Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 26 of 163
Found at i:8236707 original size:40 final size:40
Alignment explanation
Indices: 8236657--8236736 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
8236647 TTATACAAGC
*
8236657 ACCATAAAACTCACAAGTTAGTAAGTTCATCCATGGTACA
1 ACCATAAAACTCACAAGTTAGTAAGTTCATCCATGATACA
*
8236697 ACCATCAAACTCACAAGTTAGTAAGTTCATCCATGATACA
1 ACCATAAAACTCACAAGTTAGTAAGTTCATCCATGATACA
8236737 TATGAGTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (40 bp):
ACCATAAAACTCACAAGTTAGTAAGTTCATCCATGATACA
Found at i:8245662 original size:20 final size:19
Alignment explanation
Indices: 8245639--8245684 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
8245629 AATTATTTTT
8245639 AAAAAT-TAAAAATTATGAA
1 AAAAATATAAAAATTAT-AA
*
8245658 AAAAATATCAAAATTATAA
1 AAAAATATAAAAATTATAA
8245677 AAAAATAT
1 AAAAATAT
8245685 TTTTTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATATAAAAATTATAA
Found at i:8248713 original size:6 final size:6
Alignment explanation
Indices: 8248704--8248732 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8248694 GTCATTTAGC
8248704 TTTATT TTTATT TTTATT TTTATT TTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTAT
8248733 AGAAGGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:8248719 original size:18 final size:18
Alignment explanation
Indices: 8248698--8248732 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8248688 ATTATGGTCA
8248698 TTTAGCTTTATTTTTATT
1 TTTAGCTTTATTTTTATT
**
8248716 TTTATTTTTATTTTTAT
1 TTTAGCTTTATTTTTAT
8248733 AGAAGGGGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTAGCTTTATTTTTATT
Found at i:8257638 original size:51 final size:52
Alignment explanation
Indices: 8257579--8257676 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 52
8257569 TTTACCCCTC
* *
8257579 AAAATTTACACA-TTCTGTCAATTTGATCTTGATTTAATAAATTTAGTCCAT
1 AAAATTTACACATTTCTGTCAATTTGATCATGATTTAACAAATTTAGTCCAT
* * * * *
8257630 AAAATTTACGCATTTTTTTTAATTTGGTCATGATTTAACAAATTTAG
1 AAAATTTACACATTTCTGTCAATTTGATCATGATTTAACAAATTTAG
8257677 CTCGCAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 11 0.28
52 28 0.72
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (52 bp):
AAAATTTACACATTTCTGTCAATTTGATCATGATTTAACAAATTTAGTCCAT
Found at i:8261107 original size:3 final size:3
Alignment explanation
Indices: 8261101--8261153 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8261091 ATCAAATCAA
8261101 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8261149 AAT AA
1 AAT AA
8261154 GATACTTGAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8261258 original size:20 final size:19
Alignment explanation
Indices: 8261235--8261273 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8261225 TTTTAACTTC
8261235 TTTTTATATATTTTTTAAAA
1 TTTTTATA-ATTTTTTAAAA
*
8261255 TTTTTATACTTTTTTAAAA
1 TTTTTATAATTTTTTAAAA
8261274 AATATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTTTAAAA
Found at i:8261274 original size:20 final size:20
Alignment explanation
Indices: 8261235--8261274 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8261225 TTTTAACTTC
*
8261235 TTTTTATATATTTTTTAAAA
1 TTTTTATATATTTTTAAAAA
8261255 TTTTTATACT-TTTTTAAAAA
1 TTTTTATA-TATTTTTAAAAA
8261275 ATATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTATATATTTTTAAAAA
Found at i:8261310 original size:19 final size:19
Alignment explanation
Indices: 8261283--8261350 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
8261273 AAATATAAAA
8261283 TTTGAAATTTTTATAAATAT
1 TTTG-AATTTTTATAAATAT
*
8261303 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTATAAA-TAT
* *
8261322 TTTGAATTTTGGAT-ATTAT
1 TTTGAATTTT-TATAAATAT
8261341 TTTGAATTTT
1 TTTGAATTTT
8261351 GTTGTAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 8 0.20
19 24 0.59
20 8 0.20
21 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
TTTGAATTTTTATAAATAT
Found at i:8261351 original size:19 final size:19
Alignment explanation
Indices: 8261300--8261351 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
8261290 TTTTTATAAA
*
8261300 TATTTTGAATTTTAAAAAT
1 TATTTTGAATTTTGAAAAT
* *
8261319 TATTTTGAATTTTGGATAT
1 TATTTTGAATTTTGAAAAT
8261338 TATTTTGAATTTTG
1 TATTTTGAATTTTG
8261352 TTGTAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (19 bp):
TATTTTGAATTTTGAAAAT
Found at i:8263419 original size:33 final size:33
Alignment explanation
Indices: 8263350--8263476 Score: 116
Period size: 33 Copynumber: 3.9 Consensus size: 33
8263340 TTACCCCATA
* *
8263350 TTTACTGTCCCAAC-GAACTTTCTCT-TT-TATG
1 TTTACTGTCCCAGCAG-ACTATCTCTATTCTATG
*
8263381 TTTACTGTCTCAGCAGACTATCTCTATTCTATG
1 TTTACTGTCCCAGCAGACTATCTCTATTCTATG
* * * * * *
8263414 TTTACTATCCCAGCGGATTATCTATATTATGTG
1 TTTACTGTCCCAGCAGACTATCTCTATTCTATG
* * *
8263447 TTTATTGTCCCAACAGACTATCTCTGTTCT
1 TTTACTGTCCCAGCAGACTATCTCTATTCT
8263477 GTGGATGCCA
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
31 20 0.27
32 3 0.04
33 52 0.69
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (33 bp):
TTTACTGTCCCAGCAGACTATCTCTATTCTATG
Found at i:8269861 original size:27 final size:27
Alignment explanation
Indices: 8269823--8269876 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
8269813 GTAGATTACC
*
8269823 TTTGCAAGGTCGATGCTAAGGAACTGA
1 TTTGCAAGGTCGATGCTAAAGAACTGA
8269850 TTTGCAAGGTCGATGCTAAAGAACTGA
1 TTTGCAAGGTCGATGCTAAAGAACTGA
8269877 GTCTAGTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (27 bp):
TTTGCAAGGTCGATGCTAAAGAACTGA
Found at i:8272346 original size:24 final size:24
Alignment explanation
Indices: 8272314--8272362 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8272304 CAATTCACAT
8272314 CCTAGGCAAAATTATCATTTTGCC
1 CCTAGGCAAAATTATCATTTTGCC
8272338 CCTAGGCAAAATTATCATTTTGCC
1 CCTAGGCAAAATTATCATTTTGCC
8272362 C
1 C
8272363 TTATACTTTT
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:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (24 bp):
CCTAGGCAAAATTATCATTTTGCC
Found at i:8274934 original size:44 final size:44
Alignment explanation
Indices: 8274844--8275243 Score: 286
Period size: 44 Copynumber: 9.1 Consensus size: 44
8274834 TTGAATATAG
* * * *
8274844 CAAATCTTATCTCCCTGAA-TATGCAATGGAGCAAGA-TGAAGCTA
