Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 305 of 318
Found at i:96692328 original size:29 final size:27
Alignment explanation
Indices: 96692296--96692349 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
96692286 CAAAATTTAA
96692296 AAAAATAAAAAATTATTAATTATTTTTTT
1 AAAAATAAAAAATT-TTAA-TATTTTTTT
* *
96692325 AAAAATTAGAAATTTTAATATTTTT
1 AAAAATAAAAAATTTTAATATTTTT
96692350 GAATTTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 4 0.17
29 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
AAAAATAAAAAATTTTAATATTTTTTT
Found at i:96692687 original size:17 final size:17
Alignment explanation
Indices: 96692662--96692700 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
96692652 TTTTAGTATT
96692662 TTTTATATTTTTATATAA
1 TTTTATATTTTTA-ATAA
96692680 TTTT-TATTTTTAATAA
1 TTTTATATTTTTAATAA
*
96692696 ATTTA
1 TTTTA
96692701 ATAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATTTTTAATAA
Found at i:96692749 original size:18 final size:18
Alignment explanation
Indices: 96692697--96692752 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
96692687 TTTTAATAAA
*
96692697 TTTAATAAATTTTTATTT
1 TTTAATAAATTTTAATTT
** *
96692715 TTTAAGCATTTTGTAATTT
1 TTTAATAAATTT-TAATTT
96692734 TTTAATAAATTTTAATTT
1 TTTAATAAATTTTAATTT
96692752 T
1 T
96692753 ATCACATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTAATAAATTTTAATTT
Found at i:96693650 original size:3 final size:3
Alignment explanation
Indices: 96693644--96693675 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
96693634 ATCATCGTCG
96693644 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96693676 GAATAAAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:96699960 original size:44 final size:43
Alignment explanation
Indices: 96699912--96699996 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 43
96699902 TGAATGTAGA
96699912 AAAAAATTAAATATATTTTCTTATAGATACTTTTATGGTAAAGT
1 AAAAAATTAAATATATTTTCTTATAGATACTTTTAT-GTAAAGT
*
96699956 AAAAAATTAAATATATTTTCTTATAGATTCTTTTATGTAAA
1 AAAAAATTAAATATATTTTCTTATAGATACTTTTATGTAAA
96699997 TTGTCATGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 5 0.12
44 35 0.88
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (43 bp):
AAAAAATTAAATATATTTTCTTATAGATACTTTTATGTAAAGT
Found at i:96702156 original size:12 final size:12
Alignment explanation
Indices: 96702139--96702163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96702129 AAGTGCTAGT
96702139 TTAAATAAAAAA
1 TTAAATAAAAAA
96702151 TTAAATAAAAAA
1 TTAAATAAAAAA
96702163 T
1 T
96702164 ACCATATCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAATAAAAAA
Found at i:96706556 original size:25 final size:24
Alignment explanation
Indices: 96706523--96706569 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
96706513 CATTATCATT
96706523 ATTTAAAATAAAAAATGATAAAAA
1 ATTTAAAATAAAAAATGATAAAAA
* *
96706547 ATTTATAAATAAATATTGATAAA
1 ATTTA-AAATAAAAAATGATAAA
96706570 TTTATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (24 bp):
ATTTAAAATAAAAAATGATAAAAA
Found at i:96709738 original size:13 final size:13
Alignment explanation
Indices: 96709720--96709745 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96709710 TAAGAACACA
96709720 AAGAGGAAAATTG
1 AAGAGGAAAATTG
96709733 AAGAGGAAAATTG
1 AAGAGGAAAATTG
96709746 GACGAAGTGG
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:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (13 bp):
AAGAGGAAAATTG
Found at i:96713189 original size:6 final size:6
Alignment explanation
Indices: 96713175--96713210 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
96713165 GTTTTTTTTT
96713175 TAATC- TAATCA TAATCA TAATCA TAATCA TAATCA T
1 TAATCA TAATCA TAATCA TAATCA TAATCA TAATCA T
96713211 GTTATGCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (6 bp):
TAATCA
Found at i:96716137 original size:13 final size:14
Alignment explanation
Indices: 96716109--96716141 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
96716099 CAGGTTTGCC
96716109 TTCCTTACTCTTTT
1 TTCCTTACTCTTTT
*
96716123 TTCCTTA-TTTTTT
1 TTCCTTACTCTTTT
96716136 TTCCTT
1 TTCCTT
96716142 TTTCTGGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCCTTACTCTTTT
Found at i:96734168 original size:13 final size:13
Alignment explanation
Indices: 96734150--96734175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96734140 TATAAAAGGA
96734150 ATGACATTTTTCT
1 ATGACATTTTTCT
96734163 ATGACATTTTTCT
1 ATGACATTTTTCT
96734176 TTAGTTGACA
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:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
ATGACATTTTTCT
Found at i:96734594 original size:18 final size:18
Alignment explanation
Indices: 96734561--96734595 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96734551 ATTTTTCAAC
* *
96734561 TTGAATAATTCGAATAAT
1 TTGAATAAATCAAATAAT
96734579 TTGAATAAATCAAATAA
1 TTGAATAAATCAAATAA
96734596 CAAGTTGATA
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:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (18 bp):
TTGAATAAATCAAATAAT
Found at i:96736037 original size:39 final size:39
Alignment explanation
Indices: 96735983--96736108 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
96735973 TTCAGTGATG
*
96735983 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
96736022 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
96736061 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
96736100 TATGTCCGG
1 TATATCCGG
96736109 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:96736122 original size:78 final size:78
Alignment explanation
Indices: 96735983--96736126 Score: 182
Period size: 78 Copynumber: 1.8 Consensus size: 78
96735973 TTCAGTGATG
* * * * * **
96735983 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
96736048 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
96736061 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
96736125 CT
65 CT
96736127 TCGAGCTGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 4 0.07
78 51 0.93
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (78 bp):
TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:96736125 original size:39 final size:39
Alignment explanation
Indices: 96735983--96736135 Score: 144
Period size: 39 Copynumber: 3.9 Consensus size: 39
96735973 TTCAGTGATG
* * * * * *
96735983 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
* * * * *
96736022 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
* *
96736061 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
* * * * *
96736100 TATGTCCGGGCTAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGG
96736136 TATTATACCG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTAAAGGCCCGCAGGCTACGTGCTGGAAA
Found at i:96736135 original size:78 final size:78
Alignment explanation
Indices: 96735983--96736146 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
96735973 TTCAGTGATG
* * * * * **
96735983 TATATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
96736048 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* * *
96736061 TATATCCGGACTTAAGGCCCACAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
96736125 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
96736139 TATA-CCGG
1 TATATCCGG
96736147 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 9 0.12
78 63 0.88
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGCCCACAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:96742666 original size:39 final size:39
Alignment explanation
Indices: 96742612--96742737 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
96742602 TTCAGTGATG
96742612 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
96742651 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
96742690 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
96742729 TATGTCCGG
1 TATATCCGG
96742738 GCTAAAGTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:96742750 original size:39 final size:39
