATAATTACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAA
* *
43092358 TTTAAGCATATATTACAATACTCATATAATCACA-AAACA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAA-A
*
43092397 TTTAAGCAAATATCACAATACTCATATAATTACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAA
* *
43092436 TTTAAGCATATATTACAATACTCATATAATCACA-AAACA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAA-A
43092475 TTTAAGCATATATCACAATACTCATATAATTACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAA
43092514 TTTAAGCATATATCACAATACT
1 TTTAAGCATATATCACAATACT
43092536 TGTAAGGCCC
Statistics
Matches: 161, Mismatches: 13, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
38 6 0.04
39 149 0.93
40 6 0.04
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATTACATAAAA
Found at i:43092457 original size:78 final size:78
Alignment explanation
Indices: 43092319--43092535 Score: 389
Period size: 78 Copynumber: 2.8 Consensus size: 78
43092309 CATATTCACT
* * *
43092319 TTTAGGCATATATCACATTACACATATAATTACATAAAATTTAAGCATATATTACAATACTCATA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAATTTAAGCATATATTACAATACTCATA
43092384 TAATCACAAAACA
66 TAATCACAAAACA
*
43092397 TTTAAGCAAATATCACAATACTCATATAATTACATAAAATTTAAGCATATATTACAATACTCATA
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAATTTAAGCATATATTACAATACTCATA
43092462 TAATCACAAAACA
66 TAATCACAAAACA
*
43092475 TTTAAGCATATATCACAATACTCATATAATTACATAAAATTTAAGCATATATCACAATACT
1 TTTAAGCATATATCACAATACTCATATAATTACATAAAATTTAAGCATATATTACAATACT
43092536 TGTAAGGCCC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 133 1.00
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (78 bp):
TTTAAGCATATATCACAATACTCATATAATTACATAAAATTTAAGCATATATTACAATACTCATA
TAATCACAAAACA
Found at i:43098744 original size:28 final size:28
Alignment explanation
Indices: 43098705--43098828 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
43098695 CTATTCAGTA
*
43098705 ACAGT-ACAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
43098732 ACAGTAACAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
43098760 ACAGAAATAGTATGGGCCTTAG-CCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
43098787 ACAGAAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
43098815 ACAGTAACAGTGTG
1 ACAGTAACAGTGTG
43098829 ATAATGCAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
27 30 0.35
28 56 0.65
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:43099004 original size:20 final size:20
Alignment explanation
Indices: 43098964--43099006 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
43098954 AAAACATAAA
**
43098964 CTTGTTGATAAAACTTGTTT
1 CTTGTTGATAAAACTCATTT
43098984 CTTGTTGATAAAACTCATTT
1 CTTGTTGATAAAACTCATTT
43099004 CTT
1 CTT
43099007 AAGTTTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (20 bp):
CTTGTTGATAAAACTCATTT
Found at i:43099652 original size:26 final size:26
Alignment explanation
Indices: 43099623--43099673 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
43099613 ACACCAATAT
43099623 CGCAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
* *
43099649 CGCAGCAAAGCTTCCAGTAACAGTA
1 CGCAACAAAGCTGCCAGTAACAGTA
43099674 TATGTGGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:43099884 original size:27 final size:26
Alignment explanation
Indices: 43099826--43100021 Score: 194
Period size: 27 Copynumber: 7.3 Consensus size: 26
43099816 GGGTATAATA
* *
43099826 GTCATTTTACCCATCGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGTATTTCG
* *
43099852 GTCATTTTATCCTTTGGGGTTATTTCA