1 CAAATCTCATCTCCCTGAAGT-TGCAGTGGATCAA-ATTAAAGCTA
* * * * *
8274888 CAAATCACATATCCCTAAAGTTACAGTGGATCAAATTAAAGTTA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGATCAAATTAAAGCTA
* * * *
8274932 CAAATCTCATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGATCAAATTAAAGCTA
* * * * *
8274976 CAAATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTGAAGATAA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGATCAAATTAAAGCT-A
* * * * * * * *
8275021 CGAATCTTATCTCGCTAAAGTTGCAGTAGAGCATATTGAAGCTA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGATCAAATTAAAGCTA
* * * * *
8275065 CAAATCTTATCTCCCTCAAGTTGTAGTGGAGT-ATATTGAAGCTA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGA-TCAAATTAAAGCTA
* * * * * *
8275109 CAACTCTTACCTCTCTGAAGTTGCAATGGAACAAATTAAAGCTA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGATCAAATTAAAGCTA
* * * * * *
8275153 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGATCAAATTAAAGCTA
* * * * * *
8275197 CAAGTCTTATCTCCCTAAAGTTGTAGTGGAGT-AGATTAAAACTA
1 CAAATCTCATCTCCCTGAAGTTGCAGTGGA-TCAAATTAAAGCTA
8275241 CAA
1 CAA
8275244 TTCCTATACC
Statistics
Matches: 292, Mismatches: 58, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.00
44 254 0.87
45 37 0.13
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
CAAATCTCATCTCCCTGAAGTTGCAGTGGATCAAATTAAAGCTA
Found at i:8274997 original size:88 final size:88
Alignment explanation
Indices: 8274844--8275243 Score: 419
Period size: 88 Copynumber: 4.5 Consensus size: 88
8274834 TTGAATATAG
* ** *
8274844 CAAATCTTATCTCCCTGAA-TATGCAATGGAGCAAGA-TGAAGCTACAAATCACATATCCCTAAA
1 CAAATCTTATCTCCCTGAAGT-TGCAGTGGAGC-AGATTGAAGCTACAAATCTTATCTCCCTAAA
* * * *
8274907 GTTACAGTGGATCAAATTAAAGTTA
64 GTTGCAGTGGATCAGATTGAAGCTA
* * *
8274932 CAAATCTCATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGT
* *
8274997 TGCAGTGGATTAGATTGAAGATAA
66 TGCAGTGGATCAGATTGAAGCT-A
* * * * * *
8275021 CGAATCTTATCTCGCTAAAGTTGCAGTAGAGCATATTGAAGCTACAAATCTTATCTCCCTCAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGT
* *
8275086 TGTAGTGGAGT-ATATTGAAGCTA
66 TGCAGTGGA-TCAGATTGAAGCTA
* * * * * * * *
8275109 CAACTCTTACCTCTCTGAAGTTGCAATGGAACAAATTAAAGCTACAAGTCTTATCTCCCTAAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGT
*
8275174 TGCAGTGGAGCAGATTGAAGCTA
66 TGCAGTGGATCAGATTGAAGCTA
* * * * * *
8275197 CAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTAAAACTACAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
8275244 TTCCTATACC
Statistics
Matches: 260, Mismatches: 47, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
87 3 0.01
88 179 0.69
89 77 0.30
90 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (88 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGT
TGCAGTGGATCAGATTGAAGCTA
Found at i:8275153 original size:177 final size:176
Alignment explanation
Indices: 8274832--8275219 Score: 442
Period size: 177 Copynumber: 2.2 Consensus size: 176
8274822 TAGTGGGTTG
* * * * * *
8274832 GATTGAATATAGCAAATCTTATCTCCCTGAA-TATGCAATGGAGCA-AGATGAAGCTACAAATCA
1 GATTGAAGATA-CAAGTCTTATCTCCCTAAAGT-TGCAGTAGAGCATA-TTGAAGCTACAAATCA
* * *
8274895 CATATCCCTAAAGTTACAGTGGATCAAATTAAAGTTACAAATCTCATCTCTCTGAAGTTGCAGTG
63 CATATCCCTAAAGTTACAGTGGATCAAATTAAAGCTACAAATCTCACCTCTCTGAAGTTGCAATG
* * * * **
8274960 GAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGATTA
128 GAACAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
* **
8275009 GATTGAAGATAACGAA-TCTTATCTCGCTAAAGTTGCAGTAGAGCATATTGAAGCTACAAATCTT
1 GATTGAAGAT-AC-AAGTCTTATCTCCCTAAAGTTGCAGTAGAGCATATTGAAGCTACAAATCAC
* * ** * * * *
8275073 ATCTCCCTCAAGTTGTAGTGGAGT-ATATTGAAGCTACAACTCTTACCTCTCTGAAGTTGCAATG
64 ATATCCCTAAAGTTACAGTGGA-TCAAATTAAAGCTACAAATCTCACCTCTCTGAAGTTGCAATG
*
8275137 GAACAAATTAAAGCTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
128 GAACAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
*
8275186 GATTGAAGCTACAAGTCTTATCTCCCTAAAGTTG
1 GATTGAAGATACAAGTCTTATCTCCCTAAAGTTG
8275220 TAGTGGAGTA
Statistics
Matches: 177, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
175 2 0.01
176 20 0.11
177 149 0.84
178 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (176 bp):
GATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCATATTGAAGCTACAAATCACAT
ATCCCTAAAGTTACAGTGGATCAAATTAAAGCTACAAATCTCACCTCTCTGAAGTTGCAATGGAA
CAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
Found at i:8277012 original size:15 final size:16
Alignment explanation
Indices: 8276983--8277026 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
8276973 TACAAACCTT
8276983 TTTATTTATTTACTTG
1 TTTATTTATTTACTTG
8276999 TTTATTTA-TTACTTG
1 TTTATTTATTTACTTG
*
8277014 TTTATTTTTTTAC
1 TTTATTTATTTAC
8277027 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTATTTATTTACTTG
Found at i:8277408 original size:27 final size:28
Alignment explanation
Indices: 8277374--8277438 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
8277364 TAAAAAAAAA
8277374 ACCAAAATATTAT-AATTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
8277401 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
8277429 ACCAAAATAT
1 ACCAAAATAT
8277439 ACCAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 13 0.35
28 24 0.65
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTATAAATTTTTTTTATTT
Found at i:8278748 original size:26 final size:25
Alignment explanation
Indices: 8278698--8278758 Score: 104
Period size: 26 Copynumber: 2.4 Consensus size: 25
8278688 TTTTTTTGGT
*
8278698 ATATTTTAGTAAATAAAAAATTATA
1 ATATTTTGGTAAATAAAAAATTATA
8278723 ATATTTTGGTAAATAAAAAAATTATA
1 ATATTTTGGTAAAT-AAAAAATTATA
8278749 ATATTTTGGT
1 ATATTTTGGT
8278759 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (25 bp):
ATATTTTGGTAAATAAAAAATTATA
Found at i:8280137 original size:14 final size:14
Alignment explanation
Indices: 8280118--8280144 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8280108 AATTTTGGGT
8280118 TTAGAGAATATTGA
1 TTAGAGAATATTGA
8280132 TTAGAGAATATTG
1 TTAGAGAATATTG
8280145 TCATAGCTCA
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:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (14 bp):
TTAGAGAATATTGA
Found at i:8280262 original size:27 final size:28
