Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 36 of 410
Found at i:9036362 original size:114 final size:114
Alignment explanation
Indices: 9036160--9036388 Score: 431
Period size: 114 Copynumber: 2.0 Consensus size: 114
9036150 CAAATTATAA
*
9036160 TATTCTTTCTTTCCTTCATTTATTTTCTAATATTATTAGATTATTCTATAAAGTATTACTACAGA
1 TATTCTTTCTTTCCTTCATTTATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
9036225 AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
66 AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
9036274 TATTCTTTCTTTCCTTCATTTATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
1 TATTCTTTCTTTCCTTCATTTATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
**
9036339 AATCCTTTATAGAAATTTTGTTTCTTGTTATACATTGCTCAGTGCGTAG
66 AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
9036388 T
1 T
9036389 GGACTATTCT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (114 bp):
TATTCTTTCTTTCCTTCATTTATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
Found at i:9041766 original size:20 final size:20
Alignment explanation
Indices: 9041743--9041794 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
9041733 AACTATTTAA
*
9041743 ATAATATTATTTGAATAGTT
1 ATAATATTATTTGAATAATT
**
9041763 ATAATATTAAATGAATAATT
1 ATAATATTATTTGAATAATT
9041783 AT-ATATTTATTT
1 ATAATA-TTATTT
9041795 TAAAGACATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (20 bp):
ATAATATTATTTGAATAATT
Found at i:9042113 original size:114 final size:114
Alignment explanation
Indices: 9041910--9042138 Score: 404
Period size: 114 Copynumber: 2.0 Consensus size: 114
9041900 CAAATTATAA
*
9041910 TATTCTTTCTTTCCTTCATTCATTTTCTAATATTATTAGATTATTCTATAAAGTATTACTACAGA
1 TATTCTTTCTTTCCTTCATTCATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
9041975 AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
66 AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
*
9042024 TATTCTTTCTTTCCTTCATTTATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
1 TATTCTTTCTTTCCTTCATTCATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
*** *
9042089 AATCCTTTATAGAAATTTTTTTTCTTGTTATACATTGCTCAGTGTGTAG
66 AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
9042138 T
1 T
9042139 GGACTATTCT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (114 bp):
TATTCTTTCTTTCCTTCATTCATTTTCTAATATTATTAGATTATCCTATAAAGTATTACTACAGA
AATCCTTTATAGAAATTGAGTTTCTTGTTATACATTGCTCAGTGCGTAG
Found at i:9047337 original size:20 final size:20
Alignment explanation
Indices: 9047303--9047344 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9047293 AACTATTTAA
** *
9047303 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
9047323 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
9047343 AT
1 AT
9047345 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:9050710 original size:20 final size:20
Alignment explanation
Indices: 9050676--9050717 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9050666 AACTATTTAA
** *
9050676 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
9050696 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
9050716 AT
1 AT
9050718 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:9062596 original size:30 final size:30
Alignment explanation
Indices: 9062562--9062660 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
9062552 TTAGCCTTTG
9062562 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
9062592 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
9062622 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
9062652 CCACCACCA
1 CCACCACCA
9062661 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:9063187 original size:24 final size:23
Alignment explanation
Indices: 9063139--9063190 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
9063129 TTTTTTTTGT
*
9063139 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
9063162 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
9063186 TATTA
1 TATTA
9063191 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:9063234 original size:25 final size:25
Alignment explanation
Indices: 9063206--9063281 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 25
9063196 ATTCTAAATT
*
9063206 CTATATTACGTATATATATATTATA
1 CTATATTATGTATATATATATTATA
* *
9063231 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATT-ATA
*
9063256 CTATATTATTTATATATATATATATA
1 CTATATTATGTATATATATAT-TATA
9063282 TTTTTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
24 2 0.05
25 35 0.83
26 4 0.10
27 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (25 bp):
CTATATTATGTATATATATATTATA
Found at i:9063327 original size:22 final size:22
Alignment explanation
Indices: 9063297--9063404 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
9063287 TTTTTACATG
*
9063297 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
9063319 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
9063344 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
9063367 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
9063387 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
9063405 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:9063353 original size:25 final size:24
Alignment explanation
Indices: 9063303--9063389 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
9063293 CATGTTATCT
*
9063303 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
9063329 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
9063354 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
9063377 TATTTATTTTTTA
1 TATGTATTTTTTA
9063390 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:9063371 original size:20 final size:20
Alignment explanation
Indices: 9063346--9063404 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
9063336 TTTTTACACT
9063346 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
9063366 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
9063389 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
9063405 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:9063549 original size:16 final size:15
Alignment explanation
Indices: 9063525--9063559 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9063515 TAATTATTAT
9063525 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
9063541 TATTTTAATATTTTA
1 TATTCTAATATTTTA
9063556 TATT
1 TATT
9063560 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:9068032 original size:3 final size:3
Alignment explanation
Indices: 9068026--9068115 Score: 85
Period size: 3 Copynumber: 29.0 Consensus size: 3
9068016 CTCTTCTTCT
* * *
9068026 TCA TCA TCA TCT TCA TCTA CTCCA TCA TCG TCA TCA TCA TTA TTC- TC-
1 TCA TCA TCA TCA TCA TC-A -T-CA TCA TCA TCA TCA TCA TCA -TCA TCA
*
9068073 TAA TTCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA -TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
9068116 CCAATCTCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
2 3 0.04
3 62 0.85
4 5 0.07
5 2 0.03
6 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.01, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:9068142 original size:15 final size:15
Alignment explanation
Indices: 9068122--9068162 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9068112 ATCACCAATC
9068122 TCTTCTTCTTCATCA
1 TCTTCTTCTTCATCA
* *
9068137 TCTTCTTCTCCTTCA
1 TCTTCTTCTTCATCA
*
9068152 GCTTCTTCTTC
1 TCTTCTTCTTC
9068163 TACTTCGCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.07, C:0.37, G:0.02, T:0.54
Consensus pattern (15 bp):
TCTTCTTCTTCATCA
Found at i:9068145 original size:18 final size:18
Alignment explanation
Indices: 9068122--9068168 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
9068112 ATCACCAATC
* *
9068122 TCTTCTTCTTCATCATCT
1 TCTTCTACTTCAGCATCT
* *
9068140 TCTTCTCCTTCAGCTTCT
1 TCTTCTACTTCAGCATCT
9068158 TCTTCTACTTC
1 TCTTCTACTTC
9068169 GCCATTAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.36, G:0.02, T:0.53
Consensus pattern (18 bp):
TCTTCTACTTCAGCATCT
Found at i:9071269 original size:22 final size:21
Alignment explanation