1 GTCATTTTACCCTTTGGGG-TATTTCG
*
43099879 GACATTTTACCCTTTAGGGGTATTTCG
1 GTCATTTTACCCTTT-GGGGTATTTCG
* *
43099906 GTCATTTTATCCTTTAGTGGTATTTCG
1 GTCATTTTACCCTTT-GGGGTATTTCG
* *
43099933 GTCATTTTACCCTTCAGAGGTATTTCG
1 GTCATTTTACCCTT-TGGGGTATTTCG
* * * *
43099960 ATCATTTTACCCATCTAGAGTATTTCG
1 GTCATTTTACCC-TTTGGGGTATTTCG
* *
43099987 GTCATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTT-TGGGGTATTTCG
*
43100014 GACATTTT
1 GTCATTTT
43100022 CCCACGAATC
Statistics
Matches: 139, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
26 17 0.12
27 117 0.84
28 5 0.04
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTTTGGGGTATTTCG
Found at i:43099904 original size:54 final size:53
Alignment explanation
Indices: 43099826--43100021 Score: 232
Period size: 54 Copynumber: 3.7 Consensus size: 53
43099816 GGGTATAATA
* *
43099826 GTCATTTTACCCATC-GGGGTATTTCGGTCATTTTATCCTTTGGGGTTATTTCA
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTATCCTTTGGGG-TATTTCG
* * *
43099879 GACATTTTACCCTTTAGGGGTATTTCGGTCATTTTATCCTTTAGTGGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTATCCTTT-GGGGTATTTCG
* * * * * *
43099933 GTCATTTTACCCTTCAGAGGTATTTCGATCATTTTACCCATCTAGAGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTATCC-TTTGGGGTATTTCG
* * *
43099987 GTCATTTTACCCTTCGGGGGTATTTCAGACATTTT
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTT
43100022 CCCACGAATC
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
53 12 0.10
54 104 0.86
55 5 0.04
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (53 bp):
GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTATCCTTTGGGGTATTTCG
Found at i:43100009 original size:81 final size:80
Alignment explanation
Indices: 43099826--43100021 Score: 227
Period size: 81 Copynumber: 2.4 Consensus size: 80
43099816 GGGTATAATA
* * * *
43099826 GTCATTTTACCCATCGGGGTATTTCGGTCATTTTATCCTTTGGGGTTATTTCAGACATTTTACCC
1 GTCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTAGAGGTTATTTCAGACATTTTACCC
* *
43099891 TTTAGGGGTATTTCG
66 TCTAGGAGTATTTCG
* * *
43099906 GTCATTTTATCCTTTAGTGGTATTTCGGTCATTTTACCCTTCAGAGG-TATTTC-GATCATTTTA
1 GTCATTTTA-CCCTTCGGGGTATTTCGGTCATTTTACCCTT-AGAGGTTATTTCAGA-CATTTTA
43099969 CCCATCTA-GAGTATTTCG
63 CCC-TCTAGGAGTATTTCG
* *
43099987 GTCATTTTACCCTTCGGGGGTATTTCAGACATTTT
1 GTCATTTTACCCTTC-GGGGTATTTCGGTCATTTT
43100022 CCCACGAATC
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
80 15 0.15
81 76 0.78
82 6 0.06
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (80 bp):
GTCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTAGAGGTTATTTCAGACATTTTACCC
TCTAGGAGTATTTCG
Found at i:43108384 original size:41 final size:42
Alignment explanation
Indices: 43108319--43108406 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 42
43108309 ATATATATAC
43108319 TAAACAATAAATTAATAAATTAATAAAATAAAAATA-TTATT
1 TAAACAATAAATTAATAAATTAATAAAATAAAAATATTTATT
* * *
43108360 TAAA-AATCAAATTAA-AATATTAATAAACTAATATTATTTATT
1 TAAACAAT-AAATTAATAA-ATTAATAAAATAAAAATATTTATT
43108402 TAAAC
1 TAAAC
43108407 TAAAATATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 5 0.12
41 26 0.65
42 9 0.22
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (42 bp):
TAAACAATAAATTAATAAATTAATAAAATAAAAATATTTATT
Found at i:43116495 original size:50 final size:50
Alignment explanation
Indices: 43116387--43116582 Score: 167
Period size: 50 Copynumber: 3.8 Consensus size: 50
43116377 ATTTGGGTAA
* *
43116387 AGAGATCCCATGTAAAACCATGTCTGGGACATGACATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* * *
