Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 196 of 218
Found at i:58009591 original size:23 final size:25
Alignment explanation
Indices: 58009554--58009600 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
58009544 TCTAATAGTA
**
58009554 TTAATAATATTAAAA-T-AATTAAT
1 TTAATAATAAAAAAACTAAATTAAT
58009577 TTAATAATAAAAAAACTAAATTAA
1 TTAATAATAAAAAAACTAAATTAA
58009601 CAAATAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TTAATAATAAAAAAACTAAATTAAT
Found at i:58009600 original size:20 final size:22
Alignment explanation
Indices: 58009553--58009600 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
58009543 ATCTAATAGT
*
58009553 ATTAATAATATTAAAATAATTAA
1 ATTAATAATA-TAAAATAACTAA
*
58009576 TTTAATAATA-AAAA-AACTAA
1 ATTAATAATATAAAATAACTAA
58009596 ATTAA
1 ATTAA
58009601 CAAATAGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
23 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTAATAATATAAAATAACTAA
Found at i:58017134 original size:6 final size:6
Alignment explanation
Indices: 58017123--58017156 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
58017113 TTTAGTTCTG
* *
58017123 TTATTA TTATTA TTATCA TTATCA TTATCA TTAT
1 TTATCA TTATCA TTATCA TTATCA TTATCA TTAT
58017157 TATATTTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (6 bp):
TTATCA
Found at i:58017143 original size:12 final size:12
Alignment explanation
Indices: 58017123--58017159 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
58017113 TTTAGTTCTG
*
58017123 TTATTATTATTA
1 TTATCATTATTA
*
58017135 TTATCATTATCA
1 TTATCATTATTA
58017147 TTATCATTATTA
1 TTATCATTATTA
58017159 T
1 T
58017160 ATTTCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:58017401 original size:26 final size:27
Alignment explanation
Indices: 58017355--58017410 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
58017345 TTATACATCT
*
58017355 ATACATTTTTATAATACATATATGTAC
1 ATACATTTTTATAATACATATATATAC
** *
58017382 ATACA-TTTTATAATTTATATTTATAC
1 ATACATTTTTATAATACATATATATAC
58017408 ATA
1 ATA
58017411 TATATTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (27 bp):
ATACATTTTTATAATACATATATATAC
Found at i:58021624 original size:20 final size:21
Alignment explanation
Indices: 58021586--58021644 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
58021576 ATGTAAGAAA
* * *
58021586 ATAAAAATATATAAAATTATC
1 ATAAACATAAATAATATTATC
58021607 A-AAACATAAATAATATTATC
1 ATAAACATAAATAATATTATC
* *
58021627 ATAAATATAAATATTATT
1 ATAAACATAAATAATATT
58021645 TAATTATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAACATAAATAATATTATC
Found at i:58021641 original size:18 final size:19
Alignment explanation
Indices: 58021589--58021643 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
58021579 TAAGAAAATA
*
58021589 AAAATATATAAA-ATTATC
1 AAAACATATAAATATTATC
*
58021607 AAAACATAAATAATATTATC
1 AAAACATATA-AATATTATC
*
58021627 ATAA-ATATAAATATTAT
1 AAAACATATAAATATTAT
58021644 TTAATTATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 16 0.52
19 6 0.19
20 9 0.29
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAACATATAAATATTATC
Found at i:58021655 original size:26 final size:26
Alignment explanation
Indices: 58021621--58021672 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
58021611 CATAAATAAT
*
58021621 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
58021647 ATTATCATAAAGATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
58021673 TCTTAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATCATAAAGATAAATATTATTTA
Found at i:58024971 original size:21 final size:21
Alignment explanation
Indices: 58024942--58024981 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58024932 TGTAAAACAG
*
58024942 GGGTTACACGACCATGTGGAA
1 GGGTCACACGACCATGTGGAA
58024963 GGGTCACACGACCATGTGG
1 GGGTCACACGACCATGTGG
58024982 CTAGGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.17
Consensus pattern (21 bp):
GGGTCACACGACCATGTGGAA
Found at i:58030707 original size:107 final size:107
Alignment explanation
Indices: 58030516--58030731 Score: 378
Period size: 107 Copynumber: 2.0 Consensus size: 107
58030506 CTTTGAAGTT
* *
58030516 TTAAGAGGATATTTGACTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTGACTATTTAGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
58030581 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
* *
58030623 TTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTGACTATTTAGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
* *
58030688 CTCGAATTTCCAAATGCAAAATATTGCCTTATTTAGAAAATC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
58030730 TT
1 TT
58030732 TTCTTTTGAT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (107 bp):
TTAAAAGGATATTTGACTATTTAGTCGAACGAGAAATAGAAACCCAGCACGTTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAATATTGCCTTATTTAAAAAATC
Found at i:58031320 original size:20 final size:20
Alignment explanation
Indices: 58031292--58031341 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
58031282 CACATATGTG
58031292 TATATATATAAGGTAT-ATAAA
1 TATATATATAA-GTATGA-AAA
58031313 TA-ATATATAAGTATGAAAA
1 TATATATATAAGTATGAAAA
58031332 TATATATATA
1 TATATATATA
58031342 CAAATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.33
20 16 0.59
21 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
TATATATATAAGTATGAAAA
Found at i:58031394 original size:26 final size:26
Alignment explanation
Indices: 58031359--58031412 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
58031349 ATTTAAAAAT
* * **
58031359 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTACATATACAACAAA
58031385 ATGTAAGTATGTACATATACAACAAA
1 ATGTAAGTATGTACATATACAACAAA
58031411 AT
1 AT
58031413 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTACATATACAACAAA
Found at i:58032178 original size:15 final size:17
Alignment explanation
Indices: 58032158--58032198 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
58032148 TCCCCTCTTT
58032158 TCTTTTAT-TATT-TTC
1 TCTTTTATATATTATTC
*
58032173 TCTTTTTTATATTATTC
1 TCTTTTATATATTATTC
*
58032190 TCGTTTATA
1 TCTTTTATA
58032199 AAAAACAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 7 0.33
16 4 0.19
17 10 0.48
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.68
Consensus pattern (17 bp):
TCTTTTATATATTATTC
Found at i:58032898 original size:14 final size:16
Alignment explanation
Indices: 58032868--58032899 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
58032858 AGGTCCTTAA
58032868 CAGAATCAGATATTAT
1 CAGAATCAGATATTAT
58032884 CAGAATC-GA-ATTAT
1 CAGAATCAGATATTAT
58032898 CA
1 CA
58032900 AAACATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (16 bp):
CAGAATCAGATATTAT
Found at i:58047427 original size:20 final size:20
Alignment explanation
Indices: 58047385--58047424 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58047375 CAGTCCCAAA
*
58047385 TAAAATAATTTCAAAACAAT
1 TAAAATAATTTCAAAAAAAT
*
58047405 TAAAGTAATTT-AAAAAAAT
1 TAAAATAATTTCAAAAAAAT
58047424 T
1 T
58047425 TAATGCCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAATAATTTCAAAAAAAT
Found at i:58048290 original size:72 final size:72
Alignment explanation
Indices: 58048173--58048315 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 72
58048163 TCTCGGATTT
* *
58048173 AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCTGAGATCGTTTAAAA
1 AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
58048238 CTTGAGG
66 CTTGAGG
* * *
58048245 AAAAAATGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATTGTTTAAAA
1 AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
58048310 CTTGAG
66 CTTGAG
58048316 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (72 bp):
AAAAAAGGGATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAGG
Found at i:58048766 original size:10 final size:10
Alignment explanation
Indices: 58048737--58048767 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
58048727 ATATGTAAGT
*
58048737 ATGTATATAT
1 ATGTATATAA
58048747 ATGTATATAA
1 ATGTATATAA
58048757 ATGTATATAA
1 ATGTATATAA
58048767 A
1 A
58048768 AATTATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (10 bp):
ATGTATATAA
Found at i:58048863 original size:20 final size:18
Alignment explanation
Indices: 58048838--58048877 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
58048828 TGTGTACGTA
58048838 TATATATATTATAAAAAG
1 TATATATATTATAAAAAG
*
58048856 TATGTATATTATAAAAA-
1 TATATATATTATAAAAAG
58048873 TATAT
1 TATAT
58048878 GCATGTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATATATATTATAAAAAG
Found at i:58050190 original size:17 final size:18
Alignment explanation
Indices: 58050164--58050206 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
58050154 TATTTTGTAA
*
58050164 TTGGGCTTGTAACGGG-GT
1 TTGGG-TTGTAACGGGTAT
*
58050182 TTGGGTTGTAATGGGTAT
1 TTGGGTTGTAACGGGTAT
58050200 TTGGGTT
1 TTGGGTT
58050207 TGGTGCGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.12, C:0.05, G:0.42, T:0.42
Consensus pattern (18 bp):
TTGGGTTGTAACGGGTAT
Found at i:58053818 original size:13 final size:13
Alignment explanation
Indices: 58053802--58054007 Score: 123
Period size: 13 Copynumber: 15.5 Consensus size: 13
58053792 AAATGAATAA
*
58053802 ATGAAATGGTTAT
1 ATGAAATAGTTAT
*
58053815 ATG-AATCAATTAT
1 ATGAAAT-AGTTAT
*
58053828 ATGGAAATAGATAT
1 AT-GAAATAGTTAT
58053842 ATGAAATAGTTAT
1 ATGAAATAGTTAT
*
58053855 ATG-AATCGATTAT
1 ATGAAATAG-TTAT
58053868 ATGGAAATAGTTAT
1 AT-GAAATAGTTAT
*
58053882 ATGAAATGGTTAT
1 ATGAAATAGTTAT
*
58053895 ATG-AATCAATTAT
1 ATGAAAT-AGTTAT
*
58053908 ATGAAAATAGATAT
1 ATG-AAATAGTTAT
* *
58053922 ATGGAATGGTTAT
1 ATGAAATAGTTAT