Alignment explanation
Indices: 96742612--96742794 Score: 165
Period size: 39 Copynumber: 4.7 Consensus size: 39
96742602 TTCAGTGATG
** *
96742612 TATATCCGGACTTAGGGT-CCGCAGGCTATGTGCTGGAAT
1 TATATCCGGAC-TAAAGTCCCGCAGGCTACGTGCTGGAAT
** *
96742651 TATATCCGGACTTAGGGT-CCGCAGGCTATGTGCTGGAAT
1 TATATCCGGAC-TAAAGTCCCGCAGGCTACGTGCTGGAAT
* * *
96742690 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTAAAGTCCCGCAGGCTACGTGCTGGAAT
* * * * *
96742729 TATGTCCGGGCTAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTAAAGTCCCGCAGGCTACGTGCTGGAAT
** *
96742768 TATA-CCGGGTTTAAATTCCCGCAGGCT
1 TATATCC-GGACTAAAGTCCCGCAGGCT
96742795 TGTGTTGGTA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 4 0.03
39 120 0.97
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTAAAGTCCCGCAGGCTACGTGCTGGAAT
Found at i:96742751 original size:78 final size:78
Alignment explanation
Indices: 96742612--96742755 Score: 200
Period size: 78 Copynumber: 1.8 Consensus size: 78
96742602 TTCAGTGATG
* * * * **
96742612 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
96742677 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* *
96742690 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
96742754 CT
65 CT
96742756 TCGAGCTGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 4 0.07
78 53 0.93
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.25
Consensus pattern (78 bp):
TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:96742764 original size:78 final size:78
Alignment explanation
Indices: 96742612--96742775 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
96742602 TTCAGTGATG
* * * * **
96742612 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
*
96742677 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
96742690 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
*
96742754 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
96742768 TATA-CCGG
1 TATATCCGG
96742776 GTTTAAATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 9 0.12
78 65 0.88
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGCCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:96745525 original size:18 final size:18
Alignment explanation
Indices: 96745504--96745538 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
96745494 AGTCTATTTT
96745504 TTAAATTTCAAAATTCAG
1 TTAAATTTCAAAATTCAG
96745522 TTAAATTTCAAAATTCA
1 TTAAATTTCAAAATTCA
96745539 AGTTTAACTG
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:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (18 bp):
TTAAATTTCAAAATTCAG
Found at i:96750793 original size:8 final size:8
Alignment explanation
Indices: 96750780--96750811 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
96750770 AGACGAGTCA
96750780 GACACATG
1 GACACATG
96750788 GACACATG
1 GACACATG
96750796 GACACATG
1 GACACATG
96750804 GACACATG
1 GACACATG
96750812 CCAATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.25, T:0.12
Consensus pattern (8 bp):
GACACATG
Found at i:96769717 original size:16 final size:16
Alignment explanation
Indices: 96769696--96769727 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
96769686 ATATACAAAA
96769696 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
96769712 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
96769728 TTGAAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
ATATATATGTGTTTAT
Found at i:96770180 original size:24 final size:24
Alignment explanation
Indices: 96770153--96770508 Score: 282
Period size: 24 Copynumber: 14.9 Consensus size: 24
96770143 GAAATGACTT
*
96770153 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
96770177 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
96770201 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
96770225 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * * **
96770249 TGTCAATATCTATGTAAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
96770274 T-GCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
96770297 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
96770321 TGGCAC-ATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
96770344 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* *
96770369 -GGCACTATGTGTGCAAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
96770392 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
96770416 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
96770440 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* ** *
96770465 -GACACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
96770488 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
96770509 CCTTGCTTGA
Statistics
Matches: 260, Mismatches: 53, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 22 0.08
24 221 0.85
25 10 0.04
26 3 0.01
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:96791471 original size:5 final size:5
Alignment explanation
Indices: 96791463--96791489 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
96791453 TTTTATTATC
96791463 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
96791490 AATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:96792941 original size:31 final size:32
Alignment explanation
Indices: 96792906--96792968 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
96792896 TTTTAATTTT
*
96792906 ATATTT-ATCTAATT-AACTTTTTTAATATAAA
1 ATATTTGATC-AATTGAACTTATTTAATATAAA
* *
96792937 ATATTTGATCCATTGAACTTATTTAATTTAAA
1 ATATTTGATCAATTGAACTTATTTAATATAAA
96792969 TTTGAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (32 bp):
ATATTTGATCAATTGAACTTATTTAATATAAA
Found at i:96793243 original size:28 final size:28
Alignment explanation
Indices: 96793203--96793261 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
96793193 AATCAAAAGT
96793203 AAAATCTGATTTGTCATTCTCCTATTGG
1 AAAATCTGATTTGTCATTCTCCTATTGG
96793231 AAAATCTGATTTGTCATTCTCCTATTGG
1 AAAATCTGATTTGTCATTCTCCTATTGG
96793259 AAA
1 AAA
96793262 GGGATAGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (28 bp):
AAAATCTGATTTGTCATTCTCCTATTGG
Found at i:96793409 original size:5 final size:5
Alignment explanation
Indices: 96793399--96793460 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
96793389 TTGTACCTTC
96793399 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
96793449 TTATA TTATA TT
1 TTATA TTATA TT
96793461 TAATGAGTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:96794985 original size:26 final size:26
Alignment explanation
Indices: 96794956--96795005 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
96794946 TTTTTTAAAA
96794956 GTATGCCCGTAATGTGGCTTTTCTCT
1 GTATGCCCGTAATGTGGCTTTTCTCT
*
96794982 GTATGCCCGTAGTGTGGCTTTTCT
1 GTATGCCCGTAATGTGGCTTTTCT
96795006 GTTCTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.10, C:0.22, G:0.26, T:0.42
Consensus pattern (26 bp):
GTATGCCCGTAATGTGGCTTTTCTCT
Found at i:96798753 original size:31 final size:31
Alignment explanation
Indices: 96798718--96798779 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
96798708 GTGGACAGAG
96798718 ATAGAATGGTTAAAGGGTCACCATGGACCTT
1 ATAGAATGGTTAAAGGGTCACCATGGACCTT
96798749 ATAGAATGGTTAAAGGGTCACCATGGACCTT
1 ATAGAATGGTTAAAGGGTCACCATGGACCTT
96798780 CAACAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (31 bp):
ATAGAATGGTTAAAGGGTCACCATGGACCTT
Found at i:96806687 original size:46 final size:44
Alignment explanation
Indices: 96806635--96806722 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
96806625 AGAACAGAAA
*
96806635 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
96806681 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
96806723 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:96806734 original size:44 final size:45
Alignment explanation
Indices: 96806628--96806761 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
96806618 ACAGGACAGA
* * *
