Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 141 of 202
Found at i:43879640 original size:28 final size:28
Alignment explanation
Indices: 43879609--43879687 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
43879599 CTCGCCATGT
* *
43879609 AGGCATCCTTTTAACAGAGTTTGCCAC-A
1 AGGCATCC-TTTAACAGAGATAGCCACAA
* * * *
43879637 AGGCATTCATTTAGCTGAGATAGGCACAA
1 AGGCA-TCCTTTAACAGAGATAGCCACAA
43879666 AGGCATCCTTTAACAGAGATAG
1 AGGCATCCTTTAACAGAGATAG
43879688 ACATAAATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 32 0.80
29 8 0.20
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (28 bp):
AGGCATCCTTTAACAGAGATAGCCACAA
Found at i:43881883 original size:26 final size:26
Alignment explanation
Indices: 43881847--43881900 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
43881837 GTTGACCTAG
43881847 TTGAGGTTATAACTAGTAATTTTTCT
1 TTGAGGTTATAACTAGTAATTTTTCT
43881873 TTGAGGTTATAACTAGTAATTTTTCT
1 TTGAGGTTATAACTAGTAATTTTTCT
43881899 TT
1 TT
43881901 CCTTGGCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (26 bp):
TTGAGGTTATAACTAGTAATTTTTCT
Found at i:43886667 original size:13 final size:13
Alignment explanation
Indices: 43886649--43886675 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43886639 ATCTCAGGTA
43886649 ATTCTCATAATTG
1 ATTCTCATAATTG
43886662 ATTCTCATAATTG
1 ATTCTCATAATTG
43886675 A
1 A
43886676 GGCTCAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTCTCATAATTG
Found at i:43896927 original size:14 final size:15
Alignment explanation
Indices: 43896902--43896939 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
43896892 TGTGTAGAAA
43896902 TTAAATTAAACTAAG
1 TTAAATTAAACTAAG
43896917 TTAAA-TAAACTAA-
1 TTAAATTAAACTAAG
*
43896930 TGAAATTAAA
1 TTAAATTAAA
43896940 AATAACCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 12 0.57
15 5 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (15 bp):
TTAAATTAAACTAAG
Found at i:43904709 original size:10 final size:10
Alignment explanation
Indices: 43904694--43904718 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43904684 GCTTCATACG
43904694 AATGATTTAC
1 AATGATTTAC
43904704 AATGATTTAC
1 AATGATTTAC
43904714 AATGA
1 AATGA
43904719 CCGATACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (10 bp):
AATGATTTAC
Found at i:43919844 original size:13 final size:15
Alignment explanation
Indices: 43919826--43919857 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
43919816 ACTACCCTAG
43919826 CTTTTAAC-TA-AAA
1 CTTTTAACATAGAAA
43919839 CTTTTAACATAGAAA
1 CTTTTAACATAGAAA
43919854 CTTT
1 CTTT
43919858 AGATTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.41
Consensus pattern (15 bp):
CTTTTAACATAGAAA
Found at i:43930137 original size:104 final size:103
Alignment explanation
Indices: 43929879--43930237 Score: 603
Period size: 105 Copynumber: 3.5 Consensus size: 103
43929869 GGGTTGTTGT
* * * *
43929879 GTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATG-AAA
43929943 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
64 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
43929983 GTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAA
1 GTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAA
43930048 GGGCGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 GGG-GGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
*
43930088 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATAAAAAG
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAAG
43930153 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
* **
43930191 GTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
43930238 ATAACGGCTA
Statistics
Matches: 244, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
103 80 0.33
104 72 0.30
105 91 0.37
106 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (103 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAAG
GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:43945801 original size:8 final size:8
Alignment explanation
Indices: 43945788--43945812 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43945778 GTACCCCAAT
43945788 AATATATA
1 AATATATA
43945796 AATATATA
1 AATATATA
43945804 AATATATA
1 AATATATA
43945812 A
1 A
43945813 TATTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATATA
Found at i:43961474 original size:20 final size:20
Alignment explanation
Indices: 43961451--43961497 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
43961441 CCCTTTGTGC
43961451 AAATTTGTCGAAAA-GAATCA
1 AAATTTGTC-AAAATGAATCA
** *
43961471 AAATTAATCAAAATTAATCA
1 AAATTTGTCAAAATGAATCA
43961491 AAATTTG
1 AAATTTG
43961498 ATATAAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (20 bp):
AAATTTGTCAAAATGAATCA
Found at i:43961481 original size:10 final size:10
Alignment explanation
Indices: 43961466--43961518 Score: 61
Period size: 10 Copynumber: 5.0 Consensus size: 10
43961456 TGTCGAAAAG
43961466 AATCAAAATT
1 AATCAAAATT
43961476 AATCAAAATT
1 AATCAAAATT
43961486 AATCAAAATTT
1 AATCAAAA-TT
*
43961497 GATATAAAAATT
1 -A-ATCAAAATT
*
43961509 AATTAAAATT
1 AATCAAAATT
43961519 CAACATGTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 26 0.68
11 3 0.08
12 3 0.08
13 6 0.16
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (10 bp):
AATCAAAATT
Found at i:43975190 original size:46 final size:45
Alignment explanation
Indices: 43975118--43975285 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 45
43975108 AGGCTATGTG
* * * *
43975118 TTGTGTAGGTTCAACCTTAACCGGTGACCAGACACAATTATCCGAT
1 TTGTGTAGGTTAAACCTTAACGGGTGACCAG-CACTATTATCCAAT
* *
43975164 TTGTGTAGGTTTAAACC-TAACGGGTGACGAGGCACTATTATCAAAT
1 TTGTGTAGG-TTAAACCTTAACGGGTGACCA-GCACTATTATCCAAT
* * *
43975210 TCT-TGTAGGTTCAACCTTAACGAGTGACCATGCACTATTATTCAAT
1 T-TGTGTAGGTTAAACCTTAACGGGTGACCA-GCACTATTATCCAAT
** * *
43975256 TCATGTAGGTTCAATCC-TAATGGGTGACCA
1 TTGTGTAGGTT-AAACCTTAACGGGTGACCA
43975286 ATACTACTTT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
45 6 0.06
46 82 0.83
47 11 0.11
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
TTGTGTAGGTTAAACCTTAACGGGTGACCAGCACTATTATCCAAT
Found at i:43979053 original size:42 final size:43
Alignment explanation
Indices: 43978943--43979054 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
43978933 CACTGCCATA
* ** * *
43978943 TCCCAGATATGGTCTTACATGTTATAATATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCATATATCGATGCAACTG
* ** *
43978986 TCCCAGACAGGGTCTTACACAAAATCATATA-CGATGCAATTG
1 TCCCAGACATGGTCTTACATGAAATCATATATCGATGCAACTG
43979028 TCCCAGACATGGTCTTACATGAAATCA
1 TCCCAGACATGGTCTTACATGAAATCA
43979055 CACCTCGGAA
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 33 0.58
43 24 0.42
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCATATATCGATGCAACTG
Found at i:43985885 original size:17 final size:19
Alignment explanation
Indices: 43985863--43985898 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
43985853 TGTCCAAGTA
43985863 CTAGTT-AGTTT-ATTTTT
1 CTAGTTCAGTTTAATTTTT
43985880 CTAGTTCAGTTTAATTTTT
1 CTAGTTCAGTTTAATTTTT
43985899 AGTACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.61
Consensus pattern (19 bp):
CTAGTTCAGTTTAATTTTT
Found at i:43996297 original size:11 final size:11
Alignment explanation
Indices: 43996275--43996303 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43996265 CACCTTCACC
43996275 CATTTA-TTTT
1 CATTTATTTTT
43996285 CATTTATTTTT
1 CATTTATTTTT
43996296 CATTTATT
1 CATTTATT
43996304 CAAACCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (11 bp):
CATTTATTTTT
Found at i:43998473 original size:17 final size:18
Alignment explanation
Indices: 43998441--43998475 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
43998431 ATCATAGAGA
*
43998441 GCTCGCATAGGGAGCTTG
1 GCTCGCATAAGGAGCTTG
43998459 GCTCGCA-AAGGAGCTTG
1 GCTCGCATAAGGAGCTTG
43998476 CATAGAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (18 bp):
GCTCGCATAAGGAGCTTG
Found at i:44020680 original size:13 final size:14
Alignment explanation
Indices: 44020662--44020690 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44020652 TCTACTCGTA
44020662 TGGA-TTTTCTTTT
1 TGGATTTTTCTTTT
44020675 TGGATTTTTCTTTT
1 TGGATTTTTCTTTT
44020689 TG
1 TG
44020691 TATTGCACTT
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:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (14 bp):
TGGATTTTTCTTTT
Found at i:44029019 original size:40 final size:40
Alignment explanation
Indices: 44028974--44029051 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
44028964 ATCATCTTTA
44028974 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCATAG
1 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCATAG
44029014 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCAT
1 ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCAT
44029052 TCGATTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (40 bp):
ATGTTCATGATTTGAGATTGCCTATATCACTGTTTCATAG
Found at i:44041626 original size:44 final size:44
Alignment explanation
Indices: 44041563--44041651 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
44041553 ACCCCATACC
44041563 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
1 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
44041607 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
1 TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
44041651 T
1 T
44041652 CATCACTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (44 bp):
TGTGTAAAGCATTAGCAACTAATTTTCTATCAAAATGAGAACCT
Found at i:44050379 original size:25 final size:25
Alignment explanation
Indices: 44050324--44050410 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
44050314 TACCGATTTT
* * *
44050324 AGCTCTTATGAGCTTACCGATAC-TC
1 AGCTCGTATAAGCTTACC-ATTCTTC
*
44050349 AACTCGTATAAGCTTACCATTCTTC
1 AGCTCGTATAAGCTTACCATTCTTC
* ** *
44050374 AGCTCGAAGGAGCTTACCATT-TAC
1 AGCTCGTATAAGCTTACCATTCTTC
*
44050398 AGCTCATATAAGC
1 AGCTCGTATAAGC
44050411 ATACATGTAC
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 14 0.29
25 34 0.71
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (25 bp):
AGCTCGTATAAGCTTACCATTCTTC
Found at i:44057493 original size:25 final size:25
Alignment explanation
Indices: 44057418--44057500 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
44057408 TAGCTCTTAT
* * * * *
44057418 GAGCTTACTGATACTCAGCTTGTAT
1 GAGCTTACTGTTATTCAGCTCGGAG
*
44057443 GAGCTTA-TCGTTATTCAGCTCAGAG
1 GAGCTTACT-GTTATTCAGCTCGGAG
44057468 GAGCTTACTGTTATTCAGCTCGGAG
1 GAGCTTACTGTTATTCAGCTCGGAG
44057493 GAGCTTAC
1 GAGCTTAC
44057501 CGTTTACAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (25 bp):
GAGCTTACTGTTATTCAGCTCGGAG
Found at i:44066372 original size:3 final size:3
Alignment explanation
Indices: 44066364--44066389 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44066354 TGCTTCAATA
44066364 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
44066390 AACTAATGTC
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:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:44068808 original size:8 final size:8
Alignment explanation
Indices: 44068795--44068819 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44068785 TTAGGGTAGA
44068795 CCCATGAT
1 CCCATGAT
44068803 CCCATGAT
1 CCCATGAT
44068811 CCCATGAT
1 CCCATGAT
44068819 C
1 C
44068820 TTTTTCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:44071955 original size:27 final size:27
Alignment explanation
Indices: 44071915--44072062 Score: 129
Period size: 27 Copynumber: 5.5 Consensus size: 27
44071905 GACAAGTTAA
*
44071915 CCCCAGTTCACAACTCAACTGGGAAAC
1 CCCCAGTTCGCAACTCAACTGGGAAAC
* * *
44071942 CCCTAGTTCGCAACTTAACT-TGATAAC
1 CCCCAGTTCGCAACTCAACTGGGA-AAC
* * *
44071969 CCCTAGTTCGCAACACAACTGGTAAAC
1 CCCCAGTTCGCAACTCAACTGGGAAAC
* * ***
44071996 CCCCAATTCTCAACTCAACTCATAAAC
1 CCCCAGTTCGCAACTCAACTGGGAAAC
* *
44072023 CCCCAATTCACAACTCAACTGGCG-AAC
1 CCCCAGTTCGCAACTCAACTGG-GAAAC
*
44072050 CCCCAGTTTGCAA
1 CCCCAGTTCGCAA
44072063 GTTAACTATT
Statistics
Matches: 97, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.02
27 94 0.97
28 1 0.01