* **
58053935 ACAGAAATAAATAT
1 A-TGAAATAGTTAT
* * *
58053949 ACGGAATGGTTAT
1 ATGAAATAGTTAT
* *
58053962 ATG-AATCGATAAT
1 ATGAAATAG-TTAT
*
58053975 ACGGAAATAGTTAT
1 A-TGAAATAGTTAT
*
58053989 ATGAAATATTTAT
1 ATGAAATAGTTAT
*
58054002 ACGAAA
1 ATGAAA
58054008 CATTTTTATG
Statistics
Matches: 146, Mismatches: 34, Indels: 26
0.71 0.17 0.13
Matches are distributed among these distances:
12 14 0.10
13 84 0.58
14 34 0.23
15 14 0.10
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGAAATAGTTAT
Found at i:58053842 original size:27 final size:26
Alignment explanation
Indices: 58053802--58053996 Score: 110
Period size: 27 Copynumber: 7.3 Consensus size: 26
58053792 AAATGAATAA
* *
58053802 ATGAAATGGTTATATG-AATCAATTAT
1 ATGAAATAGATATATGAAAT-AATTAT
*
58053828 ATGGAAATAGATATATGAAATAGTTAT
1 AT-GAAATAGATATATGAAATAATTAT
* *
58053855 ATG-AATCGATTATATGGAAATAGTTAT
1 ATGAAATAGA-TATAT-GAAATAATTAT
* *
58053882 ATGAAATGGTTATATG-AATCAATTAT
1 ATGAAATAGATATATGAAAT-AATTAT
* **
58053908 ATGAAAATAGATATATGGAATGGTTAT
1 ATG-AAATAGATATATGAAATAATTAT
* * * * **
58053935 ACAGAAATAAATATACGGAATGGTTAT
1 A-TGAAATAGATATATGAAATAATTAT
* * *
58053962 ATG-AATCGATAATACGGAAATAGTTAT
1 ATGAAATAGAT-ATA-TGAAATAATTAT
58053989 ATGAAATA
1 ATGAAATA
58053997 TTTATACGAA
Statistics
Matches: 136, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
25 13 0.10
26 21 0.15
27 88 0.65
28 14 0.10
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (26 bp):
ATGAAATAGATATATGAAATAATTAT
Found at i:58053857 original size:40 final size:40
Alignment explanation
Indices: 58053802--58053935 Score: 223
Period size: 40 Copynumber: 3.4 Consensus size: 40
58053792 AAATGAATAA
58053802 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
1 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
* * *
58053842 ATGAAATAGTTATATGAATCGATTATATGGAAATAGTTAT
1 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
*
58053882 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATAT
1 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
*
58053922 ATGGAATGGTTATA
1 ATGAAATGGTTATA
58053936 CAGAAATAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (40 bp):
ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
Found at i:58053916 original size:67 final size:65
Alignment explanation
Indices: 58053839--58053993 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 65
58053829 TGGAAATAGA
** ** *
58053839 TATATGAAATAGTTATATGAATCGATTATATGGAAATAGTTATATGAAATGGTTATATGAATCAA
1 TATATGAAATAGTTATATGAAT-GATTATACAGAAATAAATATACGAAATGGTTATATGAATCAA
58053904 T
65 T
* * * *
58053905 TATATGAAAATAGATATATGGAATGGTTATACAGAAATAAATATACGGAATGGTTATATGAATCG
1 TATATG-AAATAGTTATAT-GAATGATTATACAGAAATAAATATACGAAATGGTTATATGAATCA
58053970 AT
64 AT
* *
58053972 AATACGGAAATAGTTATATGAA
1 TATA-TGAAATAGTTATATGAA
58053994 ATATTTATAC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
66 9 0.12
67 60 0.81
68 5 0.07
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (65 bp):
TATATGAAATAGTTATATGAATGATTATACAGAAATAAATATACGAAATGGTTATATGAATCAAT
Found at i:58053961 original size:80 final size:80
Alignment explanation
Indices: 58053802--58053966 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 80
58053792 AAATGAATAA
* * * *
58053802 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATATATGAAATAGTTATATGAATCGATTA
1 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGAAATAGTTATAAGAATCAAATA
*
58053867 TATGGAAATAGTTAT
66 TACGGAAATAGTTAT
* *
58053882 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGGAATGGTTATACAGAAAT-AAA
1 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGAAATAGTTATA-AG-AATCAAA
*
58053946 TATACGG-AATGGTTAT
64 TATACGGAAATAGTTAT
58053962 ATGAA
1 ATGAA
58053967 TCGATAATAC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 64 0.85
81 8 0.11
82 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (80 bp):
ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGAAATAGTTATAAGAATCAAATA
TACGGAAATAGTTAT
Found at i:58054057 original size:13 final size:13
Alignment explanation
Indices: 58054039--58054080 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
58054029 GTAAAAAGGG
*
58054039 ATATTTGATATGA
1 ATATTTGAAATGA
58054052 ATATTTGAAATGA
1 ATATTTGAAATGA
*
58054065 AAATGTT-AAATGA
1 ATAT-TTGAAATGA
58054078 ATA
1 ATA
58054081 GATGATGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 23 0.92
14 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (13 bp):
ATATTTGAAATGA
Found at i:58059366 original size:21 final size:21
Alignment explanation
Indices: 58059327--58059384 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
58059317 CTACACCCCT
*
58059327 ATGTGAAGGCCACACATACCC
1 ATGTGAAGGCCATACATACCC
* *
58059348 ATGTGAAGGCCATATATACTC
1 ATGTGAAGGCCATACATACCC
* *
58059369 GTGTAAAGGCCATACA
1 ATGTGAAGGCCATACA
58059385 CGTCTGTGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
ATGTGAAGGCCATACATACCC
Found at i:58059513 original size:18 final size:17
Alignment explanation
Indices: 58059490--58059524 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58059480 TGGAGATCTT
58059490 ACATGCTTGTGTAGGTAC
1 ACATGCTTGTGT-GGTAC
*
58059508 ACATGCTTTTGTGGTAC
1 ACATGCTTGTGTGGTAC
58059525 CAAAATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (17 bp):
ACATGCTTGTGTGGTAC
Found at i:58060051 original size:15 final size:16
Alignment explanation
Indices: 58060031--58060060 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58060021 CCTTTTTAAA
58060031 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
58060046 AAATAAATATAAAAA
1 AAATAAATATAAAAA
58060061 AAACTCACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:58060688 original size:97 final size:97
Alignment explanation
Indices: 58060522--58060717 Score: 374
Period size: 97 Copynumber: 2.0 Consensus size: 97
58060512 ATCCACACAC
*
58060522 CTACCTTGAACAATTTCTCTAGTTCTATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
1 CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
58060587 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
66 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
*
58060619 CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGGCTCGAAGACTTTCTCTAACACTTCTCT
1 CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
58060684 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
66 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
58060716 CT
1 CT
58060718 GGGTCATCAC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (97 bp):
CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
CACAACCCGAGTCAACGCCTCAGTGCTAACCT
Found at i:58062452 original size:21 final size:21
Alignment explanation
Indices: 58062428--58062510 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 21
58062418 CTACACGCTT
*
58062428 ATGTGAAGGCCACACATGCCC
1 ATGTGAAGGCCACACACGCCC
* *
58062449 ATGTGAAGGCCACATAGGCCC
1 ATGTGAAGGCCACACACGCCC
* *
58062470 TTATGAAGGCCACACACGCCC
1 ATGTGAAGGCCACACACGCCC
* * **
58062491 GTGTGGAGGGGACACACGCC
1 ATGTGAAGGCCACACACGCC
58062511 AGTGTGAGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.13
Consensus pattern (21 bp):
ATGTGAAGGCCACACACGCCC
Found at i:58063546 original size:19 final size:19
Alignment explanation
Indices: 58063505--58063548 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
58063495 TGTATCTGAC
*
58063505 TGTATATGAGATATGTTAT
1 TGTATATGAGATATCTTAT
*
58063524 TGTATATGAGATTTCTGTA-
1 TGTATATGAGATATCT-TAT
58063543 TGTATA
1 TGTATA
58063549 GCATGTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (19 bp):
TGTATATGAGATATCTTAT
Found at i:58067293 original size:23 final size:22
Alignment explanation
Indices: 58067258--58067301 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
58067248 TTTGAATTTT
58067258 TAAATCCGAAAATTAAAGGGAC
1 TAAATCCGAAAATTAAAGGGAC
*
58067280 TAAATTCCTAAAATTAAAGGGA
1 TAAA-TCCGAAAATTAAAGGGA
58067302 AGATAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (22 bp):
TAAATCCGAAAATTAAAGGGAC
Found at i:58069670 original size:13 final size:13
Alignment explanation
Indices: 58069652--58069677 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58069642 TTTAATGAAA
58069652 ACCAACCAAACTT
1 ACCAACCAAACTT
58069665 ACCAACCAAACTT
1 ACCAACCAAACTT
58069678 GCACTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCAACCAAACTT
Found at i:58070835 original size:11 final size:10
Alignment explanation
Indices: 58070815--58070858 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
58070805 TAATAATATA
*
58070815 AAATATATTT
1 AAATAAATTT
58070825 AAATCAAATTT
1 AAAT-AAATTT
58070836 AAAATAAATTT
1 -AAATAAATTT
58070847 AAATAAGATTT
1 AAATAA-ATTT
58070858 A
1 A
58070859 CCTATGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 10 0.33
11 16 0.53
12 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (10 bp):
AAATAAATTT
Found at i:58070839 original size:22 final size:22
Alignment explanation
Indices: 58070813--58070858 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
58070803 AATAATAATA
*
58070813 TAAAATATATTTAAATCAA-ATT
1 TAAAATAAATTTAAAT-AAGATT
58070835 TAAAATAAATTTAAATAAGATT
1 TAAAATAAATTTAAATAAGATT
58070857 TA
1 TA
58070859 CCTATGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAATAAATTTAAATAAGATT
Found at i:58073070 original size:21 final size:21
Alignment explanation
Indices: 58073040--58073085 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
58073030 CATTGTGTTA
58073040 AAACTAAAATTTAAAA-TAAATT
1 AAACTAAAA-TTAAAAGTAAA-T
58073062 AAACT-AAATTAAAAGTAAAT
1 AAACTAAAATTAAAAGTAAAT
58073082 AAAC
1 AAAC
58073086 ATTTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.48
21 7 0.30