Alignment explanation
Indices: 8280232--8280286 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
8280222 CATTTATTCA
8280232 CTATTTTCATTAAAAA-TTAATTTTAAT
1 CTATTTTCATTAAAAAGTTAATTTTAAT
*
8280259 CTATTTTCATTAAAAAGTTAGTTTTAAT
1 CTATTTTCATTAAAAAGTTAATTTTAAT
8280287 ATCGCATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
CTATTTTCATTAAAAAGTTAATTTTAAT
Found at i:8280675 original size:21 final size:22
Alignment explanation
Indices: 8280650--8280691 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8280640 CTATTTTGCA
8280650 TTAAAAA-TTAATTTTAATCCT
1 TTAAAAAGTTAATTTTAATCCT
*
8280671 TTAAAAAGTTAATTTTTATCC
1 TTAAAAAGTTAATTTTAATCC
8280692 CACATTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAAAAAGTTAATTTTAATCCT
Found at i:8281565 original size:20 final size:22
Alignment explanation
Indices: 8281520--8281564 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8281510 AATCCAATTG
8281520 TATTAAATAATTATTTTATATA
1 TATTAAATAATTATTTTATATA
*
8281542 TATTAAAATAA-TATTTAATATA
1 TATT-AAATAATTATTTTATATA
8281564 T
1 T
8281565 TGTCGATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTAAATAATTATTTTATATA
Found at i:8282718 original size:10 final size:9
Alignment explanation
Indices: 8282696--8282777 Score: 65
Period size: 9 Copynumber: 8.6 Consensus size: 9
8282686 CATGTGGCAA
8282696 AAAAATTAT
1 AAAAATTAT
*
8282705 AAAAGTTAT
1 AAAAATTAT
*
8282714 AAAAATGATT
1 AAAAATTA-T
**
8282724 AAATTTTAAT
1 AAAAATT-AT
*
8282734 AAAAAATATT
1 AAAAATTA-T
8282744 AAAAATTTATT
1 AAAAA-TTA-T
8282755 AAAAATTAT
1 AAAAATTAT
*
8282764 AAAAATTGT
1 AAAAATTAT
8282773 AAAAA
1 AAAAA
8282778 AAGTATAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
9 29 0.50
10 19 0.33
11 10 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8282735 original size:20 final size:20
Alignment explanation
Indices: 8282694--8282779 Score: 63
Period size: 20 Copynumber: 4.2 Consensus size: 20
8282684 AACATGTGGC
* *
8282694 AAAAAAATTATAAAAGTT-AT
1 AAAAATATTA-AAAATTTAAT
*
8282714 AAAAATGATT-AAATTTTAAT
1 AAAAAT-ATTAAAAATTTAAT
*
8282734 AAAAAATATTAAAAATTTATT
1 -AAAAATATTAAAAATTTAAT
8282755 AAAAAT-TATAAAAATTGTAA-
1 AAAAATAT-TAAAAATT-TAAT
8282775 AAAAA
1 AAAAA
8282780 GTATAAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
19 6 0.11
20 29 0.54
21 19 0.35
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATATTAAAAATTTAAT
Found at i:8282752 original size:21 final size:21
Alignment explanation
Indices: 8282694--8282787 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
8282684 AACATGTGGC
*
8282694 AAAAAA-ATTATAAAAGTT-AT
1 AAAAAATATTA-AAAATTTAAT
*
8282714 -AAAAATGATT-AAATTTTAAT
1 AAAAAAT-ATTAAAAATTTAAT
*
8282734 AAAAAATATTAAAAATTTATT
1 AAAAAATATTAAAAATTTAAT
*
8282755 AAAAATTA-TAAAAATTGTAA-
1 AAAAAATATTAAAAATT-TAAT
*
8282775 AAAAAGTA-TAAAA
1 AAAAAATATTAAAA
8282788 TATATAGGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.16
20 25 0.41
21 26 0.43
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAAAATATTAAAAATTTAAT
Found at i:8282778 original size:10 final size:10
Alignment explanation
Indices: 8282695--8282778 Score: 50
Period size: 10 Copynumber: 8.6 Consensus size: 10
8282685 ACATGTGGCA
8282695 AAAAAATTAT
1 AAAAAATTAT
*
8282705 -AAAAGTTAT
1 AAAAAATTAT
*
8282714 -AAAAATGAT
1 AAAAAATTAT
* **
8282723 TAAATTTTAAT
1 AAAAAATT-AT
8282734 AAAAAA-TATT
1 AAAAAATTA-T
*
8282744 AAAAATTTAT
1 AAAAAATTAT
*
8282754 TAAAAATTAT
1 AAAAAATTAT
*
8282764 -AAAAATTGT
1 AAAAAATTAT
8282773 AAAAAA
1 AAAAAA
8282779 AGTATAAAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
9 24 0.43
10 25 0.45
11 7 0.12
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:8298979 original size:3 final size:3
Alignment explanation
Indices: 8298971--8298995 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8298961 TTATTTAGGC
8298971 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
8298996 TAAGCGTGAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8308254 original size:16 final size:17
Alignment explanation
Indices: 8308229--8308277 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
8308219 GAAAATATGT
8308229 ATATGCATATAT-TAAA
1 ATATGCATATATATAAA
*
8308245 ATATGTATATATAT-AA
1 ATATGCATATATATAAA
*
8308261 ATATACATATATA-AAA
1 ATATGCATATATATAAA
8308277 A
1 A
8308278 AAATGAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (17 bp):
ATATGCATATATATAAA
Found at i:8308443 original size:12 final size:12
Alignment explanation
Indices: 8308423--8308455 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8308413 AATTAAAGAA
8308423 ATATGTATATAG
1 ATATGTATATAG
*
8308435 ATATATATATAG
1 ATATGTATATAG
8308447 ATATGTATA
1 ATATGTATA
8308456 CAAATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (12 bp):
ATATGTATATAG
Found at i:8308470 original size:20 final size:20
Alignment explanation
Indices: 8308439--8308494 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
8308429 ATATAGATAT
*
8308439 ATATATAGATATGTATACAAA
1 ATATA-AGATATGTATAAAAA
* * *
8308460 TTATAAGATATATAAAAAAA
1 ATATAAGATATGTATAAAAA
8308480 ATATAAG-TATGTATA
1 ATATAAGATATGTATA
8308495 TATATAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 6 0.21
20 18 0.64
21 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (20 bp):
ATATAAGATATGTATAAAAA
Found at i:8308507 original size:23 final size:20
Alignment explanation
Indices: 8308440--8308508 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
8308430 TATAGATATA
* *
8308440 TATATAGATATGTATACAAAT
1 TATA-AGATATATATAAAAAT
* *
8308461 TATAAGATATATAAAAAAAA
1 TATAAGATATATATAAAAAT
*
8308481 TATAAGTATGTATATATATAAAT
1 TATAAG-A--TATATATAAAAAT
8308504 TATAA
1 TATAA
8308509 AAATATATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 18 0.47
21 5 0.13
23 15 0.39
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (20 bp):
TATAAGATATATATAAAAAT
Found at i:8308545 original size:25 final size:23
Alignment explanation
Indices: 8308495--8308551 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
8308485 AGTATGTATA
*
8308495 TATATAAATTATAAAAATATATG
1 TATATATATTATAAAAATATATG
* *
8308518 TATGTATATTATAAAAATGTATGCG
1 TATATATATTATAAAAATATAT--G
8308543 TATATATAT
1 TATATATAT
8308552 AACAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.68