96806628 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
96806674 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
96806718 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96806762 GAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:96813316 original size:44 final size:45
Alignment explanation
Indices: 96813230--96813317 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 45
96813220 AGAACAGAAA
* *
96813230 TGAGTCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGGT
*
96813276 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
96813318 AATAATTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 19 0.49
46 20 0.51
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGGT
Found at i:96813329 original size:44 final size:45
Alignment explanation
Indices: 96813223--96813356 Score: 135
Period size: 44 Copynumber: 3.0 Consensus size: 45
96813213 ACAGGACAGA
* * *
96813223 ACAGAAATGAGTCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGTCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * * *
96813269 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGTCATGTAAGTCCATATTAAAATATGGCATTGGAG
* * * *
96813313 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGTCATGTAAGTCCATATTAAA-ATATGGCATTGG
96813357 GAGGGTATTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 35 0.49
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGTCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:96815735 original size:31 final size:31
Alignment explanation
Indices: 96815651--96815735 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
96815641 TCGTAAGTAC
* *
96815651 TTTTATTTTTACAAATTT-AGAATTTAATCTT
1 TTTTATTTTT-CATATTTAAAAATTTAATCTT
** * *
96815682 TTTTGCTTTT-ATTTTTAGAAATTTAAAT-TT
1 TTTTATTTTTCATATTTAAAAATTT-AATCTT
96815712 TTTTATTTTTCATATTTAAAAATT
1 TTTTATTTTTCATATTTAAAAATT
96815736 CAAGTTCAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
29 4 0.10
30 15 0.37
31 22 0.54
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (31 bp):
TTTTATTTTTCATATTTAAAAATTTAATCTT
Found at i:96816228 original size:21 final size:20
Alignment explanation
Indices: 96816204--96816264 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
96816194 ATTCATAATA
*
96816204 TTAACAATTAAACTTAAAATT
1 TTAA-AATTAAATTTAAAATT
* *
96816225 TTAAATTTTAAATTTTAAATT
1 TTAAA-ATTAAATTTAAAATT
96816246 TTAAAAATTTAAATTTAAA
1 TT-AAAA-TTAAATTTAAA
96816265 TTAACTAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 18 0.56
22 13 0.41
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAATTAAATTTAAAATT
Found at i:96816261 original size:6 final size:7
Alignment explanation
Indices: 96816220--96816266 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
96816210 ATTAAACTTA
96816220 AAATTTT
1 AAATTTT
96816227 AAATTTT
1 AAATTTT
96816234 AAATTTT
1 AAATTTT
96816241 AAATTTT
1 AAATTTT
*
96816248 AAAAATTT
1 -AAATTTT
96816256 AAA-TTT
1 AAATTTT
96816262 AAATT
1 AAATT
96816267 AACTAACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.16
7 25 0.68
8 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
AAATTTT
Found at i:96816265 original size:21 final size:21
Alignment explanation
Indices: 96816211--96816266 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
96816201 ATATTAACAA
* *
96816211 TTAAACTTAAAATTTTAAATT
1 TTAAACTTTAAATTTTAAAAT
*
96816232 TTAAATTTTAAATTTTAAAAAT
1 TTAAACTTTAAATTTT-AAAAT
96816254 TTAAA-TTTAAATT
1 TTAAACTTTAAATT
96816267 AACTAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAACTTTAAATTTTAAAAT
Found at i:96819859 original size:30 final size:30
Alignment explanation
Indices: 96819813--96819897 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
96819803 AGGTAACCTA
* *
96819813 ATATAA-GTCAGCTTGTGTGAGCAACATTG
1 ATATAATGTCAACTTGTGTGAGCAACACTG
* *
96819842 ATATAATTTCAACTTGTGTGAGCAACCCTG
1 ATATAATGTCAACTTGTGTGAGCAACACTG
*
96819872 ATATAATGTCAGCTTGTGTGAGCAAC
1 ATATAATGTCAACTTGTGTGAGCAAC
96819898 TTAATCACTC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 6 0.12
30 43 0.88
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (30 bp):
ATATAATGTCAACTTGTGTGAGCAACACTG
Found at i:96820145 original size:47 final size:47
Alignment explanation
Indices: 96820076--96820169 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
96820066 TATGACTAAC
96820076 CTATTTGAATGTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTT
1 CTATTTGAATGTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTT
96820123 CTATTTGAATGTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTT
1 CTATTTGAATGTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTT
96820170 ACTAAGCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (47 bp):
CTATTTGAATGTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTT
Found at i:96820185 original size:47 final size:46
Alignment explanation
Indices: 96820082--96820186 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 46
96820072 TAACCTATTT
* *
96820082 GAATGTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTTCTATTT
1 GAATCTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTTCTA-TA
*
96820129 GAATGTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTTACTA-A
1 GAATCTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTT-CTATA
*
96820175 GCATTCTTAATG
1 G-AATCTTAATG
96820187 CTTACTCTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
46 1 0.02
47 49 0.92
48 3 0.06
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.48
Consensus pattern (46 bp):
GAATCTTAATGTTGGTAAGTATTGTATTTTCATTTGAACTTCTATA
Found at i:96821562 original size:39 final size:39
Alignment explanation
Indices: 96821519--96821594 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
96821509 AGAATGCACT
*
96821519 ACAAAGGCTTCACAAAATATACCATGAAA-GCATCACATC
1 ACAAAGGCTTCACAAAATATACCA-CAAAGGCATCACATC
* *
96821558 ACAAAGGCTTCACAGAATATGCCACAAAGGCATCACA
1 ACAAAGGCTTCACAAAATATACCACAAAGGCATCACA
96821595 GAATACACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 30 0.91
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.16
Consensus pattern (39 bp):
ACAAAGGCTTCACAAAATATACCACAAAGGCATCACATC
Found at i:96821587 original size:23 final size:23
Alignment explanation
Indices: 96821557--96821621 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
96821547 AGCATCACAT
**
96821557 CACAAAGGCTTCACAGAATATGC
1 CACAAAGGCTTCACAGAATACAC
*
96821580 CACAAAGGCATCACAGAATACAC
1 CACAAAGGCTTCACAGAATACAC
*
96821603 CACAAAGACTTCACAGAAT
1 CACAAAGGCTTCACAGAAT
96821622 TCCTTGTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.14
Consensus pattern (23 bp):
CACAAAGGCTTCACAGAATACAC
Found at i:96823035 original size:22 final size:24
Alignment explanation
Indices: 96823005--96823068 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
96822995 ACACATATAT
* *
96823005 ATATAAAAAACATATAATAC-TAA
1 ATATTAAAAATATATAATACATAA
96823028 AT-TTAAAAATATAT-ATACAATAA
1 ATATTAAAAATATATAATAC-ATAA
96823051 ATATTAAAAATA-ATAATA
1 ATATTAAAAATATATAATA
96823069 GTATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 4 0.11
22 10 0.29
23 9 0.26
24 12 0.34
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATTAAAAATATATAATACATAA
Found at i:96823095 original size:22 final size:19
Alignment explanation
Indices: 96823046--96823087 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
96823036 ATATATATAC
* *
96823046 AATAAATATTAAAAATAAT
1 AATAGATATAAAAAATAAT
96823065 AATAG-TATAAAAAACTAAT
1 AATAGATATAAAAAA-TAAT
96823084 AATA
1 AATA
96823088 ACGATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAGATATAAAAAATAAT
Found at i:96826465 original size:49 final size:49
Alignment explanation
Indices: 96826325--96826467 Score: 204
Period size: 46 Copynumber: 3.0 Consensus size: 49
96826315 TCATCTTTGG
*
96826325 AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACT-AC
1 AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACTGCC
* * * *