22 5 0.22
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (21 bp):
AAACTAAAATTAAAAGTAAAT
Found at i:58075680 original size:3 final size:3
Alignment explanation
Indices: 58075674--58075710 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
58075664 TTTTTTGTTG
58075674 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
58075711 GATTTGGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58076160 original size:31 final size:31
Alignment explanation
Indices: 58076125--58076189 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
58076115 GTTACAAAAT
58076125 AGTCAATGAACCATTCAAAAGTTTCCATTTA
1 AGTCAATGAACCATTCAAAAGTTTCCATTTA
* ** **
58076156 AGTCATTGAACCATTTGAAAGTTTTTATTTA
1 AGTCAATGAACCATTCAAAAGTTTCCATTTA
58076187 AGT
1 AGT
58076190 TATTGGGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (31 bp):
AGTCAATGAACCATTCAAAAGTTTCCATTTA
Found at i:58093018 original size:42 final size:42
Alignment explanation
Indices: 58092947--58093055 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
58092937 CTCTCACAAA
* * * * *
58092947 CTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTC-TATTGAG
1 CTTCTGTTTAACCCTTATGGGTTTCCGTTCAACTCTTA-CGAG
* *
58092989 CTTCTGTTTAACCCTTATGGGTTTTCGTTCAATTCTTACGAG
1 CTTCTGTTTAACCCTTATGGGTTTCCGTTCAACTCTTACGAG
* *
58093031 CTTCCGTTCAACCCTTATGGGTTTC
1 CTTCTGTTTAACCCTTATGGGTTTC
58093056 TGTTTATCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 54 0.96
43 2 0.04
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
CTTCTGTTTAACCCTTATGGGTTTCCGTTCAACTCTTACGAG
Found at i:58093047 original size:21 final size:21
Alignment explanation
Indices: 58092986--58093047 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
58092976 CAGCTCTATT
* * *
58092986 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCCGTTCAACCCTTAC
* * * **
58093007 GGGTTTTCGTTCAATTCTTAC
1 GAGCTTCCGTTCAACCCTTAC
58093028 GAGCTTCCGTTCAACCCTTA
1 GAGCTTCCGTTCAACCCTTA
58093048 TGGGTTTCTG
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (21 bp):
GAGCTTCCGTTCAACCCTTAC
Found at i:58093074 original size:42 final size:42
Alignment explanation
Indices: 58092985--58093076 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
58092975 TCAGCTCTAT
* * *
58092985 TGAGCTTCTGTTTAACCCTTATGGGTTTTCGTTCAATTCTTA
1 TGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTCAATTCTCA
* *
58093027 CGAGCTTCCGTTCAACCCTTATGGG-TTTCTGTT-TATCTCTCA
1 TGAGCTTCCGTTCAACCCTTATGGGTTTTC-GTTCAAT-TCTCA
58093069 TGAGCTTC
1 TGAGCTTC
58093077 TATTCAGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 6 0.14
42 36 0.86
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
TGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTCAATTCTCA
Found at i:58095365 original size:51 final size:52
Alignment explanation
Indices: 58095288--58095415 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
58095278 TGGATACCCG
* * *
58095288 GTGGCCTGCACATAGTACTACCCTTGTAGA-CAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GATCAAAGCTATCCTTCTTCACAAA
*
58095339 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCCTTCTTCACAAA
*
58095391 GTGGCATTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
58095416 AAGTCATTCG
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 2 0.03
51 32 0.46
52 36 0.51
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCCTTCTTCACAAA
Found at i:58099682 original size:32 final size:32
Alignment explanation
Indices: 58099645--58099707 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
58099635 ACCTCTACTG
* *
58099645 GCAGTATTACTCGGTCTAACACTCTGAAATTA
1 GCAGTATTACCCGATCTAACACTCTGAAATTA
58099677 GCAGTATTACCCGATCTAACACTCTGAAATT
1 GCAGTATTACCCGATCTAACACTCTGAAATT
58099708 TTTATTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (32 bp):
GCAGTATTACCCGATCTAACACTCTGAAATTA
Found at i:58110277 original size:23 final size:25
Alignment explanation
Indices: 58110264--58110315 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
58110254 AAGTTCAAGT
58110264 GAGCC-ATATCAGGAAGCTCACAAA
1 GAGCCTATATCAGGAAGCTCACAAA
* *
58110288 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGAAGCTCACAAA
58110313 GAG
1 GAG
58110316 TTGCGGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (25 bp):
GAGCCTATATCAGGAAGCTCACAAA
Found at i:58111786 original size:22 final size:23
Alignment explanation
Indices: 58111755--58111800 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
58111745 TTTATAACAT
*
58111755 AAAATAAATTATTTCAAA-TTATC
1 AAAATAAATTAATT-AAATTTATC
58111778 AAAA-AAATTAATTAAATTTATC
1 AAAATAAATTAATTAAATTTATC
58111800 A
1 A
58111801 TAATTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 14 0.67
23 4 0.19
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATAAATTAATTAAATTTATC
Found at i:58118765 original size:31 final size:31
Alignment explanation
Indices: 58118729--58118790 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
58118719 AGATAATTTT
*
58118729 AAAGAGTTTTATTATGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58118760 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58118791 TAATTTTCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:58119106 original size:3 final size:3
Alignment explanation
Indices: 58119100--58119137 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
58119090 ATTATTATTA
58119100 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
58119138 ATTATTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:58122994 original size:28 final size:28
Alignment explanation
Indices: 58122949--58123010 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
58122939 CTATTCAGTA
* *
58122949 ACAGT-ACAGTGTGAGCCTTAGCCCATT
1 ACAGTAACAATGTGAGCCTTAGCCCAAT
*
58122976 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGAGCCTTAGCCCAAT
*
58123004 ATAGTAA
1 ACAGTAA
58123011 TGGTACAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (28 bp):
ACAGTAACAATGTGAGCCTTAGCCCAAT
Found at i:58123566 original size:27 final size:27
Alignment explanation
Indices: 58123377--58123570 Score: 228
Period size: 27 Copynumber: 7.1 Consensus size: 27
58123367 CATAACAGTA
* * * *
58123377 ATTTTACCCTATAGGGGTATTTCGATT
1 ATTTTACCCTGTGGGGGTAATTCGATC
* *
58123404 ATTTTACCCTATGAGGGTAATTC-AGTC
1 ATTTTACCCTGTGGGGGTAATTCGA-TC
* * *
58123431 ATTTTACCCTATGAGGGTGATTCGATC
1 ATTTTACCCTGTGGGGGTAATTCGATC
* *
58123458 ATTTTACCCTGTAGGGGTGATTCGATC
1 ATTTTACCCTGTGGGGGTAATTCGATC
*
58123485 ATTTTACCCTGTGGGGGTACTTCGATC
1 ATTTTACCCTGTGGGGGTAATTCGATC
58123512 ATTTTACCCTGTGGGAGGTAATTCGATC
1 ATTTTACCCTGTGGG-GGTAATTCGATC
* * *
58123540 ATTTTATCCGGTGGGGGTAATTTGATC
1 ATTTTACCCTGTGGGGGTAATTCGATC
58123567 ATTT
1 ATTT
58123571 ATTGATCTCT
Statistics
Matches: 149, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 123 0.83
28 25 0.17
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTGTGGGGGTAATTCGATC
Found at i:58136116 original size:11 final size:11
Alignment explanation
Indices: 58136100--58136206 Score: 63
Period size: 11 Copynumber: 10.4 Consensus size: 11
58136090 ATTTTTTTAA
58136100 TTTTAAAATAT
1 TTTTAAAATAT
58136111 TTTTAAAATACT
1 TTTTAAAATA-T
** *
58136123 TTTTTTATTAT
1 TTTTAAAATAT
58136134 TTTT---A-A-
1 TTTTAAAATAT
*
58136140 TTTTAAAACAT
1 TTTTAAAATAT
58136151 TTTTAAAATACT
1 TTTTAAAATA-T
58136163 TTTT-AAAT-T
1 TTTTAAAATAT
* *
58136172 TTTT---TTAA
1 TTTTAAAATAT
58136180 TTTTAAAATAT
1 TTTTAAAATAT
58136191 TTTTAAAATACT
1 TTTTAAAATA-T
58136203 TTTT
1 TTTT
58136207 TTAATTTTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
8 4 0.05
9 6 0.08
10 1 0.01
11 40 0.53
12 18 0.24
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:58136140 original size:40 final size:40
Alignment explanation
Indices: 58136087--58136216 Score: 203
Period size: 40 Copynumber: 3.3 Consensus size: 40
58136077 AATAAATATA
58136087 TTTATT-TTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
*
58136126 TTTATTATTTTTAATTTTAAAACATTTTTAAAATACTTTT
1 TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
** *
58136166 TAAATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
58136206 TTTA--ATTTTTA
1 TTTATTATTTTTA
58136217 GAATAAATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 6 0.07
39 6 0.07
40 70 0.85
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
Found at i:58136185 original size:17 final size:17
Alignment explanation
Indices: 58136163--58136196 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58136153 TTAAAATACT
* *
58136163 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
58136180 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
58136197 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:58136227 original size:21 final size:21
Alignment explanation
Indices: 58136189--58136228 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58136179 ATTTTAAAAT
**
58136189 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
*
58136210 ATTTTTAGAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
58136229 GGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:58136374 original size:16 final size:16
Alignment explanation
Indices: 58136349--58136391 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
58136339 TTTTTTTATG
* *
58136349 GGCCCAACCCGAACCC
1 GGCCCGACCCAAACCC
58136365 GGCCCGACCCAAACCC
1 GGCCCGACCCAAACCC
*
58136381 GGCCCGGCCCA
1 GGCCCGACCCA
58136392 TGAGCACCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.56, G:0.23, T:0.00
Consensus pattern (16 bp):
GGCCCGACCCAAACCC
Found at i:58138759 original size:12 final size:13
Alignment explanation
Indices: 58138733--58138829 Score: 58
Period size: 13 Copynumber: 7.3 Consensus size: 13