ACGTcount: A:0.32, C:0.36, G:0.11, T:0.20
Consensus pattern (27 bp):
CCCCAGTTCGCAACTCAACTGGGAAAC
Found at i:44071996 original size:54 final size:53
Alignment explanation
Indices: 44071912--44072069 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 53
44071902 TTTGACAAGT
* * *
44071912 TAACCCCAGTTCACAACTCAACTGGGAAACCCCTAGTTCGCAACTTAACTTGA
1 TAACCCCAGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACTTCA
* * * * * *
44071965 TAACCCCTAGTTCGCAACACAACTGGTAAACCCCCAATTCTCAACTCAAC-TCA
1 TAACCCC-AGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACTTCA
* * * *
44072018 TAAACCCCCAATTCACAACTCAACTGGCGAACCCCCAGTTTGCAAGTTAACT
1 T-AA-CCCCAGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACT
44072070 ATTAAACCCC
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
53 10 0.12
54 69 0.83
55 4 0.05
ACGTcount: A:0.33, C:0.35, G:0.11, T:0.22
Consensus pattern (53 bp):
TAACCCCAGTTCACAACTCAACTGGCAAACCCCCAGTTCGCAACTTAACTTCA
Found at i:44072076 original size:54 final size:53
Alignment explanation
Indices: 44071915--44072087 Score: 163
Period size: 54 Copynumber: 3.2 Consensus size: 53
44071905 GACAAGTTAA
* * * *
44071915 CCCCAGTTCACAACTCAACTGGGAAACCCCTAGTTCGCAACTTAACT-TGATAAC
1 CCCCAATTCACAACTCAACTGGG-AACCCCCAGTTTGCAACTTAACTATTA-AAC
* * * * * * *
44071969 CCCTAGTTCGCAACACAACTGGTAAACCCCCAATTCT-CAACTCAACTCA-TAAAC
1 CCCCAATTCACAACTCAACTGG-GAACCCCCAGTT-TGCAACTTAACT-ATTAAAC
*
44072023 CCCCAATTCACAACTCAACTGGCGAACCCCCAGTTTGCAAGTTAACTATTAAAC
1 CCCCAATTCACAACTCAACTGG-GAACCCCCAGTTTGCAACTTAACTATTAAAC
44072077 CCCCAATTCAC
1 CCCCAATTCAC
44072088 CAAATAGTCT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
53 2 0.02
54 92 0.97
55 1 0.01
ACGTcount: A:0.33, C:0.36, G:0.10, T:0.21
Consensus pattern (53 bp):
CCCCAATTCACAACTCAACTGGGAACCCCCAGTTTGCAACTTAACTATTAAAC
Found at i:44074267 original size:173 final size:173
Alignment explanation
Indices: 44073973--44074325 Score: 582
Period size: 173 Copynumber: 2.0 Consensus size: 173
44073963 TAGATGAATC
* * * *
44073973 AATTAGCTATGTTGGGATTTAGTTGAGATTTAATTAGAACTGAACTAAACTACTGTAGATGATTA
1 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
* *
44074038 CACTTAAAACTTGTTAAGTGTGTTTAATCACGGGAATCAAGGGTGTTAGTGGGATTATCTAATTT
66 CACTTAAAACTTGTTAAGTGTGTTTAATCACGAGAATCAAGGGTGTTAATGGGATTATCTAATTT
44074103 CTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
131 CTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
*
44074146 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAGACTACTATAGATGATTA
1 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
* * *
44074211 GACTTAAAACTTGTTAAG-GTTGTTTAATCACTAGAATCAAGGGTGTTAATGGGATTATCTGATT
66 CACTTAAAACTTGTTAAGTG-TGTTTAATCACGAGAATCAAGGGTGTTAATGGGATTATCTAATT
* *
44074275 TCTCCACTAAACCTTGTCTCTGTTGCATGATTATATAAGGTTAT
130 TCTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
44074319 AATTGGC
1 AATTGGC
44074326 CACCATTAGT
Statistics
Matches: 167, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
172 1 0.01
173 166 0.99
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (173 bp):
AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
CACTTAAAACTTGTTAAGTGTGTTTAATCACGAGAATCAAGGGTGTTAATGGGATTATCTAATTT
CTCCACTAAACCTTGTCTCTATTGCATGACTATATAAGGTTAT
Found at i:44074768 original size:15 final size:16
Alignment explanation
Indices: 44074738--44074770 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44074728 CCTTTTTTAT
*
44074738 TTCCATGTATTGTAAA
1 TTCCATGTATTATAAA
44074754 TTCCAT-TATTATAAA
1 TTCCATGTATTATAAA
44074769 TT
1 TT
44074771 ATGTAAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
TTCCATGTATTATAAA
Found at i:44080219 original size:20 final size:20
Alignment explanation
Indices: 44080194--44080328 Score: 110
Period size: 20 Copynumber: 6.8 Consensus size: 20
44080184 AGGATTACAA
* *
44080194 TTTGGTGCCTCTATTTGTAG
1 TTTGGTGCCTCTGTTTGTAC
44080214 TTTGGTGCCTCTGTTTGTAC
1 TTTGGTGCCTCTGTTTGTAC
* *
44080234 TTTGATGCCTTTGTTT-TCAC
1 TTTGGTGCCTCTGTTTGT-AC
*
44080254 TTTGGTGCCTCTGTTTGCAC
1 TTTGGTGCCTCTGTTTGTAC
*** ** *
44080274 TTCAATGCCTCTGACTGCAC
1 TTTGGTGCCTCTGTTTGTAC
* * **
44080294 ATTCGTGCCTCTGTTTACAC
1 TTTGGTGCCTCTGTTTGTAC
*
44080314 TTTGGTGCCTGTGTT
1 TTTGGTGCCTCTGTT
44080329 ATGCATCCTC
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
19 1 0.01
20 90 0.99
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (20 bp):
TTTGGTGCCTCTGTTTGTAC
Found at i:44080810 original size:80 final size:80
Alignment explanation
Indices: 44080677--44080917 Score: 446
Period size: 80 Copynumber: 3.0 Consensus size: 80
44080667 AATGATTGTT
*
44080677 AGGGTATAGTTATGAAATCTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
1 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
44080742 ATGAATCATATGGAA
66 ATGAATCATATGGAA
44080757 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
1 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
44080822 ATGAATCATATGGAA
66 ATGAATCATATGGAA
* *
44080837 AAGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGAAATTGAATTC
1 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
*
44080902 ATGAATAATATGGAA
66 ATGAATCATATGGAA
44080917 A
1 A
44080918 TTTTATGTGA
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 157 1.00
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (80 bp):
AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
ATGAATCATATGGAA
Found at i:44082152 original size:18 final size:20
Alignment explanation
Indices: 44082129--44082168 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
44082119 GTGACCACTG
44082129 TTTT-CCAAAATTTTC-AAT
1 TTTTCCCAAAATTTTCTAAT
44082147 TTTTCCCAAAATTTTCTAAT
1 TTTTCCCAAAATTTTCTAAT
44082167 TT
1 TT
44082169 GTTTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTCCCAAAATTTTCTAAT
Found at i:44102731 original size:15 final size:17
Alignment explanation
Indices: 44102708--44102740 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44102698 ATAGTTTTTT
44102708 AAATGTTTAA-AATATA
1 AAATGTTTAATAATATA
44102724 AAAT-TTTAATAATATA
1 AAATGTTTAATAATATA
44102740 A
1 A
44102741 GTCTTGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAATGTTTAATAATATA
Found at i:44104505 original size:49 final size:49
Alignment explanation
Indices: 44104420--44104554 Score: 165
Period size: 49 Copynumber: 2.9 Consensus size: 49
44104410 CATTCATCAT
* *
44104420 GTGTTCACCTTTTGATTCATGATATTAAAC------TTAATTTTATACA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
* * * * *
44104463 GTGTTGAGCTTTTGATTCATGATATTGAATTTAATTTTAATTTTATAAA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
44104512 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
44104555 GTTTTTTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
43 26 0.34
49 50 0.66
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (49 bp):
GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
Found at i:44106191 original size:45 final size:44
Alignment explanation
Indices: 44106108--44106203 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
44106098 ATTACAACAT
*
44106108 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
*
44106152 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
44106197 CATTACA
1 CATTACA
44106204 CCTCTATTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.44
45 26 0.54
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:44106207 original size:16 final size:16
Alignment explanation
Indices: 44106182--44106219 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44106172 TTGAATTACT
* *
44106182 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCA
44106198 ATTACACCTCTATTCA
1 ATTACACCTCTATTCA
44106214 ATTACA
1 ATTACA
44106220 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCA
Found at i:44119418 original size:26 final size:25
Alignment explanation
Indices: 44119383--44119443 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
44119373 ACACTTTTTG
44119383 TATTCATTTTTGAGCCAA-TAGTCTTT
1 TATTC-TTTTTGAG-CAATTAGTCTTT
* *
44119409 TATTCTTTTTGAGTAATTATTCTTT
1 TATTCTTTTTGAGCAATTAGTCTTT
44119434 TATTCTTTTT
1 TATTCTTTTT
44119444 TTCCACATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.78
26 5 0.16
ACGTcount: A:0.20, C:0.11, G:0.08, T:0.61
Consensus pattern (25 bp):
TATTCTTTTTGAGCAATTAGTCTTT
Found at i:44119474 original size:16 final size:19
Alignment explanation
Indices: 44119453--44119490 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
44119443 TTTCCACATC
44119453 ATTCAT-AA-TCATAT-TT
1 ATTCATAAATTCATATATT
44119469 ATTCATAAATTCATATATT
1 ATTCATAAATTCATATATT
44119488 ATT
1 ATT
44119491 TGTATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 6 0.32
19 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTCATAAATTCATATATT
Found at i:44121283 original size:12 final size:12
Alignment explanation
Indices: 44121266--44121291 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44121256 TGGAGCCTCG
44121266 AATGCTATGGGT
1 AATGCTATGGGT
44121278 AATGCTATGGGT
1 AATGCTATGGGT
44121290 AA
1 AA
44121292 CAGAATTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (12 bp):
AATGCTATGGGT
Found at i:44124329 original size:43 final size:44
Alignment explanation
Indices: 44124201--44124332 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 44
44124191 GGTGAAATCT
*
44124201 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAATAA-AGC
1 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-AATAGC
* * *** * * * **
44124245 -AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAAATA-C
1 TAG-CCTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGC
44124289 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC
1 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC
44124333 AGATCTTGCC
Statistics
Matches: 62, Mismatches: 21, Indels: 10
0.67 0.23 0.11
Matches are distributed among these distances:
43 20 0.32
44 25 0.40
45 17 0.27
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (44 bp):
TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGC
Found at i:44124659 original size:100 final size:101
Alignment explanation
Indices: 44124515--44124926 Score: 566
Period size: 100 Copynumber: 4.1 Consensus size: 101
44124505 ATTACAGTGG
*
44124515 AATAGATTGAAGCCGCAACAG-CAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAG-T
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
* ** *
44124578 CACAACGACGAATCTTGTTTCCCCGACATTGTAGTTA
66 -ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
44124615 AATAGATTGAAGCCAC-ACCGTCGAATTTTACTTTCCTGGTGGTGTAGGGGAACAGATTGAAGCT
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
* *
44124679 ACGACGGTGAATCTTATTTCCCCGACATTGCAATTA
66 ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
44124715 AATAGATTGAAGCCACAA-TG-GAGAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGC
1 AATAGATTGAAGCCACAACAGTCA-AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGC
*
44124778 TACGACGGTGAATCTTGTTTCCCCGACATTGTAGTTA
65 TACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
44124815 AATAGATTGAAGCCACAACGGT-AAATCTTACATCCCTGGTGGTGTAGTGGAACAGACTGAAGCT
1 AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
*
44124879 ACGACGGTGAATCTTGTTTCCCCCACATTGCAGTTA
66 ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
*
44124915 AACAGATTGAAG
1 AATAGATTGAAG
44124927 ATGGTAAGTC
Statistics
Matches: 277, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
99 3 0.01
100 270 0.97
101 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (101 bp):
AATAGATTGAAGCCACAACAGTCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCT
ACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:44124858 original size:200 final size:200
Alignment explanation
Indices: 44124515--44124926 Score: 623
Period size: 200 Copynumber: 2.1 Consensus size: 200
44124505 ATTACAGTGG
*
44124515 AATAGATTGAAGCCGCAACAGCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTCA
1 AATAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTCA
* *
44124580 CAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACACCGTCGAATTTTA
66 CAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACACCGTCAAATCTTA
* * * *
44124645 CTTTCCTGGTGGTGTAGGGGAACAGATTGAAGCTACGACGGTGAATCTTATTTCCCCGACATTGC
131 CATCCCTGGTGGTGTAGGGGAACAGACTGAAGCTACGACGGTGAATCTTATTTCCCCCACATTGC
44124710 AATTA
196 AATTA
* *
44124715 AATAGATTGAAGCCACAA-TGGAGAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAG-C
1 AATAGATTGAAGCCACAACAGCA-AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTC
* ** *
44124778 TACGACGGTGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAACGGT-AAATC
65 -ACAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCAC-ACCGTCAAATC
* *
44124842 TTACATCCCTGGTGGTGTAGTGGAACAGACTGAAGCTACGACGGTGAATCTTGTTTCCCCCACAT
128 TTACATCCCTGGTGGTGTAGGGGAACAGACTGAAGCTACGACGGTGAATCTTATTTCCCCCACAT
*
44124907 TGCAGTTA
193 TGCAATTA
*
44124915 AACAGATTGAAG
1 AATAGATTGAAG
44124927 ATGGTAAGTC
Statistics
Matches: 192, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
199 3 0.02
200 185 0.96
201 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (200 bp):
AATAGATTGAAGCCACAACAGCAAATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGTCA
CAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACACCGTCAAATCTTA
CATCCCTGGTGGTGTAGGGGAACAGACTGAAGCTACGACGGTGAATCTTATTTCCCCCACATTGC
AATTA
Found at i:44124886 original size:50 final size:50
Alignment explanation
Indices: 44124538--44124893 Score: 239
Period size: 50 Copynumber: 7.1 Consensus size: 50
44124528 CGCAACAGCA
* * **
44124538 AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAG-TCACAACGACG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT-ACGACGGTG
** * * ** ** * * *
44124588 AATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCAC-ACCGTCG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGT-G
* * * *
44124638 AATTTTACTTTCCTGGTGGTGTAGGGGAACAGATTGAAGCTACGACGGTG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
* * * ** * * ** * * * * *
44124688 AATCTTATTTCCCCGACATTGCAATTAAATAGATTGAAGCCACAATGGAG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
*
44124738 AATCTTACTTCCCTGGCGGTGTAGGGGAACAGATTGAAGCTACGACGGTG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
** * * ** ** * * * *
44124788 AATCTTGTTTCCCCGACATTGTAGTTAAATAGATTGAAGCCACAACGGTA
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
* * *
44124838 AATCTTACATCCCTGGTGGTGTAGTGGAACAGACTGAAGCTACGACGGTG
1 AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
44124888 AATCTT
1 AATCTT
44124894 GTTTCCCCCA
Statistics
Matches: 213, Mismatches: 90, Indels: 6
0.69 0.29 0.02
Matches are distributed among these distances:
49 2 0.01
50 207 0.97
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
AATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTG
Found at i:44136593 original size:10 final size:10
Alignment explanation
Indices: 44136570--44136617 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
44136560 AAAATTATTA
*
44136570 TTTTAGAAAAT
1 TTTTA-AAATT
44136581 TTTTAAAATT
1 TTTTAAAATT
*
44136591 TTTT-ACATT
1 TTTTAAAATT
*
44136600 TTTTAGAATT
1 TTTTAAAATT
44136610 TTTTAAAA
1 TTTTAAAA
44136618 ATATAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.26
10 18 0.58
11 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:44137219 original size:18 final size:20
Alignment explanation
Indices: 44137189--44137230 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
44137179 CAAAATTCGA
44137189 AATAAATAATTAATAAAT-T
1 AATAAATAATTAATAAATAT
44137208 AATAAA-AATTAATAAATAT
1 AATAAATAATTAATAAATAT
44137227 AATA
1 AATA
44137231 TTGAGCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAATAATTAATAAATAT
Found at i:44151895 original size:22 final size:22
Alignment explanation
Indices: 44151867--44151910 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44151857 GAGAGAAGAG
44151867 AAGAAGCACATAAAGATTATAA
1 AAGAAGCACATAAAGATTATAA
* *
44151889 AAGAAGCACATATAGGTTATAA
1 AAGAAGCACATAAAGATTATAA
44151911 GGATAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (22 bp):
AAGAAGCACATAAAGATTATAA
Found at i:44159677 original size:5 final size:5
Alignment explanation
Indices: 44159669--44159694 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44159659 AACCTTTTGT
44159669 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
44159695 CAAATTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:44167375 original size:40 final size:40
Alignment explanation
Indices: 44167302--44167581 Score: 375
Period size: 40 Copynumber: 7.0 Consensus size: 40
44167292 TATTAGTTTT
* * * *
44167302 AGGGTTACCAAAGTACAAATAGGGGCACGTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* * *
44167342 AGGGGTATCGAAGTACAAATAGGGGTACATATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* *
44167382 AGGGGTACCG-AGTACAAACAAGGGCACCTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* * *
44167421 AAGGGTACC-AACGTTCAAACAAGGGCACATATGTGCATTC
1 AGGGGTACCGAA-GTACAAACAGGGGCACATATGTGCATTC
* *
44167461 AGGGGTACTGAAGTACAAACAGGGGCACCTATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
* * *
44167501 AAGGGTACCGACGTTCAAACAGGGGCACATATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
*
44167541 AGGGGTACCAAAGTACAAACAGGGGCACATATGTGCATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
44167581 A
1 A
44167582 ACAATAATTA
Statistics
Matches: 210, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
39 34 0.16
40 174 0.83
41 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCATTC
Found at i:44167385 original size:20 final size:20
Alignment explanation
Indices: 44167362--44167581 Score: 79
Period size: 20 Copynumber: 11.1 Consensus size: 20
44167352 AAGTACAAAT
44167362 AGGGGTACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
** * **
44167382 AGGGGTACCGA-GTACAAAC
1 AGGGGTACATATGTGCATTC
* * *
44167401 AAGGGCACCTATGTGCATTC
1 AGGGGTACATATGTGCATTC
* * * **
44167421 AAGGGTACCA-ACGTTCAAAC
1 AGGGGTA-CATATGTGCATTC
* *
44167441 AAGGGCACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
* * **
44167461 AGGGGTAC-TGAAGTACAAAC
1 AGGGGTACAT-ATGTGCATTC
* *
44167481 AGGGGCACCTATGTGCATTC
1 AGGGGTACATATGTGCATTC
* ** * * **
44167501 AAGGGTACCGACGTTCAAAC
1 AGGGGTACATATGTGCATTC
*
44167521 AGGGGCACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
* * **
44167541 AGGGGTACCA-AAGTACAAAC
1 AGGGGTA-CATATGTGCATTC
*
44167561 AGGGGCACATATGTGCATTC
1 AGGGGTACATATGTGCATTC
44167581 A
1 A
44167582 ACAATAATTA
Statistics
Matches: 135, Mismatches: 58, Indels: 14
0.65 0.28 0.07
Matches are distributed among these distances:
19 18 0.13
20 113 0.84
21 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (20 bp):
AGGGGTACATATGTGCATTC
Found at i:44173876 original size:40 final size:40
Alignment explanation
Indices: 44173692--44173868 Score: 196
Period size: 40 Copynumber: 4.4 Consensus size: 40
44173682 ATACTATTTG
* * * * *
44173692 ATTCA-AGGTTACCAAATTACAGACAGGGTCACATATGTGC
1 ATTCAGAGG-TACCGAAGTACAAACAGGGGCACGTATGTGC
* *
44173732 ATTCATAGGTACCGAAGTACAAACAGGGGCATGTATGTGC
1 ATTCAGAGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
44173772 ATTCAGAGGTACCGGAGTACAAATAGGGGCATGTATGTGC
1 ATTCAGAGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
44173812 ATTCA-AGGGTATCAAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGA-GGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
44173852 ATTCAGGGGTACTGAAG
1 ATTCAGAGGTACCGAAG
44173869 AATAAACATC
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 112 0.97
41 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (40 bp):
ATTCAGAGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:44173885 original size:80 final size:80
Alignment explanation
Indices: 44173725--44173893 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 80
44173715 CAGGGTCACA
* * * *
44173725 TATGTGCATTCATAGGTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGAGGTACCGGAGT
1 TATGTGCATTCATAGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGAGGTACCGAAGA
* * *
44173790 ACAAATAGGGGCATG
66 ACAAACAGCGACATG
* * *
44173805 TATGTGCATTCA-AGGGTATCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACTGAAG
1 TATGTGCATTCATA-GGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGAGGTACCGAAG
* *
44173869 AATAAACATCGACATG
65 AACAAACAGCGACATG
44173885 TATGTGCAT
1 TATGTGCAT
44173894 ACAACAATAA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 75 0.99
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (80 bp):
TATGTGCATTCATAGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGAGGTACCGAAGA
ACAAACAGCGACATG
Found at i:44176449 original size:36 final size:31
Alignment explanation
Indices: 44176382--44176444 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
44176372 TATTAACACG
*
44176382 ACTCAGTCTGTTAGTTTGAAGATGAAATACT
1 ACTCAGTCTGTCAGTTTGAAGATGAAATACT
44176413 ACTCAGTCTGTCAGTTTGAAGATGAAATACT
1 ACTCAGTCTGTCAGTTTGAAGATGAAATACT
44176444 A
1 A
44176445 TACTAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (31 bp):
ACTCAGTCTGTCAGTTTGAAGATGAAATACT
Found at i:44187655 original size:15 final size:16
Alignment explanation
Indices: 44187637--44187669 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44187627 ATTAAATTGG
44187637 ATTAAATTA-GAATTA
1 ATTAAATTATGAATTA
*
44187652 ATTATATTATGAATTA
1 ATTAAATTATGAATTA
44187668 AT
1 AT
44187670 AGACATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTAAATTATGAATTA
Found at i:44187812 original size:10 final size:10
Alignment explanation
Indices: 44187795--44187842 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
44187785 TAATTAATTG
44187795 AAAA-TAATC
1 AAAATTAATC
44187804 AAAATTAATC
1 AAAATTAATC
44187814 AAAATTTGAAT-
1 AAAA-TT-AATC
*
44187825 AAAATTAATT
1 AAAATTAATC
44187835 AAAATTAA
1 AAAATTAA
44187843 ACATATTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.20
10 19 0.54
11 6 0.17
12 3 0.09
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:44189634 original size:10 final size:10
Alignment explanation
Indices: 44189615--44189663 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
44189605 AAATTTGTCG
44189615 AAAA-TAATC
1 AAAATTAATC
44189624 AAAATTAATC
1 AAAATTAATC
*
44189634 AAAATTAATTAT
1 AAAATTAA-T-C
*
44189646 AAAATTAATT
1 AAAATTAATC
44189656 AAAATTAA
1 AAAATTAA
44189664 AAATTTTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 4 0.11
10 22 0.61
11 2 0.06
12 8 0.22
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTAATC
Found at i:44192599 original size:25 final size:24
Alignment explanation
Indices: 44192545--44192603 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
44192535 TTAATCAGTA
* *
44192545 TAAAATATT-AATAATTCAATAATT
1 TAAAA-ATTAAATAATTAAATAAAT
44192569 TGAAAAATTAAATAATTAAATAAAAT
1 T-AAAAATTAAATAATTAAAT-AAAT
44192595 TAAAAATTA
1 TAAAAATTA
44192604 GTAGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.13
25 22 0.73
26 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAAATTAAATAATTAAATAAAT
Found at i:44192611 original size:18 final size:18
Alignment explanation
Indices: 44192572--44192613 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
44192562 AATAATTTGA
*
44192572 AAAATTAAATAATTAAAT
1 AAAATTAAATAATTAAAG
*
44192590 AAAATTAAA-AATTAGTAG
1 AAAATTAAATAATTA-AAG
44192608 AAAATT
1 AAAATT
44192614 TTGTCTTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATTAAATAATTAAAG
Found at i:44193284 original size:16 final size:15
Alignment explanation
Indices: 44193259--44193293 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
44193249 AAAGTTGATA
*
44193259 ATAATTAATATATATT
1 ATAATAAATATA-ATT
44193275 ATAATAAATATAATT
1 ATAATAAATATAATT
44193290 ATAA
1 ATAA
44193294 ACTAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:44193413 original size:28 final size:29
Alignment explanation
Indices: 44193358--44193414 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
44193348 GCCTTTTAAA
* *
44193358 AATATTTACAAAAAGAGACATCTAATTTT
1 AATATTTACAAAAAGAGACACCAAATTTT
44193387 AATATTTACAAAAA-AGTA-ACCAAATTTT
1 AATATTTACAAAAAGAG-ACACCAAATTTT
44193415 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAGAGACACCAAATTTT
Found at i:44197040 original size:30 final size:30
Alignment explanation