Indices: 9071227--9071270 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9071217 TAAAATTATT
* *
9071227 AACTTCGAAAAATAGATTTAA
1 AACTTCGAAAAAAAAATTTAA
9071248 AACTTCGAAAAAAAAATATTAA
1 AACTTCGAAAAAAAAAT-TTAA
9071270 A
1 A
9071271 TCTATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.59, C:0.09, G:0.07, T:0.25
Consensus pattern (21 bp):
AACTTCGAAAAAAAAATTTAA
Found at i:9075233 original size:22 final size:23
Alignment explanation
Indices: 9075208--9075252 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9075198 TAAATGTATG
9075208 GTAAAAATA-AAATACATGTGTA
1 GTAAAAATATAAATACATGTGTA
* *
9075230 GTAAAAATATACATACATTTGTA
1 GTAAAAATATAAATACATGTGTA
9075253 TTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (23 bp):
GTAAAAATATAAATACATGTGTA
Found at i:9076147 original size:15 final size:15
Alignment explanation
Indices: 9076110--9076156 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
9076100 GATAATTGTA
9076110 GTATTGAAATTGAATT
1 GTATTG-AATTGAATT
*
9076126 -AAGTTGAATTGAATT
1 GTA-TTGAATTGAATT
9076141 GTATTGAATTGGAATT
1 GTATTGAATT-GAATT
9076157 TATGAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (15 bp):
GTATTGAATTGAATT
Found at i:9078369 original size:30 final size:29
Alignment explanation
Indices: 9078337--9078394 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
9078327 CTTTTTTTTC
9078337 TTTCT-TTTTACAATTTTTTTTCCTTTTATCT
1 TTTCTATTTTAC-A-TTTTTTT-CTTTTATCT
*
9078368 TTTTTATTTTACATTTTTTTCTTTTAT
1 TTTCTATTTTACATTTTTTTCTTTTAT
9078395 TACAATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 7 0.28
30 7 0.28
31 5 0.20
32 6 0.24
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTCTATTTTACATTTTTTTCTTTTATCT
Found at i:9079246 original size:5 final size:5
Alignment explanation
Indices: 9079236--9079268 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
9079226 CTGTGTGTTC
*
9079236 TTTAT TTTAT TTTAT TTTAT TTTAT TCTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9079269 CACAAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:9084768 original size:61 final size:60
Alignment explanation
Indices: 9084673--9084789 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 60
9084663 CAAATGCCCC
** *
9084673 CCAAAATTTTGGAAACTTTTGATTTCTCTCTTGAAATTTTAAGAAAATTTTAATTAGACCT
1 CCAAAATTTTGGAAAAATTTCATTTCTCTCTTGAAATTTTAAGAAAA-TTTAATTAGACCT
* * * *
9084734 CCAAAATTTTTGAAAAATTTCATTTCT-TCTTTGAAGTTTTTAGCAAATTTAATTAG
1 CCAAAATTTTGGAAAAATTTCATTTCTCTC-TTGAAATTTTAAGAAAATTTAATTAG
9084790 GCTCCTCTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 11 0.23
61 37 0.77
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (60 bp):
CCAAAATTTTGGAAAAATTTCATTTCTCTCTTGAAATTTTAAGAAAATTTAATTAGACCT
Found at i:9088645 original size:29 final size:30
Alignment explanation
Indices: 9088604--9088667 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
9088594 TAGTAAAGAT
9088604 AAAATTGTAATTTAACTCC-TAAAAATTATA
1 AAAATTGTAATTTAA-TCCTTAAAAATTATA
* *
9088634 AAAATT-TGATTTAATCCTTTAAAATTTATA
1 AAAATTGTAATTTAATCC-TTAAAAATTATA
9088664 AAAA
1 AAAA
9088668 GATAGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 7 0.23
30 20 0.67
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATTGTAATTTAATCCTTAAAAATTATA
Found at i:9097397 original size:14 final size:14
Alignment explanation
Indices: 9097374--9097406 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9097364 ATTGTGACTT
9097374 TAAA-AATTAAAAA
1 TAAATAATTAAAAA
9097387 TAAATAATTAAAAA
1 TAAATAATTAAAAA
9097401 TAAATA
1 TAAATA
9097407 GAACACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATAATTAAAAA
Found at i:9099638 original size:18 final size:18
Alignment explanation
Indices: 9099617--9099655 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9099607 TATTTATTAT
9099617 TAATAAGTCTA-TATAAAA
1 TAATAAGT-TATTATAAAA
*
9099635 TAATTAGTTATTATAAAA
1 TAATAAGTTATTATAAAA
9099653 TAA
1 TAA
9099656 ATTTTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
TAATAAGTTATTATAAAA
Found at i:9099838 original size:19 final size:18
Alignment explanation
Indices: 9099816--9099862 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
9099806 AATGTTAAAA
9099816 TTTTCAAAAAAAAATCTAT
1 TTTTCAAAAAAAAA-CTAT
*
9099835 TTTTCAAAATAAAACTAT
1 TTTTCAAAAAAAAACTAT
*
9099853 TTTCCAAAAA
1 TTTTCAAAAA
9099863 TTTAGTCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTTCAAAAAAAAACTAT
Found at i:9099843 original size:17 final size:17
Alignment explanation
Indices: 9099815--9099862 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
9099805 AAATGTTAAA
*
9099815 ATTTTCAAAAAAAAATCT
1 ATTTTCCAAAAAAAA-CT
*
9099833 ATTTTTCAAAATAAAACT
1 ATTTTCCAAAA-AAAACT
9099851 ATTTTCCAAAAA
1 ATTTTCCAAAAA
9099863 TTTAGTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 21 0.81
19 4 0.15
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTTCCAAAAAAAACT
Found at i:9105777 original size:15 final size:15
Alignment explanation
Indices: 9105757--9105790 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9105747 TTAATTAGGA
9105757 TTTTTTA-TATTTAAT
1 TTTTTTATTA-TTAAT
9105772 TTTTTTATTATTAAT
1 TTTTTTATTATTAAT
9105787 TTTT
1 TTTT
9105791 CTCATGCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTATTATTAAT
Found at i:9110283 original size:13 final size:14
Alignment explanation
Indices: 9110267--9110302 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
9110257 CAATCTCATA
9110267 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
9110280 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
9110293 TCTC-ATTTCA
1 TCTCAATTTCA
9110303 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:9110292 original size:18 final size:19
Alignment explanation
Indices: 9110254--9110294 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
9110244 TGGTTCATGT
9110254 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
9110273 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
9110291 TTTC
1 TTTC
9110295 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:9110483 original size:39 final size:38
Alignment explanation
Indices: 9110416--9110550 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
9110406 ACCAATATGG
* * *
9110416 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
9110455 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
9110493 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
9110534 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9110551 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:9110812 original size:18 final size:19
Alignment explanation
Indices: 9110786--9110824 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9110776 TTTCAATTCA
9110786 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
9110805 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
9110823 AT
1 AT
9110825 CTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:9112150 original size:7 final size:7
Alignment explanation
Indices: 9112140--9112186 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
9112130 TATTTATATA
9112140 ATATAAT
1 ATATAAT
9112147 ATAT-A-
1 ATATAAT
9112152 ATATAAT
1 ATATAAT
9112159 ATATAAT
1 ATATAAT
9112166 ATAATAAT
1 AT-ATAAT
*
9112174 AATTTAAT
1 -ATATAAT
9112182 ATATA
1 ATATA
9112187 TTTTAACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 4 0.12
6 2 0.06
7 17 0.50
8 9 0.26
9 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:9112151 original size:12 final size:12
Alignment explanation
Indices: 9112134--9112186 Score: 90
Period size: 12 Copynumber: 4.5 Consensus size: 12
9112124 TTTACTTATT
9112134 TATATAATATAA
1 TATATAATATAA
9112146 TATATAATATAA
1 TATATAATATAA
9112158 TATATAATATAA
1 TATATAATATAA
*
9112170 TA-ATAATTTAA
1 TATATAATATAA
9112181 TATATA
1 TATATA
9112187 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
11 10 0.26
12 29 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:9116691 original size:13 final size:14
Alignment explanation
Indices: 9116675--9116710 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
9116665 CAATCTCATA