58138723 ATTTTTTTAA
58138733 TTTTAAAATACTT
1 TTTTAAAATACTT
**
58138746 TTTTAAAATTTTTT
1 TTTTAAAA-TACTT
58138760 AAATTTTAAAAT--TT
1 ---TTTTAAAATACTT
58138774 TTTTAAAATACTT
1 TTTTAAAATACTT
** **
58138787 TTTTAATTTTTTT
1 TTTTAAAATACTT
58138800 AATTTTAAAATA--T
1 --TTTTAAAATACTT
58138813 TTTTAAAATACTT
1 TTTTAAAATACTT
58138826 TTTT
1 TTTT
58138830 TAATTTTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
11 19 0.29
13 25 0.38
14 5 0.08
15 7 0.11
16 1 0.02
17 8 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAAATACTT
Found at i:58138759 original size:30 final size:28
Alignment explanation
Indices: 58138723--58138796 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 28
58138713 ATTATTTTTT
58138723 ATTTTTTTAATTTTAAAATACTTTTTTAAA
1 ATTTTTTTAATTTTAAAAT--TTTTTTAAA
*
58138753 ATTTTTTAAATTTTAAAATTTTTTTAAA
1 ATTTTTTTAATTTTAAAATTTTTTTAAA
58138781 ATACTTTTTTAATTTT
1 AT--TTTTTTAATTTT
58138797 TTTAATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 11 0.28
30 29 0.73
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTTTTTAATTTTAAAATTTTTTTAAA
Found at i:58138766 original size:17 final size:17
Alignment explanation
Indices: 58138746--58138819 Score: 67
Period size: 17 Copynumber: 4.0 Consensus size: 17
58138736 TAAAATACTT
58138746 TTTTAAAATTTTTTAAA
1 TTTTAAAATTTTTTAAA
58138763 TTTTAAAATTTTTTTAAAATA
1 TTTTAAAA-TTTTTT--AA-A
** *
58138784 CTTTTTTAATTTTTTTAA
1 -TTTTAAAATTTTTTAAA
58138802 TTTTAAAATATTTTTAAA
1 TTTTAAAAT-TTTTTAAA
58138820 ATACTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
17 15 0.33
18 14 0.31
19 1 0.02
20 2 0.04
21 7 0.16
22 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATTTTTTAAA
Found at i:58138800 original size:40 final size:39
Alignment explanation
Indices: 58138733--58138839 Score: 169
Period size: 39 Copynumber: 2.7 Consensus size: 39
58138723 ATTTTTTTAA
* *
58138733 TTTTAAAATACTTTTTTAAAATTTTTTAAATTTTAAAATTT
1 TTTTAAAATACTTTTTT--AATTTTTTTAATTTTAAAATAT
58138774 TTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAATAT
58138813 TTTTAAAATACTTTTTTTAATTTTTTT
1 TTTTAAAATAC-TTTTTTAATTTTTTT
58138840 TTTTTAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
39 31 0.49
40 15 0.24
41 17 0.27
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAATAT
Found at i:58138827 original size:28 final size:28
Alignment explanation
Indices: 58138774--58138827 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
58138764 TTTAAAATTT
* **
58138774 TTTTAAAATACTTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTAA
58138802 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTT-AAATACTTTT
58138828 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAATACTTTTAA
Found at i:58138841 original size:14 final size:14
Alignment explanation
Indices: 58138824--58138851 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58138814 TTTAAAATAC
58138824 TTTTTTTAATTTTT
1 TTTTTTTAATTTTT
58138838 TTTTTTTAATTTTT
1 TTTTTTTAATTTTT
58138852 AAAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTAATTTTT
Found at i:58139702 original size:3 final size:3
Alignment explanation
Indices: 58139694--58139727 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
58139684 TAATATCCCT
58139694 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
58139728 GATGTTACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:58139990 original size:26 final size:25
Alignment explanation
Indices: 58139938--58139992 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
58139928 TATTTTAAAA
* * *
58139938 TATTTTTAAAATACTTTTTATTTTT
1 TATTTTTAAAATAATTTTTAGTGTT
*
58139963 TATTTTTAAAATAAATTTTTGGTGTT
1 TATTTTTAAAAT-AATTTTTAGTGTT
58139989 TATT
1 TATT
58139993 AAAAAATGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTTTTAAAATAATTTTTAGTGTT
Found at i:58140311 original size:33 final size:33
Alignment explanation
Indices: 58140267--58140369 Score: 161
Period size: 33 Copynumber: 3.1 Consensus size: 33
58140257 AATTAGACAG
*
58140267 ATAATTACAGCTTAGATACATTGTTTTCGTATT
1 ATAATTACAGCTTACATACATTGTTTTCGTATT
*
58140300 ATAATTGCAGCTTACATACATTGTTTTCGTATT
1 ATAATTACAGCTTACATACATTGTTTTCGTATT
* * *
58140333 ATAATTACAGCATATATACATTGTTTTCATATT
1 ATAATTACAGCTTACATACATTGTTTTCGTATT
58140366 ATAA
1 ATAA
58140370 ATTTTTTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (33 bp):
ATAATTACAGCTTACATACATTGTTTTCGTATT
Found at i:58140781 original size:93 final size:94
Alignment explanation
Indices: 58140654--58140823 Score: 211
Period size: 93 Copynumber: 1.8 Consensus size: 94
58140644 GCATCCACCA
* * * * * * ** *
58140654 AACAGGTAAATATCGACAAAATAATCGAGTATCCAAT-AAACTAGAGACG-ACAACGACAAAATT
1 AACAGATAAAAATCGACAAAAGAATCAAGCATCC-ATCAAACTAGA-AAGAACAAAAACAAAACT
58140717 ATCT-TAAAATCACCTCGGATAGTCCAAAAC
64 ATCTCTAAAATCACCTCGGATAGTCCAAAAC
*
58140747 AACAGATAAAAATCGATAAAAGAATCAAGCATCCATCAAACTAGAAAGAACAAAAACAAAACTAT
1 AACAGATAAAAATCGACAAAAGAATCAAGCATCCATCAAACTAGAAAGAACAAAAACAAAACTAT
58140812 CTCTAAAATCAC
66 CTCTAAAATCAC
58140824 TTACTACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
92 4 0.06
93 51 0.80
94 9 0.14
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.18
Consensus pattern (94 bp):
AACAGATAAAAATCGACAAAAGAATCAAGCATCCATCAAACTAGAAAGAACAAAAACAAAACTAT
CTCTAAAATCACCTCGGATAGTCCAAAAC
Found at i:58143570 original size:10 final size:11
Alignment explanation
Indices: 58143541--58143572 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
58143531 CTTCTAGTCT
58143541 TTTCTATTTTA
1 TTTCTATTTTA
58143552 TTT-TATTTTA
1 TTTCTATTTTA
58143562 TTTCT-TTTTA
1 TTTCTATTTTA
58143572 T
1 T
58143573 AACAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTATTTTA
Found at i:58146818 original size:88 final size:88
Alignment explanation
Indices: 58146695--58146871 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
58146685 TACATAATAC
58146695 TTGCAGTTGATTATCTCCATTAAACCTTTACAATTGTTTTTTATACGAATACATGAATATAGACA
1 TTGCAGTTGATTATCTCCATTAAACCTTTACAATTGTTTTTTATACGAATACATGAATATAGACA
58146760 AAACTCGAACTGATAATTGCTTA
66 AAACTCGAACTGATAATTGCTTA
58146783 TTGCAGTTGATTATCTCCATTAAACCTTTACAATTGTTTTTTATACGAATACATGAATATAGACA
1 TTGCAGTTGATTATCTCCATTAAACCTTTACAATTGTTTTTTATACGAATACATGAATATAGACA
58146848 AAACTCGAACTGATAATTGCTTA
66 AAACTCGAACTGATAATTGCTTA
58146871 T
1 T
58146872 GTAGTTCTCA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (88 bp):
TTGCAGTTGATTATCTCCATTAAACCTTTACAATTGTTTTTTATACGAATACATGAATATAGACA
AAACTCGAACTGATAATTGCTTA
Found at i:58159483 original size:15 final size:14
Alignment explanation
Indices: 58159463--58159494 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
58159453 TCTCACTATT
58159463 TTACTACTATTTCTG
1 TTACTACTATTT-TG
58159478 TTACTACTATTTTG
1 TTACTACTATTTTG
58159492 TTA
1 TTA
58159495 TTATCGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (14 bp):
TTACTACTATTTTG
Found at i:58160193 original size:26 final size:28
Alignment explanation
Indices: 58160138--58160199 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
58160128 TTTATACAGG
58160138 TTAAAATATTTCATAAATTTATATACTA-
1 TTAAAA-ATTTCATAAATTTATATACTAT
* *
58160166 TTAAAAATTTTA-AAATTTA-ATCATTAT
1 TTAAAAATTTCATAAATTTATAT-ACTAT
58160193 TTAAAAA
1 TTAAAAA
58160200 ATAATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.07
26 10 0.33
27 12 0.40
28 6 0.20
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAAAAATTTCATAAATTTATATACTAT
Found at i:58161916 original size:60 final size:61
Alignment explanation
Indices: 58161840--58161964 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 61
58161830 AATTTCAAAG
* * * **
58161840 TTAGGACTAAATTGAAAGATTTTGTAAATGTTGAGGGCTAAATTTATTGAAATT-TTATAA
1 TTAGAACTAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATTGAAATTCTTATAA
* * *
58161900 TTAGAACTAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTGTTGAATTTCTTATAT
1 TTAGAACTAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATTGAAATTCTTATAA
58161961 TTAG
1 TTAG
58161965 GATCAAATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 47 0.84
61 9 0.16
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (61 bp):
TTAGAACTAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATTGAAATTCTTATAA
Found at i:58168410 original size:46 final size:46
Alignment explanation
Indices: 58168338--58168427 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
58168328 CCTTAGTTTT
* * * *
58168338 GAATAAGTTGTGCTTTAGGAACAACTTATTCGTACGAATAAGTTCC
1 GAATAAGTTGTGCTTAACGAACAACTTACTCGTACAAATAAGTTCC
*
58168384 GAATAAGTTGATGCTTAACG-AGAACTTACTCGTACAAATAAGTT
1 GAATAAGTTG-TGCTTAACGAACAACTTACTCGTACAAATAAGTT
58168428 TCCATGATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 31 0.82
47 7 0.18
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (46 bp):
GAATAAGTTGTGCTTAACGAACAACTTACTCGTACAAATAAGTTCC
Found at i:58177773 original size:22 final size:20
Alignment explanation
Indices: 58177748--58177795 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
58177738 TTTGAAGAGT
*
58177748 TTTAGTTGAGATGAATTTTTGA
1 TTTAGTTG-GAT-AATTTTAGA
*
58177770 TTTAAGTTGGATTATTTTAGA
1 TTT-AGTTGGATAATTTTAGA
58177791 TTTAG
1 TTTAG
58177796 GTAATTTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 10 0.43
22 6 0.26
23 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (20 bp):
TTTAGTTGGATAATTTTAGA
Found at i:58180610 original size:19 final size:19
Alignment explanation
Indices: 58180569--58180610 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
58180559 AAGTGATTTA
* *
58180569 AAAATTTATAAAAAATATT
1 AAAATATATAAAAAATATG
58180588 AAAATATATATAAAAATA-G
1 AAAATATATA-AAAAATATG
58180607 AAAA
1 AAAA