25 9 0.32
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (23 bp):
TATATATATTATAAAAATATATG
Found at i:8310311 original size:129 final size:126
Alignment explanation
Indices: 8310073--8310393 Score: 414
Period size: 129 Copynumber: 2.5 Consensus size: 126
8310063 AAATAAGTAT
* * * * *
8310073 GATGCGATCTGCTCTACTGCAA-TTCATAGAGATAAGATCT-AT-TTTTATATCCACTCCACTGT
1 GATGCGATCCGCTCT-CTGCAACCTCAAAGAGATAAGATTTGATATTTTA-ATCCACTCCACTGC
* *
8310135 AACTTCAAGGAGATAGGATTATTCTTTTGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTA
64 AACTTCAAGGAGATAGGATTATTCTTTTGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTA
*
8310198 GATGCGATCCGCTCTCTGCAACCTCAAAGAGATAAGATTTGGATATTTTAATCCTCTCCACTGCA
1 GATGCGATCCGCTCTCTGCAACCTCAAAGAGATAAGATTT-GATATTTTAATCCACTCCACTGCA
* * * *
8310263 ACTTCAGGGAGATGGGATTGGTTTTTTCTGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTA
65 ACTTCAAGGAGATAGGATT-ATTCTTT-TGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTA
* * * * *
8310327 GATGCGATCCGCTCTCCGCAACCTTAGAGAGATAAGATTTGAATATTTTTATCCACTCCACCGCA
1 GATGCGATCCGCTCTCTGCAACCTCAAAGAGATAAGATTTG-ATATTTTAATCCACTCCACTGCA
8310392 AC
65 AC
8310394 CTTAGATGCG
Statistics
Matches: 171, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
124 6 0.04
125 29 0.17
127 32 0.19
128 11 0.06
129 93 0.54
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (126 bp):
GATGCGATCCGCTCTCTGCAACCTCAAAGAGATAAGATTTGATATTTTAATCCACTCCACTGCAA
CTTCAAGGAGATAGGATTATTCTTTTGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTA
Found at i:8323140 original size:23 final size:23
Alignment explanation
Indices: 8323072--8323149 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
8323062 CAATGAGACA
* * *
8323072 ATACAAAATTTGCCACAAAGGCC
1 ATACAGAATTCGCCACAAAGGCT
*
8323095 ATACTA-ATTTCGCCACAAAGGCT
1 ATAC-AGAATTCGCCACAAAGGCT
*
8323118 ATACAGAATTCTCCACAAAGGCT
1 ATACAGAATTCGCCACAAAGGCT
*
8323141 ACACAGAAT
1 ATACAGAAT
8323150 ATGTCATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.96
24 1 0.02
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.21
Consensus pattern (23 bp):
ATACAGAATTCGCCACAAAGGCT
Found at i:8326854 original size:27 final size:27
Alignment explanation
Indices: 8326816--8327069 Score: 316
Period size: 27 Copynumber: 9.4 Consensus size: 27
8326806 ATAATGGGCC
* *
8326816 TAAAATGACTGAGATACCCTCAAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
8326843 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
8326870 TAAAATGACCGAAATACCTTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
8326897 TAAAATAACTGAAATACCCTCAAAAGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
8326924 TAAAATGACCT-AAATACCTTCGAAGGG
1 TAAAATGA-CTGAAATACCCTCGAAGGG
8326951 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
8326978 TAAAATGACTAAAATACCCTTC-AAGGG
1 TAAAATGACTGAAATACCC-TCGAAGGG
* * * *
8327005 AAAAATAACCGAAATACCCTCGAAGGA
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
8327032 TAAAATGATTGAAATACCC-CTAAAGGG
1 TAAAATGACTGAAATACCCTC-GAAGGG
*
8327059 TAAAATAACTG
1 TAAAATGACTG
8327070 TTATACCCCT
Statistics
Matches: 194, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.03
27 185 0.95
28 4 0.02
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:8327261 original size:27 final size:26
Alignment explanation
Indices: 8327231--8327285 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
8327221 TGTACTGGTG
8327231 GCTTTGCCACACATACTGTTACTGACA
1 GCTTTGCCACA-ATACTGTTACTGACA
* * *
8327258 GCTTTGCTACATTACTGTTACTGGCA
1 GCTTTGCCACAATACTGTTACTGACA
8327284 GC
1 GC
8327286 ATTGTTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (26 bp):
GCTTTGCCACAATACTGTTACTGACA
Found at i:8327280 original size:26 final size:26
Alignment explanation
Indices: 8327244--8327317 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
8327234 TTGCCACACA
*
8327244 TACTGTTACTGACAGCTTTGCTACAT
1 TACTGTTACTGGCAGCTTTGCTACAT
* * *
8327270 TACTGTTACTGGCAGCATTGTTGCAT
1 TACTGTTACTGGCAGCTTTGCTACAT
* *
8327296 CACTATTACTGGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
8327318 GCGATATTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACAT
Found at i:8327461 original size:30 final size:30
Alignment explanation
Indices: 8327425--8327485 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
8327415 TACTGCATTG
* *
8327425 CACTGTTACTATATTGGGCTAAGGCTCACA
1 CACTGTTACTATAATGGGCTAAGGCCCACA
8327455 CACTGTTACTATAATGGGCTAAGGCCCACA
1 CACTGTTACTATAATGGGCTAAGGCCCACA
8327485 C
1 C
8327486 TATACTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (30 bp):
CACTGTTACTATAATGGGCTAAGGCCCACA
Found at i:8327812 original size:32 final size:32
Alignment explanation
Indices: 8327771--8327835 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
8327761 TTTCCTTAAG
* *
8327771 TATATTAAACTGCTAGATTAGGAGATGATGAA
1 TATATTAAACTGCTAGATTAAGAGATGACGAA
8327803 TATATTAAACTGCTAGATTAAGAGATGACGAA
1 TATATTAAACTGCTAGATTAAGAGATGACGAA
8327835 T
1 T
8327836 TTTAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.31
Consensus pattern (32 bp):
TATATTAAACTGCTAGATTAAGAGATGACGAA
Found at i:8329072 original size:21 final size:21
Alignment explanation
Indices: 8329002--8329142 Score: 97
Period size: 21 Copynumber: 6.7 Consensus size: 21
8328992 TAGCTCTCAC
* *
8329002 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTCAACTCTTAT
* * * *
8329023 GAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCTGTTCAACTCTTAT
* *
8329044 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCTGTTCAACTCTTAT
* * *
8329065 GAGTTTCTGTTAAACTTTTAT
1 GAGCTTCTGTTCAACTCTTAT
**
8329086 GAGCTTCCATTCAA-TCCTTAT
1 GAGCTTCTGTTCAACT-CTTAT
* * * *
8329107 G-GATTTCTGTTTAGCTCTCAT
1 GAG-CTTCTGTTCAACTCTTAT
8329128 GAGCTTCTGTTCAAC
1 GAGCTTCTGTTCAAC
8329143 CTTTGGGCTT
Statistics
Matches: 86, Mismatches: 30, Indels: 8
0.69 0.24 0.06
Matches are distributed among these distances:
20 2 0.02
21 82 0.95
22 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (21 bp):
GAGCTTCTGTTCAACTCTTAT
Found at i:8329089 original size:42 final size:42
Alignment explanation
Indices: 8329002--8329143 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 42
8328992 TAGCTCTCAC