43116443 AGAGGTCCTATGTAAAACCATGTCTAGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACTGAGATG
*** * * * *
43116493 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * * *
43116543 AGAACTTCTATGTAAGACCATATCTGGGATATGGCATTGG
1 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGG
43116583 TAGTACAAGA
Statistics
Matches: 115, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 73 0.63
53 4 0.03
55 1 0.01
56 37 0.32
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:43120099 original size:26 final size:27
Alignment explanation
Indices: 43120032--43120239 Score: 140
Period size: 27 Copynumber: 7.7 Consensus size: 27
43120022 TTCAACTCCT
*
43120032 AGGGGTATTTCGATCATTTTACCTTTC
1 AGGGGTATTTCGGTCATTTTACCTTTC
*
43120059 AAGGGTATTTCGGTCATTTTACCTTTC
1 AGGGGTATTTCGGTCATTTTACCTTTC
* * *
43120086 -GGGGTATTTTGGTCATTTTACCCATCC
1 AGGGGTATTTCGGTCATTTTA-CCTTTC
* ** *
43120113 A-GGATATTTCATTCATTTTACCCTTC
1 AGGGGTATTTCGGTCATTTTACCTTTC
** * * **
43120139 -GGGAGTATTTCAATTATTTCACCCATC
1 AGGG-GTATTTCGGTCATTTTACCTTTC
* **
43120166 -GAGGGTATTTTC-GTTATTTTACCCATC
1 AG-GGGTA-TTTCGGTCATTTTACCTTTC
* *
43120193 AGGGGTATTTCGGTTATTTTACTCTTTG
1 AGGGGTATTTCGGTCATTTTAC-CTTTC
*
43120221 A-GGGTATTTCGGTAATTTT
1 AGGGGTATTTCGGTCATTTT
43120240 CCCACGAATC
Statistics
Matches: 149, Mismatches: 23, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
26 28 0.19
27 111 0.74
28 10 0.07
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
AGGGGTATTTCGGTCATTTTACCTTTC
Found at i:43120175 original size:54 final size:53
Alignment explanation
Indices: 43120033--43120231 Score: 193
Period size: 54 Copynumber: 3.7 Consensus size: 53
43120023 TCAACTCCTA
* * ** * * *
43120033 GGGGTATTTCGATCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCTTTC
1 GGGGTATTTCGGTTATTTTACCCATCGAGGGTATTTCGTTCATTTTACCCTTC
* * * * *
43120086 GGGGTATTTTGGTCATTTTACCCATCCAGGATATTTCATTCATTTTACCCTTC
1 GGGGTATTTCGGTTATTTTACCCATCGAGGGTATTTCGTTCATTTTACCCTTC
** * *
43120139 GGGAGTATTTCAATTATTTCACCCATCGAGGGTATTTTCGTT-ATTTTACCCATC
1 GGG-GTATTTCGGTTATTTTACCCATCGAGGGTA-TTTCGTTCATTTTACCCTTC
* * *
43120193 AGGGGTATTTCGGTTATTTTACTCTTTGAGGGTATTTCG
1 -GGGGTATTTCGGTTATTTTACCCATCGAGGGTATTTCG
43120232 GTAATTTTCC
Statistics
Matches: 119, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
53 52 0.44
54 58 0.49
55 9 0.08
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (53 bp):
GGGGTATTTCGGTTATTTTACCCATCGAGGGTATTTCGTTCATTTTACCCTTC
Found at i:43121703 original size:23 final size:25
Alignment explanation
Indices: 43121686--43121734 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
43121676 CTAATATTGC
43121686 AGCAAAGCTGCCAGTAATAGTATCA
1 AGCAAAGCTGCCAGTAATAGTATCA
*
43121711 TAGCAAAGCTGCTAGTAATAGTAT
1 -AGCAAAGCTGCCAGTAATAGTAT
43121735 ATGTGGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
AGCAAAGCTGCCAGTAATAGTATCA
Found at i:43121943 original size:27 final size:27
Alignment explanation
Indices: 43121924--43122261 Score: 352
Period size: 27 Copynumber: 12.7 Consensus size: 27
43121914 GGGTATAACT
*
43121924 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCA
* * ** *
43121951 GTCATTCTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCA
43121978 GTCATTTTACCCTATGGGGGTATTT--
1 GTCATTTTACCCTATGGGGGTATTTCA
* *
43122003 GTTCATTTTACTCTATGGGCGTATTTCA
1 G-TCATTTTACCCTATGGGGGTATTTCA
* * *
43122031 GTCATTTTACCTTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCA
* ***
43122058 GTCATTTTACCTTACAAGGGTATTTC-
1 GTCATTTTACCCTATGGGGGTATTTCA
* *
43122084 GATCATTCTACCTTATGGGGGTATTTCA