58180611 AATCAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATATATAAAAAATATG
Found at i:58182170 original size:32 final size:33
Alignment explanation
Indices: 58182125--58182188 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
58182115 GAATTATAAA
* *
58182125 TTTTACAAGGGTCAAATAGCAGTTTTACCAATC
1 TTTTACAAAGGTCAAATAGCAATTTTACCAATC
*
58182158 TTTTA-AAAGGTCATATAGCAATTTTACCAAT
1 TTTTACAAAGGTCAAATAGCAATTTTACCAAT
58182189 AATGGAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTTACAAAGGTCAAATAGCAATTTTACCAATC
Found at i:58186503 original size:29 final size:29
Alignment explanation
Indices: 58186461--58186516 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
58186451 GTATTGGGAC
58186461 TGATGCATTTGATTATGATTTGCGTTTAT
1 TGATGCATTTGATTATGATTTGCGTTTAT
58186490 TGATGCATTTGATTATGATTTGCGTTT
1 TGATGCATTTGATTATGATTTGCGTTT
58186517 GTTCTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.07, G:0.21, T:0.52
Consensus pattern (29 bp):
TGATGCATTTGATTATGATTTGCGTTTAT
Found at i:58189738 original size:14 final size:14
Alignment explanation
Indices: 58189715--58189754 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
58189705 TTACTAATTC
* *
58189715 TAATACTAATTAAA
1 TAATAATAATAAAA
58189729 TAATAATAATAAAA
1 TAATAATAATAAAA
*
58189743 AAATAATAATAA
1 TAATAATAATAA
58189755 TGAAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:58189746 original size:17 final size:18
Alignment explanation
Indices: 58189726--58189760 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
58189716 AATACTAATT
58189726 AAATAATAATAAT-AAAA
1 AAATAATAATAATGAAAA
58189743 AAATAATAATAATGAAAA
1 AAATAATAATAATGAAAA
58189761 TATTAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATAATAATAATGAAAA
Found at i:58191033 original size:21 final size:21
Alignment explanation
Indices: 58191009--58191048 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58190999 GCCATGTACT
*
58191009 TCAGTCACACAGACGTGTCTC
1 TCAGCCACACAGACGTGTCTC
* *
58191030 TCAGCCACACGGCCGTGTC
1 TCAGCCACACAGACGTGTC
58191049 CCTTTGCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.20
Consensus pattern (21 bp):
TCAGCCACACAGACGTGTCTC
Found at i:58194350 original size:24 final size:23
Alignment explanation
Indices: 58194322--58194366 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
58194312 TTTTAATACA
*
58194322 ATCAAATTTGTATTATTAATTTAT
1 ATCAAATTTGTA-TATAAATTTAT
58194346 ATCAAATTTGTATATAAATTT
1 ATCAAATTTGTATATAAATTT
58194367 TGATTTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
ATCAAATTTGTATATAAATTTAT
Found at i:58197511 original size:3 final size:3
Alignment explanation
Indices: 58197497--58197546 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
58197487 AAACATAAAC
* * *
58197497 TAA TACA TAA TAA TAT TAA TAA TAA TAA -AT TAA TAA T-A TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58197541 TAA TAA
1 TAA TAA
58197547 GAGTATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.08
3 32 0.84
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:58197522 original size:22 final size:22
Alignment explanation
Indices: 58197504--58197546 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
58197494 AACTAATACA
*
58197504 TAATAATATTAATAATAATAAAT
1 TAATAATA-TAAAAATAATAAAT
58197527 TAATAATATAAAAATAATAA
1 TAATAATATAAAAATAATAA
58197547 GAGTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAATAATATAAAAATAATAAAT
Found at i:58197530 original size:14 final size:14
Alignment explanation
Indices: 58197491--58197546 Score: 64
Period size: 15 Copynumber: 4.1 Consensus size: 14
58197481 ATAATAAAAC
*
58197491 ATAAACTAATACATA
1 ATAAATTAATA-ATA
58197506 ATAATATTAATAATA
1 ATAA-ATTAATAATA
58197521 ATAAATTAATAAT-
1 ATAAATTAATAATA
58197534 ATAAA--AATAATA
1 ATAAATTAATAATA
58197546 A
1 A
58197547 GAGTATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
11 6 0.16
12 1 0.03
13 5 0.13
14 9 0.24
15 11 0.29
16 6 0.16
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATTAATAATA
Found at i:58197542 original size:11 final size:11
Alignment explanation
Indices: 58197503--58197545 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
58197493 AAACTAATAC
58197503 ATAATAATATTA
1 ATAATAATA-TA
58197515 ATAATAATA-A
1 ATAATAATATA
58197525 ATTAATAATATA
1 A-TAATAATATA
*
58197537 AAAATAATA
1 ATAATAATA
58197546 AGAGTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 15 0.54
12 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATAATATA
Found at i:58199431 original size:72 final size:72
Alignment explanation
Indices: 58199194--58199446 Score: 364
Period size: 73 Copynumber: 3.5 Consensus size: 72
58199184 ACATGTGAAC
* * *
58199194 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAGTTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
58199258 CAGCGTGTCC
63 CAACGTGTCT
* *
58199268 TAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
58199333 ACGTGTCT
65 ACGTGTCT
*
58199341 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
58199406 TGTGTCT
66 CGTGTCT
* *
58199413 TGGGGCTCAACTTATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
58199447 TTCTTTCAAA
Statistics
Matches: 164, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
72 65 0.40
73 70 0.43
74 29 0.18
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:58199584 original size:71 final size:71
Alignment explanation
Indices: 58199468--58199628 Score: 241
Period size: 71 Copynumber: 2.3 Consensus size: 71
58199458 ACATAATGAC
* * *
58199468 GAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
58199533 GATTTT
66 GATTTT
* * **
58199539 GAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
58199604 GATTTT
66 GATTTT
*
58199610 GAAAAACAAAAATTGAAAA
1 G-AAAACAGAAATTGAAAA
58199629 ACAGAAATGG
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 65 0.81
72 15 0.19
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (71 bp):
GAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTT
Found at i:58199627 original size:14 final size:14
Alignment explanation
Indices: 58199608--58199642 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
58199598 TGAGTTGATT
58199608 TTGAAAAACAAAAA
1 TTGAAAAACAAAAA
*
58199622 TTGAAAAACAGAAA
1 TTGAAAAACAAAAA
*
58199636 TGGAAAA
1 TTGAAAA
58199643 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.06, G:0.14, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:58199685 original size:86 final size:83
Alignment explanation
Indices: 58199540--58199724 Score: 262
Period size: 86 Copynumber: 2.2 Consensus size: 83
58199530 GTTGATTTTG
* * **
58199540 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
58199605 ATTTTGAAAAACAAAAATTGA
66 ATTTAG-AAAACAAAAA-T-A
* *
58199626 AAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
58199691 ATTTAGAAAACAGACATA
66 ATTTAGAAAACAAAAATA
58199709 AAAACAGAAATTGAAA
1 AAAACAGAAATTGAAA
58199725 GTGACTCAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
83 16 0.18
84 1 0.01
85 8 0.09
86 64 0.72
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (83 bp):
AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTAGAAAACAAAAATA
Found at i:58199873 original size:74 final size:73
Alignment explanation
Indices: 58199745--58200854 Score: 766
Period size: 74 Copynumber: 14.5 Consensus size: 73
58199735 ACGTGAGCCA
* ** ** * *
58199745 AGGCTCAACTCACCTTTCATAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
* *
58199809 GCGTGCCCCG
64 GCGTGTCCTG
*
58199819 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAG
* *
58199884 TGTGTCTTG
65 CGTGTCCTG
58199893 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAA
* * *
58199958 AATACCTCAACGAGTCTTG
55 AATACCTCAGCGTGTCCTG
*
58199977 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTCA
** *
58200042 ATGTGTCTTG
64 GCGTGTCCTG
* *
58200052 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
*
58200116 GCCTGTCCTG
64 GCGTGTCCTG
* * *
58200126 AGGCTCAACTCACCTCTAGTAATATGAGTTGA-TTTTG-AAAACA-AAATTGAAATTA-CTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
58200187 GTGTCCTG
66 GTGTCCTG
** * * *
58200195 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTG-ACAACAAAAATTGAAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTGAAAATACCT
58200259 CAGCGTGTCCTG
62 CAGCGTGTCCTG
* * *
58200271 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TCTTG-AAAACAGAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
58200334 GTGTCCTG
66 GTGTCCTG
** * ***
58200342 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAAA-ACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATAC-CTCA-
**
58200405 G-GAAAATACCTCAG
64 GCG--TGT-CCT--G
* * * * * ** * * **
58200419 CATGTCCTGAGGCTCAACTCAC-CTCT-TGCAATATGAGTTGATTT-AGAAAACAGACATAAAAA
1 -A-G-GCTCA-ACTCACCTCTCGCAATATG-AGT-TGA-TT--TTTGA-AAAACAGAAATTGAAA
* ** * **
58200481 CAGAAATTGAAAGTGACTCAACACGTG
56 -A-TACCTCAGCGTG--T---C-C-TG
* ** *
58200508 A-GC-CAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAA
1 AGGCTCAA----C---TCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAA
* * *
58200570 TACCTCGGCGTGCCCCG
57 TACCTCAGCGTGTCCTG
*
58200587 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAG
*
58200652 CGTGTCTTG
65 CGTGTCCTG
*
58200661 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAA
*
58200726 AATACCTCAACGTGT-CTG
55 AATACCTCAGCGTGTCCTG
*
58200744 AGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTCA
** *
58200808 ATGTGTCTTG
64 GCGTGTCCTG
**
58200818 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
58200855 TTGGAAAGCA
Statistics
Matches: 838, Mismatches: 116, Indels: 165
0.75 0.10 0.15
Matches are distributed among these distances:
69 41 0.05