Indices: 44197006--44197082 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
44196996 TTTGGGCCTG
* * *
44197006 AGCCTTATACAGTAGCAGTGTGCGGGCCAT
1 AGCCTAATACAGTAACAGAGTGCGGGCCAT
* *
44197036 AGCCTAATACAGTAACAGAGTGTGGGCCTT
1 AGCCTAATACAGTAACAGAGTGCGGGCCAT
*
44197066 AGCCCAATACAGTAACA
1 AGCCTAATACAGTAACA
44197083 ATGCAAATGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (30 bp):
AGCCTAATACAGTAACAGAGTGCGGGCCAT
Found at i:44197598 original size:81 final size:81
Alignment explanation
Indices: 44197459--44197800 Score: 392
Period size: 81 Copynumber: 4.2 Consensus size: 81
44197449 CATCTCATAG
* * * * *
44197459 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTCACCCATTGAGGGTATTT-TA
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGA
44197523 CTAATTTTACCCATCGA
66 -TAATTTTACCCATCGA
* * *
44197540 GGGTATTTAAGTAATTTTACCCA-CTGAGGGTATTTTACTAATTTTACCCATCGGGGGTATTTCG
1 GGGTATTTTAGTAATTTTACCCATC-GAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCG
*
44197604 ATAATTTTACCCTTCGA
65 ATAATTTTACCCATCGA
* *
44197621 GGGTA-TTTCGATAATTTTACCCATCGAGGGTATTTTAGTGATTTTACCCATC-AGAGGTATTTC
1 GGGTATTTTAG-TAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAG-GGTATTTC
*
44197684 GATAATTTTACCCTTCGA
64 GATAATTTTACCCATCGA
* * * * * *
44197702 GGGTATTTTGGTCATTTT-CCTATCGGGGGTA-TTTCGATAATTTTACCCATAGAGGGTATTTTC
1 GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAG-TAATTTTACCCATCGAGGGTA-TTTC
* *
44197765 G-TAATTTTACCTATCAA
64 GATAATTTTACCCATCGA
*
44197782 GGGTATTTCAGTAATTTTA
1 GGGTATTTTAGTAATTTTA
44197801 GAGGCCCATT
Statistics
Matches: 224, Mismatches: 27, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
79 4 0.02
80 60 0.27
81 154 0.69
82 6 0.03
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGA
TAATTTTACCCATCGA
Found at i:44197799 original size:27 final size:26
Alignment explanation
Indices: 44197459--44197800 Score: 343
Period size: 27 Copynumber: 12.7 Consensus size: 26
44197449 CATCTCATAG
*
44197459 GGGTATTTTGGTAATTTTACCCATCGA
1 GGGTA-TTTCGTAATTTTACCCATCGA
* * *
44197486 GGGTATTTTGGTAATTTCACCCATTGA
1 GGGTA-TTTCGTAATTTTACCCATCGA
44197513 GGGTATTTTAC-TAATTTTACCCATCGA
1 GGGTA-TTT-CGTAATTTTACCCATCGA
*
44197540 GGGTATTTAAGTAATTTTACCCA-CTGA
1 GGGTATTT-CGTAATTTTACCCATC-GA
*
44197567 GGGTATTTTAC-TAATTTTACCCATCGG
1 GGGTA-TTT-CGTAATTTTACCCATCGA
*
44197594 GGGTATTTCGATAATTTTACCCTTCGA
1 GGGTATTTCG-TAATTTTACCCATCGA
44197621 GGGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCG-TAATTTTACCCATCGA
* *
44197648 GGGTATTTTAGTGATTTTACCCATC-A
1 GGGTA-TTTCGTAATTTTACCCATCGA
*
44197674 GAGGTATTTCGATAATTTTACCCTTCGA
1 G-GGTATTTCG-TAATTTTACCCATCGA
* * * *
44197702 GGGTATTTTGGTCATTTT-CCTATCGG
1 GGGTA-TTTCGTAATTTTACCCATCGA
*
44197728 GGGTATTTCGATAATTTTACCCATAGA
1 GGGTATTTCG-TAATTTTACCCATCGA
* *
44197755 GGGTATTTTCGTAATTTTACCTATCAA
1 GGGTA-TTTCGTAATTTTACCCATCGA
44197782 GGGTATTTCAGTAATTTTA
1 GGGTATTTC-GTAATTTTA
44197801 GAGGCCCATT
Statistics
Matches: 270, Mismatches: 29, Indels: 32
0.82 0.09 0.10
Matches are distributed among these distances:
25 5 0.02
26 34 0.13
27 211 0.78
28 20 0.07
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGTAATTTTACCCATCGA
Found at i:44202708 original size:23 final size:25
Alignment explanation
Indices: 44202682--44202728 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
44202672 GGAATGGGGA
44202682 AGAAAA-TGA-AGAAGAA-TGAAGAG
1 AGAAAAGTGAGAG-AGAAGTGAAGAG
44202705 AGAAAAGTGAGAGAGAAGTGAAGA
1 AGAAAAGTGAGAGAGAAGTGAAGA
44202729 ATGAATGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.34, T:0.09
Consensus pattern (25 bp):
AGAAAAGTGAGAGAGAAGTGAAGAG
Found at i:44206956 original size:26 final size:26
Alignment explanation
Indices: 44206927--44206992 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
44206917 CACGATAGAT
*
44206927 AAAGAAAGCCTTTGTGGCATAATATG
1 AAAGAAAGCCTTTGTGGCATAATATA
* **
44206953 AAAGAAAGGCTTTGTGGTGTAATATA
1 AAAGAAAGCCTTTGTGGCATAATATA
44206979 AAATGAAAGCCTTT
1 AAA-GAAAGCCTTT
44206993 CTGACAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 25 0.74
27 9 0.26
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAGAAAGCCTTTGTGGCATAATATA
Found at i:44209286 original size:27 final size:27
Alignment explanation
Indices: 44209256--44209473 Score: 183
Period size: 27 Copynumber: 8.2 Consensus size: 27
44209246 TTACACTGTT
* **
44209256 ATGATCGAAATATTCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * *
44209283 ATGACCGGAATACCCCTATATGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44209310 ATGACCGAAATACACCTATAGGGTA-A
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * *
44209336 ATAACCAAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44209363 ATGACCCAAATACCCCCATAAGGT-GAA
1 ATGACCGAAATACCCCCATAGGGTAG-A
** *
44209390 ATGACTAAAATACCCTC--AGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * * *
44209415 ATGACTGAAATACACCTATAGAGTAGT
1 ATGACCGAAATACCCCCATAGGGTAGA
*
44209442 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
44209469 ATGAC
1 ATGAC
44209474 AATTATACCC
Statistics
Matches: 150, Mismatches: 36, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
25 18 0.12
26 22 0.15
27 110 0.73
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAGA
Found at i:44209446 original size:52 final size:53
Alignment explanation
Indices: 44209273--44209473 Score: 178
Period size: 53 Copynumber: 3.8 Consensus size: 53
44209263 AAATATTCCC
* ** *
44209273 ATAGGGTAGAATGACCGGAATACCC-CTATATGGTAAAATGACCGAAATACACCT
1 ATAGAGTAGAATGACCAAAATACCCTC-A-AGGGTAAAATGACCGAAATACACCT
* * * * *
44209327 ATAGGGTA-AATAACCAAAATACCCTCATAGGGTAAAATGACCCAAATACCCCC
1 ATAGAGTAGAATGACCAAAATACCCTCA-AGGGTAAAATGACCGAAATACACCT
* * *
44209380 ATA-AGGT-GAAATGACTAAAATACCCTC-AGGGTAGAATGACTGAAATACACCT
1 ATAGA-GTAG-AATGACCAAAATACCCTCAAGGGTAAAATGACCGAAATACACCT
* * *
44209432 ATAGAGTAGTATGACCGAAATACCCCCATAGGGTAAAATGAC
1 ATAGAGTAGAATGACCAAAATACCCTCA-AGGGTAAAATGAC
44209474 AATTATACCC
Statistics
Matches: 119, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
52 39 0.33
53 43 0.36
54 37 0.31
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (53 bp):
ATAGAGTAGAATGACCAAAATACCCTCAAGGGTAAAATGACCGAAATACACCT
Found at i:44209457 original size:79 final size:80
Alignment explanation
Indices: 44209272--44209473 Score: 230
Period size: 79 Copynumber: 2.5 Consensus size: 80
44209262 GAAATATTCC
* * * * *
44209272 CATAGGGTAGAATGACCGGAATACCCCTATATGGTAAAATGACCGAAATACACCTATAGGGTAAA
1 CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCAAAATACACCTACAGGGTAAA
44209337 TAACCAAAATACCCT
66 TAACCAAAATACCCT
* * * *
44209352 CATAGGGTAAAATGACCCAAATACCCCCATAAGGTGAAATGACTAAAATAC-CCT-CAGGGTAGA
1 CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCAAAATACACCTACAGGGTA-A
* **
44209415 ATGACTGAAATACACCT
65 ATAACCAAAATAC-CCT
* * *
44209432 -ATAGAGTAGTATGACCGAAATACCCCCATAGGGTAAAATGAC
1 CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGAC
44209474 AATTATACCC
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 6 0.06
79 50 0.49
80 46 0.45
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (80 bp):
CATAGGGTAGAATGACCGAAATACCCCCATAAGGTAAAATGACCAAAATACACCTACAGGGTAAA
TAACCAAAATACCCT
Found at i:44209482 original size:106 final size:104
Alignment explanation
Indices: 44209304--44209502 Score: 260
Period size: 106 Copynumber: 1.9 Consensus size: 104
44209294 ACCCCTATAT
* *
44209304 GGTAAAATGACCGAAATACACCTATAGGGTAAATAACCAAAATACCCTCATAGGGTAAAATGACC
1 GGTAAAATGACCGAAATACACCTATAGAGTAAATAACCAAAATACCCCCATAGGGTAAAATGA-C
44209369 CAAATACCCCCATAAG-G-TGAAATGACTAAAATACCCTCAG
65 CAAATA-CCCC-TAAGAGATGAAATGACTAAAATACCCTCAG
* * * * *
44209409 GGTAGAATGACTGAAATACACCTATAGAGTAGTATGACCGAAATACCCCCATAGGGTAAAATGA-
1 GGTAAAATGACCGAAATACACCTATAGAGTA-AATAACCAAAATACCCCCATAGGGTAAAATGAC
44209473 CAATTATACCCCTAAGAGATGAAATGACTA
65 CAA--ATACCCCTAAGAGATGAAATGACTA
44209503 TAATGGGCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
104 7 0.09
105 33 0.40
106 42 0.51
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.20
Consensus pattern (104 bp):
GGTAAAATGACCGAAATACACCTATAGAGTAAATAACCAAAATACCCCCATAGGGTAAAATGACC
AAATACCCCTAAGAGATGAAATGACTAAAATACCCTCAG
Found at i:44210919 original size:13 final size:13
Alignment explanation
Indices: 44210885--44210917 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44210875 CGTGTTGTAG
44210885 TTGTATTTACTCA
1 TTGTATTTACTCA
*
44210898 TTGTATTTACTTA
1 TTGTATTTACTCA
44210911 -TGTATTT
1 TTGTATTT
44210918 TAGTTTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (13 bp):
TTGTATTTACTCA
Found at i:44232368 original size:9 final size:9
Alignment explanation
Indices: 44232354--44232390 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44232344 TATAGTTTGA
44232354 TATTCGAAT
1 TATTCGAAT
44232363 TATTCGAAT
1 TATTCGAAT
*
44232372 TATTCGAGT
1 TATTCGAAT
44232381 TATTCGAAT
1 TATTCGAAT
44232390 T
1 T
44232391 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44232985 original size:117 final size:117
Alignment explanation
Indices: 44232805--44233060 Score: 369
Period size: 120 Copynumber: 2.2 Consensus size: 117
44232795 TCTACCTAAA
*
44232805 TTAATAATAATTATATTAAAAATGTAATTAAATTATATTATTTTATTGAATTGTA-TT-TAATAA
1 TTAATAATAATTATATTAAAAATGTAATTAAATTATATTATTTTATTAAATTGTATTTATAATAA
44232868 TTATGTTAAAATATGATTAAATTATTT-ATTATGATTTTTATT-AATTCATAT
66 TTATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATT-ATAT
* * *
44232919 TCTAATAATAATTATATTAAGATTGTTATTAAATTATATATTATTTTATTAAATTGTATTTAATA
1 T-TAATAATAATTATATTAAAAATGTAATTAAA-T-TATATTATTTTATTAAATTGTATTT-ATA
* *
44232984 ATAATTATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
62 ATAATTATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
44233040 TTAATAATAATCT-TATTAAAA
1 TTAATAATAAT-TATATTAAAA
44233061 TTTAATAAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
114 1 0.01
115 28 0.22
116 1 0.01
117 21 0.17
118 2 0.02
120 50 0.40
121 19 0.15
122 4 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (117 bp):
TTAATAATAATTATATTAAAAATGTAATTAAATTATATTATTTTATTAAATTGTATTTATAATAA
TTATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
Found at i:44233059 original size:62 final size:61
Alignment explanation
Indices: 44232805--44233061 Score: 258
Period size: 62 Copynumber: 4.4 Consensus size: 61
44232795 TCTACCTAAA
* * *
44232805 TTAATAATAATTATATTAAAA-ATG--T-AATTAAATTA-TATTA-TTTTATTGAATTGTAT
1 TTAATAATAATTATATTAAAATATGATTAAATT-ATTTATTATTATTTTTATTAAATTATAT
* *
44232861 TTAAT-A--ATTATGTTAAAATATGATTAAATTATTTATTATGATTTTTATT-AATTCATAT
1 TTAATAATAATTATATTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATT-ATAT
* *
44232919 TCTAATAATAATTATATTAAGAT-TGTTATTAAATTA--TA-TATTA-TTTTATTAAATTGTAT
1 T-TAATAATAATTATATTAAAATATG--ATTAAATTATTTATTATTATTTTTATTAAATTATAT
* *
44232978 TTAATAATAATTATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
1 TTAATAATAATTATATTAAAATATGATTAAATTATTT-ATTATTATTTTTATTAAATTATAT
44233040 TTAATAATAATCT-TATTAAAAT
1 TTAATAATAAT-TATATTAAAAT
44233062 TTAATAAAAA
Statistics
Matches: 167, Mismatches: 13, Indels: 36
0.77 0.06 0.17
Matches are distributed among these distances:
53 11 0.07
54 3 0.02
55 1 0.01
56 10 0.06
57 21 0.13
58 30 0.18
59 18 0.11
60 10 0.06
61 8 0.05
62 45 0.27
63 10 0.06
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
TTAATAATAATTATATTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATTATAT
Found at i:44234044 original size:3 final size:3
Alignment explanation
Indices: 44234036--44234091 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
44234026 CATCAGAAAA
44234036 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
44234084 AAG AAG AA
1 AAG AAG AA
44234092 ATTGCCGCAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44242038 original size:15 final size:15
Alignment explanation
Indices: 44242018--44242050 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44242008 AACAAAGGGA
*
44242018 AGGAAAGGAGGGAGG
1 AGGAAAGGAGGGAAG
44242033 AGGAAAGGAGGGAAG
1 AGGAAAGGAGGGAAG
44242048 AGG
1 AGG
44242051 GGCGAAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (15 bp):