96826373 AAGGGTTCTACAATCAT--AGACCCAAATAAGATTACACTTAAACTGCC
1 AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACTGCC
96826420 AAGGGTTTTACAATCATCCCCG-CCCAAATAAGATTAGACTCAAACTGC
1 AAGGGTTTTACAATCAT-CCCGACCCAAATAAGATTAGACTCAAACTGC
96826468 AACTGCAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
46 24 0.29
47 17 0.21
48 16 0.20
49 24 0.29
50 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.23
Consensus pattern (49 bp):
AAGGGTTTTACAATCATCCCGACCCAAATAAGATTAGACTCAAACTGCC
Found at i:96827898 original size:19 final size:19
Alignment explanation
Indices: 96827865--96827908 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
96827855 AGGCGCGACC
96827865 TATTTTTTAATAATATAATT
1 TATTTTTTAATAATATAA-T
* *
96827885 TATTTTTTTA-AATATTAT
1 TATTTTTTAATAATATAAT
96827903 TATTTT
1 TATTTT
96827909 ATTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTTTTAATAATATAAT
Found at i:96829269 original size:11 final size:11
Alignment explanation
Indices: 96829234--96829261 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
96829224 GAGAGTAAGA
96829234 AATTTTAATGT
1 AATTTTAATGT
96829245 AATTTTAATGT
1 AATTTTAATGT
96829256 AATTTT
1 AATTTT
96829262 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:96830897 original size:12 final size:12
Alignment explanation
Indices: 96830874--96830939 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
96830864 TGCACCAGCT
*
96830874 CGGAGACAGAGC
1 CGGAGCCAGAGC
*
96830886 CAGAGCCAGAGC
1 CGGAGCCAGAGC
* *
96830898 CGGAGGCAGTGC
1 CGGAGCCAGAGC
*
96830910 CGGACCCAGAG-
1 CGGAGCCAGAGC
*
96830921 CGGCGGCCAGAGC
1 CGG-AGCCAGAGC
96830934 CGGAGC
1 CGGAGC
96830940 TACACTCAGG
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 3 0.07
12 35 0.85
13 3 0.07
ACGTcount: A:0.24, C:0.32, G:0.42, T:0.02
Consensus pattern (12 bp):
CGGAGCCAGAGC
Found at i:96835143 original size:27 final size:27
Alignment explanation
Indices: 96835105--96835164 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
96835095 AGGGGAGTCG
96835105 CGCCTCTGCAGCAGGAGCGACTGGTCA
1 CGCCTCTGCAGCAGGAGCGACTGGTCA
*
96835132 CGCCTCTGCAGCAGGAGCGACTGGTCG
1 CGCCTCTGCAGCAGGAGCGACTGGTCA
96835159 CGCCTC
1 CGCCTC
96835165 CAGGTCTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (27 bp):
CGCCTCTGCAGCAGGAGCGACTGGTCA
Found at i:96835254 original size:19 final size:20
Alignment explanation
Indices: 96835232--96835276 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
96835222 AAAATATAAT
96835232 AAAATAACA-ATATT-TTAAA
1 AAAATAA-ATATATTATTAAA
96835251 AAAATAAATTATATTATTAAA
1 AAAATAAA-TATATTATTAAA
96835272 AAAAT
1 AAAAT
96835277 GGGTCGCGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 7 0.30
20 5 0.22
21 10 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATAAATATATTATTAAA
Found at i:96835733 original size:28 final size:29
Alignment explanation
Indices: 96835671--96835733 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
96835661 AAATTTTTAA
* *
96835671 AAATATA-TTTATAAAATATATTATTTGC
1 AAATATATTTTATAAAATATATTATGTCC
96835699 --ATCATATTTTATAAAATATATT-TGTCC
1 AAAT-ATATTTTATAAAATATATTATGTCC
96835726 AAATATAT
1 AAATATAT
96835734 AAAATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
26 2 0.07
27 6 0.21
28 19 0.66
29 2 0.07
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (29 bp):
AAATATATTTTATAAAATATATTATGTCC
Found at i:96835763 original size:9 final size:9
Alignment explanation
Indices: 96835726--96835763 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
96835716 ATATTTGTCC
96835726 AAATATATA
1 AAATATATA
*
96835735 AAATAAATA
1 AAATATATA
*
96835744 AAATCTA-A
1 AAATATATA
96835752 AAATATATA
1 AAATATATA
96835761 AAA
1 AAA
96835764 CGTATAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
AAATATATA
Found at i:96845622 original size:19 final size:17
Alignment explanation
Indices: 96845601--96845645 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
96845591 ATATCATATT
96845601 AATAAT-TAAATTTTTA
1 AATAATATAAATTTTTA
*
96845617 AATAATATATATTTTTAA
1 AATAATATAAATTTTT-A
96845635 AATATATATAA
1 AATA-ATATAA
96845646 TAAATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 8 0.33
18 5 0.21
19 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAATATAAATTTTTA
Found at i:96845632 original size:17 final size:16
Alignment explanation
Indices: 96845599--96845643 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
96845589 AAATATCATA
*
96845599 TTAATAAT-TAAATTT
1 TTAATAATATATATTT
96845614 TTAAATAATATATATTT
1 TT-AATAATATATATTT
96845631 TTAA-AATATATAT
1 TTAATAATATATAT
96845644 AATAAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 11 0.41
16 8 0.30
17 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATATATATTT
Found at i:96845668 original size:24 final size:26
Alignment explanation
Indices: 96845608--96845674 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 26
96845598 ATTAATAATT
96845608 AAATTTTTA-AATAATATATATTTTTA
1 AAATTTTTATAATAA-ATATATTTTTA
* *
96845634 AAATATATATAATAAAT-TA-TTTTA
1 AAATTTTTATAATAAATATATTTTTA
96845658 AAATTTTTATAA-AAATA
1 AAATTTTTATAATAAATA
96845675 AAGAACATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 4 0.11
24 15 0.43
25 2 0.06
26 9 0.26
27 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATTTTTATAATAAATATATTTTTA
Found at i:96845793 original size:17 final size:18
Alignment explanation
Indices: 96845760--96845794 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
96845750 ATTTTATTCT
96845760 AAGTATTAAATAATAATA
1 AAGTATTAAATAATAATA
96845778 AAGTATTAAA-AATAATA
1 AAGTATTAAATAATAATA
96845795 CCCATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAGTATTAAATAATAATA
Found at i:96845886 original size:9 final size:9
Alignment explanation
Indices: 96845874--96845902 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
96845864 TACTTTCTCA
96845874 TTTTTTTTC
1 TTTTTTTTC
96845883 -TTTTTTTC
1 TTTTTTTTC
96845891 TTTTTTTTC
1 TTTTTTTTC
96845900 TTT
1 TTT
96845903 CTATTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:96846999 original size:16 final size:16
Alignment explanation
Indices: 96846970--96847009 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
96846960 AATTATCATG
96846970 TATATACATACATATA
1 TATATACATACATATA
* *
96846986 TATATTCATGCATATA
1 TATATACATACATATA
96847002 TATATACA
1 TATATACA
96847010 CCTCATAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (16 bp):
TATATACATACATATA
Found at i:96848137 original size:18 final size:18
Alignment explanation
Indices: 96848105--96848147 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
96848095 ATAACATGTG
* *
96848105 TTCAGTATCATTCAAACA
1 TTCAGTAGCAGTCAAACA
**
96848123 TTCAGTAGCAGTCAATTA
1 TTCAGTAGCAGTCAAACA
96848141 TTCAGTA
1 TTCAGTA
96848148 ACAATTAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (18 bp):
TTCAGTAGCAGTCAAACA
Found at i:96848339 original size:18 final size:18
Alignment explanation
Indices: 96848318--96848377 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
96848308 AATCGGTTAA
*
96848318 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
96848336 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
96848354 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
96848372 TCAGTA
1 TCAGTA
96848378 GCAGACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:96849587 original size:17 final size:19
Alignment explanation
Indices: 96849553--96849590 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
96849543 AAACCTTTAA
96849553 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
96849572 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
96849589 TT
1 TT
96849591 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:96850391 original size:43 final size:43
Alignment explanation
Indices: 96850330--96850435 Score: 185
Period size: 43 Copynumber: 2.5 Consensus size: 43
96850320 TAATCTCGTC
*
96850330 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACTTGCA
1 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
96850373 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
1 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
* *
96850416 GTTGAAATCTACCTTCGGCT
1 GTTGAAATCGACCTTTGGCT
96850436 GTGGGTGCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (43 bp):
GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
Found at i:96851106 original size:17 final size:17
Alignment explanation
Indices: 96851084--96851126 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96851074 TGTAGGGTGG
* **
96851084 TTGTGTGGCCCATATGC
1 TTGTGTGGCCCACACAC
*
96851101 TTGTGTAGCCCACACAC
1 TTGTGTGGCCCACACAC
96851118 TTGTGTGGC
1 TTGTGTGGC
96851127 TGACCATGTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.33
Consensus pattern (17 bp):
TTGTGTGGCCCACACAC
Found at i:96853200 original size:16 final size:18
Alignment explanation
Indices: 96853173--96853213 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
96853163 AATATTAAGA
96853173 TAATTATTAGGA-TTATT
1 TAATTATTAGGATTTATT
96853190 TAATT-TTAGGATTTATT
1 TAATTATTAGGATTTATT
96853207 TAATTAT
1 TAATTAT
96853214 ATTTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 15 0.68
18 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
TAATTATTAGGATTTATT
Found at i:96856035 original size:23 final size:23
Alignment explanation
Indices: 96856008--96856052 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
96855998 TGCACTTCAA
*
96856008 TTTTAAATTTATA-TTAACTATT
1 TTTTTAATTTATATTTAACTATT
*
96856030 TTTTTATTTTATATTTAACTATT
1 TTTTTAATTTATATTTAACTATT
96856053 GCAATACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTAATTTATATTTAACTATT
Found at i:96863767 original size:20 final size:20
Alignment explanation
Indices: 96863711--96863778 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
96863701 ATTTTAGAAT
96863711 TTTTAGAATTTTTATAAA-TA
1 TTTT-GAATTTTTATAAATTA
*
96863731 TTTTCAA-TTTTATAAATTA
1 TTTTGAATTTTTATAAATTA
96863750 TTTTGAATTTTTGA-AAATTA
1 TTTTGAATTTTT-ATAAATTA
96863770 TTTTGAATT
1 TTTTGAATT
96863779 ATTTTGTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.21
19 10 0.23
20 23 0.53
21 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTGAATTTTTATAAATTA
Found at i:96868355 original size:18 final size:18
Alignment explanation
Indices: 96868334--96868378 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
96868324 ACCAATATGT
* * *
96868334 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
96868352 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
96868370 GGCCCAATA
1 GGCCCAATA
96868379 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:96868564 original size:18 final size:17
Alignment explanation
Indices: 96868541--96868586 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
96868531 AGCATACCAC
*
96868541 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
96868559 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
96868577 TTCTGACCAC
1 TTTTGACCAC
96868587 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:96868618 original size:21 final size:21
Alignment explanation
Indices: 96868569--96868628 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
96868559 TTTTGACCAG
* *
96868569 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
96868590 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
96868611 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
96868629 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:96871138 original size:17 final size:18
Alignment explanation
Indices: 96871112--96871145 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
96871102 CCCAAAAGAA
*
96871112 TTATTTAAT-ATTTTTTG
1 TTATTAAATAATTTTTTG
96871129 TTATTAAATAATTTTTT
1 TTATTAAATAATTTTTT
96871146 ACCTAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATTAAATAATTTTTTG
Found at i:96874722 original size:8 final size:8
Alignment explanation
Indices: 96874709--96874740 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
96874699 TTTTCAAAAT
96874709 ATTTTAAA
1 ATTTTAAA
96874717 ATTTTAAA
1 ATTTTAAA
96874725 ATTTTAAA
1 ATTTTAAA
*
96874733 ATTGTAAA
1 ATTTTAAA
96874741 TTTAATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:96875429 original size:133 final size:133
Alignment explanation
Indices: 96875176--96875431 Score: 372
Period size: 133 Copynumber: 1.9 Consensus size: 133
96875166 TAGAACATAC
* *
96875176 GAGTGAAATTTTGGAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCATCACGTTA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCAGCACGTTA
* * * *
96875241 GGGCACGATTCCGCGAATTGCCAAATATCACACATCGTCTTCGTTTAAGGGAATTTTTTAAAAGA
66 GGGCACGATTCCGCAAATTGCCAAATATCAAACATCGTCTTAGTTTAAGAGAATTTTTTAAAAGA
96875306 CAT
131 CAT
* * * *
96875309 GAGTGAAATTTTGAAGTGATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCAGCACGTTA
* *
96875374 GGGCACGATTCCGCAAATTGCCAAATATCAAATC-TCGTCTTTATTTTAA-ATAATTTTT
66 GGGCACGATTCCGCAAATTGCCAAATATCAAA-CATCGTC-TTAGTTTAAGAGAATTTTT
96875432 GAATGAATGA
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
133 101 0.93
134 8 0.07
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (133 bp):
GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATAGCAACCCAGCACGTTA
GGGCACGATTCCGCAAATTGCCAAATATCAAACATCGTCTTAGTTTAAGAGAATTTTTTAAAAGA
CAT
Found at i:96880248 original size:23 final size:24
Alignment explanation
Indices: 96880217--96880273 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
96880207 CAAAGACCCA
*
96880217 AAAAGAAACAGAAAATAAAAA-CC
1 AAAATAAACAGAAAATAAAAATCC
*
96880240 AAAATAAACA-AAAATAAAAATTC
1 AAAATAAACAGAAAATAAAAATCC
*
96880263 AAAATCAACAG
1 AAAATAAACAG
96880274 TCCAAATGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.72, C:0.12, G:0.05, T:0.11
Consensus pattern (24 bp):
AAAATAAACAGAAAATAAAAATCC
Found at i:96880256 original size:22 final size:23
Alignment explanation
Indices: 96880217--96880259 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
96880207 CAAAGACCCA
96880217 AAAAGAAACAGAAAATAAAAACC
1 AAAAGAAACAGAAAATAAAAACC
*
96880240 AAAATAAACA-AAAATAAAAA
1 AAAAGAAACAGAAAATAAAAA
96880260 TTCAAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.79, C:0.09, G:0.05, T:0.07
Consensus pattern (23 bp):
AAAAGAAACAGAAAATAAAAACC
Found at i:96881476 original size:16 final size:15
Alignment explanation
Indices: 96881455--96881488 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
96881445 AGAGAACTGT
96881455 TTTATTTAATATTTTA
1 TTTATTTAATA-TTTA
96881471 TTTATTTAATATTTA
1 TTTATTTAATATTTA
96881486 TTT
1 TTT
96881489 CTTCAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTAATATTTA
Found at i:96881584 original size:15 final size:15
Alignment explanation
Indices: 96881546--96881593 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
96881536 CTTATATATA
*
96881546 TTATCTATTATTACTA
1 TTATCTATTATTA-TT
*
96881562 TCAT-TATTATTATT
1 TTATCTATTATTATT
96881576 TTATCTATTATT-TT
1 TTATCTATTATTATT
96881590 TTAT
1 TTAT
96881594 TTATATATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 10 0.36
15 15 0.54
16 3 0.11
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATCTATTATTATT
Found at i:96886878 original size:30 final size:28
Alignment explanation
Indices: 96886842--96886920 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 28
96886832 GAATTTGACT
*
96886842 AAATCAAAATTACATGTATAAAATTGCACA
1 AAATC-AAATT-CATATATAAAATTGCACA
* *
96886872 AAATCAAGTTCTTATATAAAATTGCACATA
1 AAATCAAATTCATATATAAAATTGCAC--A
*
96886902 AAACCAAAGTTCATATATA
1 AAATCAAA-TTCATATATA
96886921 GTTTGAAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 15 0.38
29 4 0.10
30 12 0.30
31 9 0.22
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (28 bp):
AAATCAAATTCATATATAAAATTGCACA
Found at i:96886919 original size:31 final size:28
Alignment explanation
Indices: 96886858--96886920 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 28
