Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 314 of 320
Found at i:100467546 original size:13 final size:13
Alignment explanation
Indices: 100467530--100467556 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100467520 AAGCTGTTTC
100467530 ATAAAAATAAAAA
1 ATAAAAATAAAAA
100467543 ATAAAAATAAAAA
1 ATAAAAATAAAAA
100467556 A
1 A
100467557 ACCTCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:100473816 original size:14 final size:14
Alignment explanation
Indices: 100473797--100473830 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
100473787 GTTCCTTATA
*
100473797 TCATTTGATTTTTT
1 TCATTTAATTTTTT
100473811 TCATTTAATTTTTT
1 TCATTTAATTTTTT
*
100473825 TTATTT
1 TCATTT
100473831 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TCATTTAATTTTTT
Found at i:100480114 original size:21 final size:21
Alignment explanation
Indices: 100480088--100480128 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100480078 ATCTGCTCAA
* *
100480088 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
100480109 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
100480129 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:100482596 original size:23 final size:23
Alignment explanation
Indices: 100482569--100482666 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
100482559 AGTGTTATTG
100482569 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
100482592 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
100482615 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100482637 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100482660 ATCAGTG
1 ATCAGTG
100482667 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:100482635 original size:45 final size:45
Alignment explanation
Indices: 100482571--100482659 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
100482561 TGTTATTGAT
*
100482571 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
100482616 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
100482660 ATCAGTGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:100489968 original size:23 final size:23
Alignment explanation
Indices: 100489941--100490038 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
100489931 AGTGTTATTG
100489941 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
100489964 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
100489987 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100490009 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
100490032 ATCAGTG
1 ATCAGTG
100490039 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:100490007 original size:45 final size:45
Alignment explanation
Indices: 100489943--100490031 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
100489933 TGTTATTGAT
*
100489943 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
100489988 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
100490032 ATCAGTGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:100494873 original size:21 final size:21
Alignment explanation
Indices: 100494847--100494887 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100494837 ATCTGCTCAA
* *
100494847 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
100494868 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
100494888 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:100502043 original size:24 final size:23
Alignment explanation
Indices: 100502016--100502151 Score: 74
Period size: 24 Copynumber: 6.0 Consensus size: 23
100502006 ATCAAAATAA
100502016 ATATTTAAAAAAATATGTAAACTT
1 ATATTT-AAAAAATATGTAAACTT
** * *
100502040 ATATTTCTCAAAATAT-TAAAAATA
1 ATATTT-AAAAAATATGT-AAACTT
*
100502064 AAATTTAAAAAATATGT--A---
1 ATATTTAAAAAATATGTAAACTT
100502082 A-ATTTAAAAAATATGTAAACTT
1 ATATTTAAAAAATATGTAAACTT
* * *
100502104 ATATTTCTCAAAAAAT-T-AAAAATA
1 ATA-TT-T-AAAAAATATGTAAACTT
*
100502128 AAATTTAAAAAATATGTAAACTT
1 ATATTTAAAAAATATGTAAACTT
100502151 A
1 A
100502152 AATAACACTA
Statistics
Matches: 84, Mismatches: 15, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
17 15 0.18
18 1 0.01
19 1 0.01
21 8 0.10
22 3 0.04
23 16 0.19
24 31 0.37
25 2 0.02
26 7 0.08
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (23 bp):
ATATTTAAAAAATATGTAAACTT
Found at i:100502086 original size:17 final size:17
Alignment explanation
Indices: 100502064--100502100 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
100502054 ATTAAAAATA
100502064 AAATTTAAAAAATATGT
1 AAATTTAAAAAATATGT
100502081 AAATTTAAAAAATATGT
1 AAATTTAAAAAATATGT
100502098 AAA
1 AAA
100502101 CTTATATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AAATTTAAAAAATATGT
Found at i:100502106 original size:64 final size:64
Alignment explanation
Indices: 100502018--100502153 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
100502008 CAAAATAAAT
*
100502018 ATTTAAAAAAATATGTAAACTTATATTTCTCAAAATATTAAAAATAAAATTTAAAAAATATGTAA
1 ATTT-AAAAAATATGTAAACTTATATTTCTCAAAAAATTAAAAATAAAATTTAAAAAATATGTAA
100502083 ATTTAAAAAATATGTAAACTTATATTTCTCAAAAAATTAAAAATAAAATTTAAAAAATATGTAA
1 ATTTAAAAAATATGTAAACTTATATTTCTCAAAAAATTAAAAATAAAATTTAAAAAATATGTAA
*
100502147 ACTTAAA
1 ATTTAAA
100502154 TAACACTAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 65 0.94
65 4 0.06
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (64 bp):
ATTTAAAAAATATGTAAACTTATATTTCTCAAAAAATTAAAAATAAAATTTAAAAAATATGTAA
Found at i:100502153 original size:24 final size:24
Alignment explanation
Indices: 100502081--100502153 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
100502071 AAAAATATGT
100502081 AAATTTAAAAAATATGTAAACTTA
1 AAATTTAAAAAATATGTAAACTTA
* * * **
100502105 TATTTCTCAAAAA-AT-TAAAAATA
1 AAATT-TAAAAAATATGTAAACTTA
100502128 AAATTTAAAAAATATGTAAACTTA
1 AAATTTAAAAAATATGTAAACTTA
100502152 AA
1 AA
100502154 TAACACTAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
22 6 0.17
23 11 0.31
24 13 0.36
25 6 0.17
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (24 bp):
AAATTTAAAAAATATGTAAACTTA
Found at i:100502229 original size:32 final size:30
Alignment explanation
Indices: 100502184--100502247 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
100502174 CTTAACAAGT
*
100502184 AAATGTCTCTAAAATAATAATAAAAAATTAAC
1 AAATGCCTCTAAAATAAT-A-AAAAAATTAAC
* *
100502216 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
100502246 AA
1 AA
100502248 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 12 0.41
31 1 0.03
32 16 0.55
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:100502325 original size:22 final size:22
Alignment explanation
Indices: 100502276--100502325 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
100502266 ATATCCAAAC
*
100502276 AATAACAACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAGCAA
* *
100502298 CATAATAATAAAATAGTAGCAA
1 AATAATAACAAAATAGTAGCAA
100502320 AATAAT
1 AATAAT
100502326 GAGAAAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.10, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:100502332 original size:22 final size:22
Alignment explanation
Indices: 100502276--100502332 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
100502266 ATATCCAAAC
* *
100502276 AATAACAACAAAATAGTAGCAA
1 AATAATAAGAAAATAGTAGCAA
* *
100502298 CATAATAATAAAATAGTAGCAA
1 AATAATAAGAAAATAGTAGCAA
*
100502320 AATAATGAGAAAA
1 AATAATAAGAAAA