* * * * *
8329002 GAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTT-T
1 GAGCTTCTGTTCAACCCTTATGAGTTTCTGTTAAGCT-TTTAT
* *
8329044 GAGCTTCTGTTTAACCCTTATGAGTTTCTGTTAAACTTTTAT
1 GAGCTTCTGTTCAACCCTTATGAGTTTCTGTTAAGCTTTTAT
** * * * *
8329086 GAGCTTCCATTCAATCCTTATG-GATTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTCAACCCTTATGAG-TTTCTGTTAAGCTTTTAT
8329128 GAGCTTCTGTTCAACC
1 GAGCTTCTGTTCAACC
8329144 TTTGGGCTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 4 0.05
42 78 0.95
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (42 bp):
GAGCTTCTGTTCAACCCTTATGAGTTTCTGTTAAGCTTTTAT
Found at i:8335299 original size:19 final size:20
Alignment explanation
Indices: 8335272--8335316 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
8335262 ACTCCCCCTA
8335272 TTTACTTTCCCC-AAAACTT
1 TTTACTTTCCCCTAAAACTT
* *
8335291 TTTATTTTCCCCTTAAAC-T
1 TTTACTTTCCCCTAAAACTT
8335310 TTTACTT
1 TTTACTT
8335317 CTCACCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTACTTTCCCCTAAAACTT
Found at i:8336465 original size:128 final size:128
Alignment explanation
Indices: 8336226--8336470 Score: 346
Period size: 128 Copynumber: 1.9 Consensus size: 128
8336216 AACTGGGTGT
* * *
8336226 ACTAAACCTTTAGTGGTTAACCTTACCAGACATACTATTTACTTATCATATCTTTTTCTGAAACA
1 ACTAAACCTTTAGTAGTTAACCTCACCAGACATACTATTTACTTATCATATCCTTTTCTGAAACA
* * * *
8336291 GTAGAACAACCTGAGGCAGAATCTTTAATCATTTCTTTGGCGGATACCTTTCGCCAGAGGCAC
66 GTAGAACAACCTGAGACAGAATCTTTAATCATTTCTTCGGCAGATACATTTCGCCAGAGGCAC
* * * * * *
8336354 ACTATACCTTTAGTAGTTAACCTCACCAGGCTTACTCTTTACTTATCATATCCTTTTCTTAAATA
1 ACTAAACCTTTAGTAGTTAACCTCACCAGACATACTATTTACTTATCATATCCTTTTCTGAAACA
* * *
8336419 GTAGAATAACTTGAGATAGAATCTTTAATCATTTCTTCGGCAGATACATTTC
66 GTAGAACAACCTGAGACAGAATCTTTAATCATTTCTTCGGCAGATACATTTC
8336471 ACTAGACTCT
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
128 101 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (128 bp):
ACTAAACCTTTAGTAGTTAACCTCACCAGACATACTATTTACTTATCATATCCTTTTCTGAAACA
GTAGAACAACCTGAGACAGAATCTTTAATCATTTCTTCGGCAGATACATTTCGCCAGAGGCAC
Found at i:8336765 original size:38 final size:39
Alignment explanation
Indices: 8336690--8336771 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
8336680 GGATAATATG
* **
8336690 AAATGAGAAATCGAAGTGGTCCAAAATGTATTGATGAT-
1 AAATGAGAAATCGAAGTGATCCAAAATGTATCAATGATC
* *
8336728 AAATGAGAAATTGGAGTGATCCAAAATGTATCAATGATC
1 AAATGAGAAATCGAAGTGATCCAAAATGTATCAATGATC
8336767 AAATG
1 AAATG
8336772 TGACATTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 33 0.87
39 5 0.13
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.26
Consensus pattern (39 bp):
AAATGAGAAATCGAAGTGATCCAAAATGTATCAATGATC
Found at i:8341780 original size:190 final size:188
Alignment explanation
Indices: 8341457--8341823 Score: 524
Period size: 190 Copynumber: 1.9 Consensus size: 188
8341447 TGGCCATGTA
* * * *
8341457 ATGGCCGGCACCAAGTACAATTTTTGGCTCCCAATGCAATTTTTTTTATTTTGGAACACTAATGG
1 ATGGCCGGCACCAAGTACAATTTTCGGCTCCCAATACAATTTTTCTTATTTTGGAACACTAATAG
* *
8341522 CCGACACTAGTGTATTTAAAAAAAAAAAATTGTGTACTGGCCATGTAATGGCTGGCACCAAATAT
66 CCGACACTAGTGTATTTAAAAAAAAAAAATTGGGTACTGGCCATGTAATGGCCGGCACCAAATAT
*
8341587 AATTTTCAACTCCCAATGCATTTTTTTT-ATTTTGGAACATTGATGGCCGTCACCAGT
131 AATTTTCAACTCCCAATGCATTTTTTTTAATTTTGGAACACTGATGGCCGTCACCAGT
* *
8341644 ATGGCCGGCACCAAGTACAATTTTCGGCTCCTAATAC-ATTTTTCTTATTTTGGAACACTGATAG
1 ATGGCCGGCACCAAGTACAATTTTCGGCTCCCAATACAATTTTTCTTATTTTGGAACACTAATAG
* *
8341708 CC-AGCACTAGTGTATTTTTAAAAAGAAAAAATTTTGGGTGCTGGCCATGTAATGGCCGGCACCA
66 CCGA-CACTAGTGTA--TTTAAAAA-AAAAAA-ATTGGGTACTGGCCATGTAATGGCCGGCACCA
* *** *
8341772 AGTATAATTTTTGGCTCCCAATGCCTTTTTTTTAATTTTGGAACACTGATGG
126 AATATAATTTTCAACTCCCAATGCATTTTTTTTAATTTTGGAACACTGATGG
8341824 GGTGGCACAA
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
185 1 0.01
186 36 0.23
187 34 0.22
188 8 0.05
189 6 0.04
190 56 0.35
191 17 0.11
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (188 bp):
ATGGCCGGCACCAAGTACAATTTTCGGCTCCCAATACAATTTTTCTTATTTTGGAACACTAATAG
CCGACACTAGTGTATTTAAAAAAAAAAAATTGGGTACTGGCCATGTAATGGCCGGCACCAAATAT
AATTTTCAACTCCCAATGCATTTTTTTTAATTTTGGAACACTGATGGCCGTCACCAGT
Found at i:8341879 original size:22 final size:20
Alignment explanation
Indices: 8341847--8341886 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
8341837 TATTTTTTTT
8341847 AAAAAAATTTGGGTCATTTA
1 AAAAAAATTTGGGTCATTTA
8341867 AAAAAAATTTTTGGGTCATT
1 AAAAAAA--TTTGGGTCATT
8341887 ACATGGCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
AAAAAAATTTGGGTCATTTA
Found at i:8342071 original size:95 final size:91
Alignment explanation
Indices: 8341889--8342072 Score: 244
Period size: 95 Copynumber: 2.0 Consensus size: 91
8341879 GGGTCATTAC
* * **
8341889 ATGGCTAGCACCCAAATATTTTTTAAAGATACACTGGTGCCGGCCATCAGTGTATCCAAAGTAAA
1 ATGGCTAGCACCCAAATATTTTTTAAAAATACACTGATGCCAACCATCAGTG-ATCCAAAGTAAA
8341954 AAAATGCATTGGGAGGCAAAAAATGTA
65 AAAATGCATTGGGAGGCAAAAAATGTA
* *
8341981 ATGGCTGGCACCCAAATTTTTTTTAAAAAAAATACACTGATGCCAACCATCAGTG-TCCTAAAGT
1 ATGGCTAGCACCCAAATATTTTTT---AAAAATACACTGATGCCAACCATCAGTGATCC-AAAGT
8342045 AAAAAAAATTGCATTGGGAGGCAAAAAA
62 -AAAAAAA-TGCATTGGGAGGCAAAAAA
8342073 ATATACTTGG
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
92 22 0.28
93 3 0.04
94 5 0.06
95 31 0.39
96 19 0.24
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (91 bp):
ATGGCTAGCACCCAAATATTTTTTAAAAATACACTGATGCCAACCATCAGTGATCCAAAGTAAAA
AAATGCATTGGGAGGCAAAAAATGTA
Found at i:8342625 original size:11 final size:11
Alignment explanation
Indices: 8342586--8342626 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
8342576 ATAACAACAA
8342586 CAAAATAGTAG
1 CAAAATAGTAG
* *
8342597 CAACATAATAG
1 CAAAATAGTAG
*
8342608 TAAAATAGTAG
1 CAAAATAGTAG
8342619 CAAAATAG
1 CAAAATAG
8342627 GAAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:8343043 original size:109 final size:110
Alignment explanation
Indices: 8342853--8343069 Score: 323
Period size: 109 Copynumber: 2.0 Consensus size: 110
8342843 CTAGTGCCAG
8342853 CCATCAGTGTTCCAAAATAAAAAAAAACATTGGAAGCCGAAAATTGTACTTGGTGCCGACCATTA
1 CCATCAGTGTTCCAAAATAAAAAAAAACATTGGAAGCCGAAAATTGTACTTGGTGCCGACCATTA
* *