70 12 0.01
71 81 0.10
72 29 0.03
73 36 0.04
74 263 0.31
75 91 0.11
76 47 0.06
77 5 0.01
78 2 0.00
79 7 0.01
80 12 0.01
81 14 0.02
82 18 0.02
83 21 0.03
84 84 0.10
85 19 0.02
86 14 0.02
87 5 0.01
88 12 0.01
89 6 0.01
90 10 0.01
91 7 0.01
92 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
GTGTCCTG
Found at i:58199901 original size:233 final size:225
Alignment explanation
Indices: 58199622--58200853 Score: 984
Period size: 233 Copynumber: 5.3 Consensus size: 225
58199612 AAAACAAAAA
* * * *
58199622 TTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
58199687 GTTGATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCA
66 GTTGATTTTG-AAA-A-ACATAAAAACAGAAATTGAAA-T-ACTC-A-ACGTGAGCCGAGGCTCA
** * * * *
58199752 ACTCACCTTTCATAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCC
124 ACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAGCAGAAATTGAAAATACCTCAGCGTGTCC
*
58199817 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
189 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
58199854 TTGAAAAAACAGAAATTGAAATTACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTG-AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
58199919 AGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAAAATACCTCAAC--GAGTCTTGAGGCT
65 AGTTGA-TTTTGAAAAACATAAA---AACAGAAATTG-AAATA-CTCAACGTGAG-C-CGAGGCT
* * **
58199982 CAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTG
122 CAACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAAGCAGAAATTGAAAATACCTCAGCGTG
*
58200047 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
186 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* * * *
58200089 TTG-ACAACAGAAATTGAAATTACCTCAGCCTGTCCTGAGGCTCAACTCACCTCTAGTAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
58200153 GTTGATTTTG---------AAAACA-AAATTGAAATTACTCAGCGTG-TCCTGAGGCTCAACTCA
66 GTTGATTTTGAAAAACATAAAAACAGAAATTGAAA-TACTCAACGTGAGCC-GAGGCTCAACTCA
* * *
58200207 -TTTCTCGCAATATGAGTTGATTTTTTTTTGACAA-CAAAAATTGAAATTACCTCAGCGTGTCCT
129 CCTT-TCGCAATATGAGTTGA--TTTTTTTGA-AAGCAGAAATTGAAAATACCTCAGCGTGTCCT
* *
58200270 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TC
190 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
**
58200305 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
58200369 GTTGATTTTGAAAAACAAAAATTGAAAAACAGAAATGGAAAATACCTCAGCATG-TCCTGAGGCT
66 GTTGATTTTGAAAAAC----A-T-AAAAACAGAAATTG-AAATA-CTCAACGTGAGCC-GAGGCT
*** * * *
58200433 CAACTCACCTCTT-GCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGA
122 CAACTCACCT-TTCGCAATATGAGTTGATTT---------TTTTGAAAGCAGAAATTGAAAAT-A
* * * *
58200497 -CTCAACACGTGAGCC-AAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTT
176 CCTC-A-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
** * * * * *
58200550 TTG-AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
58200614 GTTGATTTTTG------A-AAAAACAGAAATTGAAATTACCTCAGCGTG-TCTTGAGGCTCAACT
66 GTTGA-TTTTGAAAAACATAAAAACAGAAATTGAAA-TA-CTCAACGTGAGC-CGAGGCTCAACT
* * * *
58200671 CACCTCTCGTAATATGAGTTGATTTTTGAAAAACAT-AAATTGAACAGGAATTGAAAATACCTCA
127 CACCTTTCGCAATATGAGTTGATTTTT-------TTGAAA--G--CAGAAATTGAAAATACCTCA
*
58200735 ACGTGT-CTGAGGCTCAACTCACCT-TCGCAATATGAGTTGATTTT
181 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
* * ** * **
58200779 CTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 -TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
58200844 AGTTGATTTT
65 AGTTGATTTT
58200854 TTTGGAAAGC
Statistics
Matches: 830, Mismatches: 94, Indels: 154
0.77 0.09 0.14
Matches are distributed among these distances:
216 69 0.08
217 1 0.00
218 38 0.05
219 64 0.08
220 14 0.02
223 2 0.00
229 4 0.00
230 30 0.04
231 90 0.11
232 63 0.08
233 286 0.34
234 35 0.04
235 10 0.01
236 1 0.00
239 2 0.00
240 17 0.02
241 2 0.00
242 34 0.04
243 2 0.00
245 61 0.07
246 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (225 bp):
TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTGAAAAACATAAAAACAGAAATTGAAATACTCAACGTGAGCCGAGGCTCAACTCACC
TTTCGCAATATGAGTTGATTTTTTTGAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTT
Found at i:58200364 original size:71 final size:72
Alignment explanation
Indices: 58199945--58200395 Score: 579
Period size: 71 Copynumber: 6.2 Consensus size: 72
58199935 ACATAAATTG
* * * * *
58199945 AACAGGAATTGAAAATACCTCAACGAGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
58200010 TTTCTTGAA
65 TTT-TTGAA
* ** *
58200019 AAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
58200084 TTTTTTTGAC
65 --TTTTTGAA
* * *
58200094 AACAGAAATTGAAATTACCTCAGCCTGTCCTGAGGCTCAACTCACCTCTAGTAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
58200158 TTTTGAA
66 TTTTGAA
**
58200165 AACA-AAATTGAAATTA-CTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
58200228 TTTTTTTTGAC
65 ---TTTTTGAA
* *
58200239 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
58200303 TCTTGAA
66 TTTTGAA
**
58200310 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
58200374 TTTTGAAA
66 TTTTG-AA
*
58200382 AACAAAAATTGAAA
1 AACAGAAATTGAAA
58200396 AACAGAAATG
Statistics
Matches: 338, Mismatches: 29, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
69 41 0.12
70 12 0.04
71 79 0.23
72 15 0.04
74 67 0.20
75 77 0.23
76 47 0.14
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAA
Found at i:58200395 original size:14 final size:14
Alignment explanation
Indices: 58200376--58200410 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
58200366 TGAGTTGATT
58200376 TTGAAAAACAAAAA
1 TTGAAAAACAAAAA
*
58200390 TTGAAAAACAGAAA
1 TTGAAAAACAAAAA
*
58200404 TGGAAAA
1 TTGAAAA
58200411 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.06, G:0.14, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:58200453 original size:86 final size:83
Alignment explanation
Indices: 58200308--58200548 Score: 272
Period size: 86 Copynumber: 2.8 Consensus size: 83
58200298 GTTGATCTTG
* * ** *
58200308 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
58200373 ATTTTGAAAAACAAAAATTGA
66 ATTTTG-AAAACAAAAA-T-A
*
58200394 AAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
* * *
58200459 ATTTAGAAAACAGACATA
66 ATTTTGAAAACAAAAATA
* * * *
58200477 AAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCC-AAGGCTCAACTCACCT-TTCGCAATATG
1 AAAACAGAAATTGAAAAT-ACCTCAGCA--TG-TCCTGAGGCTCAACTCACCTCTT-GCAATATG
58200539 AGTTGATTTT
61 AGTTGATTTT
58200549 TTTGAAAGTA
Statistics
Matches: 135, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
83 23 0.17
84 4 0.03
85 42 0.31
86 66 0.49
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (83 bp):
AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
ATTTTGAAAACAAAAATA
Found at i:58200838 original size:231 final size:233
Alignment explanation
Indices: 58200393--58200854 Score: 607
Period size: 231 Copynumber: 2.0 Consensus size: 233
58200383 ACAAAAATTG
*
58200393 AAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
58200458 GATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAACT
66 GATTTAGAAAACAGACATAAAAACAGAAATTGAAAATGACTCAACACGTGAGCCAAGGCTCAACT
* * * **
58200523 CACCTTTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGA
131 CACCTTTCGCAATATGAGTTGATTTTCTTGAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGA
58200588 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
196 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * * * *
58200626 AAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * **
58200691 GATTTTTG-AAA-A-ACATAAATTGAACAGGAATTGAAAAT-ACCTC-A-ACGTG-TCTGAGGCT
66 GA-TTTAGAAAACAGACATAAA---AACAGAAATTGAAAATGA-CTCAACACGTGAGCCAAGGCT
*
58200749 CAACTCACC-TTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTG
126 CAACTCACCTTTCGCAATATGAGTTGATTTTCTTG-AAAGCAGAAATTGAAAATACCTCAACGTG
* ** **
58200813 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
190 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
58200855 TTGGAAAGCA
Statistics
Matches: 200, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
230 24 0.12
231 83 0.41
232 6 0.03
233 66 0.33
234 21 0.10
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (233 bp):
AAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTAGAAAACAGACATAAAAACAGAAATTGAAAATGACTCAACACGTGAGCCAAGGCTCAACT
CACCTTTCGCAATATGAGTTGATTTTCTTGAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
Found at i:58200863 original size:75 final size:73
Alignment explanation
Indices: 58200719--58200864 Score: 229
Period size: 75 Copynumber: 2.0 Consensus size: 73
58200709 ATTGAACAGG
58200719 AATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTTCGCAATATGAGTTGATTTTCTTGA
1 AATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTTCGCAATATGAGTTGATTTTCTTGA
58200784 AAAGCAGA
66 AAAGCAGA
* ** *
58200792 AATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTC-TGAGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTCTT
*
58200857 GGAAAGCA
64 GAAAAGCA
58200865 TGAATATCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 22 0.33
74 15 0.23
75 29 0.44
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (73 bp):
AATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTTCGCAATATGAGTTGATTTTCTTGA
AAAGCAGA
Found at i:58210659 original size:3 final size:3
Alignment explanation
Indices: 58210645--58210695 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
58210635 AAACATAAAC
* *
58210645 TAA TACA TAA TAA TAT TAA TAA TAA TAA -AA TTAA TAA T-A TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
58210690 TAA TAA
1 TAA TAA
58210696 GAGTATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58210677 original size:15 final size:15
Alignment explanation