100502333 CAACAAGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AATAATAAGAAAATAGTAGCAA
Found at i:100505924 original size:12 final size:12
Alignment explanation
Indices: 100505907--100505937 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
100505897 GAAGCAGGGG
100505907 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
100505919 AGAAAAAGGGAA
1 AGAAAAAGAGAA
100505931 AGAAAAA
1 AGAAAAA
100505938 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:100517603 original size:3 final size:3
Alignment explanation
Indices: 100517595--100517628 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
100517585 TCAAAAGTGC
* *
100517595 ATA ATA ATA ATT ATA ATA ATT ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
100517629 AGAGGAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:100518480 original size:24 final size:24
Alignment explanation
Indices: 100518426--100518471 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
100518416 TTTCAATAAA
100518426 TTTTAAAATATTATTTTATTTTAGT
1 TTTTAAAATATTATTTTATTTTA-T
*
100518451 TTTTAAAA-ATTATTTTGTTTT
1 TTTTAAAATATTATTTTATTTT
100518472 TTAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTAAAATATTATTTTATTTTAT
Found at i:100518944 original size:20 final size:20
Alignment explanation
Indices: 100518905--100518946 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
100518895 ATTTTAATAA
*
100518905 AATACTAATATCATAAAAGT
1 AATACTAATATAATAAAAGT
100518925 AATAC-AATATAATAATAAGT
1 AATACTAATATAATAA-AAGT
100518945 AA
1 AA
100518947 ATAAGGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (20 bp):
AATACTAATATAATAAAAGT
Found at i:100521315 original size:5 final size:6
Alignment explanation
Indices: 100521292--100521324 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
100521282 AATATAATTA
*
100521292 TATTCT TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TAT
100521325 ATATTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:100522658 original size:4 final size:4
Alignment explanation
Indices: 100522649--100522681 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
100522639 AGAAAAAAGC
100522649 CAAA CAAA CAAA CAAA CAAA CAAA -AAA CCAAA C
1 CAAA CAAA CAAA CAAA CAAA CAAA CAAA -CAAA C
100522682 TACAATGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 21 0.78
5 3 0.11
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:100536640 original size:10 final size:12
Alignment explanation
Indices: 100536613--100536637 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100536603 AATGTTTTTT
100536613 TATTTTTAAATA
1 TATTTTTAAATA
100536625 TATTTTTAAATA
1 TATTTTTAAATA
100536637 T
1 T
100536638 TTTACTATAG
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTTTAAATA
Found at i:100539914 original size:28 final size:28
Alignment explanation
Indices: 100539874--100539949 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 28
100539864 GCAATCAAAT
* *
100539874 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
100539902 ATGGCACTTAGTGTGCG--AGATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
100539928 ATGACACTTAGTGTACAAAATA
1 ATGGCACTTAGTGTACGAAATA
100539950 CCGAATGATT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 22 0.58
28 16 0.42
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:100542318 original size:22 final size:22
Alignment explanation
Indices: 100542293--100542334 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
100542283 ATTAACAATA
* *
100542293 AAACAAAAATCATATAATATCC
1 AAACAAAAATAATAAAATATCC
*
100542315 AAACAATAATAATAAAATAT
1 AAACAAAAATAATAAAATAT
100542335 TAAAATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACAAAAATAATAAAATATCC
Found at i:100542370 original size:20 final size:20
Alignment explanation
Indices: 100542347--100542395 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
100542337 AAATTATAAC
100542347 AAAATAATAAAAAAAACAAG-
1 AAAATAATAAAAAAAA-AAGT
**
100542367 AAAATAGCAAAAAAAAAAGT
1 AAAATAATAAAAAAAAAAGT
*
100542387 AAAAAAATA
1 AAAATAATA
100542396 CCAAGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (20 bp):
AAAATAATAAAAAAAAAAGT
Found at i:100542401 original size:34 final size:32
Alignment explanation
Indices: 100542354--100542418 Score: 103
Period size: 34 Copynumber: 2.0 Consensus size: 32
100542344 AACAAAATAA
*
100542354 TAAAAAAAACAAGAAAATAGCAAAAAAAAAAG
1 TAAAAAAAACAAGAAAACAGCAAAAAAAAAAG
100542386 TAAAAAAATACCAAGAAAACAGCAAAAAAAAAA
1 TAAAAAAA-A-CAAGAAAACAGCAAAAAAAAAA
100542419 AAAAAGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 8 0.27
33 1 0.03
34 21 0.70
ACGTcount: A:0.77, C:0.09, G:0.08, T:0.06
Consensus pattern (32 bp):
TAAAAAAAACAAGAAAACAGCAAAAAAAAAAG
Found at i:100551882 original size:26 final size:25
Alignment explanation
Indices: 100551849--100551900 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
100551839 TCAATGTGTA
100551849 TTTCATGATAATTCTT-TAATTTGATT
1 TTTCATGA-AATT-TTATAATTTGATT
*
100551875 TTTCATGAACTTTTATAATTTGATT
1 TTTCATGAAATTTTATAATTTGATT
100551900 T
1 T
100551901 ATTTTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 14 0.58
26 8 0.33
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTCATGAAATTTTATAATTTGATT
Found at i:100553342 original size:25 final size:26
Alignment explanation
Indices: 100553300--100553348 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
100553290 TCTTTCAAGA
100553300 AAAAATAATTTTTAAGGG-TAAAATT
1 AAAAATAATTTTTAAGGGATAAAATT
*
100553325 AAAAA-AATTGTTTTAGGGATAAAA
1 AAAAATAATT-TTTAAGGGATAAAA
100553349 ATGATTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (26 bp):
AAAAATAATTTTTAAGGGATAAAATT
Found at i:100557600 original size:21 final size:22
Alignment explanation
Indices: 100557538--100557612 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
100557528 CCTGATCAGT
** *
100557538 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
* *
100557559 AAACAACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
100557580 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
100557603 ATACGACACA
1 ATACGACACA
100557613 TAAAGTACCG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 34 0.77
23 10 0.23
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:100557804 original size:10 final size:10
Alignment explanation
Indices: 100557785--100557819 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
100557775 ATCCATTTTC
100557785 ACAA-TTCAT
1 ACAATTTCAT
100557794 ACAATTTCAT
1 ACAATTTCAT
100557804 ACAATTTCAT
1 ACAATTTCAT
*
100557814 TCAATT
1 ACAATT
100557820 CAACAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (10 bp):
ACAATTTCAT
Found at i:100559089 original size:8 final size:8
Alignment explanation
Indices: 100559076--100559104 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
100559066 AATATTTATT
100559076 ATATAATA
1 ATATAATA
100559084 ATATAATA
1 ATATAATA
100559092 ATATAATA
1 ATATAATA
100559100 ATATA
1 ATATA
100559105 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:100561597 original size:4 final size:4
Alignment explanation
Indices: 100561588--100561612 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
100561578 ATCACTTGCA
100561588 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
100561613 TTGCTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:100569107 original size:20 final size:21
Alignment explanation