1 G-TCATTTTACCCTATGGGGGTATTTCA
*
43122112 GTCATTTTACCCTATGAGGGTATATT-A
1 GTCATTTTACCCTATGGGGGTAT-TTCA
*
43122139 GTTATTTTACCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCA
* **
43122165 GTCATTTTACTCTAT-AAGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCA
*
43122191 GTCAATTTACCCTATGGGGGTATTTC-
1 GTCATTTTACCCTATGGGGGTATTTCA
*
43122217 GATCATTTTACCCTGT-GGGGTATTTC-
1 G-TCATTTTACCCTATGGGGGTATTTCA
43122243 GATCATTTTACCCTATGGG
1 G-TCATTTTACCCTATGGG
43122262 TATATTTTAG
Statistics
Matches: 264, Mismatches: 37, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
25 3 0.01
26 91 0.34
27 166 0.63
28 4 0.02
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCA
Found at i:43122084 original size:107 final size:105
Alignment explanation
Indices: 43121924--43122257 Score: 417
Period size: 107 Copynumber: 3.1 Consensus size: 105
43121914 GGGTATAACT
* *
43121924 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCTTACAGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTA-GGGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCGGTCATTTTACC
*
43121989 CTATGGGGGTATTT-GTTCATTTTACTCTATGGGCGTATTTCA
65 CTATGGGGGTATTTCG-TCATTTTACCCTATGGG-GTATTTCA
* * *
43122031 GTCATTTTACCTTACGGGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCGATCATTCTACC
1 GTCATTTTACCCTA-GGGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCGGTCATTTTACC
*
43122096 TTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATATT-A
65 CTATGGGGGTATTTC-GTCATTTTACCCTATG-GGGTAT-TTCA
* * * * * *
43122139 GTTATTTTACCCTATGGGGTATTTCAGTCATTTTA-CTCTATAA-GGTATTTCAGTCAATTTACC
1 GTCATTTTACCCTAGGGGGTATTTCGGTCATTTTACCT-TACAAGGGTATTTCGGTCATTTTACC
*
43122202 CTATGGGGGTATTTCGATCATTTTACCCTGTGGGGTATTTC-
65 CTATGGGGGTATTTCG-TCATTTTACCCTATGGGGTATTTCA
43122243 GATCATTTTACCCTA
1 G-TCATTTTACCCTA
43122258 TGGGTATATT
Statistics
Matches: 199, Mismatches: 20, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
104 3 0.02
105 19 0.10
106 46 0.23
107 95 0.48
108 31 0.16
109 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (105 bp):
GTCATTTTACCCTAGGGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCGGTCATTTTACCC
TATGGGGGTATTTCGTCATTTTACCCTATGGGGTATTTCA
Found at i:43122268 original size:53 final size:53
Alignment explanation
Indices: 43121925--43122261 Score: 346
Period size: 53 Copynumber: 6.3 Consensus size: 53
43121915 GGTATAACTG
* * * * *
43121925 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCTTACAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA-TGGGGTATTTCGA
* *
43121979 TCATTTTACCCTATGGGGGTATTT-GTTCATTTTACTCTATGGGCGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGG-GTATTTCGA
* * * * **
43122031 GTCATTTTACCTTACGGGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCGA
1 -TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA-TGGGGTATTTCGA
* * *
43122086 TCATTCTACCTTATGGGGGTATTTC-AGTCATTTTACCCTATGAGGGTATATTAG-
1 TCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATG-GGGTAT-TTCGA
* * **
43122140 TTATTTTACCCTAT-GGGGTATTTC-AGTCATTTTACTCTATAAGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGTATTTCGA
* *
43122191 GTCAATTTACCCTATGGGGGTATTTCGATCATTTTACCCTGTGGGGTATTTCGA
1 -TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGA
43122245 TCATTTTACCCTATGGG
1 TCATTTTACCCTATGGG
43122262 TATATTTTAG
Statistics
Matches: 236, Mismatches: 34, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
51 2 0.01
52 20 0.08
53 111 0.47
54 97 0.41
55 6 0.03
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTCGA
Done.