AGGAAAGGAGGGAAG
Found at i:44242463 original size:41 final size:41
Alignment explanation
Indices: 44242418--44242495 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
44242408 GAGTATGATA
44242418 AATTTGAATAATTAATTAGGCCCCAAAATTATTATTTGAAT
1 AATTTGAATAATTAATTAGGCCCCAAAATTATTATTTGAAT
*
44242459 AATTTGAATAATTAATTAGGTCCCAAAATTATTATTT
1 AATTTGAATAATTAATTAGGCCCCAAAATTATTATTT
44242496 TAGGAAGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (41 bp):
AATTTGAATAATTAATTAGGCCCCAAAATTATTATTTGAAT
Found at i:44242551 original size:10 final size:10
Alignment explanation
Indices: 44242512--44242553 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
44242502 GTTTTTAAAA
44242512 TTTT-AATTT
1 TTTTAAATTT
*
44242521 TTTTATATCTT
1 TTTTAAAT-TT
44242532 TTTTAGAATTT
1 TTTTA-AATTT
44242543 TTTTAAATTT
1 TTTTAAATTT
44242553 T
1 T
44242554 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 14 0.50
12 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:44242767 original size:9 final size:9
Alignment explanation
Indices: 44242753--44242777 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44242743 ACTTGACTTG
44242753 AACTCGAAT
1 AACTCGAAT
44242762 AACTCGAAT
1 AACTCGAAT
44242771 AACTCGA
1 AACTCGA
44242778 TTTGATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (9 bp):
AACTCGAAT
Found at i:44243310 original size:165 final size:166
Alignment explanation
Indices: 44243037--44243368 Score: 537
Period size: 165 Copynumber: 2.0 Consensus size: 166
44243027 ATGATAAAAT
* *
44243037 ATTTTTATTGGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTATT
1 ATTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAAT
44243102 AATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATA
66 AATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATA
*
44243167 GATT-AAATCTTAAGTTTCACCATAGTATAAAAGACA
131 GATTAAAAT-TTAAGTTTCAACATAGTATAAAAGACA
* *
44243203 ATTTTTATTAGAATAATGTTCTCAAG-AAAAAAATAATG-CAAGTATTTTGATTGAAATATTTAA
1 ATTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAA-CATTTTCATTGAAATATTTAA
* *
44243266 TAATATTTAACTATTTAAACTAACTAATGATAGATG-ATCAAATTATATTAGAAATTAAAGTATA
65 TAATATTTAACTATTTAAACTAACTAATGAAAGA-GAATCAAATTATATTAAAAATTAAAGTATA
*
44243330 TAGATTAAAATTTAAGTTTCAACATAGTATAGAAGACA
129 TAGATTAAAATTTAAGTTTCAACATAGTATAAAAGACA
44243368 A
1 A
44243369 AACTGAAATT
Statistics
Matches: 155, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
164 3 0.02
165 122 0.79
166 30 0.19
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (166 bp):
ATTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAAT
AATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATA
GATTAAAATTTAAGTTTCAACATAGTATAAAAGACA
Found at i:44243525 original size:16 final size:17
Alignment explanation
Indices: 44243504--44243575 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
44243494 TGTTTTTTTT
44243504 AAATATTT-AATATATA
1 AAATATTTAAATATATA
*
44243520 AAATATTTAAATATATC
1 AAATATTTAAATATATA
* *
44243537 AAATGAATTAGAT-TA-A
1 AAAT-ATTTAAATATATA
44243553 ATAAT-TTTAAATATA-A
1 A-AATATTTAAATATATA
44243569 AAATATT
1 AAATATT
44243576 AATTGATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
15 8 0.18
16 15 0.33
17 16 0.36
18 6 0.13
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATATTTAAATATATA
Found at i:44243584 original size:33 final size:33
Alignment explanation
Indices: 44243525--44243589 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
44243515 ATATAAAATA
**
44243525 TTTAAATATATCAAATGAATTAGATTAAATAAT
1 TTTAAATATAAAAAATGAATTAGATTAAATAAT
* *
44243558 TTTAAATATAAAAATATTAATT-GATTATATAA
1 TTTAAATATAAAAA-ATGAATTAGATTAAATAA
44243590 ATTATTCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (33 bp):
TTTAAATATAAAAAATGAATTAGATTAAATAAT
Found at i:44245023 original size:37 final size:38
Alignment explanation
Indices: 44244971--44245055 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 38
44244961 ACTCCAATAT
* *
44244971 ATGCATCAAAATGCTCCACCCTACACTCCAAAAT-GAA
1 ATGCACCAAAATGCTCCAACCTACACTCCAAAATAGAA
* * * * *
44245008 ATGCACCAAATTGCTCCAACCTATACTCTAAGATAGTA
1 ATGCACCAAAATGCTCCAACCTACACTCCAAAATAGAA
44245046 ATGCACCAAA
1 ATGCACCAAA
44245056 GTGCCATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 28 0.70
38 12 0.30
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.21
Consensus pattern (38 bp):
ATGCACCAAAATGCTCCAACCTACACTCCAAAATAGAA
Found at i:44245906 original size:12 final size:12
Alignment explanation
Indices: 44245886--44245924 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
44245876 GAAAAGGTAG
*
44245886 AAAACAAAAAAT
1 AAAACAAAAAAC
*
44245898 AAAATAAAAAAC
1 AAAACAAAAAAC
44245910 AAAAC-AAAAAC
1 AAAACAAAAAAC
44245921 AAAA
1 AAAA
44245925 GGCGCAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (12 bp):
AAAACAAAAAAC
Found at i:44254923 original size:51 final size:49
Alignment explanation
Indices: 44254797--44254990 Score: 201
Period size: 51 Copynumber: 3.9 Consensus size: 49
44254787 GAAAGCGATG
* * *
44254797 GTCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAAT-GATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATAGTTA
* *
44254846 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGCTTCA
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-TT-A
* * * ** *
44254898 ATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGTTAGTGATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGT--TA
* * *
44254949 GTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCGA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
44254991 TATCATTAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.03
50 38 0.32
51 75 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTTA
Found at i:44254990 original size:102 final size:101
Alignment explanation
Indices: 44254798--44254990 Score: 298
Period size: 102 Copynumber: 1.9 Consensus size: 101
44254788 AAAGCGATGG
*
44254798 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
*
44254863 TATGTGCAGGCTACTATGTGTACCGAATAGCTTCAA
66 TATGTGCAGGCTACTATGTGAACCGAATAGCTTCAA
* * * *
44254899 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGTTAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAG--AATGATAGGTCACATGTGTAGT
*
44254963 ACTATGTGTAGGCTACTATGTGAACCGA
64 ACTATGTGCAGGCTACTATGTGAACCGA
44254991 TATCATTAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.48
103 5 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGTGAACCGAATAGCTTCAA
Found at i:44259377 original size:16 final size:16
Alignment explanation
Indices: 44259352--44259384 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44259342 CCAAGAACAG
*
44259352 ACCTAGAATAAAAATT
1 ACCTAAAATAAAAATT
44259368 ACCTAAAATAAAAATT
1 ACCTAAAATAAAAATT
44259384 A
1 A
44259385 AACCTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ACCTAAAATAAAAATT
Found at i:44260577 original size:28 final size:28
Alignment explanation
Indices: 44260537--44260594 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
44260527 GAGTCTACCG
44260537 GACCCTAAAAGTAGTTTAAAAATAGGCA
1 GACCCTAAAAGTAGTTTAAAAATAGGCA
44260565 GACCCTAAAAGTAGTTTAAAAATAGGCA
1 GACCCTAAAAGTAGTTTAAAAATAGGCA
44260593 GA
1 GA
44260595 GACTAATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (28 bp):
GACCCTAAAAGTAGTTTAAAAATAGGCA
Found at i:44263256 original size:13 final size:13
Alignment explanation
Indices: 44263238--44263262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44263228 ATAGCTTCAT
44263238 AAATATTTATTAA
1 AAATATTTATTAA
44263251 AAATATTTATTA
1 AAATATTTATTA
44263263 GTCTGATTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:44277075 original size:3 final size:3
Alignment explanation
Indices: 44277067--44277095 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44277057 CTCATGCTTA
44277067 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
44277096 AGACAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:44278432 original size:19 final size:19
Alignment explanation
Indices: 44278410--44278447 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44278400 TCAATCATCC
44278410 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
44278429 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
44278448 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:44283783 original size:56 final size:50
Alignment explanation
Indices: 44283573--44283819 Score: 332
Period size: 50 Copynumber: 4.8 Consensus size: 50
44283563 ATCATAACAC
* * * * *
44283573 GCCAAAGCCATGTCCCAGACATGGTGTTACAGGGGACCTCTCATCTCAGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGT
44283623 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGT
* *
44283673 GCCAACGCCATGTCACAAACATGGTCTTACATGGGACCTCTCGTCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGT
* *
44283723 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCGTGATCTCAAGGAT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TCTC--GG-T
* * *
44283779 GCCAATGCCATGTCCCAGACATGGTCTTACACGGGATCTCT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44283820 TTACCCAAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
50 131 0.74
52 1 0.01
53 4 0.02
55 2 0.01
56 39 0.22
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (50 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGT
Found at i:44291144 original size:50 final size:50
Alignment explanation
Indices: 44291029--44291271 Score: 317
Period size: 50 Copynumber: 4.8 Consensus size: 50
44291019 GATCATAACA
* **
44291029 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCA-CATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATC-TCGG
* * * *
44291080 TGCCCATGGCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
44291130 TGCCAGCGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
44291180 TGACAACACCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
44291230 TGCCAATGCCATGTTCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44291272 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 135 0.80
51 34 0.20
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44294833 original size:23 final size:23
Alignment explanation
Indices: 44294803--44294856 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
44294793 TTTAGTGGGT
44294803 TAATAGGGAGTGAGCTTTGGAGA
1 TAATAGGGAGTGAGCTTTGGAGA
*
44294826 TAATAGGGAGTGAGTTTTGGAGA
1 TAATAGGGAGTGAGCTTTGGAGA
44294849 TAATAGGG
1 TAATAGGG
44294857 CAGAGGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.39, T:0.28
Consensus pattern (23 bp):
TAATAGGGAGTGAGCTTTGGAGA
Found at i:44298177 original size:18 final size:18
Alignment explanation
Indices: 44298154--44298188 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44298144 ATTGCAAGGA
44298154 ATGTGGTTCACCAAATCG
1 ATGTGGTTCACCAAATCG
44298172 ATGTGGTTCACCAAATC
1 ATGTGGTTCACCAAATC
44298189 TTGAACTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
ATGTGGTTCACCAAATCG
Found at i:44305740 original size:17 final size:16
Alignment explanation
Indices: 44305718--44305770 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
44305708 AAATGCTCGT
44305718 GAAAAAAAAGAAAAAAA
1 GAAAAAAAA-AAAAAAA
*
44305735 GAAAAAGAAAAATAAAA
1 GAAAAA-AAAAAAAAAA
*
44305752 GAAAAAGAACAAAAAAA
1 GAAAAA-AAAAAAAAAA
44305769 GA
1 GA
44305771 GAGCATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 29 0.91
18 3 0.09
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:44305745 original size:11 final size:10
Alignment explanation
Indices: 44305719--44305770 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 10
44305709 AATGCTCGTG
44305719 AAAAAAAAGA
1 AAAAAAAAGA
44305729 AAAAAAGAA-A
1 AAAAAA-AAGA
* *
44305739 AAGAAAAATA
1 AAAAAAAAGA
44305749 AAAGAAAAAGA
1 AAA-AAAAAGA
44305760 ACAAAAAAAGA
1 A-AAAAAAAGA
44305771 GAGCATATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 2 0.06
10 15 0.43
11 16 0.46
12 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:44306502 original size:10 final size:10
Alignment explanation
Indices: 44306461--44306500 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
44306451 ATTAAATTTT
44306461 TTAATTTTAA
1 TTAATTTTAA