9116675 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
9116688 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
9116701 TCTC-ATTTCA
1 TCTCAATTTCA
9116711 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:9116700 original size:18 final size:19
Alignment explanation
Indices: 9116662--9116702 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
9116652 TGGTTCATGT
9116662 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
9116681 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
9116699 TTTC
1 TTTC
9116703 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:9117127 original size:22 final size:22
Alignment explanation
Indices: 9117088--9117146 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
9117078 GTTTTAAGAA
*
9117088 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
9117109 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
9117131 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
9117147 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:9117163 original size:26 final size:24
Alignment explanation
Indices: 9117117--9117175 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
9117107 ATTTGTTTTA
*
9117117 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
9117141 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
*
9117167 -TTTTTATTT
1 ATATTTATTT
9117176 AATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:9117464 original size:39 final size:38
Alignment explanation
Indices: 9117397--9117531 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
9117387 ACCAATATGG
* * *
9117397 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
9117436 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
9117474 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
9117515 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9117532 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:9117796 original size:18 final size:19
Alignment explanation
Indices: 9117770--9117808 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9117760 TTTCAATTCA
9117770 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
9117789 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
9117807 AT
1 AT
9117809 CTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:9119133 original size:5 final size:5
Alignment explanation
Indices: 9119123--9119175 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
9119113 TTACTTATTT
* *
9119123 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
9119171 ATATA
1 ATATA
9119176 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:9119139 original size:12 final size:12
Alignment explanation
Indices: 9119122--9119177 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
9119112 TTTACTTATT
9119122 TATATAATATAA
1 TATATAATATAA
9119134 TATATAATATAATA
1 TATATAATAT-A-A
9119148 TACTATAATATAA
1 TA-TATAATATAA
*
9119161 TA-ATAATTTAA
1 TATATAATATAA
9119172 TATATA
1 TATATA
9119178 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:9120806 original size:75 final size:73
Alignment explanation
Indices: 9120698--9121449 Score: 897
Period size: 76 Copynumber: 10.1 Consensus size: 73
9120688 AAAGCAGATT
* * * *
9120698 TTGAAAATACCTCAACATGTGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-
* **
9120763 AAAAAACATTAA
63 -ACAAACAGAAA
* *
9120775 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
9120840 AACAGAAA
66 AACAGAAA
* **
9120848 TT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAACGTGAGTTGATCTTTTTG
1 TTGAAAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG
*
9120912 AAAAAACAGAAA
63 -ACAAACAGAAA
* *
9120924 TTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACA
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
9120988 AACAGAAA
66 AACAGAAA
* **
9120996 TTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--A
* *
9121061 CATACAAAAAA
64 CAAAC-AGAAA
* * ** *
9121072 TTGACAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTGACA
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
9121136 AACAGAAA
66 AACAGAAA
* **
9121144 TTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
9121209 CAAACA-ATAA
64 CAAACAGA-AA
* * * *
9121219 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGTAATTATGAGTTGATTTTTTTT
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGA--TTTTTG
9121284 ACAAACA-ATAA
63 ACAAACAGA-AA
* * *
9121295 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACCCATCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
*
9121360 CAAACAGTAA
64 CAAACAGAAA
* * *
9121370 TTGAAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCACGCAATTATGAGTTGATTTTTTTG
1 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGA--TTTTTG
9121435 A-AAACAGAAA
63 ACAAACAGAAA
9121445 -TGAAA
1 TTGAAA
9121450 CATCCACATA
Statistics
Matches: 610, Mismatches: 49, Indels: 35
0.88 0.07 0.05
Matches are distributed among these distances:
72 121 0.20
73 71 0.12
74 6 0.01
75 189 0.31
76 204 0.33
77 19 0.03
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (73 bp):
TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
AACAGAAA
Found at i:9121011 original size:148 final size:147
Alignment explanation
Indices: 9120724--9121430 Score: 949
Period size: 148 Copynumber: 4.8 Consensus size: 147
9120714 ATGTGACCCA
* **
9120724 AGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGAAAAAAACATTAATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAAACAGAAATTGAAAATACCTC
* *
9120788 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
65 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAATTGAA
9120853 ATTACCTCAGCGTGTCCTG
129 ATTACCTCAGCGTGTCCTG
**
9120872 AGGCTCAACTCACCTCTCGCAACGTGAGTTGATCTTTTTGAAAAAACAGAAATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTTGAAAAAACAGAAATTGAAAATACCTC
* * *
9120937 GGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAA
65 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAA
*
9121002 TTACCTCAGCGTGTCTTG
130 TTACCTCAGCGTGTCCTG
* * *
9121020 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACATACAAAAAATTGACAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-AAAC-AGAAATTGAAAATACCT
* * ** *
9121084 CAGCATGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTGACAAACAGAAATTGAA
64 CAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAA
*
9121149 ATTACCTCAGCGTGTCCTA
129 ATTACCTCAGCGTGTCCTG
*
9121168 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ACAAACA-ATAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAACAGA-AATTGAAAATACCT
* * *
9121231 CAGCGTGCCCCGAGGCTCAACTCACCTCCCGTAATTATGAGTTGATTTTTTTTACAAACA-ATAA
64 CAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGA---TTTTGACAAACAGA-AA
* * *
9121295 TTGAAAATACCTCAGCGTGCCCCG
124 TTGAAATTACCTCAGCGTGTCCTG
* * * * *
9121319 AGGCTCAACCCATCTCTCGCAATATGAGTTGATTTTTTTG-ACAAACAGTAATTGAAAATACCTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAACAGAAATTGAAAATACCTC
*
9121383 AGCGTGCCCCGAGGCTCAACTCACCTCACGCAATTATGAGTTGATTTT
65 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTT
9121431 TTTGAAAACA
Statistics
Matches: 505, Mismatches: 41, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
146 10 0.02
147 46 0.09
148 238 0.47
149 64 0.13
150 13 0.03
151 134 0.27
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (147 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTGAAAATACCTCA
GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAAT
TACCTCAGCGTGTCCTG
Found at i:9135273 original size:10 final size:10
Alignment explanation
Indices: 9135255--9135396 Score: 71
Period size: 10 Copynumber: 14.0 Consensus size: 10
9135245 GGATATACAG
9135255 TTATAAAAAA
1 TTATAAAAAA
9135265 TTATTAAAAAA
1 TTA-TAAAAAA
*
9135276 -CATAAAAAA
1 TTATAAAAAA
9135285 TTATAAAAAA
1 TTATAAAAAA
* * **
9135295 ATCTAATGAA
1 TTATAAAAAA
9135305 TTATAAAAAAAAA
1 TTAT---AAAAAA
9135318 GTTATAAAAAA
1 -TTATAAAAAA
*
9135329 -AATAAAATATA
1 TTATAAAA-A-A
**
9135340 TT-TAAAATT
1 TTATAAAAAA
*
9135349 TTATAAAAAC
1 TTATAAAAAA
* *
9135359 TTATGAAGAA
1 TTATAAAAAA
9135369 -TAT-AAAAA
1 TTATAAAAAA
9135377 -TATAAAAAA