8342918 CATGGCCAATACCCAAA-ATTTTTT-T-AAATACACTGGTGCTGA
66 CATGGCCAACAACCAAATATTTTTTGTAAAATACACTGGTGCTGA
* * *
8342960 CCATCAGTGTTCCAAAATAATAAAAAATACATTGGGAGCCTAAAATTGTACTTGGTGCCGGCCAT
1 CCATCAGTGTTCCAAAATAA-AAAAAA-ACATTGGAAGCCGAAAATTGTACTTGGTGCCGACCAT
* *
8343025 TACATGGCCAGCAACCAAATTTTTTTTTGTAAAATACACTGGTGC
64 TACATGGCCAACAACCAAA-TATTTTTTGTAAAATACACTGGTGC
8343070 CAGCCATTAC
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
107 20 0.21
108 6 0.06
109 50 0.52
111 6 0.06
112 1 0.01
113 14 0.14
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (110 bp):
CCATCAGTGTTCCAAAATAAAAAAAAACATTGGAAGCCGAAAATTGTACTTGGTGCCGACCATTA
CATGGCCAACAACCAAATATTTTTTGTAAAATACACTGGTGCTGA
Found at i:8343080 original size:52 final size:49
Alignment explanation
Indices: 8343012--8343110 Score: 144
Period size: 52 Copynumber: 2.0 Consensus size: 49
8343002 AAATTGTACT
* *
8343012 TGGTGCCGGCCATTACATGGCCAGCAACCAAATTTTTTTTTGTAAAATACAC
1 TGGTGCCAGCCATTACATGGCCAG-AA-CAAATTTTTTTTT-AAAAATACAC
*
8343064 TGGTGCCAGCCATTACATGGCCAGAACTAATTTTTTTTTAAAAATAC
1 TGGTGCCAGCCATTACATGGCCAGAACAAATTTTTTTTTAAAAATAC
8343111 TGGTTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 7 0.16
50 12 0.27
51 2 0.05
52 23 0.52
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (49 bp):
TGGTGCCAGCCATTACATGGCCAGAACAAATTTTTTTTTAAAAATACAC
Found at i:8346381 original size:15 final size:15
Alignment explanation
Indices: 8346361--8346393 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8346351 GAGGTTAGCT
8346361 TTTATTTTATTTTAC
1 TTTATTTTATTTTAC
*
8346376 TTTATTTTATTTTGC
1 TTTATTTTATTTTAC
8346391 TTT
1 TTT
8346394 CAGCTTTTTT
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:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTTTAC
Found at i:8356249 original size:11 final size:11
Alignment explanation
Indices: 8356233--8356276 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
8356223 ATTTGCTCCG
8356233 TTTTTTTCCTT
1 TTTTTTTCCTT
*
8356244 TTTTTTTACTT
1 TTTTTTTCCTT
*
8356255 TTTTTTACTCTT
1 TTTTTTTC-CTT
*
8356267 TTATTTTCCT
1 TTTTTTTCCT
8356277 ACTTGTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTCCTT
Found at i:8362467 original size:29 final size:29
Alignment explanation
Indices: 8362427--8362482 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
8362417 TAACAAAATA
8362427 AAAACATAAGTGACTAAAACGTAACATTT
1 AAAACATAAGTGACTAAAACGTAACATTT
**
8362456 AAAACATAAGTGACTAAAGTGTAACAT
1 AAAACATAAGTGACTAAAACGTAACAT
8362483 AAGGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (29 bp):
AAAACATAAGTGACTAAAACGTAACATTT
Found at i:8372028 original size:15 final size:16
Alignment explanation
Indices: 8372008--8372049 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
8371998 TTTACAAAAT
8372008 TTTATATTTTTTAT-A
1 TTTATATTTTTTATAA
*
8372023 TTTATATTTATTATAA
1 TTTATATTTTTTATAA
8372039 TTTATATTTTT
1 TTTATATTTTT
8372050 ATCATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATATTTTTTATAA
Found at i:8372032 original size:68 final size:68
Alignment explanation
Indices: 8371931--8372057 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 68
8371921 GCTTCTTTTG
**
8371931 TTACAATAATTTTTATATTTTTTAATGAAATTTA-TATTTCTTTATATTTTTATAATTTTCTTAC
1 TTACAATAATTTTTATATTTTTTAATGAAATTTATTA-TAATTTATATTTTTATAATTTTCTTAC
8371995 GACT
65 GACT
* * *
8371999 TTACAA-AA-TTTTATATTTTTTATATTTATATTTATTATAATTTATATTTTTATCATTTT
1 TTACAATAATTTTTATATTTTTTA-A-TGAAATTTATTATAATTTATATTTTTATAATTTT
8372058 TTGCCACTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
66 14 0.27
67 3 0.06
68 32 0.63
69 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (68 bp):
TTACAATAATTTTTATATTTTTTAATGAAATTTATTATAATTTATATTTTTATAATTTTCTTACG
ACT
Found at i:8372051 original size:15 final size:15
Alignment explanation
Indices: 8372008--8372056 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
8371998 TTTACAAAAT
8372008 TTTATATTTTT-TATA
1 TTTATATTTTTATA-A
8372023 TTTATATTTATTATAA
1 TTTATATTT-TTATAA
*
8372039 TTTATATTTTTATCA
1 TTTATATTTTTATAA
8372054 TTT
1 TTT
8372057 TTTGCCACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 17 0.55
16 12 0.39
17 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATATTTTTATAA
Found at i:8372056 original size:9 final size:8
Alignment explanation
Indices: 8372007--8372058 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
8371997 CTTTACAAAA
8372007 TTTTATAT
1 TTTTATAT
8372015 TTTT-TAT
1 TTTTATAT
*
8372022 ATTTATAT
1 TTTTATAT
8372030 TTATTATA-
1 TT-TTATAT
*
8372038 ATTTATAT
1 TTTTATAT
8372046 TTTTATCAT
1 TTTTAT-AT
8372055 TTTT
1 TTTT
8372059 TGCCACTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 11 0.31
8 14 0.39
9 11 0.31
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTATAT
Found at i:8379922 original size:15 final size:15
Alignment explanation
Indices: 8379870--8379925 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
8379860 AATTCAGTAT
* *
8379870 TTAAATTTTCAATAC
1 TTAATTTTTCAACAC
8379885 TTCAATTTTT-AACAC
1 TT-AATTTTTCAACAC
* *
8379900 CTATTTTTTCAACAC
1 TTAATTTTTCAACAC
8379915 TTAATTTTTCA
1 TTAATTTTTCA
8379926 GTTTATCAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.18
15 21 0.64
16 6 0.18
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTTTTCAACAC
Found at i:8380256 original size:2 final size:2
Alignment explanation
Indices: 8380249--8380273 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8380239 NNNNNNNTTG
8380249 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8380274 AAAGATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8384874 original size:13 final size:14
Alignment explanation
Indices: 8384856--8384884 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8384846 TTATATAAGA
8384856 TAATATAAA-AAAT
1 TAATATAAATAAAT
8384869 TAATATAAATAAAT
1 TAATATAAATAAAT
8384883 TA
1 TA
8384885 GGTTGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATATAAATAAAT
Found at i:8386079 original size:19 final size:20
Alignment explanation
Indices: 8386055--8386099 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
8386045 AAAAAAGATT
8386055 ATTTTT-TTAGTTTTATTTA
1 ATTTTTATTAGTTTTATTTA
8386074 ATTTTTTACATTAGTTTTATTTA
1 A-TTTTT--ATTAGTTTTATTTA
8386097 ATT
1 ATT