96886848 AAATTACATG
* *
96886858 TATAAAATTGCACAAAATCAAGTTCTTA
1 TATAAAATTGCACAAAACCAAGTTCATA
96886886 TATAAAATTGCACATAAAACCAAAGTTCATA
1 TATAAAATTGCAC--AAAACC-AAGTTCATA
96886917 TATA
1 TATA
96886921 GTTTGAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 13 0.43
30 5 0.17
31 12 0.40
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.30
Consensus pattern (28 bp):
TATAAAATTGCACAAAACCAAGTTCATA
Found at i:96893561 original size:28 final size:30
Alignment explanation
Indices: 96893529--96893598 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
96893519 AAAAAAATTA
96893529 AAATTTTAATTAGACC-CTCAAAT-TTTTG
1 AAATTTTAATTAGACCTCTCAAATCTTTTG
* * *
96893557 AAATTCTT-ATTATACCTTTCAATTCTTTTG
1 AAATT-TTAATTAGACCTCTCAAATCTTTTG
96893587 AAATTTTAATTA
1 AAATTTTAATTA
96893599 AGCTTTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 12 0.34
29 9 0.26
30 14 0.40
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (30 bp):
AAATTTTAATTAGACCTCTCAAATCTTTTG
Found at i:96897339 original size:3 final size:3
Alignment explanation
Indices: 96897331--96897357 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
96897321 ACTCTAACTG
96897331 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
96897358 TCTCACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:96913114 original size:32 final size:32
Alignment explanation
Indices: 96913073--96913135 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
96913063 GTTGTCAAAA
96913073 CCAATATTGATTTGGGAAAAAAAGAATGCTAC
1 CCAATATTGATTTGGGAAAAAAAGAATGCTAC
96913105 CCAATATTGATTTGGGAAAAAAAGAATGCTA
1 CCAATATTGATTTGGGAAAAAAAGAATGCTA
96913136 TGTGGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (32 bp):
CCAATATTGATTTGGGAAAAAAAGAATGCTAC
Found at i:96916651 original size:20 final size:21
Alignment explanation
Indices: 96916600--96916651 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
96916590 TCTATTTTTT
96916600 AATAAAAATAAATAATTAATTA
1 AATAAAAA-AAATAATTAATTA
* * * *
96916622 ATTAATAAAAA-AGTTATTTA
1 AATAAAAAAAATAATTAATTA
96916642 AATAAAAAAA
1 AATAAAAAAA
96916652 CCCATTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 15 0.62
21 3 0.12
22 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAAAAAATAATTAATTA
Found at i:96916881 original size:15 final size:16
Alignment explanation
Indices: 96916855--96916887 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
96916845 TTAAAAATTG
96916855 TAAAACAATTCAAAAA
1 TAAAACAATTCAAAAA
96916871 TAAAA-AATTCAAAAA
1 TAAAACAATTCAAAAA
96916886 TA
1 TA
96916888 TAGAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAAACAATTCAAAAA
Found at i:96918180 original size:22 final size:22
Alignment explanation
Indices: 96918124--96918180 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
96918114 AAAAGTTTTT
*
96918124 TTTTAACTATTATTTTCTTATTG
1 TTTT-ACTATTATTTTCTTATTA
* *
96918147 TTTT-CTCCTTATTTTTTTATTA
1 TTTTACT-ATTATTTTCTTATTA
96918169 TTTTACTATTAT
1 TTTTACTATTAT
96918181 GTTGCTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 2 0.07
22 20 0.71
23 6 0.21
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTACTATTATTTTCTTATTA
Found at i:96920357 original size:19 final size:20
Alignment explanation
Indices: 96920310--96920358 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
96920300 TTTATTTGAA
* *
96920310 GTACTGGTACTTTCTTTTAG
1 GTACTGATACTTTCATTTAG
96920330 GTA-TCGATACTTTCATTT-G
1 GTACT-GATACTTTCATTTAG
96920349 GTACTGATAC
1 GTACTGATAC
96920359 CATTTTGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.45
Consensus pattern (20 bp):
GTACTGATACTTTCATTTAG
Found at i:96921930 original size:228 final size:228
Alignment explanation
Indices: 96921533--96921991 Score: 645
Period size: 228 Copynumber: 2.0 Consensus size: 228
96921523 GAATCCGCAA
* *
96921533 CAAATGTCGAACCTCAAGTCATCGAATTAATCCCTAATCACAACAACAGATTTCCTTTTGGAACT
1 CAAATGTCGAACCTCAAGTCATCAAATTAATCCCTAATCACAACAACAGATTTCCTTTTGGAACC
* *
96921598 CTAATGGCATGTCATTCGTATTCTAATCGTTTACTAAGTTCATAAAAGCACCGTTACCATTTCCA
66 CTAATGACATGTCATTCGTATTCTAATCGTTTACTAAGTTCACAAAAGCACCGTTACCATTTCCA
* * * **
96921663 TATCATTTCAAATCATGTAGTCGTATATACATTTTTCATATTTCAAATAACAAT-CAATATAGGT
131 TATCATTTCAAATCATGTAGTCATATACACACTTTTCATATTTCAAATAACAATAC-ATATACAT
* *
96921727 TTTGACCTTGAAACATCATCATATACATACTGTC
195 TTTGACCTTCAAACATCATCATATACATACTGCC
* * * * * *
96921761 CAAATGTTGGACCTCAAGTCATCAAATTAATCCTTGATCACAACACCCGATTTCCTTTTGGAACC
1 CAAATGTCGAACCTCAAGTCATCAAATTAATCCCTAATCACAACAACAGATTTCCTTTTGGAACC
*** *
96921826 CTAATGACATGTCATTCGTATTCTAAAT-GTTTAC-AAGATTCACACGGGTACCGTTACCATTTC
66 CTAATGACATGTCATTCGTATTCT-AATCGTTTACTAAG-TTCACAAAAGCACCGTTACCATTTC
* * *
96921889 CATGTCATTTCAAATCATGTAGTCATATACACACTTTTCATATTTCGAATAATAATACATATACA
129 CATATCATTTCAAATCATGTAGTCATATACACACTTTTCATATTTCAAATAACAATACATATACA
*
96921954 TTTTGACCTTCAAACATTATCATATACATACTGCC
194 TTTTGACCTTCAAACATCATCATATACATACTGCC
96921989 CAA
1 CAA
96921992 CCACATAACA
Statistics
Matches: 203, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
227 3 0.01
228 196 0.97
229 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (228 bp):
CAAATGTCGAACCTCAAGTCATCAAATTAATCCCTAATCACAACAACAGATTTCCTTTTGGAACC
CTAATGACATGTCATTCGTATTCTAATCGTTTACTAAGTTCACAAAAGCACCGTTACCATTTCCA
TATCATTTCAAATCATGTAGTCATATACACACTTTTCATATTTCAAATAACAATACATATACATT
TTGACCTTCAAACATCATCATATACATACTGCC
Found at i:96924789 original size:38 final size:38
Alignment explanation
Indices: 96924738--96924814 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
96924728 GATCAAAATG
96924738 TGCCTTGGTCACAATCTTCTTTATGTAGTCCGTGAGAC
1 TGCCTTGGTCACAATCTTCTTTATGTAGTCCGTGAGAC
96924776 TGCCTTGGTCACAATCTTCTTTATGTAGTCCGTGAGAC
1 TGCCTTGGTCACAATCTTCTTTATGTAGTCCGTGAGAC
96924814 T
1 T
96924815 AACATTTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (38 bp):
TGCCTTGGTCACAATCTTCTTTATGTAGTCCGTGAGAC
Found at i:96928540 original size:17 final size:15
Alignment explanation
Indices: 96928520--96928563 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
96928510 AATAGACCAG
96928520 AAATTTTAATTTCTATA
1 AAATTTTAATTT-TA-A
96928537 AAATTTTAAATTTTAA
1 AAATTTT-AATTTTAA
*
96928553 AAATATTAATT
1 AAATTTTAATT
96928564 AATCAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 9 0.36
18 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTTTAATTTTAA
Found at i:96932474 original size:22 final size:22
Alignment explanation
Indices: 96932449--96932506 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 22
96932439 CTAAATTAAC
*
96932449 ATTTAAAAATATTTATAA-TTT
1 ATTTAAAAATAGTTATAACTTT
96932470 AATTTAAAATTATTAGTTATAACTTT
1 -ATTTAAAA--A-TAGTTATAACTTT
96932496 ATTTAAAAATA
1 ATTTAAAAATA
96932507 AGTTGTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 10 0.32
23 1 0.03
24 1 0.03
25 16 0.52
26 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAAAAATAGTTATAACTTT
Found at i:96934056 original size:27 final size:27
Alignment explanation
Indices: 96934000--96934056 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
96933990 GTAATGAGCG
*** *
96934000 ATTAAATAATAATTATTTAATTATTTA
1 ATTAAATAATAATTAAAAAATTATTAA
96934027 ATTAAATAATAATTCAAAAAATTA-TAA
1 ATTAAATAATAATT-AAAAAATTATTAA
96934054 ATT
1 ATT
96934057 CTTTTTTCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTAAATAATAATTAAAAAATTATTAA
Found at i:96936466 original size:8 final size:8
Alignment explanation
Indices: 96936448--96936482 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
96936438 AATAAAAAGG
96936448 AAAAT-AA
1 AAAATAAA
96936455 AAAATAAAA
1 AAAAT-AAA
96936464 AAAATAAA
1 AAAATAAA
96936472 AAAATAAA
1 AAAATAAA
96936480 AAA
1 AAA
96936483 TACCTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 14 0.54
9 7 0.27
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:96936467 original size:9 final size:9
Alignment explanation
Indices: 96936453--96936482 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