Indices: 100569078--100569117 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
100569068 AACCATTAAA
100569078 TATTTGTAATTAAT-ATTTTT
1 TATTTGTAATTAATGATTTTT
*
100569098 TATTTTTAATTAATGATTTT
1 TATTTGTAATTAATGATTTT
100569118 AACACATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TATTTGTAATTAATGATTTTT
Found at i:100594212 original size:19 final size:19
Alignment explanation
Indices: 100594190--100594228 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
100594180 AAAAAACATG
*
100594190 TAATAAATTATTAATAATA
1 TAATAAATTAATAATAATA
* *
100594209 TAATATATTAATATTAATA
1 TAATAAATTAATAATAATA
100594228 T
1 T
100594229 TGAAACCATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATAAATTAATAATAATA
Found at i:100594314 original size:30 final size:31
Alignment explanation
Indices: 100594257--100594315 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
100594247 TTGTATTATT
*
100594257 TTAATATTAAATATTTTAAAATAAATTAACA
1 TTAATATTAAATATTCTAAAATAAATTAACA
100594288 TTAATA-TAAATTATTCTAAAAT-AATTAA
1 TTAATATTAAA-TATTCTAAAATAAATTAA
100594316 TATTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TTAATATTAAATATTCTAAAATAAATTAACA
Found at i:100594907 original size:23 final size:23
Alignment explanation
Indices: 100594877--100594932 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
100594867 CCTTTTGTCG
100594877 TAATCAAAGACCAAAGAACACTT
1 TAATCAAAGACCAAAGAACACTT
100594900 TAATCAAAGACCAAAGAACACTT
1 TAATCAAAGACCAAAGAACACTT
100594923 TAATCAAAGA
1 TAATCAAAGA
100594933 AGAGGCCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.54, C:0.20, G:0.09, T:0.18
Consensus pattern (23 bp):
TAATCAAAGACCAAAGAACACTT
Found at i:100599862 original size:3 final size:3
Alignment explanation
Indices: 100599854--100599882 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
100599844 AGCAAGGAAT
100599854 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
100599883 TAGTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:100600675 original size:26 final size:26
Alignment explanation
Indices: 100600639--100600688 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
100600629 AAAAAAACCA
100600639 ATTTTCTCTTTGATTTAATGTATATG
1 ATTTTCTCTTTGATTTAATGTATATG
100600665 ATTTTCTCTTTGATTTAATGTATA
1 ATTTTCTCTTTGATTTAATGTATA
100600689 GGACTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (26 bp):
ATTTTCTCTTTGATTTAATGTATATG
Found at i:100601134 original size:31 final size:31
Alignment explanation
Indices: 100601065--100601134 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
100601055 CTAAATTCAG
* *
100601065 ATATTAAATAAAAAAATTAAATATCAAATTT
1 ATATTAAATAAAAAAATTAAATACCAAATAT
* *
100601096 ATCATTAAA-ATAAAAATTAGATACCAAATAAT
1 AT-ATTAAATAAAAAAATTAAATACCAAAT-AT
100601128 ATATTAA
1 ATATTAA
100601135 TTTTTGACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (31 bp):
ATATTAAATAAAAAAATTAAATACCAAATAT
Found at i:100602643 original size:48 final size:47
Alignment explanation
Indices: 100602531--100602645 Score: 117
Period size: 48 Copynumber: 2.4 Consensus size: 47
100602521 CATATTAATT
* * *
100602531 TTTAATTTATTTATAT-TTAATATTTAGTCATTTTATATATTAAAAA
1 TTTAATTTTTTTATATGTTAATATTTAGTCATTATATATACTAAAAA
* ** * *
100602577 TATAACATTTTAATATGTTTATATTATAGT-ATTATATATTACTAAAAA
1 TTTAATTTTTTTATATGTTAATATT-TAGTCATTATATA-TACTAAAAA
*
100602625 TTTAATTTTTTTACATGTTAA
1 TTTAATTTTTTTATATGTTAA
100602646 AATTACATAA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
46 11 0.21
47 14 0.27
48 27 0.52
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (47 bp):
TTTAATTTTTTTATATGTTAATATTTAGTCATTATATATACTAAAAA
Found at i:100602687 original size:17 final size:17
Alignment explanation
Indices: 100602646--100602688 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
100602636 TACATGTTAA
*
100602646 AATTACATAATATATAT
1 AATTACAAAATATATAT
*
100602663 AATAACAAAATATA-AT
1 AATTACAAAATATATAT
100602679 ATATTACAAA
1 A-ATTACAAA
100602689 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTACAAAATATATAT
Found at i:100607409 original size:21 final size:20
Alignment explanation
Indices: 100607384--100607426 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
100607374 ATTTCATAAT
100607384 AATAACATCATAAAAATAGAA
1 AATAACAT-ATAAAAATAGAA
* *
100607405 AATAACATGTTAAAATAGAA
1 AATAACATATAAAAATAGAA
100607425 AA
1 AA
100607427 CATGGGCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (20 bp):
AATAACATATAAAAATAGAA
Found at i:100610351 original size:21 final size:21
Alignment explanation
Indices: 100610322--100610367 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
100610312 CCAAAATAAT
*
100610322 ATAATATTAATATTAAT-ATTA
1 ATAAGATTAA-ATTAATAATTA
100610343 ATAAGATTAAATTAATAATTA
1 ATAAGATTAAATTAATAATTA
100610364 ATAA
1 ATAA
100610368 TCTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATAAGATTAAATTAATAATTA
Found at i:100610363 original size:12 final size:13
Alignment explanation
Indices: 100610316--100610366 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 13
100610306 AGCTATCCAA
100610316 AATAATATAATATT
1 AATAAT-TAATATT
100610330 AAT-ATTAATATT
1 AATAATTAATATT
100610342 AATAAGATTAA-ATT
1 AAT-A-ATTAATATT
100610356 AATAATTAATA
1 AATAATTAATA
100610367 ATCTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 15 0.45
13 4 0.12
14 9 0.27
15 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
AATAATTAATATT
Found at i:100611695 original size:56 final size:55
Alignment explanation
Indices: 100611620--100611816 Score: 211
Period size: 56 Copynumber: 3.6 Consensus size: 55
100611610 ATTTTTTTTT
** *
100611620 GTGCTGGTTTGTCAATGGCCAGCACCAAAATACGAGTTTTTTTAAAAAAAAATTTG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAG-TTTTTTAAAAAAAAATTTG
** * * *
100611676 GTGCCAGCCTGTCAATGGCCGGCACCAAAATACGAG--TTTTCAAAAAAATTTTG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAGTTTTTTAAAAAAAAATTTG
* * * * * ** *
100611729 GTGTTGGCATTTCAATAGCC-GCATCAAAATACAAGTTTTAAAAAAAAAAAATTG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAGTTTTTTAAAAAAAAATTTG
*
100611783 GTGCTGGCATGTCAATGGTCGGCACCAAAATACG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACG
100611817 TGCCGGTCAT
Statistics
Matches: 112, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
52 13 0.12
53 29 0.26
54 28 0.25
55 11 0.10
56 31 0.28
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (55 bp):
GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAGTTTTTTAAAAAAAAATTTG
Found at i:100613198 original size:45 final size:46
Alignment explanation
Indices: 100612997--100613217 Score: 267
Period size: 44 Copynumber: 5.0 Consensus size: 46
100612987 GCTCTCTGAA
*
100612997 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
100613043 ATGAAATGTGTAA-ACTATGGTTGAAAG-TACCATGAC-ACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
100613086 ATGAAATGTGTAAGACCATGGTTG-AAGATACCATGGCAGC-TGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
100613130 ATGAAATGAAT-AGACTATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
100613175 AAAAAATG-GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
100613218 TCAAACATAA
Statistics
Matches: 151, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
43 34 0.23
44 53 0.35
45 51 0.34
46 13 0.09
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.24
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:100613198 original size:88 final size:88