Indices: 58210645--58210695 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
58210635 AAACATAAAC
*
58210645 TAATACATAATAATAT
1 TAATA-ATAATAAAAT
58210661 TAATAATAATAAAAT
1 TAATAATAATAAAAT
*
58210676 TAATAAT-ATAAAAA
1 TAATAATAATAAAAT
58210690 TAATAA
1 TAATAA
58210696 GAGTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.36
15 16 0.48
16 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATAATAAAAT
Found at i:58214267 original size:3 final size:3
Alignment explanation
Indices: 58214259--58214291 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58214249 ACAGTCAGTA
58214259 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58214292 TAAGAAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:58215953 original size:15 final size:15
Alignment explanation
Indices: 58215933--58215982 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
58215923 TTTATATATT
58215933 TTAATATTTTAAATA
1 TTAATATTTTAAATA
58215948 TTAATA--TT-AATA
1 TTAATATTTTAAATA
*
58215960 TTAATATTTGAAATA
1 TTAATATTTTAAATA
*
58215975 ATAATATT
1 TTAATATT
58215983 CTTTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.33
13 2 0.07
14 1 0.03
15 17 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTAATATTTTAAATA
Found at i:58217138 original size:18 final size:18
Alignment explanation
Indices: 58217111--58217145 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58217101 ATTATAAACG
*
58217111 TAAATTACAAATTGTATA
1 TAAATAACAAATTGTATA
*
58217129 TAAATAACAATTTGTAT
1 TAAATAACAAATTGTAT
58217146 CAATTGTTCA
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:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
TAAATAACAAATTGTATA
Found at i:58223687 original size:36 final size:36
Alignment explanation
Indices: 58223647--58223715 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
58223637 ATATGTAGAT
*
58223647 ATATATAGATGTATATGT-AAGTTGTAAAATATAGGA
1 ATATATAGATGTATATGTGAA-TTATAAAATATAGGA
*
58223683 ATATATATATGTATATGTGAATTATAAAATATA
1 ATATATAGATGTATATGTGAATTATAAAATATA
58223716 AAAGCTAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (36 bp):
ATATATAGATGTATATGTGAATTATAAAATATAGGA
Found at i:58233321 original size:37 final size:36
Alignment explanation
Indices: 58233251--58233360 Score: 119
Period size: 37 Copynumber: 3.2 Consensus size: 36
58233241 AACTATAAAG
58233251 GCCGAATGC--ACATAT-TCACTTATACCCACCTAT
1 GCCGAATGCATACATATATCACTTATACCCACCTAT
* * *
58233284 GCCGAATGCATACATATATGCACTTATATCTATCTAT
1 GCCGAATGCATACATATAT-CACTTATACCCACCTAT
*
58233321 GCCGAATGCATACA-A-AT-A--TATATCCACCTAT
1 GCCGAATGCATACATATATCACTTATACCCACCTAT
58233352 GCCGAATGC
1 GCCGAATGC
58233361 CTAAATATGC
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
31 20 0.29
33 10 0.15
35 8 0.12
36 2 0.03
37 28 0.41
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (36 bp):
GCCGAATGCATACATATATCACTTATACCCACCTAT
Found at i:58233602 original size:41 final size:41
Alignment explanation
Indices: 58233551--58233726 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
58233541 AATTCATCAT
* *
58233551 ATTCGAATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAAATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
58233592 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAAATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
58233633 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAAATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
58233674 ATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAAATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
58233715 ATTCAATTCACC
1 ATTCAAATCACC
58233727 AATTCCAGAC
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (41 bp):
ATTCAAATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:58233726 original size:82 final size:82
Alignment explanation
Indices: 58233557--58233719 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
58233547 TCATATTCGA
*
58233557 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
58233622 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
58233639 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
58233704 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
58233720 ATTCACCAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:58242991 original size:106 final size:106
Alignment explanation
Indices: 58242806--58243004 Score: 299
Period size: 106 Copynumber: 1.9 Consensus size: 106
58242796 CCATATTTTA
* * * *
58242806 AATTCGAGACGTCATGCCCTAACTTACGGGGCATGGTTTTCTTCCCGATTAACTCGAAATACAAA
1 AATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTAACTCGAAATACAAA
58242871 GACATTCTACATAAAATTTGATTTAATTTCTTATTTTTGGG
66 GACATTCTACATAAAATTTGATTTAATTTCTTATTTTTGGG
** *
58242912 AATTCGAGACATTGTGCCCTAACTTACGAGACATGATTTTCTTCCCGATTAACTTGAAATACAAA
1 AATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTAACTCGAAATACAAA
** * *
58242977 GGTATTTTTCATAAAATTTGATTTAATT
66 GACATTCTACATAAAATTTGATTTAATT
58243005 AGTGATACTT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 82 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (106 bp):
AATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTAACTCGAAATACAAA
GACATTCTACATAAAATTTGATTTAATTTCTTATTTTTGGG
Found at i:58253737 original size:44 final size:46
Alignment explanation
Indices: 58253640--58254086 Score: 154
Period size: 44 Copynumber: 9.8 Consensus size: 46
58253630 TGAATCTTAT
* * * ** *
58253640 CTCCCTGAAGTTGCAGTAGAGCAAATTAAATATACGA-AT-CT-TA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAACATACTATA
*
58253683 TCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA-ATACTATA
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAACATACTATA
* * * * *
58253729 C-CCCTGAAGTTGCAATGG-GTCGGATTAAATCCACCATAGCGA-ACCT-TA
1 CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTA-CA-A-C-ATA-CTATA
* *
58253777 TCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACGAACAT-C-AT-
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AACATACTATA
* * * *
58253822 CTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTTACAA-ATCCTATA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAACATACTATA
* * ** * *
58253867 C-CCTTAAAGTTGCAGTGG-GTTGGATT-AATTCCACCACAGCGA-ACGT-TA
1 CTCCCTGAAGTTGCAGTGGAG-CAGATTGAA-GCTA-CA-A-C-ATAC-TATA
* * * * * * * * *
58253915 TCTCCCTAAAGTTACAGTAGAGAAAATTAAAGCTATGAACCT-C-CT-
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAACATACTATA
*
58253960 CTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAA-AT-CT-TA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAACATACTATA
* * * * *
58254003 TCTCCCTAAAGTTGCAATGAAGCAGATTGAAGCTACAA-TTCCTATA
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAACATACTATA
* * *
58254049 C-CCCTAAAGTTGCAGTAG-GCTAGAATGAAGCTACAACA
1 CTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGCTACAACA
58254087 ACAAATCTTA
Statistics
Matches: 307, Mismatches: 57, Indels: 77
0.70 0.13 0.17
Matches are distributed among these distances:
42 5 0.02
43 11 0.04
44 203 0.66
45 11 0.04
46 9 0.03
47 2 0.01
48 8 0.03
49 10 0.03
50 44 0.14
51 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (46 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAACATACTATA
Found at i:58253834 original size:138 final size:137
Alignment explanation
Indices: 58253581--58254021 Score: 562
Period size: 138 Copynumber: 3.2 Consensus size: 137
58253571 GTGAAACCAT
* * * * *
58253581 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTAAAGT-CACCATAGTGAATCTTATCTCCC
1 AAATCCTATACCCCTAAAGTTGCAATGGGTCGGATTAAA-TCCACCATAGCGAACCTTATCTCCC
** * * *
58253645 TGAAGTTGCAGTAGAGCAAATTAAATATACGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGAT
65 TGAAGTTGCAGTAGAGCAAATTAAAGCTACGAA-CTCATCTCCCTAAAGTTGCAGTGGAGCAGAT
58253710 TGAAGCTAC
129 TGAAGCTAC
* * *
58253719 AAATACTATACCCCTGAAGTTGCAATGGGTCGGATTAAATCCACCATAGCGAACCTTATCTTCCT
1 AAATCCTATACCCCTAAAGTTGCAATGGGTCGGATTAAATCCACCATAGCGAACCTTATCTCCCT
* * *
58253784 GAAGTTGCAGTAGAGCAGATTGAAGCTACGAACATCATCTCCCTAAAGTTGCAGTGGAGTAGATT
66 GAAGTTGCAGTAGAGCAAATTAAAGCTACGAAC-TCATCTCCCTAAAGTTGCAGTGGAGCAGATT
*
58253849 GAAGTTAC
130 GAAGCTAC
* * * * * *
58253857 AAATCCTATACCCTTAAAGTTGCAGTGGGTTGGATTAATTCCACCACAGCGAACGTTATCTCCCT
1 AAATCCTATACCCCTAAAGTTGCAATGGGTCGGATTAAATCCACCATAGCGAACCTTATCTCCCT
* * * * *
58253922 AAAGTTACAGTAGAGAAAATTAAAGCTATGAACCTCCTCTCCCTAAAGTTGCAGTGGAGCAGATT
66 GAAGTTGCAGTAGAGCAAATTAAAGCTACGAA-CTCATCTCCCTAAAGTTGCAGTGGAGCAGATT
58253987 GAAGCTAC
130 GAAGCTAC
*
58253995 AAATCTTAT-CTCCCTAAAGTTGCAATG
1 AAATCCTATAC-CCCTAAAGTTGCAATG
58254022 AAGCAGATTG
Statistics
Matches: 263, Mismatches: 36, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
137 3 0.01
138 259 0.98
139 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (137 bp):
AAATCCTATACCCCTAAAGTTGCAATGGGTCGGATTAAATCCACCATAGCGAACCTTATCTCCCT
GAAGTTGCAGTAGAGCAAATTAAAGCTACGAACTCATCTCCCTAAAGTTGCAGTGGAGCAGATTG
AAGCTAC
Found at i:58254036 original size:88 final size:87
Alignment explanation
Indices: 58253912--58254084 Score: 190
Period size: 88 Copynumber: 2.0 Consensus size: 87
58253902 ACAGCGAACG
* * *
58253912 TTATCTCCCTAAAGTTACAGTAGAGAAAATTAAAGCTATGAACCTCCTCT-CCCTAAAGTTGCAG
1 TTATCTCCCTAAAGTTACAATAGAGAAAATTAAAGCTA-CAA-CTCCTATACCCTAAAGTTGCAG
* *
58253976 TGGAGC-AGATTGAAGCTACAAATC
64 TAG-GCTAGAATGAAGCTACAAATC
* * * * *
58254000 TTATCTCCCTAAAGTTGCAAT-GAAGCAGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAG
1 TTATCTCCCTAAAGTTACAATAG-AGAAAATTAAAGCTACAACTCCTATA-CCCTAAAGTTGCAG
58254064 TAGGCTAGAATGAAGCTACAA
64 TAGGCTAGAATGAAGCTACAA
58254085 CAACAAATCT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