44306471 TTAATTTTATAA
1 TTAA-TTT-TAA
*
44306483 TTAATTTTGA
1 TTAATTTTAA
44306493 TTAATTTT
1 TTAATTTT
44306501 GAAATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 14 0.52
11 6 0.22
12 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:44309695 original size:28 final size:28
Alignment explanation
Indices: 44309661--44309858 Score: 251
Period size: 28 Copynumber: 7.1 Consensus size: 28
44309651 GTGACAGTAC
*
44309661 AGTGTGGGCCTTAGCCCAATATAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* *
44309689 AGTGTGGGCTTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
44309717 AGTGTGGGCCTTAGCCCAATACA-TAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
* *
44309744 CAGTGTGGGACTTAGCCCAATATAG-AATT
1 -AGTGTGGGCCTTAGCCCAATACAGTAA-T
* * *
44309773 AGTGTGGGCCTTAGCCTAATACAATAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
44309801 AGTGTGGGCCTTAG-CCAATACA-AAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
44309827 CAGTGTGGGCCTTAGCCCAATACAATAAT
1 -AGTGTGGGCCTTAGCCCAATACAGTAAT
44309856 AGT
1 AGT
44309859 ACAGTGCAAT
Statistics
Matches: 147, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.01
27 24 0.16
28 115 0.78
29 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:44309776 original size:84 final size:83
Alignment explanation
Indices: 44309660--44309858 Score: 310
Period size: 84 Copynumber: 2.4 Consensus size: 83
44309650 AGTGACAGTA
* *
44309660 CAGTGTGGGCCTTAGCCCAATATAGTAATAGTGTGGGCTTTAGCCCAATACAGTAACAGTGTGGG
1 CAGTGTGGGCCTTAGCCCAATATAGTAATAGTGTGGGCCTTAGCCCAATACAATAACAGTGTGGG
*
44309725 CCTTAGCCCAATACATAAT
66 CCTTAG-CCAATACAAAAT
* *
44309744 CAGTGTGGGACTTAGCCCAATATAG-AATTAGTGTGGGCCTTAGCCTAATACAATAACAGTGTGG
1 CAGTGTGGGCCTTAGCCCAATATAGTAA-TAGTGTGGGCCTTAGCCCAATACAATAACAGTGTGG
44309808 GCCTTAGCCAATACAAAAT
65 GCCTTAGCCAATACAAAAT
* *
44309827 CAGTGTGGGCCTTAGCCCAATACAATAATAGT
1 CAGTGTGGGCCTTAGCCCAATATAGTAATAGT
44309859 ACAGTGCAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
83 39 0.37
84 66 0.63
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (83 bp):
CAGTGTGGGCCTTAGCCCAATATAGTAATAGTGTGGGCCTTAGCCCAATACAATAACAGTGTGGG
CCTTAGCCAATACAAAAT
Found at i:44309994 original size:26 final size:27
Alignment explanation
Indices: 44309965--44310035 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
44309955 ACCAATATCG
*
44309965 CAGCAAAGCTACCAGTAAT-AGCATCA
1 CAGCAAAGCTGCCAGTAATCAGCATCA
* * *
44309991 CAGCAGAGCTGCCAGT-ATCAGTATCG
1 CAGCAAAGCTGCCAGTAATCAGCATCA
*
44310017 TAGCAAAGCTGCCAGTAAT
1 CAGCAAAGCTGCCAGTAAT
44310036 TATATATGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.05
26 33 0.89
27 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.18
Consensus pattern (27 bp):
CAGCAAAGCTGCCAGTAATCAGCATCA
Found at i:44310268 original size:27 final size:27
Alignment explanation
Indices: 44310238--44310351 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 27
44310228 TAATCTTCTA
*
44310238 GGGGTATAAAGATCATTTTACCCTTAG
1 GGGGTATAAAGATAATTTTACCCTTAG
* * *
44310265 GGGGTATTACGGTAATTTTACCCTTA-
1 GGGGTATAAAGATAATTTTACCCTTAG
** *
44310291 GGGGTATTTTA-ATAATTTTACCCTTTG
1 GGGGTA-TAAAGATAATTTTACCCTTAG
* ** *
44310318 AGGGTATTTTAG-TAATTTTACCCTTTG
1 GGGGTA-TAAAGATAATTTTACCCTTAG
*
44310345 AGGGTAT
1 GGGGTAT
44310352 TTCGGTAATT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 20 0.27
27 55 0.73
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATAAAGATAATTTTACCCTTAG
Found at i:44310352 original size:27 final size:27
Alignment explanation
Indices: 44310250--44310692 Score: 414
Period size: 27 Copynumber: 16.4 Consensus size: 27
44310240 GGTATAAAGA
* * *
44310250 TCATTTTACCCTTAGGGGGTATTACGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * ***
44310277 TAATTTTACCCTTAG-GGGTATTTTAA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
44310303 TAATTTTACCCTTTGAGGGTATTTTAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
44310330 TAATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
44310357 TAATTTTA-CATTTCGAGGGTATTTTGG
1 TCATTTTACCCTTT-GAGGGTATTTCGG
* **
44310384 TCATTTTA-CCTTTCGGGGGTATTTCAA
1 TCATTTTACCCTTT-GAGGGTATTTCGG
* *
44310411 TCATTTTACCC-TTCAGGGGTATTTCGA
1 TCATTTTACCCTTTGA-GGGTATTTCGG
**
44310438 TCATTTTACCCTTCAAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
44310465 TCATTTTA-CCTATTGGGGGTATTTCGG
1 TCATTTTACCCT-TTGAGGGTATTTCGG
* *
44310492 TCATTTTACCCTTTGGGGGTATTTTGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
44310519 TCATTTTA-CCTTTCAAGGGTATTTTAG
1 TCATTTTACCCTTT-GAGGGTATTTCGG
* * *
44310546 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
44310573 TCATTCTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
44310600 TCATTTTACCCTAT-AGAGGTATTTCGG
1 TCATTTTACCCTTTGAG-GGTATTTCGG
* * *
44310627 TCAATTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
44310654 TCATTTTACCCTATCAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
44310681 TCATTTTACCCT
1 TCATTTTACCCT
44310693 ATGGGGGTCT
Statistics
Matches: 357, Mismatches: 48, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
26 35 0.10
27 310 0.87
28 12 0.03
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTTGAGGGTATTTCGG
Found at i:44310422 original size:81 final size:81
Alignment explanation
Indices: 44310248--44310690 Score: 457
Period size: 81 Copynumber: 5.5 Consensus size: 81
44310238 GGGGTATAAA
* * * * * * ** *
44310248 GATCATTTTACCCTTAGGGGGTATTACGGTAATTTTACCCTTAG-GGGTATTTTAATAATTTTAC
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTAC
*
44310312 CCTTTGAGGGTATTT-
66 CCTTTGGGGGTATTTC
* * * *
44310327 TAGTAATTTTACCCTTTGAGGGTATTTCGGTAATTTTACATTTCGAGGGTATTTTGGTCATTTTA
1 GA-TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTA
44310392 -CCTTTCGGGGGTATTTC
65 CCCTTT-GGGGGTATTTC
* * * * * *
44310409 AATCATTTTACCC-TTCAGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTCATTTTA
1 GATCATTTTACCCTTTGA-GGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTA
44310473 -CCTATTGGGGGTATTTC
65 CCCT-TTGGGGGTATTTC
* * * * *
44310490 GGTCATTTTACCCTTTGGGGGTATTTTGGTCATTTTACCTTTCAAGGGTATTTTAGTCATTTTAC
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTAC
*
44310555 CCTATGGGGGTATTTC
66 CCTTTGGGGGTATTTC
* * * * * * *
44310571 GATCATTCTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAGA-GGTATTTCGGTCAATTTA
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTA-CCTTTCGAGGGTATTTTGGTCATTTTA
*
44310635 CCCTATGGGGGTATTTC
65 CCCTTTGGGGGTATTTC
* * * *
44310652 GGTCATTTTACCCTATCAGGGTATTTCAGTCATTTTACC
1 GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
44310691 CTATGGGGGT
Statistics
Matches: 309, Mismatches: 46, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.00
80 45 0.15
81 250 0.81
82 13 0.04
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (81 bp):
GATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTTGGTCATTTTAC
CCTTTGGGGGTATTTC
Found at i:44313501 original size:50 final size:50
Alignment explanation
Indices: 44313399--44313639 Score: 225
Period size: 50 Copynumber: 4.7 Consensus size: 50
44313389 GGAATGAGAC
* * *
44313399 CCCATGTAAGACCATGTTTGGGACATGGCATTGGAATTATTGAGGTTATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACTGA-G--ATGAGAGGT
44313455 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
** * * * * **
44313505 CCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
* * * * * * **
44313555 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAGGAAACAT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
*
44313604 CTCATGTAAGACCATGTCTGGGACATGG-ATTTGGCA
1 CCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
44313640 TGTTATTATC
Statistics
Matches: 157, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 81 0.52
52 1 0.01
53 4 0.03
56 33 0.21
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
Found at i:44313987 original size:25 final size:25
Alignment explanation
Indices: 44313957--44314029 Score: 146
Period size: 25 Copynumber: 2.9 Consensus size: 25
44313947 ATTTATTTGC
44313957 TTGTAAACTTACTAAGCTTTACGCT
1 TTGTAAACTTACTAAGCTTTACGCT
44313982 TTGTAAACTTACTAAGCTTTACGCT
1 TTGTAAACTTACTAAGCTTTACGCT
44314007 TTGTAAACTTACTAAGCTTTACG
1 TTGTAAACTTACTAAGCTTTACG
44314030 TTTACTCCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (25 bp):
TTGTAAACTTACTAAGCTTTACGCT
Found at i:44316028 original size:21 final size:21
Alignment explanation
Indices: 44315985--44316030 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
44315975 AATTGGGAGG
* * *
44315985 TCTACCAATACAACTCTGGGT
1 TCTACCAATACAACCCAGAGT
*
44316006 TCTACCGATACAACCCAGAGT
1 TCTACCAATACAACCCAGAGT
44316027 TCTA
1 TCTA
44316031 TCGGTAGAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (21 bp):
TCTACCAATACAACCCAGAGT
Found at i:44337364 original size:22 final size:21
Alignment explanation
Indices: 44337331--44337375 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
44337321 ACGAAAAAAA
44337331 AACAGAAAAAATAAATAAAGC
1 AACAGAAAAAATAAATAAAGC
* *
44337352 AACATAAATAAATAATTAAAGC
1 AACAGAAA-AAATAAATAAAGC
44337374 AA
1 AA
44337376 AACTTGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (21 bp):
AACAGAAAAAATAAATAAAGC
Found at i:44338205 original size:46 final size:46
Alignment explanation
Indices: 44338155--44338245 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
44338145 AATGGAATAA
* *
44338155 TAGAGAATTAATTATT-GTGTTAAATAATTATATGAGATTGTTTTAG
1 TAGAGAATTAATTATTAG-ATTAAATAATTATATAAGATTGTTTTAG
* *
44338201 TAGAGAATTAGTTATTAGATTAAATAATTATATAAGCTTGTTTTA
1 TAGAGAATTAATTATTAGATTAAATAATTATATAAGATTGTTTTA
44338246 ATTGAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 39 0.98
47 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (46 bp):
TAGAGAATTAATTATTAGATTAAATAATTATATAAGATTGTTTTAG
Found at i:44338990 original size:18 final size:18
Alignment explanation
Indices: 44338963--44338997 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44338953 TAAACAAGTG
44338963 AGGTAACTTTTGAATTAC
1 AGGTAACTTTTGAATTAC
* *
44338981 AGGTATCTTTTTAATTA
1 AGGTAACTTTTGAATTA
44338998 TAACTATCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (18 bp):
AGGTAACTTTTGAATTAC
Found at i:44340669 original size:22 final size:22
Alignment explanation
Indices: 44340644--44340694 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
44340634 CTCTCTAATC
* *
44340644 CTCTCAATTTTCTTCCAAACTT
1 CTCTCAATTTCCTTCCAAAATT
44340666 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44340688 CTCTCAA
1 CTCTCAA
44340695 ACTCATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:44340776 original size:30 final size:31
Alignment explanation
Indices: 44340740--44340803 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
44340730 CTCAAATCCA
*
44340740 TTTTTTAAAATAATTAT-AATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTGTTATAT
*
44340770 TTTTTTAAAATAATTTTAAATTTTGTTATAT
1 TTTTTTAAAATAATTATAAATTTTGTTATAT
44340801 TTT
1 TTT
44340804 CATCAATGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTGTTATAT
Found at i:44342590 original size:124 final size:125
Alignment explanation
Indices: 44342360--44342697 Score: 579
Period size: 127 Copynumber: 2.7 Consensus size: 125
44342350 CGCAAACTTG
*
44342360 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTTG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* * *
44342425 TAGAAACAATTTTATACTATTTGTTCAGAAACATC-AAAAAAATTTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAAAAAAAATTTATTTCTTACATGAC
*
44342484 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAAAAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
44342549 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATC--AAAAAAAATTTATTTCTTACATGAC
* *
44342611 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
44342676 TAGAAGCGATTTTATACTATTT
66 TAGAAACGATTTTATACTATTT
44342698 TACCAGAGAC
Statistics
Matches: 202, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
124 95 0.47
127 107 0.53
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAAAAAAAATTTATTTCTTACATGAC
Found at i:44344012 original size:6 final size:6
Alignment explanation