Alignment explanation
Indices: 100613000--100613217 Score: 269
Period size: 89 Copynumber: 2.5 Consensus size: 88
100612990 CTCTGAAATG
* **
100613000 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAACTATGGTT
1 AAATGTGTAAGACCATGGTTG-AAGATACCATGGCAACATGACATGAAATGAATAAACTATGGTT
* **
100613065 GAAAGTACCATGACACATGATATG
65 GAAAGTACCATGACACATGACAAA
* *
100613089 AAATGTGTAAGACCATGGTTGAAGATACCATGGCAGC-TGACATGAAATGAATAGACTATGGTTG
1 AAATGTGTAAGACCATGGTTGAAGATACCATGGCAACATGACATGAAATGAATAAACTATGGTTG
*
100613153 AAAGATACCATGGCAACATGACAAA
66 AAAG-TACCATGAC-ACATGACAAA
* * * *
100613178 AAATG-GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTG-AAGATACCATGGCAACATG
100613218 TCAAACATAA
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
87 27 0.24
88 37 0.33
89 46 0.41
90 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (88 bp):
AAATGTGTAAGACCATGGTTGAAGATACCATGGCAACATGACATGAAATGAATAAACTATGGTTG
AAAGTACCATGACACATGACAAA
Found at i:100617392 original size:53 final size:53
Alignment explanation
Indices: 100617251--100617401 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
100617241 ATAAGTGCGC
* **
100617251 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
100617304 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
100617357 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
100617402 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:100633735 original size:77 final size:79
Alignment explanation
Indices: 100633589--100633737 Score: 239
Period size: 77 Copynumber: 1.9 Consensus size: 79
100633579 TAATAATAGT
* * *
100633589 ATGGCACTTTAAATTCGATATATATATATTTTTTTGATTTCTTTTTTTTTTCAAAACATTAGATT
1 ATGGCACTTCAAATTCGATATAAATATATTTTTTTGATATC-TTTTTTTTTCAAAACATTAGATT
100633654 GTGTATCAAAAGAGC
65 GTGTATCAAAAGAGC
*
100633669 ATGGCACTTCAAATTCGATATAAAT-TTTTTTTTTGATATC-TTTTTTTTCAAAACATTAGATTG
1 ATGGCACTTCAAATTCGATATAAATATATTTTTTTGATATCTTTTTTTTTCAAAACATTAGATTG
100633732 TGTATC
66 TGTATC
100633738 GAAATAGTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
77 29 0.45
79 13 0.20
80 23 0.35
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (79 bp):
ATGGCACTTCAAATTCGATATAAATATATTTTTTTGATATCTTTTTTTTTCAAAACATTAGATTG
TGTATCAAAAGAGC
Found at i:100635030 original size:18 final size:18
Alignment explanation
Indices: 100635004--100635040 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
100634994 TTGAAACTAA
*
100635004 AAAAATATTAAAGAAATT
1 AAAAATATTAAAAAAATT
*
100635022 AAAATTATTAAAAAAATT
1 AAAAATATTAAAAAAATT
100635040 A
1 A
100635041 TAATAAGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAAATATTAAAAAAATT
Found at i:100636797 original size:30 final size:30
Alignment explanation
Indices: 100636763--100636854 Score: 148
Period size: 30 Copynumber: 3.1 Consensus size: 30
100636753 TTGGTGCCAA
*
100636763 TGGATTTGGGGATTCATCATTGATTTTCTC
1 TGGATTTGGGGATTCATCATTGATCTTCTC
100636793 TGGATTTGGGGATTCATCATTGATCTTCTC
1 TGGATTTGGGGATTCATCATTGATCTTCTC
* * *
100636823 TGCATTTGGGGTTTCATCACTGATCTTCTC
1 TGGATTTGGGGATTCATCATTGATCTTCTC
100636853 TG
1 TG
100636855 CCATTTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (30 bp):
TGGATTTGGGGATTCATCATTGATCTTCTC
Found at i:100638373 original size:16 final size:18
Alignment explanation
Indices: 100638348--100638389 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
100638338 ATTCAAATTA
*
100638348 GTTAAATTAA-TC-AAAC
1 GTTAATTTAATTCAAAAC
100638364 GTTAATTTAATTCAAAAC
1 GTTAATTTAATTCAAAAC
100638382 GATTAATT
1 G-TTAATT
100638390 GAAGAGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 2 0.09
18 5 0.23
19 6 0.27
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (18 bp):
GTTAATTTAATTCAAAAC
Found at i:100639600 original size:18 final size:17
Alignment explanation
Indices: 100639561--100639617 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
100639551 AAAAAACATT
* * *
100639561 TAAAAAAATAATTTATT
1 TAAAAATATTATTTATC
100639578 TAAAAATATT-TTTATCC
1 TAAAAATATTATTTAT-C
100639595 TAAAAATATTATTTATC
1 TAAAAATATTATTTATC
100639612 TAAAAA
1 TAAAAA
100639618 CACTTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.14
17 25 0.71
18 5 0.14
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAATATTATTTATC
Found at i:100642161 original size:11 final size:11
Alignment explanation
Indices: 100642140--100642203 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 11
100642130 AATTACACGT
100642140 TTAACTTTTTAA
1 TTAA-TTTTTAA
100642152 TTAATTTTTAA
1 TTAATTTTTAA
*
100642163 ATAATGTATTT--
1 TTAAT-T-TTTAA
100642174 TTAATTCTTATAA
1 TTAATT-TT-TAA
*
100642187 TTGATTTTTAA
1 TTAATTTTTAA
100642198 TTAATT
1 TTAATT
100642204 CTTCATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
10 3 0.07
11 24 0.57
12 7 0.17
13 8 0.19
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:100642214 original size:14 final size:13
Alignment explanation
Indices: 100642174--100642215 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
100642164 TAATGTATTT
100642174 TTAATTCTTATAA
1 TTAATTCTTATAA
*
100642187 TTGATT-TT-TAA
1 TTAATTCTTATAA
100642198 TTAATTCTTCATAA
1 TTAATTCTT-ATAA
100642212 TTAA
1 TTAA
100642216 AATATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.33
12 4 0.17
13 5 0.21
14 7 0.29
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (13 bp):
TTAATTCTTATAA
Found at i:100644418 original size:85 final size:85
Alignment explanation
Indices: 100644291--100644461 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
100644281 GATTTTTTAT
100644291 TTTTATTGACAATTTTTGCGGTATATATAAGGGAAAAAATAAGCAACAGACGCTCTTGTGGGCCC
1 TTTTATTGACAATTTTTGCGGTATATATAAGGGAAAAAATAAGCAACAGACGCTCTTGTGGGCCC
100644356 CACCATTTGCGCCTCTGAGA
66 CACCATTTGCGCCTCTGAGA
100644376 TTTTATTGACAATTTTTGCGGTATATATAAGGGAAAAAATAAGCAACAGACGCTCTTGTGGGCCC
1 TTTTATTGACAATTTTTGCGGTATATATAAGGGAAAAAATAAGCAACAGACGCTCTTGTGGGCCC
*
100644441 CATCATTTGCGCCTCTGAGA
66 CACCATTTGCGCCTCTGAGA
100644461 T
1 T
100644462 AGGCACAATT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (85 bp):
TTTTATTGACAATTTTTGCGGTATATATAAGGGAAAAAATAAGCAACAGACGCTCTTGTGGGCCC
CACCATTTGCGCCTCTGAGA
Found at i:100644606 original size:26 final size:27
Alignment explanation
Indices: 100644561--100644623 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
100644551 TACTGATCCG
*
100644561 AAAATAAAAAATAATATTTTATTTAAT
1 AAAAAAAAAAATAATATTTTATTTAAT
*
100644588 AAAACAAAAAAAT-AT-TTTTTTTTAAT
1 AAAA-AAAAAAATAATATTTTATTTAAT
*
100644614 ATAAAAAAAA
1 AAAAAAAAAA
100644624 GAATCGCACC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 6 0.19
26 13 0.41
27 6 0.19
28 7 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAAAAAAAATAATATTTTATTTAAT
Found at i:100650653 original size:24 final size:24
Alignment explanation
Indices: 100650606--100650653 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
100650596 ACAATCAAAA
* *
100650606 TAATTATTAAAATATATACTAATT
1 TAATAATTAAAATATATACAAATT
*
100650630 TAATAATTAAAATATATCCAAATT
1 TAATAATTAAAATATATACAAATT
100650654 AGATCAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATAATTAAAATATATACAAATT
Found at i:100657658 original size:14 final size:14
Alignment explanation
Indices: 100657639--100657669 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
100657629 CTGAATCTTA
100657639 AAATCCTAAACTTT
1 AAATCCTAAACTTT