96936443 AAAGGAAAAT
96936453 AAAAAATAA
1 AAAAAATAA
96936462 AAAAAAT-A
1 AAAAAATAA
96936470 AAAAAATAA
1 AAAAAATAA
96936479 AAAA
1 AAAA
96936483 TACCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:96936467 original size:16 final size:17
Alignment explanation
Indices: 96936448--96936482 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
96936438 AATAAAAAGG
96936448 AAAAT-AAAAAATAAAA
1 AAAATAAAAAAATAAAA
96936464 AAAATAAAAAAATAAAA
1 AAAATAAAAAAATAAAA
96936481 AA
1 AA
96936483 TACCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAATAAAA
Found at i:96937008 original size:21 final size:21
Alignment explanation
Indices: 96936984--96937023 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96936974 CAAAACTTTG
96936984 TTTTTGTTTAAAATTTAGTCC
1 TTTTTGTTTAAAATTTAGTCC
* * *
96937005 TTTTTTTTTAGATTTTAGT
1 TTTTTGTTTAAAATTTAGT
96937024 TTATTTTCGT
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:0.05, G:0.10, T:0.65
Consensus pattern (21 bp):
TTTTTGTTTAAAATTTAGTCC
Found at i:96937215 original size:3 final size:3
Alignment explanation
Indices: 96937207--96937251 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
96937197 TGTATTTCTA
* * *
96937207 TAT TAT TAT TAT TAT TAT TGT TGT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96937252 ATAGTAGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:96937345 original size:161 final size:161
Alignment explanation
Indices: 96937081--96937386 Score: 365
Period size: 161 Copynumber: 1.9 Consensus size: 161
96937071 TGATTATCAT
* * * *
96937081 TATTATTATATATTAGTGTATATTTTTTATTTACATACGTATATGTATTTATATCTATACATAGT
1 TATTATTATATAGTAGTGTATATTTTTTATATACATA-GTATATGTATATACATCTATACATAGT
* *
96937146 ATTATTTTTTTAATTACTTTATTTTAATATTATTATATTATAT-TTACTTTTTGTATTTCT-ATA
65 AATATTATTTTAATTACTTTATTTTAATATTATTATATTAT-TCTTACTTTTTGTATTT-TGATA
*
96937209 TTATTATTATTATTATTGTTGTTATTATTATTAC
128 TTATTACTATTATTATTGTTGTTATTATTATTAC
* * *
96937243 TATTATTATATAGTAGTGTATATTTTTTACTATCCAT-GTATATGTATATGCAT-T-TATATA-T
1 TATTATTATATAGTAGTGTATATTTTTTA-TATACATAGTATATGTATATACATCTATACATAGT
* * **
96937304 AATATTATTTTAATTACTTTATCATTT-TTATTATATTATATTGTTCTTTTTTTTTGTATTTTGA
65 AATATTATTTTAATTACTTTAT--TTTAATA-T-TATTATATTATTCTTACTTTTTGTATTTTGA
96937368 TATTATTACTATTATTATT
126 TATTATTACTATTATTATT
96937387 ATCATTGTTG
Statistics
Matches: 123, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
158 21 0.17
159 7 0.06
160 7 0.06
161 55 0.45
162 28 0.23
163 5 0.04
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (161 bp):
TATTATTATATAGTAGTGTATATTTTTTATATACATAGTATATGTATATACATCTATACATAGTA
ATATTATTTTAATTACTTTATTTTAATATTATTATATTATTCTTACTTTTTGTATTTTGATATTA
TTACTATTATTATTGTTGTTATTATTATTAC
Found at i:96937817 original size:17 final size:17
Alignment explanation
Indices: 96937795--96937829 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
96937785 TATGTATATA
96937795 TTTTTAAAAATATTATG
1 TTTTTAAAAATATTATG
* *
96937812 TTTTTATATATATTATG
1 TTTTTAAAAATATTATG
96937829 T
1 T
96937830 ATATATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTAAAAATATTATG
Found at i:96938010 original size:22 final size:22
Alignment explanation
Indices: 96937985--96938028 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
96937975 TATTATGTGT
* *
96937985 TATATTTTA-GTACTATGTTTTA
1 TATATCTTATGTA-TATATTTTA
96938007 TATATCTTATGTATATATTTTA
1 TATATCTTATGTATATATTTTA
96938029 AATACCGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (22 bp):
TATATCTTATGTATATATTTTA
Found at i:96941202 original size:19 final size:20
Alignment explanation
Indices: 96941165--96941202 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
96941155 AGTATGCAAA
*
96941165 TCTTCAAAAATATTTAAAAT
1 TCTTCAAAAATATTAAAAAT
*
96941185 TCTTCATAAA-ATTAAAAA
1 TCTTCAAAAATATTAAAAA
96941203 AGAAGTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
TCTTCAAAAATATTAAAAAT
Found at i:96947560 original size:80 final size:80
Alignment explanation
Indices: 96947427--96947586 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 80
96947417 GATCGTTTTG
* * *
96947427 ATCAAAAGTTGAGAAACGTTTTAAACTACCCATCTCAAAATATAAGTACTAATTTAGTTAGGATT
1 ATCAAAAGCTGAGAAACGTTTTAAACTACCCAACTCAAAATATAAGTACTAATTTAGTTAAGATT
96947492 TATTGTTGTAAATAA
66 TATTGTTGTAAATAA
* * * *
96947507 ATCAAAAGCTGAGAAATGTTTTAAACTATCCAACTCAAAATATAGGTACTAATTTGGTTAAGATT
1 ATCAAAAGCTGAGAAACGTTTTAAACTACCCAACTCAAAATATAAGTACTAATTTAGTTAAGATT
96947572 TATTGTTGTAAATAA
66 TATTGTTGTAAATAA
96947587 CACAATTGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (80 bp):
ATCAAAAGCTGAGAAACGTTTTAAACTACCCAACTCAAAATATAAGTACTAATTTAGTTAAGATT
TATTGTTGTAAATAA
Found at i:96948446 original size:25 final size:27
Alignment explanation
Indices: 96948417--96948470 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
96948407 GCTCTTAATG
96948417 ATTATAT-CTTTT-GTTAAATTTGATC
1 ATTATATGCTTTTAGTTAAATTTGATC
* *
96948442 ATTATTTGTTTTTAGTTAAATTTGATC
1 ATTATATGCTTTTAGTTAAATTTGATC
96948469 AT
1 AT
96948471 CGACTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 4 0.16
27 15 0.60
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (27 bp):
ATTATATGCTTTTAGTTAAATTTGATC
Found at i:96952124 original size:162 final size:163
Alignment explanation
Indices: 96951849--96952163 Score: 508
Period size: 162 Copynumber: 1.9 Consensus size: 163
96951839 TAATTTCGTC
* * *
96951849 AGGGTAACAAGTAGGTTTCTTATAGGGTTACTTGTCCTATCTACAATAAGCTTCTCTCTTTTTTT
1 AGGGTAACAAGTAAGTTTCTTATAGGGTTACTTGGCCTATCTACAATAAGCTTCTCTCTTTCTTT
** * *
96951914 CATGCTTGGAATTAACTAATTTTGTTCAAGAAAGGTCCAAATTTCTTTCAATGAAAATATTAAAA
66 CATGCTTGGAATTAACTAATTTTGCACAAGAAAGGCCCAAAATTCTTTCAATGAAAATATTAAAA
* *
96951979 CTAGGTATTCCCGATTTTGATTTGGGTTTTGTT
131 CGAGATATTCCCGATTTTGATTTGGGTTTTGTT
*
96952012 AGGGTAACAAGTAATTTTCTTATAGGGTTACTTGGCCTATCTA-AAGTAA-CTTCTCTCTTTCTT
1 AGGGTAACAAGTAAGTTTCTTATAGGGTTACTTGGCCTATCTACAA-TAAGCTTCTCTCTTTCTT
96952075 TCATGCTTGGAATTAACTAATTTTGCACAAGAAAGGCCCAAAATTCTTTCAATGAAAATATTAAA
65 TCATGCTTGGAATTAACTAATTTTGCACAAGAAAGGCCCAAAATTCTTTCAATGAAAATATTAAA
*
96952140 ACGAGATATTCCTGATTTTGATTT
130 ACGAGATATTCCCGATTTTGATTT
96952164 AATTTTGAAG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
162 97 0.69
163 43 0.31
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (163 bp):
AGGGTAACAAGTAAGTTTCTTATAGGGTTACTTGGCCTATCTACAATAAGCTTCTCTCTTTCTTT
CATGCTTGGAATTAACTAATTTTGCACAAGAAAGGCCCAAAATTCTTTCAATGAAAATATTAAAA
CGAGATATTCCCGATTTTGATTTGGGTTTTGTT
Found at i:96953196 original size:25 final size:25
Alignment explanation
Indices: 96953168--96953218 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
96953158 TTAAGATTTA
96953168 TACATAATCGTGATTTAATTGAATC
1 TACATAATCGTGATTTAATTGAATC
96953193 TACATAATCGTGATTTAATTGAATC
1 TACATAATCGTGATTTAATTGAATC
96953218 T
1 T
96953219 TTCTTCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (25 bp):
TACATAATCGTGATTTAATTGAATC
Found at i:96955686 original size:18 final size:18
Alignment explanation
Indices: 96955660--96955695 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96955650 TTTGTGATTA
*
96955660 TTTTGTTTGGATAAATTT
1 TTTTGTTTGGAAAAATTT
*
96955678 TTTTTTTTGGAAAAATTT
1 TTTTGTTTGGAAAAATTT
96955696 AGGCTATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (18 bp):
TTTTGTTTGGAAAAATTT
Found at i:96969079 original size:28 final size:31
Alignment explanation
Indices: 96969037--96969097 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 31
96969027 AAAATTTTAA
*
96969037 AATTTAAAAAGTATAGGGACT-AAA-TGATC
1 AATTTAAAAAGTATAGAGACTAAAATTGATC
96969066 AATTT-AAAAGTATAGAGACTAAAATTGATC
1 AATTTAAAAAGTATAGAGACTAAAATTGATC
96969096 AA
1 AA
96969098 AAAAAAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 14 0.48
29 8 0.28
30 7 0.24
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.28
Consensus pattern (31 bp):
AATTTAAAAAGTATAGAGACTAAAATTGATC
Found at i:96969102 original size:28 final size:28