86 5 0.07
87 5 0.07
88 61 0.86
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (87 bp):
TTATCTCCCTAAAGTTACAATAGAGAAAATTAAAGCTACAACTCCTATACCCTAAAGTTGCAGTA
GGCTAGAATGAAGCTACAAATC
Found at i:58256118 original size:106 final size:106
Alignment explanation
Indices: 58255933--58256145 Score: 336
Period size: 106 Copynumber: 2.0 Consensus size: 106
58255923 AAAATGAGCA
** * *
58255933 TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTATGAGGCATGATTTTCTTCCCTATTA
1 TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTACAAGACATGATTTTCTTCCCGATTA
* *
58255998 ACTCGAAATACAAAGACATTCTGCATAAAATTTGATTTAAT
66 ACTCAAAACACAAAGACATTCTGCATAAAATTTGATTTAAT
*
58256039 TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTACAAGACATGATTTTCTTCTCGATTA
1 TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTACAAGACATGATTTTCTTCCCGATTA
* * *
58256104 ACTCAAAACACAAAGGCATTTTTCATAAAATTTGATTTAAT
66 ACTCAAAACACAAAGACATTCTGCATAAAATTTGATTTAAT
58256145 T
1 T
58256146 AGCGATATTT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (106 bp):
TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTACAAGACATGATTTTCTTCCCGATTA
ACTCAAAACACAAAGACATTCTGCATAAAATTTGATTTAAT
Found at i:58260035 original size:20 final size:21
Alignment explanation
Indices: 58260010--58260068 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
58260000 TGTTTGTATC
58260010 TAAAATTTTAATAAATA-AAT
1 TAAAATTTTAATAAATATAAT
**
58260030 TAAAATCGT-ATAAATATAAT
1 TAAAATTTTAATAAATATAAT
*
58260050 TTAAATTTTAA-ATAATATA
1 TAAAATTTTAATA-AATATA
58260069 GATAGGCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.23
20 17 0.55
21 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAATTTTAATAAATATAAT
Found at i:58261826 original size:2 final size:2
Alignment explanation
Indices: 58261819--58261853 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
58261809 GCTAAATTTA
*
58261819 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58261854 GAATGAAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58267378 original size:20 final size:20
Alignment explanation
Indices: 58267342--58267380 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58267332 TAGTTAATTA
*
58267342 ATTTAATTATATTTTATTTT
1 ATTTAATTATATATTATTTT
58267362 ATTTAATTAT-TAATTATTT
1 ATTTAATTATAT-ATTATTT
58267381 AAACTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTAATTATATATTATTTT
Found at i:58269643 original size:12 final size:12
Alignment explanation
Indices: 58269626--58269659 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58269616 TATACCACAC
* *
58269626 GGTCGTGTGGCT
1 GGTCGTGTGCCA
58269638 GGTCGTGTGCCA
1 GGTCGTGTGCCA
58269650 GGTCGTGTGC
1 GGTCGTGTGC
58269660 TCCCGATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.21, G:0.47, T:0.29
Consensus pattern (12 bp):
GGTCGTGTGCCA
Found at i:58271013 original size:22 final size:22
Alignment explanation
Indices: 58270969--58271012 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
58270959 TTTTGGATTA
*
58270969 TTATAATTTTTGAAAAATATTT
1 TTATAATTTTAGAAAAATATTT
58270991 TTATAA-TTTAG-AAAATATTT
1 TTATAATTTTAGAAAAATATTT
58271011 TT
1 TT
58271013 TAGTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TTATAATTTTAGAAAAATATTT
Found at i:58271069 original size:21 final size:21
Alignment explanation
Indices: 58271029--58271067 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58271019 AAAACAATGA
*
58271029 AATTTTTTTTTATTATTTTCT
1 AATTTTTATTTATTATTTTCT
58271050 AATTTTTATTT-TTATTTT
1 AATTTTTATTTATTATTTT
58271068 TCAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (21 bp):
AATTTTTATTTATTATTTTCT
Found at i:58272212 original size:27 final size:27
Alignment explanation
Indices: 58272158--58272221 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
58272148 GTTACAGAGC
* *
58272158 TAGTATACGCCAGCAGATCTGACGAGA
1 TAGTATACGCCAACAGATCTGACAAGA
* *
58272185 TGGTATACGCCAACAAGA-CTGGCAAGA
1 TAGTATACGCCAAC-AGATCTGACAAGA
*
58272212 TAGTGTACGC
1 TAGTATACGC
58272222 TAGTAGGTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (27 bp):
TAGTATACGCCAACAGATCTGACAAGA
Found at i:58272288 original size:27 final size:27
Alignment explanation
Indices: 58272203--58272282 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
58272193 GCCAACAAGA
*
58272203 CTGGCAAGATAGTGTACGCTAGTAGGT
1 CTGGCAAGATAGTGTTCGCTAGTAGGT
* * * *
58272230 CTGGCGAGCTAGTGTTCGATAGTTGGT
1 CTGGCAAGATAGTGTTCGCTAGTAGGT
* *
58272257 CTGGCAAGTTAGTGTTCGCCAGTAGG
1 CTGGCAAGATAGTGTTCGCTAGTAGG
58272283 CTTGGCGAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.29
Consensus pattern (27 bp):
CTGGCAAGATAGTGTTCGCTAGTAGGT
Found at i:58273447 original size:18 final size:17
Alignment explanation
Indices: 58273415--58273448 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58273405 AGATAGATTT
*
58273415 ATTATTTTGTTTATATA
1 ATTATTTTATTTATATA
58273432 ATTATTTATATTTATAT
1 ATTATTT-TATTTATAT
58273449 TTGTTCACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
ATTATTTTATTTATATA
Found at i:58273769 original size:43 final size:42
Alignment explanation
Indices: 58273678--58273776 Score: 180
Period size: 43 Copynumber: 2.3 Consensus size: 42
58273668 AATTCTGTTT
58273678 CGGGATTTATTCCTATTAAATCGGGATTTTTTCCTGTTAAAC
1 CGGGATTTATTCCTATTAAATCGGGATTTTTTCCTGTTAAAC
*
58273720 CAGGATTTATTCCTATTAAATCGGGATTTTTTTCCTGTTAAAC
1 CGGGATTTATTCCTATTAAATCGGGA-TTTTTTCCTGTTAAAC
58273763 CGGGATTTATTCCT
1 CGGGATTTATTCCT
58273777 GTCGTTTAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.43
Consensus pattern (42 bp):
CGGGATTTATTCCTATTAAATCGGGATTTTTTCCTGTTAAAC
Found at i:58273777 original size:21 final size:21
Alignment explanation
Indices: 58273678--58273778 Score: 130
Period size: 21 Copynumber: 4.8 Consensus size: 21
58273668 AATTCTGTTT
* *
58273678 CGGGATTTATTCCTATTAAAT
1 CGGGATTTATTCCTGTTAAAC
*
58273699 CGGGATTTTTTCCTGTTAAAC
1 CGGGATTTATTCCTGTTAAAC
* * *
58273720 CAGGATTTATTCCTATTAAAT
1 CGGGATTTATTCCTGTTAAAC
*
58273741 CGGGATTTTTTTCCTGTTAAAC
1 CGGGA-TTTATTCCTGTTAAAC
58273763 CGGGATTTATTCCTGT
1 CGGGATTTATTCCTGT
58273779 CGTTTAACAG
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
21 49 0.73
22 18 0.27
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (21 bp):
CGGGATTTATTCCTGTTAAAC
Found at i:58273866 original size:82 final size:81
Alignment explanation
Indices: 58273763--58274171 Score: 405
Period size: 76 Copynumber: 5.1 Consensus size: 81
58273753 CCTGTTAAAC
* *
58273763 CGGGATTTATTCCTGTCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGAATTA
1 CGGGATTTATTCC-GCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTA
* *
58273828 ATTGAATAATTCTATTC
65 ATTAAATAATTCTATTT
* * *
58273845 CGGGATTTATTCTCACCGTTTAACAAATTTTATTCGATTTTGATTTTGTTTCCAAA-AGAGAATT
1 CGGGATTTATTC-CGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA-AGATTT
*
58273909 AATTGAATAA-TCTATTT
64 AATTAAATAATTCTATTT
* * * *
58273926 CGAGATTTATTCCCGCCGTTTAATAGATTTTATTCGATTTTAATTTTGCTTCCAAACGAGAAGAT
1 CGGGATTTATT-CCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAAC---AAGAT
* *
58273991 TTAATTAAATAATTTTGTTT
62 TTAATTAAATAATTCTATTT
** * *
58274011 CAAGATTTATTCCGCCGCTTAACAGA--TT-TT--ATTTTGATTTTGTTTCCAAACAGGATTTAA
1 CGGGATTTATTCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAA
* *
58274071 TCAAATAATTCTGTTT
66 TTAAATAATTCTATTT
* * * *
58274087 TGGGATTTGTTCCCGCCGTTTAAC--A---TATT-TATTTTAATTTTGTTTCCAAACAAGATTTA
1 CGGGATTTATT-CCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTA
*
58274146 ATTAAATAACTT-TGTTT
65 ATTAAATAA-TTCTATTT
*
58274163 CGGAATTTA
1 CGGGATTTA
58274172 ATCCTGCCAT
Statistics
Matches: 282, Mismatches: 33, Indels: 30
0.82 0.10 0.09
Matches are distributed among these distances:
74 1 0.00
75 3 0.01
76 75 0.27
77 13 0.05
79 19 0.07
81 57 0.20
82 70 0.25
83 1 0.00
84 27 0.10
85 16 0.06
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (81 bp):
CGGGATTTATTCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAA
TTAAATAATTCTATTT
Found at i:58273973 original size:81 final size:83
Alignment explanation
Indices: 58273766--58274154 Score: 407
Period size: 82 Copynumber: 4.9 Consensus size: 83
58273756 GTTAAACCGG
* *
58273766 GATTTATTCCTGTCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACA-AGAATTAAT
1 GATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAGAGAATTAAT
* * *
58273830 TGAATAATTCTATTCCGG
66 TAAATAATTCTATTTCGA
* * *
58273848 GATTTATTCTCACCGTTTAACAAATTTTATTCGATTTTGATTTTGTTTCCAAA-AGAGAATTAAT
1 GATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAGAGAATTAAT
*
58273912 TGAATAA-TCTATTTCGA
66 TAAATAATTCTATTTCGA
* * * *
58273929 GATTTATTCCCGCCGTTTAATAGATTTTATTCGATTTTAATTTTGCTTCCAAACGAGAAGATTTA
1 GATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAAC-AG-AGAATTA
* * *
58273994 ATTAAATAATTTTGTTTCAA
64 ATTAAATAATTCTATTTCGA
* *
58274014 GATTTATT-CCGCCGCTTAACAGA--TT-TT--ATTTTGATTTTGTTTCCAAACAG-GATTTAAT
1 GATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAGAGAATTAAT
* * * *
58274072 CAAATAATTCTGTTTTGG
66 TAAATAATTCTATTTCGA
* * * *
58274090 GATTTGTTCCCGCCGTTTAAC--A---TATT-TATTTTAATTTTGTTTCCAAACA-AGATTTAAT
1 GATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAGAGAATTAAT
58274148 TAAATAA
66 TAAATAA
58274155 CTTTGTTTCG
Statistics
Matches: 267, Mismatches: 31, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
74 1 0.00
75 3 0.01
76 63 0.24
77 11 0.04
78 2 0.01
79 19 0.07
81 58 0.22
82 66 0.25
83 2 0.01
84 27 0.10
85 15 0.06
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (83 bp):
GATTTATTCCCGCCGTTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAGAGAATTAAT
TAAATAATTCTATTTCGA
Done.