*
100657653 AAATCCTGAACTTT
1 AAATCCTAAACTTT
100657667 AAA
1 AAA
100657670 CTCTAAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (14 bp):
AAATCCTAAACTTT
Found at i:100660595 original size:9 final size:9
Alignment explanation
Indices: 100660581--100660605 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
100660571 AAGTTGTTTT
100660581 TTTTTTTAA
1 TTTTTTTAA
100660590 TTTTTTTAA
1 TTTTTTTAA
100660599 TTTTTTT
1 TTTTTTT
100660606 GCGGTTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:100661694 original size:7 final size:7
Alignment explanation
Indices: 100661668--100661707 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
100661658 TAGGGTCAAA
*
100661668 ATTTAAG
1 ATTTAAT
* *
100661675 ATATAAA
1 ATTTAAT
100661682 ATTTAAT
1 ATTTAAT
100661689 ATTTAAT
1 ATTTAAT
100661696 ATTTAAT
1 ATTTAAT
100661703 ATTTA
1 ATTTA
100661708 GGGTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (7 bp):
ATTTAAT
Found at i:100661702 original size:14 final size:14
Alignment explanation
Indices: 100661665--100661707 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
100661655 ATTTAGGGTC
* *
100661665 AAAATTTAAGATAT
1 AAAATTTAATATTT
100661679 AAAATTTAATATTT
1 AAAATTTAATATTT
*
100661693 AATATTTAATATTT
1 AAAATTTAATATTT
100661707 A
1 A
100661708 GGGTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
AAAATTTAATATTT
Found at i:100661857 original size:16 final size:18
Alignment explanation
Indices: 100661821--100661859 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100661811 GTATCATCAC
*
100661821 ATGATCATATGTAATAAT
1 ATGAACATATGTAATAAT
100661839 ATGAACATAT-TAA-AAT
1 ATGAACATATGTAATAAT
100661855 ATGAA
1 ATGAA
100661860 ATGCTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (18 bp):
ATGAACATATGTAATAAT
Found at i:100662624 original size:7 final size:7
Alignment explanation
Indices: 100662612--100662637 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
100662602 AACTTTTTAC
100662612 AATTAAT
1 AATTAAT
100662619 AATTAAT
1 AATTAAT
100662626 AATTAAT
1 AATTAAT
100662633 AATTA
1 AATTA
100662638 GTGATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTAAT
Found at i:100688007 original size:17 final size:17
Alignment explanation
Indices: 100687979--100688012 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
100687969 ATTTTTAATA
100687979 AAAATTTTATAA-TTTT
1 AAAATTTTATAACTTTT
100687995 AAAATTTTCATAACTTTT
1 AAAATTTT-ATAACTTTT
100688013 GTTTATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAATTTTATAACTTTT
Found at i:100688532 original size:26 final size:26
Alignment explanation
Indices: 100688491--100688540 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
100688481 GATTTAATTG
100688491 TAAAAATATAAAAATAT-ATGTTTAT
1 TAAAAATATAAAAATATGATGTTTAT
100688516 TAAAAAT-TAAAATAATATGATGTTT
1 TAAAAATAT-AAA-AATATGATGTTT
100688541 TTTTATGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.05
25 10 0.45
26 5 0.23
27 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (26 bp):
TAAAAATATAAAAATATGATGTTTAT
Found at i:100692301 original size:52 final size:53
Alignment explanation
Indices: 100692222--100692403 Score: 305
Period size: 52 Copynumber: 3.5 Consensus size: 53
100692212 TGAGTACTTT
*
100692222 TGATCAAGTGACAAAGTGATAAGTGATAAGTGATAGCTTCGGCTACACTTATC
1 TGATCAAGTGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
100692275 TGATCAAGTGAC-AAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
1 TGATCAAGTGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
**
100692327 TGATCAAGTGAC-AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
* *
100692379 TGATCAAGAGACAAAGTGATAAGTG
1 TGATCAAGTGACAAAGTGAAAAGTG
100692404 GCTACACTTA
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
52 100 0.81
53 23 0.19
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (53 bp):
TGATCAAGTGACAAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATC
Found at i:100692411 original size:37 final size:37
Alignment explanation
Indices: 100692367--100692475 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
100692357 GATAGCTTTA
100692367 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
100692404 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
100692441 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
100692476 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:100695781 original size:22 final size:22
Alignment explanation
Indices: 100695739--100695779 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
100695729 TAGATTTAAA
*
100695739 ATTTAAAATATATTGAATTTAT
1 ATTTAAAATATATTAAATTTAT
*
100695761 ATTTAAAA-ATTTTAAATTT
1 ATTTAAAATATATTAAATTT
100695780 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTAAAATATATTAAATTTAT
Found at i:100703859 original size:41 final size:41
Alignment explanation
Indices: 100703797--100703958 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
100703787 TGAAAATAAG
* *
100703797 ATGTTTCAGACTTTACGTCTAGCAGGC-TTGATGCCGGTGAA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
100703838 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
*
100703879 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGGA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
* * * * *
100703920 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTG
100703959 TTTTATACAA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
41 109 0.97
42 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
Found at i:100708657 original size:30 final size:31
Alignment explanation
Indices: 100708614--100708676 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
100708604 CTTAACAAGT
*
100708614 AAATGTTTCTAAAATAAT-AACAAAATTAAC
1 AAATGTTTCTAAAATAATAAAAAAAATTAAC
100708644 AAATGTCTT-TAAAATAATAAAAAAAATTAAC
1 AAATGT-TTCTAAAATAATAAAAAAAATTAAC
100708675 AA
1 AA
100708677 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.29
Consensus pattern (31 bp):
AAATGTTTCTAAAATAATAAAAAAAATTAAC
Found at i:100710119 original size:5 final size:5
Alignment explanation
Indices: 100710109--100710133 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
100710099 TTGAATCAAT
100710109 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
100710134 TAATAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:100710555 original size:3 final size:3
Alignment explanation
Indices: 100710547--100710576 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
100710537 TTAACTACCC
100710547 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100710577 CGCTCATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100710894 original size:19 final size:19
Alignment explanation
Indices: 100710870--100710925 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
100710860 ATTTAAATTT
100710870 TTTAAAAATGTATTAAAAA
1 TTTAAAAATGTATTAAAAA
* *
100710889 TTTAAAACTG-A-TATAAAC
1 TTTAAAAATGTATTA-AAAA
100710907 TTATAAAAAT-TATTAAAAA
1 TT-TAAAAATGTATTAAAAA
100710926 AATCATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
17 2 0.07
18 6 0.21
19 19 0.66
20 2 0.07
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (19 bp):
TTTAAAAATGTATTAAAAA
Found at i:100711409 original size:19 final size:19
Alignment explanation
Indices: 100711358--100711412 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
100711348 TTTTATTATT
*
100711358 TTTAAATAATATTTATAAC
1 TTTAAATAATTTTTATAAC