8386100 AATCATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.05
20 5 0.23
22 2 0.09
23 14 0.64
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTTTATTAGTTTTATTTA
Found at i:8386484 original size:238 final size:239
Alignment explanation
Indices: 8386056--8386534 Score: 951
Period size: 238 Copynumber: 2.0 Consensus size: 239
8386046 AAAAAGATTA
8386056 TTTTTTTAGTTTTATTTAATTTTTTACATTAGTTTTATTTAATTAATCATATCTAATTAGAACTA
1 TTTTTTTAGTTTTATTTAATTTTTTACATTAGTTTTATTTAATTAATCATATCTAATTAGAACTA
8386121 AAATAATATTAAGAAGAATTTGCTTAGGGTTCAAAAGTGTATAAAATAGGATAAACTATACCAAT
66 AAATAATATTAAGAAGAATTTGCTTAGGGTTCAAAAGTGTATAAAATAGGATAAACTATACCAAT
8386186 TGTTCTTAAATTTTGATTAAAATTACATTTCAGTCGTTCAACTTTCGAAAGTTATATAATTACCA
131 TGTTCTTAAATTTTGATTAAAATTACATTTCAGTCGTTCAACTTTCGAAAGTTATATAATTACCA
8386251 TTAAAGGTATCGAAATATTATATTTTTGTCACTCATCCGTTAAC
196 TTAAAGGTATCGAAATATTATATTTTTGTCACTCATCCGTTAAC
8386295 TTTTTTTAG-TTTATTTAATTTTTTACATTAGTTTTATTTAATTAATCATATCTAATTAGAACTA
1 TTTTTTTAGTTTTATTTAATTTTTTACATTAGTTTTATTTAATTAATCATATCTAATTAGAACTA
8386359 AAATAATATTAAGAAGAATTTGCTTAGGGTTCAAAAGTGTATAAAATAGGATAAACTATACCAAT
66 AAATAATATTAAGAAGAATTTGCTTAGGGTTCAAAAGTGTATAAAATAGGATAAACTATACCAAT
8386424 TGTTCTTAAATTTTGATTAAAATTACATTTCAGTCGTTCAACTTTCGAAAGTTATATAATTACCA
131 TGTTCTTAAATTTTGATTAAAATTACATTTCAGTCGTTCAACTTTCGAAAGTTATATAATTACCA
8386489 TTAAAGGTATCGAAATATTATATTTTTGTCACTCATCCGTTAAC
196 TTAAAGGTATCGAAATATTATATTTTTGTCACTCATCCGTTAAC
8386533 TT
1 TT
8386535 CTGTCAAGTG
Statistics
Matches: 240, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
238 231 0.96
239 9 0.04
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (239 bp):
TTTTTTTAGTTTTATTTAATTTTTTACATTAGTTTTATTTAATTAATCATATCTAATTAGAACTA
AAATAATATTAAGAAGAATTTGCTTAGGGTTCAAAAGTGTATAAAATAGGATAAACTATACCAAT
TGTTCTTAAATTTTGATTAAAATTACATTTCAGTCGTTCAACTTTCGAAAGTTATATAATTACCA
TTAAAGGTATCGAAATATTATATTTTTGTCACTCATCCGTTAAC
Found at i:8387830 original size:16 final size:17
Alignment explanation
Indices: 8387805--8387844 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8387795 CTTTACTTAA
* *
8387805 TTTGATTGTTTT-TTTT
1 TTTGAATGTTTTATATT
8387821 TTTGAATGTTTTATATT
1 TTTGAATGTTTTATATT
8387838 TTTGAAT
1 TTTGAAT
8387845 ATGTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.70
Consensus pattern (17 bp):
TTTGAATGTTTTATATT
Found at i:8401478 original size:24 final size:24
Alignment explanation
Indices: 8401451--8401506 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
8401441 ATACCTAGAT
* *
8401451 CTCGCTACAAAAGCGGACTAACAA
1 CTCGCCACAAAAGCAGACTAACAA
* *
8401475 CTCGCCATAAAGGCAGACTAACAA
1 CTCGCCACAAAAGCAGACTAACAA
8401499 CTCGCCAC
1 CTCGCCAC
8401507 TTAAACATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.34, G:0.16, T:0.12
Consensus pattern (24 bp):
CTCGCCACAAAAGCAGACTAACAA
Found at i:8401644 original size:76 final size:75
Alignment explanation
Indices: 8401555--8401875 Score: 385
Period size: 76 Copynumber: 4.2 Consensus size: 75
8401545 GACTTACTAC
* * * * *
8401555 CAAAGCTTTCCAGATAACTTAGCCACTAAGGCTTCCCAAATAATACGCCACATTGGCTTTTTAGG
1 CAAAGGTTTCCAGATAAATTAGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCAGG
8401620 TAACTCT-CCA
66 TAACT-TGCCA
* * * *
8401630 CAAAGGTTTGCCAGATAAATTCGCCATTAAGGCTTCCTAAATAATACACCACATAGGCTTTTTAG
1 CAAAGGTTT-CCAGATAAATTAGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCAG
8401695 GTAACTTGCCA
65 GTAACTTGCCA
*
8401706 CAAAGGCTTTCTAGATAAATTCA-CCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCA
1 CAAAGG-TTTCCAGATAAATT-AGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCA
8401770 GGTAACTTGCCA
64 GGTAACTTGCCA
* * * ** * * *
8401782 CAAATGCTTTCCAGATAAATTCGCCACTAAGGATTTTCAAATAATACGCCATATAGGATTTTCAG
1 CAAA-GGTTTCCAGATAAATTAGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCAG
*
8401847 GTAACTCGCCA
65 GTAACTTGCCA
* *
8401858 TAAAGGCTTTCCAAATAA
1 CAAAGG-TTTCCAGATAA
8401876 TATGCCAGAT
Statistics
Matches: 214, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
75 10 0.05
76 200 0.93
77 4 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (75 bp):
CAAAGGTTTCCAGATAAATTAGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCAGG
TAACTTGCCA
Found at i:8401688 original size:25 final size:25
Alignment explanation
Indices: 8401659--8401765 Score: 74
Period size: 25 Copynumber: 4.2 Consensus size: 25
8401649 TTCGCCATTA
8401659 AGGCTTCCTAAATAATACACCACAT
1 AGGCTTCCTAAATAATACACCACAT
** ** ** *
8401684 AGGCTTTTTAGGTAACT-TGCCACAA
1 AGGCTTCCTAAATAA-TACACCACAT
* * *
8401709 AGGCTTTCTAGATAAATTCACCAC-T
1 AGGCTTCCTAAAT-AATACACCACAT
*
8401734 AAGGCTTCCCAAATAATACACCACAT
1 -AGGCTTCCTAAATAATACACCACAT
8401760 AGGCTT
1 AGGCTT
8401766 TTCAGGTAAC
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
25 43 0.70
26 18 0.30
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (25 bp):
AGGCTTCCTAAATAATACACCACAT
Found at i:8401782 original size:25 final size:25
Alignment explanation
Indices: 8401678--8401867 Score: 75
Period size: 25 Copynumber: 7.5 Consensus size: 25
8401668 AAATAATACA
* * *
8401678 CCACATAGGCTTTTTAGGTAACTTG
1 CCACATAGGCTTTTCAGATAACTCG
* * *
8401703 CCACAAAGGC-TTTCTAGATAAATTCA
1 CCACATAGGCTTTTC-AGAT-AACTCG
** * *
8401729 CCAC-TAAGGCTTCCCAAATAA-TACA
1 CCACAT-AGGCTTTTCAGATAACT-CG
* *
8401754 CCACATAGGCTTTTCAGGTAACTTG
1 CCACATAGGCTTTTCAGATAACTCG
* * * *
8401779 CCACAAATGCTTTCCAGATAAATTCG
1 CCACATAGGCTTTTCAGAT-AACTCG
* *
8401805 CCAC-TAAGGATTTTCAAATAA-TACG
1 CCACAT-AGGCTTTTCAGATAACT-CG
* * *
8401830 CCATATAGGATTTTCAGGTAACTCG
1 CCACATAGGCTTTTCAGATAACTCG
* *
8401855 CCATAAAGGCTTT
1 CCACATAGGCTTT
8401868 CCAAATAATA
Statistics
Matches: 121, Mismatches: 32, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
24 5 0.04
25 79 0.65
26 35 0.29
27 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (25 bp):
CCACATAGGCTTTTCAGATAACTCG
Found at i:8401813 original size:152 final size:152
Alignment explanation
Indices: 8401555--8401875 Score: 427
Period size: 152 Copynumber: 2.1 Consensus size: 152
8401545 GACTTACTAC
* * * *
8401555 CAAA-GCTTTCCAGATAACTTAGCCACTAAGGCTTCCCAAATAATACGCCACATTGGCTTTTTAG
1 CAAAGGCTTTCCAGATAAATTAGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCAG
* * *