Indices: 44343978--44344008 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
44343968 TCTAATAAAT
44343978 TATTAA TATTAA TATTAA TATTAA TA-TAA TA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TA
44344009 ATAAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TATTAA
Found at i:44348081 original size:131 final size:130
Alignment explanation
Indices: 44347695--44348168 Score: 604
Period size: 131 Copynumber: 3.6 Consensus size: 130
44347685 GACTATCATT
* * * *
44347695 TGATTTATGATCGCAACCTAATTTCATTTGAATTAAGATCATGAACAATTTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTCA-TTCAATTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * * * ** *
44347760 TGATTTAAGGTCGC-ACTACAAACAACTCGTTGATTTAAGGTCGCAGATGATATTATTAAGGTTC
65 TAATTTAAGATCGCAACTCCGAACAACTCATTGATTTAATATC-TAGATGATATTATTAAGGTTC
44347824 GC
129 GC
* * *
44347826 TGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACAATTTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTCATTCAA-TTAAGATCATGAACAATTTTTATTTGAGTTAGC
* *
44347891 TAATTTAAGATCGCAACTCCGAAGAACTCATTGATTTAATATCTCA-ACTGATATCATTAAGGTT
65 TAATTTAAGATCGCAACTCCGAACAACTCATTGATTTAATATCT-AGA-TGATATTATTAAGGTT
*
44347955 CAC
128 CGC
*
44347958 TGATTTAAGATCACAACCTAAGTTCATTCAATTTAAGATCATGAA-AAATTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTCATTCAA-TTAAGATCATGAACAATTTTTATTTGAGTTAGC
* * * *
44348022 TAATTTATGATCGCAACTCCGAACAGCTCACTT-TTTTAATATCATAGTTGATATTATTAAGGTT
65 TAATTTAAGATCGCAACTCCGAACAACTCA-TTGATTTAATATC-TAGATGATATTATTAAGGTT
44348086 CGC
128 CGC
44348089 TGATTTAAGATCACAACCTAAGTTCGA-T--A-TAAGATCATGAACAATTTTTATTTGAGTTAGC
1 TGATTTAAGATCACAACCTAAGTTC-ATTCAATTAAGATCATGAACAATTTTTATTTGAGTTAGC
44348150 TAATTTAAGATCGCAACTC
65 TAATTTAAGATCGCAACTC
44348169 TGAAAAGCTT
Statistics
Matches: 303, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
127 12 0.04
128 36 0.12
129 1 0.00
130 4 0.01
131 164 0.54
132 86 0.28
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (130 bp):
TGATTTAAGATCACAACCTAAGTTCATTCAATTAAGATCATGAACAATTTTTATTTGAGTTAGCT
AATTTAAGATCGCAACTCCGAACAACTCATTGATTTAATATCTAGATGATATTATTAAGGTTCGC
Found at i:44348422 original size:132 final size:132
Alignment explanation
Indices: 44348183--44349873 Score: 1757
Period size: 132 Copynumber: 12.8 Consensus size: 132
44348173 AAGCTTGCTT
* * * *
44348183 ATTTAAGATCGCAACTTAAATTCATTGGATTTAAGATCATGAACAATTTTCATTTGAGTTA-CTT
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGC-T
* * * ** * * *
44348247 GATTTAATATCGTAGCTCAAAACAACTCGTTGATTTAAAATCGTAGCTGATATTATTAAAGTTCG
65 GATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
44348312 CTG
130 CTG
** * * *
44348315 ATTTAAGATCATAACCTAAGTTCATTCGATTTAAGATCATTAACAATTTTCATTTGAGTTAGTTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * ** *
44348380 ATTTCATATTGCAACTCTGAACAGCTCATTGATTTAAGATCGTAGAAGATATTATTAAGCTTCGC
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
*
44348445 TT
131 TG
* ** *
44348447 ATTTAAGATCTCAACCTAAGTTCATTTTATTTAAGATCATGAACAATTTTTATTTTAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * * * *
44348512 ATTTAAGATTGCAACTATGGATAGCTCGTTGATTTAAGATTGCAGTTGATATTATTAATGTTCAC
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
44348577 TG
131 TG
* * * * *
44348579 ATTTAAGATTGCAACCTAAGTTCATTCGATTTAAGATCATTAATAATTTTTATTTGTGTTACCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * * ** *
44348644 ATTTAAAATTGTAACTCCGAATAACTCATTGATTTAAGATATCAACTGATATTATTAAGGTAT-G
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGT-TCG
*
44348708 CTA
130 CTG
* * * *
44348711 ATTTAAGATCGCAACCTAAGTTAATTC-ACTTTAAAATCAAGAACAAATTTTATTTGAGTTAGCT
1 ATTTAAGATCGCAACCTAAGTTCATTCGA-TTTAAGATCATGAACAATTTTTATTTGAGTTAGCT
* * * * *
44348775 GATTTAAGATCGCAACTCCGAACAACTCGCTGATTTAAGATCACAACTGATATTATTTAGGTTCG
65 GATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
*
44348840 TTG
130 CTG
** * * * * *
44348843 ATTTATTATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATTTTATTTGAGTTAGTTA
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * *
44348908 ATTTAAGATTGCAACTCCGAACCACTCGCTT-ATTTAAGATCGCAACTGATATTATTAAGGTCCA
66 ATTTAAGATCGCAACTCTGAACAACTCG-TTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
*
44348972 CTT
130 CTG
* * * * * * * *
44348975 ATTTAATATTGCAACCTAAGTTCATTGGATTTAAGGTTACGGACAATTTTTATTTGAGTTACCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* ** * * * ** * * *
44349040 ATTTAATATCATAACT-TCGAACAACTCGCTAATTTAATATTACAGCTAAAATTATTAAGGTTTG
66 ATTTAAGATCGCAACTCT-GAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
44349104 CTG
130 CTG
* * *
44349107 ATTTAAGATCACAACCTAATTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGTTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * ** *
44349172 ATTTAAGATAGCAACTCTGAATACCTCGTTGATTTAAGATCACAAG-TGATATTATTAACATTTG
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGC-AGCTGATATTATTAAGGTTCG
*
44349236 TTG
130 CTG
* * *
44349239 ATTTAAGATCGCAGCCTAAGTTCATTCGATTTAAGATCATGAACAATTTTCATTTGAGTTAGTTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * * ** *
44349304 ATTTAATATCGCAAC-CTCGAAGAACTTGCTGATTTAATATCGCAATTGATTTTATTAAGGTTCG
66 ATTTAAGATCGCAACTCT-GAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
44349368 CTG
130 CTG
* * * *
44349371 ATCTAATATCGCAACCTAATTTCATTCGATTTGAGATCATGAACAATTTTTATTTGAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * *
44349436 ATTTAAAATCGC-ACTAC-AAACAACTCGTTGATTTAAGGTCGTAGTTGATATTATTAAGGTTCG
66 ATTTAAGATCGCAACT-CTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
44349499 CTG
130 CTG
* * * * * *
44349502 ATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * ** * * * * * *
44349567 ATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATCTCAACGGATATTATTAAGGTTCTC
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
44349632 TG
131 TG
* * * *
44349634 ATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* * * * **
44349699 ATTTAAGATCACAACTCTGAACAATTCACTT-ATTTAAGATCACATTTGATATTATTAAGGTTCG
66 ATTTAAGATCGCAACTCTGAACAACTC-GTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCG
*
44349763 TTG
130 CTG
* * *
44349766 ATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAGCTA
1 ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
* ** *
44349830 ATTTAAGATCGCAACTCCGAACAGTTCGCTGATTTAAGATCGCA
66 ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCA
44349874 ACCTAAGTTA
Statistics
Matches: 1297, Mismatches: 244, Indels: 37
0.82 0.15 0.02
Matches are distributed among these distances:
130 1 0.00
131 159 0.12
132 1128 0.87
133 9 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (132 bp):
ATTTAAGATCGCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTG
ATTTAAGATCGCAACTCTGAACAACTCGTTGATTTAAGATCGCAGCTGATATTATTAAGGTTCGC
TG
Found at i:44348516 original size:65 final size:65
Alignment explanation
Indices: 44348299--44349844 Score: 295
Period size: 65 Copynumber: 23.5 Consensus size: 65
44348289 GTAGCTGATA
* * * *
44348299 TTATTAAAGTTCGCTGATTTAAGATCAT-AACCTAAGTTCATTCGATTTAAGATCATTAACAATT
1 TTATTTAAGTTAGCTGATTTAAGATC-TCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
44348363 T
65 T
* * * * * * *
44348364 TCATTTGAGTTAGTTGATTTCATAT-TGCAACTCTGAACAGCTCA-TTGATTTAAGATCGTAGAA
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAAC-CT--A-AGTTCATTTGATTTAAGATCAT-GAA
* *
44348427 -GA-TA
60 CAATTT
* * *
44348431 TTA-TTAAGCTTCGCTTATTTAAGATCTCAACCTAAGTTCATTTTATTTAAGATCATGAACAATT
1 TTATTTAAG-TTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
44348495 T
65 T
* * * *
44348496 TTATTTTAGTTAGCTGATTTAAGAT-TGCAACTATGGATAGCTC-GTTGATTTAAGAT--TG--C
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAAC-CT--A-AGTTCATTTGATTTAAGATCATGAAC
*
44348555 AGTTGAT
61 AATT--T
* * *
44348562 ATTA-TTAATGTTCA-CTGATTTAAGAT-TGCAACCTAAGTTCATTCGATTTAAGATCATTAATA
1 -TTATTTAA-GTT-AGCTGATTTAAGATCT-CAACCTAAGTTCATTTGATTTAAGATCATGAACA
44348624 ATTT
62 ATTT
** * * * * *
44348628 TTATTTGTGTTACCTGATTTAAAAT-TGTAACTCCGAATAA-CTCA-TTGATTTAAGAT-ATCAA
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAA--CC---TAAGTTCATTTGATTTAAGATCATGAA
* *
44348689 CTGA-TA
60 C-AATTT
* * * * * * * *
44348695 TTA-TTAAGGTATGCTAATTTAAGATCGCAACCTAAGTT-AATTCACTTTAAAATCAAGAACAAA
1 TTATTTAAGTTA-GCTGATTTAAGATCTCAACCTAAGTTCATTTGA-TTTAAGATCATGAACAAT
44348758 TT
64 TT
* * * ** ** *
44348760 TTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAACAACTC-GCTGATTTAAGATCA-CAACT
1 TTATTTAAGTTAGCTGATTTAAGATCTCAA--CC-TA-AGTTCATTTGATTTAAGATCATGAAC-
* *
44348823 GA-TA
61 AATTT
* * * ** * ** *
44348827 TTATTTAGGTTCGTTGATTTATTATCACAACCTAAGTTCATTCAATTTAAGATCATGAACAAATT
1 TTATTTAAGTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTT
* * * * ** **
44348892 TTATTTGAGTTAGTTAATTTAAGAT-TGCAACTCCGAACCACTCGCTT-ATTTAAGATC--GCAA
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAA--CCTAA--GTTCATTTGATTTAAGATCATG-AA
* *
44348953 CTGA-TA
60 C-AATTT
* * * * * * * *
44348959 TTA-TTAAGGTCCA-CTTATTTAATAT-TGCAACCTAAGTTCATTGGATTTAAGGTTACGGACAA
1 TTATTTAA-GT-TAGCTGATTTAAGATCT-CAACCTAAGTTCATTTGATTTAAGATCATGAACAA
44349021 TTT
63 TTT
* * * * ** ** * * * * *
44349024 TTATTTGAGTTACCTGATTTAATATCAT-AACTTCGAACAACTC-GCTAATTTAATATTA-CAGC
1 TTATTTAAGTTAGCTGATTTAAGATC-TCAAC--C-TA-AGTTCATTTGATTTAAGATCATGAAC
**
44349086 TAA-AA
61 -AATTT
* * * *
44349091 TTA-TTAAGGTTTGCTGATTTAAGATCACAACCTAATTTCATTCGATTTAAGATCATGAACAATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
44349155 T
65 T
* * ** * * * *
44349156 TTATTTGAGTTAGTTGATTTAAGATAGCAACTCTGAA-TACCTCGTTGATTTAAGATCA-CAAGT
1 TTATTTAAGTTAGCTGATTTAAGATCTCAAC-CT-AAGTTCAT--TTGATTTAAGATCATGAA-C
* *
44349219 GA-TA
61 AATTT
* * * * * *
44349223 TTA-TTAACATTTGTTGATTTAAGATCGCAGCCTAAGTTCATTCGATTTAAGATCATGAACAATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
44349287 T
65 T
* * * * * ** *
44349288 TCATTTGAGTTAGTTGATTTAATATCGCAACCTCGAAGAAC-TTGCTGATTTAATATC--G--CA
1 TTATTTAAGTTAGCTGATTTAAGATCTCAACCT--AAGTTCATT--TGATTTAAGATCATGAACA
44349348 ATTGAT
62 ATT--T
* * * * * * *
44349354 TT-TATTAAGGTTCGCTGATCTAATATCGCAACCTAATTTCATTCGATTTGAGATCATGAACAAT
1 TTAT-TTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAAT
44349418 TT
64 TT
* * * ** ** * * * ***
44349420 TTATTTGAGTTAGCTGATTTAAAATCGCACTACAAACAACTC-GTTGATTTAAGGTCGT-AGTTG
1 TTATTTAAGTTAGCTGATTTAAGATCTCA--ACCTA-AGTTCATTTGATTTAAGATCATGA-ACA
*
44349483 A-TA
62 ATTT
* * * ** * * *
44349486 TTA-TTAAGGTTCGCTGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
44349550 T
65 T
* * * * *
44349551 TTATTTGAGTTAGCTGATTTAAAAT-TGCAACTCCAAAGAACTCA-TTGATTTAAGATC-TCAAC
1 TTATTTAAGTTAGCTGATTTAAGATCT-CAA--CCTAAG--TTCATTTGATTTAAGATCATGAAC
* *
44349613 GGA-TA
61 -AATTT
** * * * **
44349618 TTA-TTAAGGTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATT
1 TTATTTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATT
44349682 T
65 T
* * * * *
44349683 TTATTTGAGTTAGCTAATTTAAGATCACAACTCTGAACAATTCACTT-ATTTAAGATC----AC-
1 TTATTTAAGTTAGCTGATTTAAGATCTCAAC-CT--A-AGTTCATTTGATTTAAGATCATGAACA
44349742 ATTT
62 ATTT
* * * * *
44349746 GATATTATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACA
1 -TTA-T-TTAA-GTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACA
44349811 ATTT
62 ATTT
* * *
44349815 TTATTTGAG-TAGCTAATTTAAGATCGCAAC
1 TTATTTAAGTTAGCTGATTTAAGATCTCAAC
44349845 TCCGAACAGT
Statistics
Matches: 1052, Mismatches: 289, Indels: 281
0.65 0.18 0.17
Matches are distributed among these distances:
62 4 0.00
63 42 0.04
64 162 0.15
65 278 0.26
66 123 0.12
67 266 0.25
68 137 0.13
69 37 0.04
70 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (65 bp):
TTATTTAAGTTAGCTGATTTAAGATCTCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTT
Found at i:44349834 original size:64 final size:63
Alignment explanation
Indices: 44349502--44349844 Score: 182
Period size: 67 Copynumber: 5.2 Consensus size: 63
44349492 AGGTTCGCTG
* * * * *
44349502 ATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGAGTTAGCTG
1 ATTTAAGATCACAACCTAAGTTCATT--ATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
* ** * * * * * *
44349567 ATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATC-TCAACGGA-TATTA-TTAAGGTT