1 TTATAAAAAA
9135386 TATATAAAAAA
1 T-TATAAAAAA
9135397 AAGTTATTTA
Statistics
Matches: 99, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
8 7 0.07
9 23 0.23
10 33 0.33
11 28 0.28
13 4 0.04
14 4 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:9135907 original size:11 final size:11
Alignment explanation
Indices: 9135888--9135944 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
9135878 TTATTAGAAC
*
9135888 TTATTATATTT
1 TTATGATATTT
9135899 TTATGATA--T
1 TTATGATATTT
9135908 TTAT-A-AGTTT
1 TTATGATA-TTT
*
9135918 TTATGATTTTT
1 TTATGATATTT
9135929 TTAT-ATATTT
1 TTATGATATTT
9135939 TTATGA
1 TTATGA
9135945 GGTTATATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 5 0.14
10 14 0.38
11 16 0.43
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (11 bp):
TTATGATATTT
Found at i:9136099 original size:19 final size:19
Alignment explanation
Indices: 9135968--9136103 Score: 64
Period size: 18 Copynumber: 7.1 Consensus size: 19
9135958 TTAATATTTA
* *
9135968 ATAAAATTTATAGCTTGTTT
1 ATAAATTTTATA-CTTTTTT
* *
9135988 ATAAGTTTTTATGACTTTTAT
1 ATAA-ATTTTAT-ACTTTTTT
* * *
9136009 AT-TA-TTTATAAGTTTTTA
1 ATAAATTTTAT-ACTTTTTT
* * *
9136027 ATTAATTTTATTAGTTTTTA
1 ATAAATTTTA-TACTTTTTT
* *
9136047 ATAAATTTTA-AATATTTT
1 ATAAATTTTATACTTTTTT
* * *
9136065 A-AAAATATATATTTTTTT
1 ATAAATTTTATACTTTTTT
9136083 ATAAATTTTATACTTTTTT
1 ATAAATTTTATACTTTTTT
9136102 AT
1 AT
9136104 TTTTTTATAA
Statistics
Matches: 87, Mismatches: 22, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
17 6 0.07
18 25 0.29
19 17 0.20
20 25 0.29
21 13 0.15
22 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
ATAAATTTTATACTTTTTT
Found at i:9136100 original size:9 final size:9
Alignment explanation
Indices: 9135985--9136169 Score: 74
Period size: 10 Copynumber: 19.3 Consensus size: 9
9135975 TTATAGCTTG
9135985 TTTATAAGTT
1 TTTATAA-TT
* *
9135995 TTTATGACT
1 TTTATAATT
9136004 TTTAT-ATT
1 TTTATAATT
9136012 ATTTATAAGTT
1 -TTTATAA-TT
9136023 TTTAATTAA-T
1 TTT-A-TAATT
*
9136033 TTTATTAGTT
1 TTTA-TAATT
*
9136043 TTTAATAAAT
1 TTT-ATAATT
9136053 TTTA-AATAT
1 TTTATAAT-T
**
9136062 TTTA-AAAA
1 TTTATAATT
* *
9136070 TATATATTTT
1 TTTATA-ATT
*
9136080 TTTATAAAT
1 TTTATAATT
*
9136089 TTTATACTT
1 TTTATAATT
*
9136098 TTT-TATTTT
1 TTTATA-ATT
9136107 TTTATAATT
1 TTTATAATT
9136116 TTTCAATATATT
1 TTT--ATA-ATT
9136128 TTTATAAATT
1 TTTAT-AATT
*
9136138 TTAATAATTT
1 TTTATAA-TT
9136148 TTTATATATT
1 TTTATA-ATT
*
9136158 TTTATGATT
1 TTTATAATT
9136167 TTT
1 TTT
9136170 TATGATAAAA
Statistics
Matches: 134, Mismatches: 23, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
8 9 0.07
9 53 0.40
10 54 0.40
11 9 0.07
12 9 0.07
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:9136140 original size:30 final size:30
Alignment explanation
Indices: 9136105--9136162 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
9136095 CTTTTTTATT
*
9136105 TTTTTATAATTTTTCAATATATTTTTATAAA
1 TTTTAATAATTTTT-AATATATTTTTATAAA
*
9136136 TTTTAATAATTTTTTATATATTTTTAT
1 TTTTAATAATTTTTAATATATTTTTAT
9136163 GATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTAATAATTTTTAATATATTTTTATAAA
Found at i:9142513 original size:12 final size:12
Alignment explanation
Indices: 9142493--9142527 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9142483 CTTAACATTT
*
9142493 TTTACAATTAAA
1 TTTAAAATTAAA
9142505 TTTAAAATTAAA
1 TTTAAAATTAAA
*
9142517 ATTAAAATTAA
1 TTTAAAATTAA
9142528 TAATTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (12 bp):
TTTAAAATTAAA
Found at i:9142543 original size:6 final size:6
Alignment explanation
Indices: 9142498--9142533 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
9142488 CATTTTTTAC
*
9142498 AATTAA ATTTAA AATTAA AATTAA AATTAA TAATTA
1 AATTAA AATTAA AATTAA AATTAA AATTAA -AATTA
9142534 TTAAACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
AATTAA
Found at i:9145837 original size:21 final size:21
Alignment explanation
Indices: 9145812--9145854 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9145802 AACAAGCTAA
*
9145812 CAAATCTCCTTAGGACTTAGT
1 CAAATATCCTTAGGACTTAGT
9145833 CAAATATCCTTAGGACTTAGT
1 CAAATATCCTTAGGACTTAGT
9145854 C
1 C
9145855 TTATTAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (21 bp):
CAAATATCCTTAGGACTTAGT
Found at i:9147539 original size:3 final size:3
Alignment explanation
Indices: 9147531--9147557 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9147521 GATTTAATCT
9147531 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9147558 ACTTCGCAGC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9150633 original size:21 final size:23
Alignment explanation
Indices: 9150604--9150649 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
9150594 TACCGATACG
9150604 AAATGCATTCTTT-TTATATTTT
1 AAATGCATTCTTTATTATATTTT
* *
9150626 AAAT-CATTTTTTATTATTTTTT
1 AAATGCATTCTTTATTATATTTT
9150648 AA
1 AA
9150650 CAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
AAATGCATTCTTTATTATATTTT
Found at i:9151342 original size:28 final size:28
Alignment explanation
Indices: 9151302--9151359 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
9151292 AACGATGCTG
**
9151302 TTTTTCCTTTTCTTTTCACCAAAGTCCA
1 TTTTTCCTTTTCTTCCCACCAAAGTCCA
9151330 TTTTTCCTTTTCTTCCCACCAAAGTCCA
1 TTTTTCCTTTTCTTCCCACCAAAGTCCA
9151358 TT
1 TT
9151360 ATAGGAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.17, C:0.31, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTTTCCTTTTCTTCCCACCAAAGTCCA
Found at i:9156057 original size:48 final size:47
Alignment explanation
Indices: 9155941--9156062 Score: 122
Period size: 46 Copynumber: 2.6 Consensus size: 47
9155931 AAACTTGTAT
* * *
9155941 AATATGTAAATTATTTTTATAATA-ATTTTTTTGGTCATAACTTTAGA
1 AATAT-TAAATTATTTTTATAATATAATTATTTGGTCATAACTTTAAA
** * ** *
9155988 AATATTTTATGATTTAAATAATATAATTATTT-GTTATAACTTTATAA
1 AATATTAAATTATTTTTATAATATAATTATTTGGTCATAACTTTA-AA
9156035 AATACTTAAATTATTTTTATAATATAAT
1 AATA-TTAAATTATTTTTATAATATAAT
9156063 AATTAAGTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
46 24 0.41
47 16 0.28
48 18 0.31
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (47 bp):
AATATTAAATTATTTTTATAATATAATTATTTGGTCATAACTTTAAA
Found at i:9158095 original size:17 final size:14
Alignment explanation
Indices: 9158063--9158089 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9158053 TTTTTTAAAT
9158063 AATTTTAATAATTA
1 AATTTTAATAATTA
9158077 AATTTTAATAATT
1 AATTTTAATAATT
9158090 TTTAAAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTTTAATAATTA
Found at i:9158703 original size:16 final size:16
Alignment explanation
Indices: 9158660--9158710 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
9158650 TAATCTTTTA
9158660 AAAATTATAAAAAT-AT
1 AAAA-TATAAAAATAAT
* * *
9158676 AGACTATTAAAATAAT
1 AAAATATAAAAATAAT
9158692 AAAATATAAAAATATAT
1 AAAATATAAAAATA-AT
9158709 AA
1 AA
9158711 TTTAATTTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 8 0.30
16 15 0.56
17 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATATAAAAATAAT
Found at i:9163191 original size:1 final size:1
Alignment explanation
Indices: 9163185--9163210 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9163175 TCAAAGGAGG
9163185 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
9163211 GGAATCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9175281 original size:30 final size:30
Alignment explanation
Indices: 9175238--9175299 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
9175228 TTTAACAAGT
*
9175238 AAATGCCTCTAAAATAACAAGAAAATTAAC
1 AAATGCCTCTAAAATAACAAAAAAATTAAC
* * *
9175268 AAATGTCTTTAAAATAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAACAAAAAAATTAAC
9175298 AA
1 AA
9175300 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.11, G:0.05, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAACAAAAAAATTAAC
Found at i:9175365 original size:11 final size:11
Alignment explanation
Indices: 9175336--9175376 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9175326 ACAATAACAA
*
9175336 CAAAATCGTAG