*
100711377 TTTATATCAATTTTTGATAA-
1 TTTAAAT-AATTTTT-ATAAC
100711397 TTTAAATAATTTTTAT
1 TTTAAATAATTTTTAT
100711413 GATTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 12 0.39
21 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAAATAATTTTTATAAC
Found at i:100711420 original size:20 final size:20
Alignment explanation
Indices: 100711347--100711420 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
100711337 CCAAGTAAAG
*
100711347 TTTTTATTATTTTTAAATAA
1 TTTTTATGATTTTTAAATAA
* ** *
100711367 TATTTAT-AACTTTATATCAA
1 TTTTTATGATTTTTAAAT-AA
*
100711387 -TTTT-TGATAATTTAAATAA
1 TTTTTATGAT-TTTTAAATAA
100711406 TTTTTATGATTTTTA
1 TTTTTATGATTTTTA
100711421 TAGAAATTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.32
20 22 0.55
21 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTTATGATTTTTAAATAA
Found at i:100711489 original size:10 final size:10
Alignment explanation
Indices: 100711439--100711520 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 10
100711429 TAATACGCAC
*
100711439 TTATATAATT
1 TTATATTATT
* *
100711449 TTAAATATGTT
1 TTATAT-TATT
100711460 TTAT-TTAATT
1 TTATATT-ATT
100711470 TTATA-T-TT
1 TTATATTATT
100711478 TTATATTATT
1 TTATATTATT
* *
100711488 TTGTAATA-T
1 TTATATTATT
*
100711497 TTATAATATT
1 TTATATTATT
100711507 TTATATT-TT
1 TTATATTATT
100711516 TTATA
1 TTATA
100711521 AATTTATATC
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
8 7 0.12
9 17 0.30
10 28 0.49
11 5 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATATTATT
Found at i:100711498 original size:21 final size:20
Alignment explanation
Indices: 100711439--100711498 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
100711429 TAATACGCAC
* *
100711439 TTATATAATTTTAAATATGTT
1 TTATATTATTTTTAATAT-TT
*
100711460 TTAT-TTAATTTT-ATATTT
1 TTATATTATTTTTAATATTT
100711478 TTATATTATTTTGTAATATTT
1 TTATATTATTTT-TAATATTT
100711499 ATAATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 6 0.19
19 10 0.31
20 6 0.19
21 10 0.31
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTATATTATTTTTAATATTT
Found at i:100711518 original size:19 final size:19
Alignment explanation
Indices: 100711467--100711529 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
100711457 GTTTTATTTA
*
100711467 ATTTTATA-TTTTTATATT
1 ATTTTATATTTTTTATAAT
* * *
100711485 ATTTTGTAATATTTATAAT
1 ATTTTATATTTTTTATAAT
100711504 ATTTTATATTTTTTATAA-
1 ATTTTATATTTTTTATAAT
100711522 A-TTTATAT
1 ATTTTATAT
100711530 CAATTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 7 0.18
18 8 0.21
19 23 0.61
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTATATTTTTTATAAT
Found at i:100715095 original size:79 final size:79
Alignment explanation
Indices: 100714937--100715117 Score: 265
Period size: 79 Copynumber: 2.3 Consensus size: 79
100714927 TGTTTCTAAC
* * * * *
100714937 CTTTTATTACTTT-AGACAAGTTCCGTTTTGCAGTTTGAAAGGAATGAGGCAGGAGGGTGGTTGA
1 CTTTTATTCCTTTCAGTCGAGTTCCGTTTTGCAGTTTGAAAGGAAAGAAGCAGGAGGGTGGTTGA
100715001 GGAATGAAGGATAT
66 GGAATGAAGGATAT
* *
100715015 CTTTTATTCCTTTCAGTCGAGTTTCGTTTTGCAGTTTGAAAGGAAAGAAGCGGGAGGGTGGTTGA
1 CTTTTATTCCTTTCAGTCGAGTTCCGTTTTGCAGTTTGAAAGGAAAGAAGCAGGAGGGTGGTTGA
*
100715080 GGAATGAAGGGTAT
66 GGAATGAAGGATAT
*
100715094 CTTTTATTCCTTTCAATCGTAGTT
1 CTTTTATTCCTTTCAGTCG-AGTT
100715118 AGTAATCTCT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 12 0.13
79 76 0.83
80 4 0.04
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (79 bp):
CTTTTATTCCTTTCAGTCGAGTTCCGTTTTGCAGTTTGAAAGGAAAGAAGCAGGAGGGTGGTTGA
GGAATGAAGGATAT
Found at i:100719120 original size:20 final size:21
Alignment explanation
Indices: 100719084--100719125 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
100719074 AAATTACATT
*
100719084 AAAAGAGATAGAGAAAGAAGA
1 AAAACAGATAGAGAAAGAAGA
*
100719105 AAAACAGATAGA-AAAGTAGA
1 AAAACAGATAGAGAAAGAAGA
100719125 A
1 A
100719126 GACAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (21 bp):
AAAACAGATAGAGAAAGAAGA
Found at i:100723390 original size:99 final size:99
Alignment explanation
Indices: 100723274--100723472 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
100723264 ATTTCCCTCG
*
100723274 TACACAACCAAACAGAACAGAAAAACGAAGCAAATTTGAAAAAGAAAGGTGAGCAAAGGAAGCTA
1 TACACAACCAAACAGAACAGAAAAACAAAGCAAATTTGAAAAAGAAAGGTGAGCAAAGGAAGCTA
100723339 GGGGTTTTATACTTTGCTTTGTATAACAGAGAAC
66 GGGGTTTTATACTTTGCTTTGTATAACAGAGAAC
100723373 TACACAACCAAACAGAACAGAAAAACAAAGCAAATTTGAAAAAGAAAGGTGAGCAAAGGAAGCTA
1 TACACAACCAAACAGAACAGAAAAACAAAGCAAATTTGAAAAAGAAAGGTGAGCAAAGGAAGCTA
100723438 GGGGTTTTATACTTTGCTTTGTATAACAGAGAAC
66 GGGGTTTTATACTTTGCTTTGTATAACAGAGAAC
100723472 T
1 T
100723473 GATCTGATTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (99 bp):
TACACAACCAAACAGAACAGAAAAACAAAGCAAATTTGAAAAAGAAAGGTGAGCAAAGGAAGCTA
GGGGTTTTATACTTTGCTTTGTATAACAGAGAAC
Found at i:100724397 original size:23 final size:23
Alignment explanation
Indices: 100724367--100724411 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
100724357 TTTTTAGATT
*
100724367 TAATTTATTTTTATAAATAAATC
1 TAATTTATTTTCATAAATAAATC
100724390 TAATTTATTTTCATAAATAAAT
1 TAATTTATTTTCATAAATAAAT
100724412 AAAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTTATTTTCATAAATAAATC
Found at i:100724421 original size:23 final size:23
Alignment explanation
Indices: 100724372--100724422 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
100724362 AGATTTAATT
* ** *
100724372 TATTTTTATAAATAAATCTAATT
1 TATTTTCATAAATAAATAAAATA
100724395 TATTTTCATAAATAAATAAAATA
1 TATTTTCATAAATAAATAAAATA
100724418 TATTT
1 TATTT
100724423 CATTTAGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTTTCATAAATAAATAAAATA
Found at i:100726394 original size:18 final size:17
Alignment explanation
Indices: 100726368--100726423 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
100726358 GGTTTTTTTG
*
100726368 TTATTTAAAAATAAAACA
1 TTATATAAAAATAAAA-A
*
100726386 TTATATAAAATTAAAAA
1 TTATATAAAAATAAAAA
*
100726403 TTA-ATCAAAAA-ATAAA
1 TTATAT-AAAAATAAAAA
100726419 TTATA
1 TTATA
100726424 AAATTGGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 9 0.28
17 9 0.28
18 14 0.44
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (17 bp):
TTATATAAAAATAAAAA
Found at i:100729093 original size:15 final size:15
Alignment explanation
Indices: 100729061--100729103 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
100729051 ACCGTTCAGT
* **
100729061 AAAAATTAAAATTTA
1 AAAAATAAAAATACA
100729076 AAAAATAAAAATACA
1 AAAAATAAAAATACA
*
100729091 AAAAGTAAAAATA
1 AAAAATAAAAATA
100729104 ATCAAATCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAAATAAAAATACA
Found at i:100729147 original size:37 final size:37
Alignment explanation
Indices: 100729097--100729172 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
100729087 TACAAAAAGT
*
100729097 AAAAATAATCAAATCTACAACTTTTATAAATTGCAAG
1 AAAAATAATCAAATCTACAACTTTTATAAATTACAAG
100729134 AAAAATAATCAAATCTACAACTTTTATAAATTACAAG
1 AAAAATAATCAAATCTACAACTTTTATAAATTACAAG
100729171 AA
1 AA
100729173 CTAATAGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (37 bp):
AAAAATAATCAAATCTACAACTTTTATAAATTACAAG
Found at i:100731266 original size:13 final size:13
Alignment explanation
Indices: 100731248--100731272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100731238 TTATAAAAAG
100731248 ATTAAATTAATTA
1 ATTAAATTAATTA