1 ATTTAAGATCACAA--CCTAAG--TTCATT-ATTTAAGATCATGAAC-AATTTTTATTTGA-GTT
** *
44349629 CTCTG
59 AGCTA
* * *
44349634 ATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
1 ATTTAAGATCACAACCTAAGTTCATT--ATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
* * *
44349699 ATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATC----AC-ATTTGATATTATTAAGG
1 ATTTAAGATCACAAC-CT--A-AGTTCA-TTATTTAAGATCATGAACAATTT-TTA-T-TTGA-G
* * *
44349759 TTCGTTG
57 TTAGCTA
44349766 ATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-TAGCTA
1 ATTTAAGATCACAACCTAAGTTCATT--ATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
*
44349830 ATTTAAGATCGCAAC
1 ATTTAAGATCACAAC
44349845 TCCGAACAGT
Statistics
Matches: 212, Mismatches: 40, Indels: 53
0.70 0.13 0.17
Matches are distributed among these distances:
62 2 0.01
63 14 0.07
64 43 0.20
65 43 0.20
66 15 0.07
67 54 0.25
68 25 0.12
69 14 0.07
70 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (63 bp):
ATTTAAGATCACAACCTAAGTTCATTATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTA
Found at i:44349868 original size:95 final size:97
Alignment explanation
Indices: 44349758--44349971 Score: 328
Period size: 95 Copynumber: 2.2 Consensus size: 97
44349748 TATTATTAAG
* *
44349758 GTTCGTTGATTTAAGATCACAACCTAAGTTCA-TTGGATTTAAGATCATGAACAATTTTTATTTG
1 GTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTG
44349822 AG-TAGCTAATTTAAGATCGCAACTCCGAAC-A
65 AGTTAGCTAATTTAAGATCGCAACTCCGAACAA
44349853 GTTCGCTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGA
1 GTTCGCTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGA
* * *
44349918 GTTAGTTTATTTAAGATCGTAACTCCGAACAA
66 GTTAGCTAATTTAAGATCGCAACTCCGAACAA
* *
44349950 CTT-ACTGATTTAAGATCGCAAC
1 GTTCGCTGATTTAAGATCGCAAC
44349972 TGATATTATT
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
94 1 0.01
95 62 0.57
96 43 0.39
97 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (97 bp):
GTTCGCTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGA
GTTAGCTAATTTAAGATCGCAACTCCGAACAA
Found at i:44349963 original size:227 final size:228
Alignment explanation
Indices: 44349626--44350095 Score: 676
Period size: 227 Copynumber: 2.1 Consensus size: 228
44349616 TATTATTAAG
* *
44349626 GTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
1 GTTCGCTGATTTAAGATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
* * **
44349691 GTTAGCTAATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATCACATTTGATATTATTA
66 GTTAGCTAATTTAAGATCACAACTCCGAACAATTCACTGATTTAAGATCACAACTGATATTATTA
* * * *
44349756 AGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTT
131 AAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTT
44349821 GAG-TAGCTAATTTAAGATCGCAACTCCGAACA
196 GAGTTAGCTAATTTAAGATCGCAACTCCGAACA
* **
44349853 GTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTG
1 GTTCGCTGATTTAAGATCGCAACATAAGTTCA-TTCAATTTAAGATCATGAACAATTTTTATTTG
* * ** *
44349917 AGTTAGTTTATTTAAGATCGTAACTCCGAACAACTT-ACTGATTTAAGATCGCAACTGATATTAT
65 AGTTAGCTAATTTAAGATCACAACTCCGAACAA-TTCACTGATTTAAGATCACAACTGATATTAT
* * *
44349981 TAAAGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCT
129 TAAAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTAT
* *
44350046 TTGAGTTAGCTAATTTAAGATCGCAACTCTGAATA
194 TTGAGTTAGCTAATTTAAGATCGCAACTCCGAACA
* *
44350081 GCTCGTTGATTTAAG
1 GTTCGCTGATTTAAG
44350096 CTTGCAAATG
Statistics
Matches: 215, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
226 1 0.00
227 172 0.80
228 42 0.20
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (228 bp):
GTTCGCTGATTTAAGATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTGA
GTTAGCTAATTTAAGATCACAACTCCGAACAATTCACTGATTTAAGATCACAACTGATATTATTA
AAGTTCGCTGATATAAGATCACAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTT
GAGTTAGCTAATTTAAGATCGCAACTCCGAACA
Found at i:44350000 original size:132 final size:132
Alignment explanation
Indices: 44349852--44350205 Score: 478
Period size: 132 Copynumber: 2.7 Consensus size: 132
44349842 AACTCCGAAC
44349852 AGTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTT
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTT-GATTTAAGATCATGAACAATTTTTATTT
* * * * *
44349916 GAGTTAGTTTATTTAAGATCGTAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTAT
65 GAGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTAT
44349981 TAA
130 TAA
* * * *
44349984 AGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTTTG
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
* * * ** * *
44350049 AGTTAGCTAATTTAAGATCGCAACTCTGAATAGCTCGTTGATTTAAGCTTGCAAATGATATTATT
66 AGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTATT
44350114 AA
131 AA
* * ** *
44350116 AGTTTGTTGATTTAAGATCAAAAACTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
1 AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
*
44350181 AGTTAGC-AGATTTAAAATCGCAACT
66 AGTTAGCTA-ATTTAAGATCGCAACT
44350206 GATGTTATTA
Statistics
Matches: 194, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 190 0.98
133 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (132 bp):
AGTTCGCTGATTTAAGATCGCAACCTAAGTTCATTTGATTTAAGATCATGAACAATTTTTATTTG
AGTTAGCTAATTTAAGATCGCAACTCCGAACAACTCACTGATTTAAGATCGCAAATGATATTATT
AA
Found at i:44350158 original size:359 final size:362
Alignment explanation
Indices: 44349494--44350376 Score: 1100
Period size: 359 Copynumber: 2.4 Consensus size: 362
44349484 TATTATTAAG
* * * * *
44349494 GTTCGCTGATTTAATATCACAACCTAAGTTCATTCAATTTAAGACCATCAACTATTTTTATTTGA
1 GTTCGCTGATTTAAGATC-CAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGA
* * * * * * *
44349559 GTTAGCTGATTTAAAATTGCAACTCCAAAGAACTCATTGATTTAAGATCTCAACGGATATTATTA
65 GTTAGCTGATTTAAGATTGCAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATTA
* * * *
44349624 AGGTTCTCTGATTTAAAATCGCAACATAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTT
130 AGGTTCGCTGATATAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTT
* **
44349689 GAGTTAGCTAATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATCACATTTGATATTAT
195 GAGTTAGCTAATTTAAGATCACAACTCTGAACAACTCACTTATTTAAGATCACAAATGATATTAT
* * *
44349754 TAAGGTTCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTAT
260 TAAAGTTCGTTGATTTAAGATCAAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTTAT
* *
44349819 TTGAG-TAGCTA-ATTTAAGATCGCAACT-CCG-A-ACA-
325 TTGAGTTAGC-AGATTTAAAATCGCAACTGACGTATA-AT
*
44349853 GTTCGCTGATTTAAGATCGCAACCTAAGTT-ATTTGGATTTAAGATCATGAACAATTTTTATTTG
1 GTTCGCTGATTTAAGATC-CAACCTAAGTTCA-TTCGATTTAAGATCATGAACAATTTTTATTTG
* * * *
44349917 AGTTAGTTTATTTAAGATCGTAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATT
64 AGTTAGCTGATTTAAGATTGCAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATT
* * * *
44349982 AAAGTTCGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTT
129 AAGGTTCGCTGATATAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAACAATTTTTATT
* * * * * **
44350047 TGAGTTAGCTAATTTAAGATCGCAACTCTGAATAGCTC-GTTGATTTAAGCTTGCAAATGATATT
194 TGAGTTAGCTAATTTAAGATCACAACTCTGAACAACTCACTT-ATTTAAGATCACAAATGATATT
* *
44350111 ATTAAAGTTTGTTGATTTAAGATCAAAAACTAAGTTCATTTGATTTAAGATCATGAACAATTTTT
258 ATTAAAGTTCGTTGATTTAAGATCAAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTT
*
44350176 ATTTGAGTTAGCAGATTTAAAATCGCAACTGATGTTATTAAT
323 ATTTGAGTTAGCAGATTTAAAATCGCAACTGACG-TA-TAAT
** * * * *
44350218 GTTTACTGATTTAAGATTCCAACTTAAGTTCATTCGATTTAAAATCATGAATAATTTTTATTTGT
1 GTTCGCTGATTTAAGA-TCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGA
* * * * *
44350283 GTTAGCTGATTTAAGATTGCAACCCCGAACATCTCT-CTAATTTAAGATCGCAACTAATATTGTT
65 GTTAGCTGATTTAAGATTGCAACTCCGAACAACT-TACTGATTTAAGATCGCAACTGATATTATT
* * *
44350347 AAGGTCCGATGATATAAGATCACAACCTAA
129 AAGGTTCGCTGATATAAGATCGCAACCTAA
44350377 CTCCAATTAA
Statistics
Matches: 446, Mismatches: 65, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
358 3 0.01
359 285 0.64
360 19 0.04
361 1 0.00
363 1 0.00
364 1 0.00
365 132 0.30
366 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (362 bp):
GTTCGCTGATTTAAGATCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAG
TTAGCTGATTTAAGATTGCAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATTAA
GGTTCGCTGATATAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAACAATTTTTATTTG
AGTTAGCTAATTTAAGATCACAACTCTGAACAACTCACTTATTTAAGATCACAAATGATATTATT
AAAGTTCGTTGATTTAAGATCAAAAACTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATT
TGAGTTAGCAGATTTAAAATCGCAACTGACGTATAAT
Found at i:44350159 original size:227 final size:220
Alignment explanation
Indices: 44349631--44350336 Score: 582
Period size: 227 Copynumber: 3.1 Consensus size: 220
44349621 TTAAGGTTCT
* * ** *
44349631 CTGATTTAAAATCGCAACATAAGTTCA-TTCAATTTAAGATCATGAACAATTTTTATTTGAGTTA
1 CTGATTTAAGATCGCAACATAAATT-ATTTGGATTTAAGATCA-GAACAA--TCTA--T-AGTTA
* * * * * ** *
44349695 GCTAATTTAAGATCACAACTCTGAACAATTCACTTATTTAAGATCACATTTGATATTATTAAGGT
59 GTTTATTTAAGATCATAACTCTGAACAATT-ACTGATTTAAGATCGCAACTGATATTATTAAAGT
* *
44349760 TCGTTGATTTAAGATCACAACCTAAGTTCATTGGATTTAAGATCATGAACAATTTTTATTTGAG-
123 TCGCTGATTTAAGATC-CAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGT
*
44349824 TAGCTAATTTAAGATCGCAACTCCGAACAGTTCG
187 TAGCTAATTTAAGATCGCAACTCCGAACAGCTCG
* * *
44349858 CTGATTTAAGATCGCAACCTAAGTTATTTGGATTTAAGATCATGAACAATTTTTATTTGAGTTAG
1 CTGATTTAAGATCGCAACATAAATTATTTGGATTTAAGATCA-GAACAA--TCTA--T-AGTTAG
* *
44349923 TTTATTTAAGATCGTAACTCCGAACAACTTACTGATTTAAGATCGCAACTGATATTATTAAAGTT
60 TTTATTTAAGATCATAACTCTGAACAA-TTACTGATTTAAGATCGCAACTGATATTATTAAAGTT
* * *
44349988 CGCTGATATAAGATCGCAACCTATGTTCATTCGATTTAAGATCATGAACAATTTTTCTTTGAGTT
124 CGCTGATTTAAGATC-CAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTT
* *
44350053 AGCTAATTTAAGATCGCAACTCTGAATAGCTCG
188 AGCTAATTTAAGATCGCAACTCCGAACAGCTCG
* * *
44350086 TTGATTTAAGCTTGCAA-ATGATATTATTAAAGTTTGTTGATTTAAGATCA-AA-AA-CTA-AGT
1 CTGATTTAAGATCGCAACAT-A-A--ATT--A-TTTG--GATTTAAGATCAGAACAATCTATAGT
* * ** * * * *
44350146 TCA-TTTGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCAGATTTAAAATCGCAACTGATG
57 T-AGTTT-ATTTAAGATCAT-AAC---TCTGA--ACAATTA-CTGATTTAAGATCGCAACTGATA
* ** * * *
44350210 TTATTAATGTTTACTGATTTAAGATTCCAACTTAAGTTCATTCGATTTAAAATCATGAATAATTT
113 TTATTAAAGTTCGCTGATTTAAGA-TCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTT
* * * * * *
44350275 TTATTTGTGTTAGCTGATTTAAGATTGCAACCCCGAACATCTCT
177 TTATTTGAGTTAGCTAATTTAAGATCGCAACTCCGAACAGCTCG
*
44350319 CTAATTTAAGATCGCAAC
1 CTGATTTAAGATCGCAAC
44350337 TAATATTGTT
Statistics
Matches: 396, Mismatches: 60, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
226 8 0.02
227 181 0.46
228 51 0.13
229 1 0.00
230 2 0.01
231 4 0.01
232 3 0.01
233 126 0.32
234 8 0.02
236 12 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (220 bp):
CTGATTTAAGATCGCAACATAAATTATTTGGATTTAAGATCAGAACAATCTATAGTTAGTTTATT
TAAGATCATAACTCTGAACAATTACTGATTTAAGATCGCAACTGATATTATTAAAGTTCGCTGAT
TTAAGATCCAACCTAAGTTCATTCGATTTAAGATCATGAACAATTTTTATTTGAGTTAGCTAATT
TAAGATCGCAACTCCGAACAGCTCG
Found at i:44350231 original size:101 final size:101
Alignment explanation
Indices: 44350099--44350305 Score: 265
Period size: 101 Copynumber: 2.0 Consensus size: 101
44350089 ATTTAAGCTT
* ** * *
44350099 GCAAATGATATTATTAAAGTTTGTTGATTTAAGA-TCAAAAAC-TAAGTTCATTTGATTTAAGAT
1 GCAACTGATATTATTAAAGTTTACTGATTTAAGATTC--AAACTTAAGTTCATTCGATTTAAAAT
44350162 CATGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
64 CATGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
* * *
44350200 GCAACTGATGTTATTAATGTTTACTGATTTAAGATTCCAACTTAAGTTCATTCGATTTAAAATCA
1 GCAACTGATATTATTAAAGTTTACTGATTTAAGATTCAAACTTAAGTTCATTCGATTTAAAATCA
* * * * *
44350265 TGAATAATTTTTATTTGTGTTAGCTGATTTAAGATT
66 TGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
44350301 GCAAC
1 GCAAC
44350306 CCCGAACATC
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
100 3 0.03
101 86 0.95
102 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (101 bp):
GCAACTGATATTATTAAAGTTTACTGATTTAAGATTCAAACTTAAGTTCATTCGATTTAAAATCA
TGAACAATTTTTATTTGAGTTAGCAGATTTAAAATC
Done.