1 CAAAATAGTAG
*
9175347 CAACATAGTAG
1 CAAAATAGTAG
*
9175358 TAAAATAGTAG
1 CAAAATAGTAG
9175369 CAAAATAG
1 CAAAATAG
9175377 GGAGAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:9175384 original size:22 final size:22
Alignment explanation
Indices: 9175337--9175386 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
9175327 CAATAACAAC
* * *
9175337 AAAATCGTAGCAACATAGTAGT
1 AAAATAGTAGCAAAATAGGAGT
9175359 AAAATAGTAGCAAAATAGGGAG-
1 AAAATAGTAGCAAAATA-GGAGT
9175381 AAAATA
1 AAAATA
9175387 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.54, C:0.08, G:0.20, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAGGAGT
Found at i:9176327 original size:19 final size:19
Alignment explanation
Indices: 9176305--9176341 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9176295 TAAAAAAATA
9176305 AATATATATTAAATTTGAG
1 AATATATATTAAATTTGAG
*
9176324 AATATATATTAGATTTGA
1 AATATATATTAAATTTGA
9176342 TTAAAAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (19 bp):
AATATATATTAAATTTGAG
Found at i:9177245 original size:21 final size:21
Alignment explanation
Indices: 9177219--9177261 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9177209 ACCTTTTCTA
* *
9177219 AAGTTAAATGTCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
9177240 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
9177261 A
1 A
9177262 TATTGTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:9197895 original size:14 final size:14
Alignment explanation
Indices: 9197875--9197908 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9197865 TTTGTTTACG
9197875 GAAAAAAAAGGAAAA
1 GAAAAAAAA-GAAAA
9197890 -AAAAAAAAGAAAA
1 GAAAAAAAAGAAAA
9197903 GAAAAA
1 GAAAAA
9197909 GAGAGAGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAGAAAA
Found at i:9199631 original size:23 final size:19
Alignment explanation
Indices: 9199585--9199623 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9199575 TTAGTGCTAA
9199585 TTTAAAGGAGTTAGTTTTT
1 TTTAAAGGAGTTAGTTTTT
9199604 TTTAAAGGAGTTAGTTTTT
1 TTTAAAGGAGTTAGTTTTT
9199623 T
1 T
9199624 AGTTTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (19 bp):
TTTAAAGGAGTTAGTTTTT
Found at i:9201153 original size:10 final size:9
Alignment explanation
Indices: 9201140--9201226 Score: 70
Period size: 9 Copynumber: 9.6 Consensus size: 9
9201130 TTTTTACAAT
9201140 ATTTTTCATA
1 ATTTTT-ATA
**
9201150 ATTTTTGCA
1 ATTTTTATA
*
9201159 TTTTTTAT-
1 ATTTTTATA
*
9201167 A-TTTTATG
1 ATTTTTATA
*
9201175 ATTTTCATA
1 ATTTTTATA
9201184 ATTTTATATA
1 ATTTT-TATA
9201194 ATTTTTATA
1 ATTTTTATA
*
9201203 TTTTTATATA
1 ATTTT-TATA
*
9201213 ATTTTTATG
1 ATTTTTATA
9201222 ATTTT
1 ATTTT
9201227 AAATATAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
7 6 0.10
8 1 0.02
9 32 0.52
10 22 0.36
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:9201163 original size:18 final size:18
Alignment explanation
Indices: 9201140--9201190 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
9201130 TTTTTACAAT
9201140 ATTTTTCATAATTTT-TG
1 ATTTTTCATAATTTTATG
*
9201157 CATTTTTTAT-ATTTTATG
1 -ATTTTTCATAATTTTATG
9201175 A-TTTTCATAATTTTAT
1 ATTTTTCATAATTTTAT
9201191 ATAATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 13 0.45
18 10 0.34
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTTTTCATAATTTTATG
Found at i:9201207 original size:19 final size:19
Alignment explanation
Indices: 9201158--9201226 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
9201148 TAATTTTTGC
* *
9201158 ATTTTT-TATATTT-TATG
1 ATTTTTATATTTTTATATA
* *
9201175 ATTTTCATAATTTTATATA
1 ATTTTTATATTTTTATATA
9201194 ATTTTTATATTTTTATATA
1 ATTTTTATATTTTTATATA
9201213 ATTTTTATGATTTT
1 ATTTTTAT-ATTTT
9201227 AAATATAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
17 5 0.12
18 5 0.12
19 28 0.65
20 5 0.12
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTTATATTTTTATATA
Found at i:9208014 original size:8 final size:8
Alignment explanation
Indices: 9208003--9208059 Score: 60
Period size: 8 Copynumber: 6.5 Consensus size: 8
9207993 TTAATAAAAT
9208003 AATATAAA
1 AATATAAA
9208011 AATATATATA
1 AATATA-A-A
9208021 AATCATAAAA
1 AAT-AT-AAA
9208031 AATATAAA
1 AATATAAA
*
9208039 AATATAGA
1 AATATAAA
9208047 AATATAGAA
1 AATATA-AA
9208056 AATA
1 AATA
9208060 ATGATAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 22 0.52
9 8 0.19
10 8 0.19
11 3 0.07
12 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (8 bp):
AATATAAA
Found at i:9208035 original size:18 final size:19
Alignment explanation
Indices: 9208006--9208057 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
9207996 ATAAAATAAT
*
9208006 ATAAAAATATATATAAATC
1 ATAAAAATATATAAAAATC
9208025 ATAAAAA-ATATAAAAAT-
1 ATAAAAATATATAAAAATC
* *
9208042 ATAGAAATATAGAAAA
1 ATAAAAATATATAAAA
9208058 TAATGATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.21
18 16 0.55
19 7 0.24
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
ATAAAAATATATAAAAATC
Found at i:9208037 original size:16 final size:16
Alignment explanation
Indices: 9207955--9208038 Score: 59
Period size: 16 Copynumber: 5.2 Consensus size: 16
9207945 TGTGGGAAAA
*
9207955 AAATGATAAAAAATA-
1 AAATTATAAAAAATAT
9207970 AAAGTTATAAAAAATATT
1 AAA-TTATAAAAAATA-T
* *
9207988 AAATTTTAATAAA-AT
1 AAATTATAAAAAATAT
9208003 -AA-TATAAAAATATATAT
1 AAATTAT-AAAA-A-ATAT
*
9208020 AAATCATAAAAAATAT
1 AAATTATAAAAAATAT
9208036 AAA
1 AAA
9208039 AATATAGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
13 2 0.04
14 5 0.09
15 5 0.09
16 20 0.37
17 11 0.20
18 9 0.17
19 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (16 bp):
AAATTATAAAAAATAT
Found at i:9208107 original size:21 final size:20
Alignment explanation
Indices: 9208071--9208136 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
9208061 TGATAAAATT
*
9208071 TTATAAAGTTGT-AAGAAAA
1 TTATAAAATTGTAAAGAAAA
9208090 TTATAAAATATGTAAAG-AAA
1 TTATAAAAT-TGTAAAGAAAA
*
9208110 -TATAAAATTCGTAAAAAAAA
1 TTATAAAATT-GTAAAGAAAA
9208130 TTATAAA
1 TTATAAA
9208137 GATTATCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.03
19 21 0.52
20 9 0.22
21 9 0.22
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
TTATAAAATTGTAAAGAAAA
Found at i:9211188 original size:17 final size:19
Alignment explanation
Indices: 9211161--9211199 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
9211151 TTTTTAATTT
9211161 AAATATATAAAAA-ATAAA
1 AAATATATAAAAAGATAAA
9211179 AAAT-TATAAAAAGATAAA
1 AAATATATAAAAAGATAAA
9211197 AAA
1 AAA
9211200 AATACTGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (19 bp):
AAATATATAAAAAGATAAA
Found at i:9213316 original size:17 final size:16
Alignment explanation
Indices: 9213257--9213332 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 16
9213247 TGTATTATTT
9213257 ATAAAATCATTAAAAATCA
1 ATAAAAT-A-TAAAAAT-A
9213276 ATAAAAATATAATAAA-A
1 AT-AAAATATAA-AAATA
*
9213293 CAAAAAATATAGAAAATA
1 -ATAAAATATA-AAAATA
* *
9213311 ATAAAACATATAAATA
1 ATAAAATATAAAAATA
9213327 ATAAAA
1 ATAAAA
9213333 ATATTAAAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
16 11 0.23
17 20 0.42
18 6 0.12
19 6 0.12
20 5 0.10
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.22
Consensus pattern (16 bp):
ATAAAATATAAAAATA
Found at i:9213316 original size:24 final size:25
Alignment explanation
Indices: 9213257--9213340 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 25
9213247 TGTATTATTT
9213257 ATAAAATCATTAAAAATCAATAAAAATATA
1 ATAAAA-CA-TAAAAAT-AAT-AAAA-ATA
9213287 ATAAAACA-AAAAAT-ATAGAAAATA
1 ATAAAACATAAAAATAATA-AAAATA
*
9213311 ATAAAACATATAAATAATAAAAATA
1 ATAAAACATAAAAATAATAAAAATA
*
9213336 TTAAA
1 ATAAA
9213341 GTGTAAAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
24 12 0.24
25 20 0.41
26 3 0.06
27 6 0.12
29 2 0.04
30 6 0.12
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.24
Consensus pattern (25 bp):
ATAAAACATAAAAATAATAAAAATA
Found at i:9213321 original size:19 final size:18
Alignment explanation
Indices: 9213257--9213330 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
9213247 TGTATTATTT