Alignment explanation
Indices: 96969041--96969111 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
96969031 TTTTAAAATT
* *
96969041 TAAAAAGTATAGGGACTAAATGATCAAT
1 TAAAAAGTATAGAGACTAAATGATCAAA
*
96969069 TTAAAAGTATAGAGACTAAAATTGATCAAA
1 TAAAAAGTATAGAGACT-AAA-TGATCAAA
96969099 -AAAAAGTAT-GAGA
1 TAAAAAGTATAGAGA
96969112 ATTAAATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.51
29 11 0.30
30 7 0.19
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.24
Consensus pattern (28 bp):
TAAAAAGTATAGAGACTAAATGATCAAA
Found at i:96969321 original size:48 final size:48
Alignment explanation
Indices: 96969269--96969363 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
96969259 GTTGATATGG
* * *
96969269 ATATAAAATGAATTAGTGGATTCGAAATAGAAATGAGAAAAGAAATAA
1 ATATAAAATGAATCAATAGATTCGAAATAGAAATGAGAAAAGAAATAA
** * *
96969317 ATATAAAATGGGTCAATAGATTCGAGATAGAAATGTGAAAAGAAATA
1 ATATAAAATGAATCAATAGATTCGAAATAGAAATGAGAAAAGAAATA
96969364 GACTTAGTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (48 bp):
ATATAAAATGAATCAATAGATTCGAAATAGAAATGAGAAAAGAAATAA
Found at i:96984999 original size:2 final size:2
Alignment explanation
Indices: 96984992--96985045 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
96984982 AAACAATCAC
96984992 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
96985034 CT CT CT CT CT CT
1 CT CT CT CT CT CT
96985046 TTGGCTCTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:96985222 original size:3 final size:3
Alignment explanation
Indices: 96985216--96985240 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96985206 AAGAAGAAGA
96985216 AGG AGG AGG AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG A
96985241 TAGAAATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:96985553 original size:19 final size:20
Alignment explanation
Indices: 96985515--96985555 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
96985505 TTTTTATTTT
96985515 TTATTATGTATAAATTATAA
1 TTATTATGTATAAATTATAA
96985535 TTATT-TGT-TAAATTTATAA
1 TTATTATGTATAAA-TTATAA
96985554 TT
1 TT
96985556 TCTAAGTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTATTATGTATAAATTATAA
Found at i:96986936 original size:20 final size:20
Alignment explanation
Indices: 96986908--96986954 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
96986898 AAAGTTATAT
*
96986908 TTTTTAAAAAA-TAAAAATAA
1 TTTTAAAAAAATTAAAAA-AA
96986928 TTTTAAAAAAATTAAAAAAA
1 TTTTAAAAAAATTAAAAAAA
96986948 -TTTAAAA
1 TTTTAAAA
96986955 TTTATTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 12 0.48
21 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAAATTAAAAAAA
Found at i:96989782 original size:21 final size:23
Alignment explanation
Indices: 96989758--96989813 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
96989748 AAAATATTAT
96989758 TAAATAATT-A-AAAATAGACCA
1 TAAATAATTCAGAAAATAGACCA
*
96989779 TAAATAATGTCATGAAAATAGTCCA
1 TAAATAAT-TCA-GAAAATAGACCA
96989804 TAAAATAATT
1 T-AAATAATT
96989814 TTTCTATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 8 0.28
22 1 0.03
23 1 0.03
25 12 0.41
26 7 0.24
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (23 bp):
TAAATAATTCAGAAAATAGACCA
Found at i:96991184 original size:26 final size:26
Alignment explanation
Indices: 96991148--96991201 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
96991138 GAACAAGTCA
96991148 TTTCCAGAGGGTTGGGTAAATTGTCC
1 TTTCCAGAGGGTTGGGTAAATTGTCC
96991174 TTTCCAGAGGGTTGGGTAAATTGTCC
1 TTTCCAGAGGGTTGGGTAAATTGTCC
96991200 TT
1 TT
96991202 GAATTGAAAG
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:0.19, C:0.15, G:0.30, T:0.37
Consensus pattern (26 bp):
TTTCCAGAGGGTTGGGTAAATTGTCC
Found at i:96995005 original size:30 final size:30
Alignment explanation
Indices: 96994971--96995030 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
96994961 ATTTAATACG
96994971 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
96995001 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
96995031 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:96996678 original size:46 final size:46
Alignment explanation
Indices: 96996613--96997029 Score: 541
Period size: 46 Copynumber: 9.0 Consensus size: 46
96996603 TTATCTTTGA
* * * * * *
96996613 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** **
96996659 CATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCATTTTCACGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** *
96996706 CTTGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * **
96996752 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
*
96996798 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
96996844 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * *
96996890 TAGGTTGCCATGGTATCTTTCAACCGTGGTCTTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
96996936 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
96996982 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
96997028 CA
1 CA
96997030 GAGAGCACAC
Statistics
Matches: 338, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 4 0.01
46 292 0.86
47 42 0.12
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:97000411 original size:42 final size:42
Alignment explanation
Indices: 97000303--97000462 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 42
97000293 AGCATATACA
* * * * *
97000303 ATGCCAACGTCCCAGACGTGGTTTTATATGTAATCA-AACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAT-ATAA-GTCG
*
97000346 ATGCC-ACTGTCCCAGGCAG-GGTCTTACACGAAAT-T-AGATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATATAAG-T-CG
*
97000388 ATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAAT-ATAAGTCG
*
97000432 ATGCCAACTTCCCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
97000463 TAACACATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 31 0.32
44 31 0.32
45 2 0.02
46 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATATAAGTCG
Found at i:97000448 original size:44 final size:44
Alignment explanation
Indices: 97000303--97000461 Score: 154
Period size: 44 Copynumber: 3.7 Consensus size: 44
97000293 AGCATATACA
* * * *
97000303 ATGCCAACGTCCCAGACGTGGTTTTATATGT-AATCA-AACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCG
*
97000346 ATGCC-ACTGTCCCAGGCAG-GGTCTTACACG-AAAT--T-AGATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCATAAG-T-CG
*
97000388 ATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
*
97000432 ATGCCAACTTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
97000462 ATAACACATA
Statistics
Matches: 95, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 27 0.28
43 30 0.32
44 31 0.33
45 2 0.02
46 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
Found at i:97000455 original size:86 final size:85
Alignment explanation
Indices: 97000298--97000462 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
97000288 CGGAAAGCAT
* * * *
97000298 ATACAATGCCAACGTCCCAGACGTGGTTTTATATGTAATCAAACATCGATGCCACTGTCCCAGGC
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAACATCGATGCCACTGTCCCAGAC
97000363 AGGGTCTTACACGAAATTAG
66 AGGGTCTTACACGAAATTAG
* * *
97000383 ATACGATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAACT-TCCCA
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AACATCGATGCC-ACTGTCCCA
97000446 GAC-GTGGTCTTACACGA
63 GACAG-GGTCTTACACGA
97000463 TAACACATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
85 32 0.46
86 32 0.46
87 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAACATCGATGCCACTGTCCCAGAC
AGGGTCTTACACGAAATTAG
Found at i:97008773 original size:23 final size:23
Alignment explanation
Indices: 97008739--97008782 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
97008729 ATAAAATGAT
*
97008739 TTAAATCAAAAAAATAGATAATC
1 TTAAATCAAAAAAATACATAATC
*
97008762 TTAAAT-ATAAAATATACATAA
1 TTAAATCA-AAAAAATACATAA
97008783 AGGATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAATCAAAAAAATACATAATC
Done.