100731261 ATTAAATTAATT
1 ATTAAATTAATT
100731273 TCAATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTAATTA
Found at i:100735685 original size:3 final size:3
Alignment explanation
Indices: 100735677--100735701 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100735667 AGGGGCTCTC
100735677 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
100735702 TTTTTAAACT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:100744424 original size:22 final size:22
Alignment explanation
Indices: 100744377--100744424 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
100744367 TAATGACAGC
* * *
100744377 ATAAAATTAATGATACAGTAAT
1 ATAAAAATAATAATACAATAAT
100744399 ATAAAAATAATAATACAAATAA-
1 ATAAAAATAATAATAC-AATAAT
100744421 ATAA
1 ATAA
100744425 GTATGAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (22 bp):
ATAAAAATAATAATACAATAAT
Found at i:100745145 original size:12 final size:12
Alignment explanation
Indices: 100745128--100745152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100745118 GAAAAAGGTG
100745128 TATTTTTTATTT
1 TATTTTTTATTT
100745140 TATTTTTTATTT
1 TATTTTTTATTT
100745152 T
1 T
100745153 CCTCTTTATT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:100759232 original size:17 final size:17
Alignment explanation
Indices: 100759210--100759243 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100759200 ATCCACTAAT
*
100759210 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100759227 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100759244 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100762689 original size:78 final size:78
Alignment explanation
Indices: 100762600--100762759 Score: 320
Period size: 78 Copynumber: 2.1 Consensus size: 78
100762590 TCTAAAGCCT
100762600 TTATAATTGTAACTTTATTTTGTGTGTGTAAATCAAATTGATAATAAGGATAATTATAAAAGTTT
1 TTATAATTGTAACTTTATTTTGTGTGTGTAAATCAAATTGATAATAAGGATAATTATAAAAGTTT
100762665 TAAAAAAATCTTA
66 TAAAAAAATCTTA
100762678 TTATAATTGTAACTTTATTTTGTGTGTGTAAATCAAATTGATAATAAGGATAATTATAAAAGTTT
1 TTATAATTGTAACTTTATTTTGTGTGTGTAAATCAAATTGATAATAAGGATAATTATAAAAGTTT
100762743 TAAAAAAATCTTA
66 TAAAAAAATCTTA
100762756 TTAT
1 TTAT
100762760 GTATAATTTA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (78 bp):
TTATAATTGTAACTTTATTTTGTGTGTGTAAATCAAATTGATAATAAGGATAATTATAAAAGTTT
TAAAAAAATCTTA
Found at i:100775688 original size:2 final size:2
Alignment explanation
Indices: 100775681--100775709 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100775671 ATGTTAGGTA
100775681 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
100775710 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:100776706 original size:16 final size:17
Alignment explanation
Indices: 100776680--100776714 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
100776670 AATGCATATA
*
100776680 GAAATAGAAGATGATTG
1 GAAATAGAAGATAATTG
100776697 GAAA-AGAAGATAATTG
1 GAAATAGAAGATAATTG
100776713 GA
1 GA
100776715 TAGTGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (17 bp):
GAAATAGAAGATAATTG
Found at i:100777479 original size:12 final size:12
Alignment explanation
Indices: 100777462--100777487 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100777452 CGGGCCATGC
100777462 AAGGTATTGGCT
1 AAGGTATTGGCT
100777474 AAGGTATTGGCT
1 AAGGTATTGGCT
100777486 AA
1 AA
100777488 TTTTTCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (12 bp):
AAGGTATTGGCT
Found at i:100780867 original size:13 final size:13
Alignment explanation
Indices: 100780849--100780874 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100780839 AACTGTTGGA
100780849 ACAACCTTATTTC
1 ACAACCTTATTTC
100780862 ACAACCTTATTTC
1 ACAACCTTATTTC
100780875 CAGGAGACAT
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:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
ACAACCTTATTTC
Found at i:100797974 original size:14 final size:15
Alignment explanation
Indices: 100797955--100797983 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
100797945 TCTTTACAGT
100797955 TAAATAAAAA-TAAA
1 TAAATAAAAACTAAA
100797969 TAAATAAAAACTAAA
1 TAAATAAAAACTAAA
100797984 CCAACCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATAAAAACTAAA
Found at i:100815783 original size:3 final size:3
Alignment explanation
Indices: 100815775--100815800 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
100815765 GTCATGTGCC
100815775 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
100815801 TTACTATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:100816298 original size:17 final size:17
Alignment explanation
Indices: 100816276--100816309 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100816266 ATCCACTAAT
*
100816276 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
100816293 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
100816310 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:100829565 original size:17 final size:18
Alignment explanation
Indices: 100829519--100829565 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
100829509 TTACCTAATT
*
100829519 AATTCTTTTAATTCACCA
1 AATTCTTCTAATTCACCA
* *
100829537 AATTC-ACCAATTCA-CA
1 AATTCTTCTAATTCACCA
100829553 AATTCTTCTAATT
1 AATTCTTCTAATT
100829566 TCTCACTTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
16 7 0.30
17 11 0.48
18 5 0.22
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTCTTCTAATTCACCA
Found at i:100839804 original size:24 final size:24
Alignment explanation
Indices: 100839777--100839825 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
100839767 AAAAAACCTA
100839777 CACGACCCCTTATAAAAAAAACAC
1 CACGACCCCTTATAAAAAAAACAC
100839801 CACGACCCCTTATAAAAAAAACAC
1 CACGACCCCTTATAAAAAAAACAC
100839825 C
1 C
100839826 CAAGACATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.35, G:0.04, T:0.12
Consensus pattern (24 bp):
CACGACCCCTTATAAAAAAAACAC
Found at i:100842792 original size:83 final size:85
Alignment explanation
Indices: 100842649--100842816 Score: 211
Period size: 83 Copynumber: 2.0 Consensus size: 85
100842639 CAGAATTAAA
* * *
100842649 TTATATATTTTTATAATAGTAAAAATATAATTACATTATTTTAATAATTTATATCTTTATAATTT
1 TTATATATTTTTATAAAAGTAAAAATATAATT--ATTATTTTAATAATTTAAATCTTTATAAATT
*
100842714 ATAAATAAT-TAAATTAAAATT
64 ATAAATAATCTAAATAAAAATT
*
100842735 TTAT-TATTTTT-TAAAAGATAAAAATATAATT-TTATCTTTACTAATTTAAAAT-TTTATAAAT
1 TTATATATTTTTATAAAAG-TAAAAATATAATTATTAT-TTTAATAATTT-AAATCTTTATAAAT
100842796 TATAAATAATCTAAATAAAAA
63 TATAAATAATCTAAATAAAAA
100842817 AAATTCTATT
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
82 4 0.05
83 28 0.38
84 17 0.23
85 20 0.27
86 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (85 bp):
TTATATATTTTTATAAAAGTAAAAATATAATTATTATTTTAATAATTTAAATCTTTATAAATTAT
AAATAATCTAAATAAAAATT
Found at i:100850300 original size:13 final size:13
Alignment explanation
Indices: 100850282--100850306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100850272 ACTGTAGTAC
100850282 TGTAACACCCCCA
1 TGTAACACCCCCA
100850295 TGTAACACCCCC
1 TGTAACACCCCC
100850307 TAACCCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.48, G:0.08, T:0.16
Consensus pattern (13 bp):
TGTAACACCCCCA
Found at i:100851447 original size:21 final size:21
Alignment explanation
Indices: 100851385--100851449 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
100851375 CCTGATCAGT