9213257 ATAAAATCAT-TAAAAATCA
1 ATAAAA-CATATAAAAAT-A
*
9213276 ATAAAA-ATATAATAA-A
1 ATAAAACATATAAAAATA
* *
9213292 ACAAAAAATATAGAAAATA
1 ATAAAACATATA-AAAATA
9213311 ATAAAACATATAAATAATA
1 ATAAAACATATAAA-AATA
9213330 A
1 A
9213331 AAATATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.13
17 7 0.16
18 10 0.22
19 22 0.49
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.23
Consensus pattern (18 bp):
ATAAAACATATAAAAATA
Found at i:9213340 original size:16 final size:16
Alignment explanation
Indices: 9213306--9213390 Score: 56
Period size: 16 Copynumber: 5.4 Consensus size: 16
9213296 AAAATATAGA
9213306 AAATAATAAAACATA-T
1 AAATAATAAAA-ATATT
9213322 AAATAATAAAAATATT
1 AAATAATAAAAATATT
*
9213338 AAAGT-GTAAAAAT-TT
1 AAA-TAATAAAAATATT
9213353 ATAA-AA-AAATAATATT
1 A-AATAATAAA-AATATT
*
9213369 ATA-AATGAAAAATATT
1 AAATAAT-AAAAATATT
*
9213385 ATATAA
1 AAATAA
9213391 ATAAGAAAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
14 3 0.05
15 12 0.21
16 36 0.63
17 6 0.11
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (16 bp):
AAATAATAAAAATATT
Found at i:9213356 original size:33 final size:35
Alignment explanation
Indices: 9213318--9213394 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 35
9213308 ATAATAAAAC
* *
9213318 ATATAAATAATAAAAATATTA-AAGTGTAAAA-ATT
1 ATATAAATAA-AAAAATATTATAAATGAAAAATATT
*
9213352 -TATAAA-AAAATAATATTATAAATGAAAAATATT
1 ATATAAATAAAAAAATATTATAAATGAAAAATATT
9213385 ATATAAATAA
1 ATATAAATAA
9213395 GAAAGAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 9 0.25
32 10 0.28
33 9 0.25
34 6 0.17
35 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (35 bp):
ATATAAATAAAAAAATATTATAAATGAAAAATATT
Found at i:9213389 original size:18 final size:19
Alignment explanation
Indices: 9213357--9213392 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9213347 AAATTTATAA
9213357 AAAAATAATATTATAAATG
1 AAAAATAATATTATAAATG
*
9213376 AAAAATATTA-TATAAAT
1 AAAAATAATATTATAAAT
9213393 AAGAAAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATAATATTATAAATG
Found at i:9215775 original size:26 final size:26
Alignment explanation
Indices: 9215721--9215776 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
9215711 ATTATTATTC
*
9215721 TTTAATATATATATATTATGCATATAT
1 TTTAATATATATATATTAT-CATACAT
9215748 TTTAATACTATAT-TATATAT-ATACAT
1 TTTAATA-TATATATAT-TATCATACAT
9215774 TTT
1 TTT
9215777 TTACACTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 8 0.31
27 10 0.38
28 8 0.31
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTAATATATATATATTATCATACAT
Found at i:9215830 original size:27 final size:27
Alignment explanation
Indices: 9215792--9215843 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9215782 CTATGCATAC
* * *
9215792 ATACTTTTAACATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATGT
9215819 ATACTCTTAACATCATATTATATAT
1 ATACTCTTAACATCATATTATATAT
9215844 ATATCTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATGT
Found at i:9217788 original size:19 final size:20
Alignment explanation
Indices: 9217755--9217795 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
9217745 CAAAATAATA
**
9217755 TATAAAAATTTAAAAG-ATT
1 TATAAAAATAAAAAAGTATT
9217774 TATAAAAATAAAAAAGTATT
1 TATAAAAATAAAAAAGTATT
9217794 TA
1 TA
9217796 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
TATAAAAATAAAAAAGTATT
Found at i:9218006 original size:30 final size:30
Alignment explanation
Indices: 9217970--9218028 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
9217960 TCTATTGTGG
* *
9217970 AAATTTAGATATATTGTTTTGAATTTTTAA
1 AAATTTAAATATATTGATTTGAATTTTTAA
*
9218000 AAATTTAAATATGTTGATTTGAATTTTTA
1 AAATTTAAATATATTGATTTGAATTTTTA
9218029 GAGTTTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (30 bp):
AAATTTAAATATATTGATTTGAATTTTTAA
Found at i:9218524 original size:15 final size:16
Alignment explanation
Indices: 9218504--9218536 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9218494 ATATATATTT
9218504 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
9218519 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
9218536 T
1 T
9218537 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:9218655 original size:26 final size:24
Alignment explanation
Indices: 9218611--9218658 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
9218601 ATTTGTTTTA
*
9218611 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
9218635 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
9218659 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:9223058 original size:41 final size:41
Alignment explanation
Indices: 9223006--9223086 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
9222996 AGTTGTTGGT
* *
9223006 TTGTTTGTTCTTGTACAATGTGTTGGATTTTTGAAGTATGA
1 TTGTCTGTTCTTGTACAATGTGTTGAATTTTTGAAGTATGA
*
9223047 TTGTCTGTTCTTGTACAGTGTGTTGAATTTTTGAAGTATG
1 TTGTCTGTTCTTGTACAATGTGTTGAATTTTTGAAGTATG
9223087 TTTCATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.51
Consensus pattern (41 bp):
TTGTCTGTTCTTGTACAATGTGTTGAATTTTTGAAGTATGA
Found at i:9224982 original size:17 final size:18
Alignment explanation
Indices: 9224946--9224984 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9224936 ATATTTGAAT
*
9224946 ATATTTATTTTTATTTAA
1 ATATTTATTTTTATTAAA
9224964 ATATTTATTTTT-TTAAA
1 ATATTTATTTTTATTAAA
9224981 ATAT
1 ATAT
9224985 AATTACAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTATTTTTATTAAA
Found at i:9229534 original size:20 final size:20
Alignment explanation
Indices: 9229499--9229536 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9229489 TGACCACTTC
9229499 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
9229519 GTAACTAAAACG-TAACAT
1 GTAAC-AAAACGATAACAT
9229537 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:9241970 original size:27 final size:25
Alignment explanation
Indices: 9241925--9241977 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
9241915 ATGATAAATT
*
9241925 AATTAATTTAATTTGATAACTTATATC
1 AATTAATTGAATTTGATAA-TTA-ATC
9241952 AATTAATTGAACTTT-ATAATTAATC
1 AATTAATTGAA-TTTGATAATTAATC
9241977 A
1 A
9241978 TGCGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 3 0.12
27 14 0.58
28 3 0.12
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (25 bp):
AATTAATTGAATTTGATAATTAATC
Found at i:9243155 original size:19 final size:20
Alignment explanation
Indices: 9243106--9243156 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
9243096 TTGGATGTTT
*
9243106 AAATTATTAAAA-TCTCATAA
1 AAATTA-TAAAATTATCATAA
* *
9243126 AAATAAAAAAATTATCA-AA
1 AAATTATAAAATTATCATAA
9243145 AAATTATAAAAT
1 AAATTATAAAAT
9243157 CTGGTTAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATTATAAAATTATCATAA
Found at i:9243603 original size:21 final size:22
Alignment explanation
Indices: 9243578--9243623 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9243568 AAATATATAT
* *
9243578 ATTTTAAAA-TATTTATTAAAA
1 ATTTTAAAATTAATTAATAAAA
9243599 ATTTTAAAATTAATTAATAAAA
1 ATTTTAAAATTAATTAATAAAA
9243621 ATT
1 ATT
9243624 ACATCTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTTAAAATTAATTAATAAAA
Found at i:9243802 original size:37 final size:38
Alignment explanation
Indices: 9243730--9243802 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 38
9243720 TTATATATAT
* * **
9243730 ATAACTTTTATTAATCATTTGTATATATTTGAATTTAA
1 ATAACTTTAATTAATAATTTGTATATATTCAAATTTAA
9243768 ATAACTTTAAATTAATAATTT-T-TATATTCAAATTT
1 ATAACTTT-AATTAATAATTTGTATATATTCAAATTT
9243803 TATAAGCAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
37 11 0.37
38 9 0.30
39 10 0.33
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (38 bp):
ATAACTTTAATTAATAATTTGTATATATTCAAATTTAA
Found at i:9247408 original size:33 final size:33
Alignment explanation
Indices: 9247361--9247493 Score: 185
Period size: 33 Copynumber: 4.0 Consensus size: 33
9247351 TCTTTCCGAG
* ** *
9247361 TGGTACACACAAAGTATACCTTTTATTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
*
9247394 TGATATACACAAAGTATACCTTTCCTTTTCAAA
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