** *
100851385 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAAGTGCCTG
*
100851406 AAACGACACACGAAGTGCCTG
1 ATACGACACACGAAGTGCCTG
*
100851427 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAAGTGCCTG
100851448 AT
1 AT
100851450 CGATAAAGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAAGTGCCTG
Found at i:100852926 original size:16 final size:17
Alignment explanation
Indices: 100852891--100852926 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
100852881 CCTAATTCTC
100852891 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
100852907 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
100852922 CCTTC
1 CCTTC
100852927 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:100854235 original size:12 final size:13
Alignment explanation
Indices: 100854201--100854240 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
100854191 ATTTTTTAAG
100854201 TAGTTTATTGATA
1 TAGTTTATTGATA
100854214 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
100854228 TAGTTTATTGATA
1 TAGTTTATTGATA
100854241 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:100856045 original size:53 final size:53
Alignment explanation
Indices: 100855964--100856114 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
100855954 CTTACACGGT
* *
100855964 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
100856019 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
100856072 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
100856115 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:100860794 original size:46 final size:46
Alignment explanation
Indices: 100860729--100860956 Score: 303
Period size: 46 Copynumber: 5.0 Consensus size: 46
100860719 TTATGTTTGA
* * * * * **
100860729 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* **
100860775 CATGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *
100860821 CACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * * *
100860867 CATGTTGTCATGGTATCTTTCAACCATAGTTTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
100860913 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
100860957 TTCAGAGAGC
Statistics
Matches: 160, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:100862332 original size:53 final size:53
Alignment explanation
Indices: 100862190--100862387 Score: 207
Period size: 53 Copynumber: 3.6 Consensus size: 53
100862180 ATGACCGGCA
* * *
100862190 CGTATTTTGGTGCCGACCATTGACATGCCAGCACCAATTTTTTTTTTTAAAACT
1 CGTATTTTGGTGCCGGCCATTGACATGCCAGCACCAA-ATTTTTTTTAAAAACT
* * * * * * *
100862244 TGTATTTTGATGCCGGCTATTGAAATGCCAACACCAAAATTTTTTTGAAAACT
1 CGTATTTTGGTGCCGGCCATTGACATGCCAGCACCAAATTTTTTTTAAAAACT
* **
100862297 CGTATTTTGGTGCCGGCCATTGACAGGCTGGCACCAAATTTTTTTTTAAAAAAAACT
1 CGTATTTTGGTGCCGGCCATTGACATGCCAGCACCAAA-TTTTTTTT---AAAAACT
* **
100862354 CGTATTTTGGTGCTGGCCATTGACAAACCAGCAC
1 CGTATTTTGGTGCCGGCCATTGACATGCCAGCAC
100862388 AAAAAAAAAA
Statistics
Matches: 116, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
53 43 0.37
54 38 0.33
57 35 0.30
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (53 bp):
CGTATTTTGGTGCCGGCCATTGACATGCCAGCACCAAATTTTTTTTAAAAACT
Found at i:100863693 original size:21 final size:22
Alignment explanation
Indices: 100863659--100863705 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
100863649 TTTAAAAAGA
* *
100863659 TTATTAATTATTAATTTTAATC
1 TTATTAATTATTAATATTAATA
100863681 TTATTAA-TATTAATATTAATA
1 TTATTAATTATTAATATTAATA
100863702 TTAT
1 TTAT
100863706 ATTATTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTAATTATTAATATTAATA
Found at i:100863875 original size:22 final size:23
Alignment explanation
Indices: 100863850--100863899 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
100863840 TATCTTATTT
* *
100863850 AATATTTTTTGAAA-ATAATTAA
1 AATATTTTTTCAAACACAATTAA
*
100863872 AATA-ATTTTCAAACACAATTAA
1 AATATTTTTTCAAACACAATTAA
100863894 AATATT
1 AATATT
100863900 AAATATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (23 bp):
AATATTTTTTCAAACACAATTAA
Found at i:100873386 original size:26 final size:26
Alignment explanation
Indices: 100873357--100873406 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
100873347 AAATTAGTCC
100873357 TATACATTAAATCAAAGAGAAAATCA
1 TATACATTAAATCAAAGAGAAAATCA
100873383 TATACATTAAATCAAAGAGAAAAT
1 TATACATTAAATCAAAGAGAAAAT
100873407 TGGTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.24
Consensus pattern (26 bp):
TATACATTAAATCAAAGAGAAAATCA
Found at i:100874166 original size:3 final size:3
Alignment explanation
Indices: 100874158--100874186 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
100874148 AATTAAACTA
100874158 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
100874187 ATTCCTTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:100887263 original size:5 final size:5
Alignment explanation
Indices: 100887253--100887287 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
100887243 TTTCTTTTAT
100887253 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
100887288 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:100896187 original size:25 final size:28
Alignment explanation
Indices: 100896142--100896211 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
100896132 TATAAATTTT
100896142 AAATATTTTT-AAA-TAATTAATA-A-A
1 AAATATTTTTAAAATTAATTAATACACA
*
100896166 AATTATTTTTAAAATTAA-TAATACACA
1 AAATATTTTTAAAATTAATTAATACACA
*
100896193 AAATAATTTTAAAACTTAA
1 AAATATTTTTAAAA-TTAA
100896212 ATAAAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 9 0.24
25 8 0.21
26 4 0.11
27 13 0.34
28 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
AAATATTTTTAAAATTAATTAATACACA
Found at i:100896238 original size:23 final size:24
Alignment explanation
Indices: 100896208--100896253 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
100896198 ATTTTAAAAC
100896208 TTAAATAAAATAATA-AATGATAT
1 TTAAATAAAATAATATAATGATAT
*
100896231 TTAAATAATATAATATAATGATA
1 TTAAATAAAATAATATAATGATA
100896254 CATAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
TTAAATAAAATAATATAATGATAT
Found at i:100896259 original size:24 final size:23
Alignment explanation
Indices: 100896209--100896260 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
100896199 TTTTAAAACT
**
100896209 TAAATAAAATAATAAATGATATT
1 TAAATAAAATAATAAATGATACA
*
100896232 TAAATAATATAATATAATGATACA
1 TAAATAAAATAATA-AATGATACA
100896256 TAAAT
1 TAAAT
100896261 TATAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAATAAAATAATAAATGATACA
Found at i:100901307 original size:16 final size:15
Alignment explanation
Indices: 100901281--100901310 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
100901271 AACAAACGAT
100901281 AACGAACCCACCAAC
1 AACGAACCCACCAAC
100901296 AACGAGACCCACCAA
1 AACGA-ACCCACCAA
100901311 AATCCAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.43, G:0.10, T:0.00
Consensus pattern (15 bp):
AACGAACCCACCAAC
Found at i:100912016 original size:23 final size:23
Alignment explanation
Indices: 100911986--100912030 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
100911976 TAAAATTTTC
100911986 ATCTATTTATAATATTAAAAGTG
1 ATCTATTTATAATATTAAAAGTG
100912009 ATCTATTTATAATATTAAAAGT
1 ATCTATTTATAATATTAAAAGT
100912031 TAATTCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (23 bp):
ATCTATTTATAATATTAAAAGTG
Done.