* **
9247427 TGGTATACACAAGGTATACCTAACCTTTTCAAA
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
*
9247460 TGGTATACACAAAGTATACCTTTCCTTTCCAAA
1 TGGTATACACAAAGTATACCTTTCCTTTTCAAA
9247493 T
1 T
9247494 TCGATAGCCG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCAAA
Found at i:9247528 original size:29 final size:29
Alignment explanation
Indices: 9247496--9247697 Score: 305
Period size: 29 Copynumber: 7.0 Consensus size: 29
9247486 TTCCAAATTC
9247496 GATAGCCGAAGCTATCCCTTTTCACATTT
1 GATAGCCGAAGCTATCCCTTTTCACATTT
*
9247525 GATAGCTGAAGCTATCCCTTTTCACATTT
1 GATAGCCGAAGCTATCCCTTTTCACATTT
9247554 GATAGCCGAAGCTATCCCTTTTCACATTT
1 GATAGCCGAAGCTATCCCTTTTCACATTT
* * * *
9247583 GATAGTCAAAGCTATCCATTTTCACATTC
1 GATAGCCGAAGCTATCCCTTTTCACATTT
*
9247612 GATAGCCGAAGCTATCTCTTTTCACATTT
1 GATAGCCGAAGCTATCCCTTTTCACATTT
* *
9247641 GATAGCCAAAGCTATCCCTTTTCACATTC
1 GATAGCCGAAGCTATCCCTTTTCACATTT
* * *
9247670 GACAGCCGAAACTATCGCTTTTCACATT
1 GATAGCCGAAGCTATCCCTTTTCACATT
9247698 GTACACACAA
Statistics
Matches: 155, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 155 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (29 bp):
GATAGCCGAAGCTATCCCTTTTCACATTT
Found at i:9249823 original size:21 final size:22
Alignment explanation
Indices: 9249785--9249825 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9249775 TTCATAGAAA
9249785 CATAACTATTCAACTAATATCT
1 CATAACTATTCAACTAATATCT
*
9249807 CATAACT-TTCAAGTAATAT
1 CATAACTATTCAACTAATAT
9249826 TGCTTGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (22 bp):
CATAACTATTCAACTAATATCT
Found at i:9250373 original size:29 final size:29
Alignment explanation
Indices: 9250315--9250371 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
9250305 ATTAATAATT
*
9250315 TATAAAAATTAAATCAAATCAAAATTTTA
1 TATAAAAATTAAATAAAATCAAAATTTTA
*
9250344 TATATAAAATTACATAAAATCAAAATTT
1 TATA-AAAATTAAATAAAATCAAAATTT
9250372 ATGTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
TATAAAAATTAAATAAAATCAAAATTTTA
Found at i:9251875 original size:18 final size:19
Alignment explanation
Indices: 9251849--9251887 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
9251839 TAAATATTTA
* *
9251849 AAATGAATAA-AAAACCAT
1 AAATAAATAATAAAACAAT
9251867 AAATAAATAATAAAACAAT
1 AAATAAATAATAAAACAAT
9251886 AA
1 AA
9251888 CAAAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.18
Consensus pattern (19 bp):
AAATAAATAATAAAACAAT
Found at i:9252210 original size:21 final size:21
Alignment explanation
Indices: 9252177--9252217 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9252167 TGGGGAAATT
*
9252177 CAAAATAAATAAT-AATAAAA
1 CAAAAAAAATAATAAATAAAA
9252197 CAAAAAAAAGTAATAAATAAA
1 CAAAAAAAA-TAATAAATAAA
9252218 TAAATTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (21 bp):
CAAAAAAAATAATAAATAAAA
Found at i:9254610 original size:28 final size:29
Alignment explanation
Indices: 9254550--9254623 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
9254540 AATAGTTTAT
*
9254550 ATTTTTATATTTTTTAAAGGATTAAATTAA
1 ATTTTTATA-TTTTTAAAGGATTAAAATAA
*
9254580 ATTTTTATATTTTT-GAGG-TTAAAATATA
1 ATTTTTATATTTTTAAAGGATTAAAATA-A
* *
9254608 ATTTTAATATTATTAA
1 ATTTTTATATTTTTAA
9254624 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 7 0.19
28 16 0.43
29 5 0.14
30 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (29 bp):
ATTTTTATATTTTTAAAGGATTAAAATAA
Found at i:9254891 original size:39 final size:39
Alignment explanation
Indices: 9254826--9254957 Score: 176
Period size: 39 Copynumber: 3.4 Consensus size: 39
9254816 ACCATCAGTA
* * * *
9254826 AAACACCATACCAGACTGAAATTAGCAGAACAGATGATC
1 AAACACCATACCAGACTGAAAGTAGCAAAATAGATCATC
* *
9254865 AAAC-CTCATACCAGACTGAAAGTAGCAAAATATATCATA
1 AAACAC-CATACCAGACTGAAAGTAGCAAAATAGATCATC
* *
9254904 AAACACCTTACCAGACTGAAAGTAGCATAATAGATCATC
1 AAACACCATACCAGACTGAAAGTAGCAAAATAGATCATC
9254943 AAACACCATACCAGA
1 AAACACCATACCAGA
9254958 ATCCACCGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 78 0.98
40 1 0.01
ACGTcount: A:0.47, C:0.23, G:0.12, T:0.17
Consensus pattern (39 bp):
AAACACCATACCAGACTGAAAGTAGCAAAATAGATCATC
Found at i:9256610 original size:21 final size:21
Alignment explanation
Indices: 9256571--9256635 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
9256561 TCCAAAAGAA
**
9256571 TTAAAATAATAAATATTAAAAT
1 TTAAAATTTTAAAT-TTAAAAT
** *
9256593 TTGGATTTTTAAATTTAAAAT
1 TTAAAATTTTAAATTTAAAAT
*
9256614 TTAAAATTTAAAATTTAAAAT
1 TTAAAATTTTAAATTTAAAAT
9256635 T
1 T
9256636 CATTATTTTC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
21 25 0.74
22 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TTAAAATTTTAAATTTAAAAT
Found at i:9256615 original size:7 final size:7
Alignment explanation
Indices: 9256603--9256635 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
9256593 TTGGATTTTT
9256603 AAATTTA
1 AAATTTA
9256610 AAATTTA
1 AAATTTA
9256617 AAATTTA
1 AAATTTA
9256624 AAATTTA
1 AAATTTA
9256631 AAATT
1 AAATT
9256636 CATTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:9257212 original size:29 final size:29
Alignment explanation
Indices: 9257135--9257213 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
9257125 ACTCTTAATC
*
9257135 ATTAACCGAACCGAAATTTGTTCAAAAAA
1 ATTAACCGAACCGAAATTTTTTCAAAAAA
*
9257164 TTTAACCGAACCGAAATTTTTTCAAAAAA
1 ATTAACCGAACCGAAATTTTTTCAAAAAA
* *
9257193 ATTAACTGAACCGAACTTTTT
1 ATTAACCGAACCGAAATTTTT
9257214 CGGTTAATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (29 bp):
ATTAACCGAACCGAAATTTTTTCAAAAAA
Found at i:9260691 original size:156 final size:154
Alignment explanation
Indices: 9260417--9261200 Score: 884
Period size: 156 Copynumber: 5.0 Consensus size: 154
9260407 CTACAAGCAC
* ** *
9260417 CCTTTTCAGGAAATTGTATC---GAAGCCATCTGAGGGATTACTCTCCAAGGAGAAAATGGTATG
1 CCTTTTCAGGAAACTGTATCGAGGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAATGGTATG
* ** * * *
9260479 TTCTTATTGTGTACATATTTATATCTTGAGTTGTGTGTTTGAGGATAGAGATAGGAATATAAATG
66 TTC---TTGTGCATTTATTTATAT-TTTAGTTGTGTGTTTGAGGATGGAGATAGGAATATAAAAG
*
9260544 TCAAATCAAGGATAACGAACTACGAACA
127 TCAAATCAAGGATAATGAACTACGAACA
* * * * *
9260572 CCTTTTTCAGGAAATTGAATGGAGGAAGTCATCTGAGAAATTACTCCACAAGGAGAAAATGGTAT
1 CC-TTTTCAGGAAACTGTATCGAGGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAATGGTAT
* * * * **
9260637 GTTCTTGTGCATTTATTTATACTTTTAGTTGTGCGTTAGAGGAGGGAGACAGGAACGTAAAAGTC
65 GTTCTTGTGCATTTATTTATA-TTTTAGTTGTGTGTTTGAGGATGGAGATAGGAATATAAAAGTC
*
9260702 AAATCAAGGATAATGAACTAGGAACA
129 AAATCAAGGATAATGAACTACGAACA
* *
9260728 GCCTTTTCAGGAAACCGTATCGAGGAAGAAACCATCTGGGAAATTACTCCCCAAGGAGAAAATGG
1 -CCTTTTCAGGAAACTGTATCGAGGAAG---CCATCTGAGAAATTACTCCCCAAGGAGAAAATGG
* * * * *
9260793 TATGTTCTTGTGC-TTGTATTTATATTTGGAGTTGTGTGTTTTAGGATTGAGATAAGAACAT-AA
62 TATGTTCTTGTGCATT-TATTTATATTT-TAGTTGTGTGTTTGAGGATGGAGATAGGAATATAAA
* * *
9260856 GGTCAAATCAAGGATGATGAGCTA-GAAACA
125 AGTCAAATCAAGGATAATGAACTACG-AACA
* * *
9260886 CCCTTTCAGGAAACTGTATCGAGGAAGAAGCCAACTGAGAAATTAATCCCCAAGGAGAAAATGGT
1 CCTTTTCAGGAAACTGTATCGA-G--GAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAATGGT
* *
9260951 ATGTTCTTGTGCATATATTTATATTTTGAGTTGTGTGTTTGAGGATGTAGATAGGAATATAAAAG
63 ATGTTCTTGTGCATTTATTTATATTTT-AGTTGTGTGTTTGAGGATGGAGATAGGAATATAAAAG
* *
9261016 TCAAATCAAGGATAATAAACTACGAGCA
127 TCAAATCAAGGATAATGAACTACGAACA
* * *
9261044 TCCTTTTCAGGAAACTATATCAAGGAAGCCATCTGAGAAATTACTCCCCAAGGAAAAAATGGTAT
1 -CCTTTTCAGGAAACTGTATCGAGGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAATGGTAT
* *
9261109 TTTCTTGTGC-TTGTATTTTTATTTTGAGTCT-TGTGTTTGAGGATGGAGATA-GAGATATAAAA
65 GTTCTTGTGCATT-TATTTATATTTT-AGT-TGTGTGTTTGAGGATGGAGATAGGA-ATATAAAA
*
9261171 GTCAAATCAAGGATAATGAAACTATGAACA
126 GTCAAATCAAGGATAATG-AACTACGAACA
9261201 TTTCTTTTGT
Statistics
Matches: 535, Mismatches: 70, Indels: 46
0.82 0.11 0.07
Matches are distributed among these distances:
155 5 0.01
156 214 0.40
157 116 0.22
158 60 0.11
159 136 0.25
160 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (154 bp):
CCTTTTCAGGAAACTGTATCGAGGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAATGGTATG
TTCTTGTGCATTTATTTATATTTTAGTTGTGTGTTTGAGGATGGAGATAGGAATATAAAAGTCAA
ATCAAGGATAATGAACTACGAACA
Found at i:9263646 original size:13 final size:13
Alignment explanation
Indices: 9263628--9263654 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9263618 ATTATATGCA
9263628 TTAAATAAAAACG
1 TTAAATAAAAACG
9263641 TTAAATAAAAACG
1 TTAAATAAAAACG
9263654 T
1 T
9263655 GCATTCTTTT
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:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (13 bp):
TTAAATAAAAACG
Found at i:9274393 original size:15 final size:15
Alignment explanation
Indices: 9274375--9274407 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9274365 TACAAGACAA
*
9274375 TATGTTACATGAATG
1 TATGTTACATGAACG
9274390 TATGTTACATGAACG
1 TATGTTACATGAACG
9274405 TAT
1 TAT
9274408 TAAGTTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (15 bp):
TATGTTACATGAACG
Found at i:9277083 original size:201 final size:201
Alignment explanation
Indices: 9276738--9277139 Score: 759
Period size: 201 Copynumber: 2.0 Consensus size: 201
9276728 TCAGAGAATG
* *
9276738 TATATAAATAATTAGCAAATATGAAAAGTATACATACCCTCTCTTATTAGCCTGATGAATCGTTG
1 TATATAAATAATTAGAAAATATGAAAAGTATACATACCCTCTCTTATTAGCCTGATGAAGCGTTG
9276803 AAACTCTGTTTTAGGATCATTGTCATAGTCCATTACATCTTTATCCTCAAAATTTCCAACCTATA
66 AAACTCTGTTTTAGGATCATTGTCATAGTCCATTACATCTTTATCCTCAAAATTTCCAACCTATA
*
9276868 AGAATAATTGAGTTACATAAAGGTACATGTAACTGATAAATGAACTAGCCAAGCAGTGAAAAAAG
131 AGAATAATTGAGTTACATAAAGGTACATGTAACTGATAAATGAACTAGCCAAGAAGTGAAAAAAG
9276933 GAGGGA
196 GAGGGA
*
9276939 TATATAAATAATTAGAAAATATGAAAAGTATACATCCCCTCTCTTATTAGCCTGATGAAGCGTTG
1 TATATAAATAATTAGAAAATATGAAAAGTATACATACCCTCTCTTATTAGCCTGATGAAGCGTTG
*
9277004 AAACTCTGTTTTAGGATCATTGTCATAGTCCATTACATCTTTATCCTCATAATTTCCAACCTATA
66 AAACTCTGTTTTAGGATCATTGTCATAGTCCATTACATCTTTATCCTCAAAATTTCCAACCTATA
9277069 AGAATAATTGAGTTACATAAAGGTACATGTAACTGATAAATGAACTAGCCAAGAAGTGAAAAAAG
131 AGAATAATTGAGTTACATAAAGGTACATGTAACTGATAAATGAACTAGCCAAGAAGTGAAAAAAG
9277134 GAGGGA
196 GAGGGA
9277140 AAATCTTCAA
Statistics
Matches: 196, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 196 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (201 bp):
TATATAAATAATTAGAAAATATGAAAAGTATACATACCCTCTCTTATTAGCCTGATGAAGCGTTG
AAACTCTGTTTTAGGATCATTGTCATAGTCCATTACATCTTTATCCTCAAAATTTCCAACCTATA
AGAATAATTGAGTTACATAAAGGTACATGTAACTGATAAATGAACTAGCCAAGAAGTGAAAAAAG
GAGGGA
Found at i:9284935 original size:2 final size:2
Alignment explanation
Indices: 9284928--9284953 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9284918 AAATTAGAAT
9284928 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9284954 AAGAATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9286194 original size:20 final size:20
Alignment explanation
Indices: 9286151--9286193 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
9286141 GAGTAAAATA
9286151 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
9286171 TTTTCTGG-AAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
9286190 TTTT
1 TTTT
9286194 TTGGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (20 bp):
TTTTCTGGAAAATGATTTAC
Found at i:9290288 original size:4 final size:4
Alignment explanation
Indices: 9290279--9290314 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
9290269 AGAAAAGATG
9290279 GATT GATT GATT GATT GATT GATT GATT GATT GATT
1 GATT GATT GATT GATT GATT GATT GATT GATT GATT
9290315 TAGGGTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GATT
Found at i:9290379 original size:12 final size:12
Alignment explanation
Indices: 9290364--9290422 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
9290354 CTCATTCTCA
9290364 TTATCTTTCTTT
1 TTATCTTTCTTT
9290376 TTATCTTTCTTT
1 TTATCTTTCTTT
* * *
9290388 TTCTTTTTCTTC
1 TTATCTTTCTTT
*
9290400 TT-TCTTTCTCT
1 TTATCTTTCTTT
*
9290411 TCATC-TTCTTT
1 TTATCTTTCTTT
9290422 T
1 T
9290423 ACCACCTCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
11 13 0.34
12 25 0.66
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATCTTTCTTT
Found at i:9290392 original size:6 final size:6
Alignment explanation
Indices: 9290369--9290411 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
9290359 TCTCATTATC
* * *
9290369 TTTCTT TTTATC TTTCTT TTTCTT TTTCTT CTTTCTT TCTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT -TTTCTT TTTCTT
9290412 CATCTTCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:9290401 original size:19 final size:19
Alignment explanation
Indices: 9290369--9290421 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
9290359 TCTCATTATC
*
9290369 TTTCTTTTT-ATCTTTCTT
1 TTTCTTTTTCTTCTTTCTT
9290387 TTTCTTTTTCTTCTTTCTT
1 TTTCTTTTTCTTCTTTCTT
* **
9290406 TCTCTTCATCTTCTTT
1 TTTCTTTTTCTTCTTT
9290422 TACCACCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTTTTCTTCTTTCTT
Found at i:9301258 original size:30 final size:31
Alignment explanation
Indices: 9301202--9301264 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
9301192 TGAGTTTCAG
9301202 TAAACACTGGCACACCAACTTTTTTTTCTGT
1 TAAACACTGGCACACCAACTTTTTTTTCTGT
9301233 TAAACACTGGCACACCAAC-TTTTTTTCTGT
1 TAAACACTGGCACACCAACTTTTTTTTCTGT
9301263 TA
1 TA
9301265 GATACTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (31 bp):
TAAACACTGGCACACCAACTTTTTTTTCTGT
Found at i:9301495 original size:29 final size:29
Alignment explanation
Indices: 9301436--9301497 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
9301426 ACAGGTAAAA
* * *
9301436 TTAATTTTTTTATTATTAAATAGATTAAT
1 TTAATTTTTATATTATTAAAAAAATTAAT
*
9301465 TTAATTTTTATATTATTAAAAAAATTGAT
1 TTAATTTTTATATTATTAAAAAAATTAAT
9301494 TTAA
1 TTAA
9301498 GTTAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (29 bp):
TTAATTTTTATATTATTAAAAAAATTAAT
Found at i:9308339 original size:2 final size:2
Alignment explanation
Indices: 9308332--9308370 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9308322 TTTAAATAAT
* *
9308332 TA TA TA TA AA TA TA TA TA TA TA TA TT TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9308371 ATTTAACTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9312651 original size:30 final size:31
Alignment explanation
Indices: 9312615--9312683 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
9312605 AACTATCTAG
** *
9312615 TTGGTCACTCATTTTTTA-GGTGTTTTCATT
1 TTGGTCACTCAACTTTTAGGGTATTTTCATT
* *
9312645 TTGGTCATTCAACTTTTAGGGTATTTTTATT
1 TTGGTCACTCAACTTTTAGGGTATTTTCATT
*
9312676 TTAGTCAC
1 TTGGTCAC
9312684 CCAAACGTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.17, C:0.13, G:0.16, T:0.54
Consensus pattern (31 bp):
TTGGTCACTCAACTTTTAGGGTATTTTCATT
Found at i:9313742 original size:27 final size:27
Alignment explanation
Indices: 9313710--9313766 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
9313700 ACTCCTAAAA
9313710 ATTGAATAACCAAATTACAAGAATTTC
1 ATTGAATAACCAAATTACAAGAATTTC
9313737 ATTGAATAACCAAATTACAAGAATTTC
1 ATTGAATAACCAAATTACAAGAATTTC
9313764 ATT
1 ATT
9313767 TTAGATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (27 bp):
ATTGAATAACCAAATTACAAGAATTTC
Found at i:9314417 original size:2 final size:2
Alignment explanation
Indices: 9314410--9314439 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9314400 ATCTCAGTGG
9314410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9314440 TCCTAAGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9316364 original size:9 final size:9
Alignment explanation
Indices: 9316352--9316447 Score: 68
Period size: 10 Copynumber: 9.9 Consensus size: 9
9316342 ATAATAACAT
*
9316352 TTTTTTTAA
1 TTTTTATAA
9316361 TTTTTATAA
1 TTTTTATAA
9316370 TTTCTTAATAAA
1 TTT-TT-AT-AA
*
9316382 TTTTTAATTA
1 TTTTT-ATAA
*
9316392 TTTTTAAAA
1 TTTTTATAA
9316401 TGTTTATATAA
1 T-TTT-TATAA
*
9316412 TTTTTAATGA
1 TTTTT-ATAA
9316422 TTTTTATATA
1 TTTTTATA-A
9316432 TTTTT-TAA
1 TTTTTATAA
*
9316440 TATTTATA
1 TTTTTATA
9316448 GATGAGACAT
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
8 5 0.07
9 21 0.30
10 28 0.39
11 12 0.17
12 5 0.07
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Done.