8401619 GTAACTCTCCACAAAGGTTTGCCAGATAAATTCGCCATTAAGGCTTC-CTAAATAATACACCACA
66 GTAACTCTCCACAAAGCTTTGCCAGATAAATTCGCCACTAAGGATTCTC-AAATAATACACCACA
* * *
8401683 TAGGCTTTTTAGGTAACTTGCCA
130 TAGGATTTTCAGGTAACTCGCCA
*
8401706 CAAAGGCTTTCTAGATAAATTCA-CCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCA
1 CAAAGGCTTTCCAGATAAATT-AGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCA
* *
8401770 GGTAACT-TGCCACAAATGCTTT-CCAGATAAATTCGCCACTAAGGATTTTCAAATAATACGCCA
65 GGTAACTCT-CCACAAA-GCTTTGCCAGATAAATTCGCCACTAAGGATTCTCAAATAATACACCA
*
8401833 TATAGGATTTTCAGGTAACTCGCCA
128 CATAGGATTTTCAGGTAACTCGCCA
* *
8401858 TAAAGGCTTTCCAAATAA
1 CAAAGGCTTTCCAGATAA
8401876 TATGCCAGAT
Statistics
Matches: 148, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
151 5 0.03
152 137 0.93
153 6 0.04
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (152 bp):
CAAAGGCTTTCCAGATAAATTAGCCACTAAGGCTTCCCAAATAATACACCACATAGGCTTTTCAG
GTAACTCTCCACAAAGCTTTGCCAGATAAATTCGCCACTAAGGATTCTCAAATAATACACCACAT
AGGATTTTCAGGTAACTCGCCA
Found at i:8401825 original size:26 final size:25
Alignment explanation
Indices: 8401803--8401882 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
8401793 CAGATAAATT
8401803 CGCCACTA-AGGATTTTCAAATAATA
1 CGCCA-TATAGGATTTTCAAATAATA
**
8401828 CGCCATATAGGATTTTCAGGTAACT-
1 CGCCATATAGGATTTTCAAATAA-TA
* * *
8401853 CGCCATAAAGGCTTTCCAAATAATA
1 CGCCATATAGGATTTTCAAATAATA
*
8401878 TGCCA
1 CGCCA
8401883 GATTTTCAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 3 0.07
25 40 0.91
26 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (25 bp):
CGCCATATAGGATTTTCAAATAATA
Found at i:8402412 original size:3 final size:3
Alignment explanation
Indices: 8402404--8402473 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
8402394 CTTCACACAC
*
8402404 ACA ACA ACA ACA ACA ACA ACA AAA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
8402452 ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA A
8402474 TTCATCAAGA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:8404133 original size:36 final size:36
Alignment explanation
Indices: 8404086--8404157 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
8404076 CTCATGAGCA
8404086 AATGGATAAGTTTTTTTTCCTCAATTACTACTTTTG
1 AATGGATAAGTTTTTTTTCCTCAATTACTACTTTTG
8404122 AATGGATAAGTTTTTTTTCCTCAATTACTACTTTTG
1 AATGGATAAGTTTTTTTTCCTCAATTACTACTTTTG
8404158 TTACAATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (36 bp):
AATGGATAAGTTTTTTTTCCTCAATTACTACTTTTG
Found at i:8405928 original size:20 final size:20
Alignment explanation
Indices: 8405903--8405941 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8405893 AATATTTTCC
*
8405903 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
8405923 AGTAAAACATTTTCCAGAA
1 AGTAAAACATTTTACAGAA
8405942 TTCATTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:8405951 original size:34 final size:35
Alignment explanation
Indices: 8405891--8405957 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
8405881 CAAACACCAG
*
8405891 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
8405926 AAAACATTTTCCAG-AATTCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
8405958 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8407049 original size:30 final size:30
Alignment explanation
Indices: 8407014--8407071 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
8407004 CTGGGCATTT
*
8407014 CCACACGGCCTGGGCACACGCCCATGTGAG
1 CCACACGGCCTGGCCACACGCCCATGTGAG
*
8407044 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGCCTGGCCACACGCCCATGTG
8407072 CCTGCCTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.41, G:0.29, T:0.10
Consensus pattern (30 bp):
CCACACGGCCTGGCCACACGCCCATGTGAG
Found at i:8411805 original size:21 final size:22
Alignment explanation
Indices: 8411757--8411812 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
8411747 ATAAACATTT
8411757 AATTTAAAACTTCATTTAGGTAAA
1 AATTTAAAA-TTCATTTAGG-AAA
*
8411781 AATTTAAAATTGATTTAGG-AA
1 AATTTAAAATTCATTTAGGAAA
8411802 AATTTAAAATT
1 AATTTAAAATT
8411813 TATTAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 13 0.42
23 9 0.29
24 9 0.29
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (22 bp):
AATTTAAAATTCATTTAGGAAA
Found at i:8414895 original size:28 final size:29
Alignment explanation
Indices: 8414862--8414917 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
8414852 AGAACCACAC
*
8414862 GGCCAA-CCTCCTCAATTAATGACCAAGT
1 GGCCAACCCTCCTCAATTAATGAACAAGT
* *
8414890 GGCCAACCCTCCTGAATTATTGAACAAG
1 GGCCAACCCTCCTCAATTAATGAACAAG
8414918 GTATTAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (29 bp):
GGCCAACCCTCCTCAATTAATGAACAAGT
Found at i:8416546 original size:26 final size:26
Alignment explanation
Indices: 8416510--8416561 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8416500 ACAGGAAAGG
8416510 AGATGAGGGGACAATGTTGTTTTACA
1 AGATGAGGGGACAATGTTGTTTTACA
8416536 AGATGAGGGGACAATGTTGTTTTACA
1 AGATGAGGGGACAATGTTGTTTTACA
8416562 CAGTTTATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (26 bp):
AGATGAGGGGACAATGTTGTTTTACA
Found at i:8416774 original size:17 final size:17
Alignment explanation
Indices: 8416752--8416784 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8416742 TGATTAATTT
*
8416752 TTTTTGAATGTTTTATA
1 TTTTTGAATATTTTATA
8416769 TTTTTGAATATTTTAT
1 TTTTTGAATATTTTAT
8416785 TTATAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTTTGAATATTTTATA
Found at i:8417569 original size:6 final size:7
Alignment explanation
Indices: 8417552--8417579 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8417542 CCCCAAAGCA
8417552 AAAAAAT
1 AAAAAAT
8417559 AAAAAAT
1 AAAAAAT
8417566 AAAAAAT
1 AAAAAAT
8417573 AAAAAAT
1 AAAAAAT
8417580 GGAAGCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:8429102 original size:104 final size:103
Alignment explanation
Indices: 8428881--8429131 Score: 245
Period size: 105 Copynumber: 2.4 Consensus size: 103
8428871 GGTTGTCATG
* * * * *
8428881 ACACTAATAGTTGGCATCCCTTTTCCAAAATAAAAAAAAAATTTAGGTGTTGAGACACTAATAGC
1 ACACTAATGGTTGGCACCCCTTTT--TAAAT-TAAAAAAATTTTAGGTGTTGAGACACTAATAGC
* * **
8428946 CAACACCTTTTTTATAGACAAAAAAATTTTTGGGGTGTTGGA
63 CAACACCCTTTTTACAGACAAAAAAA-TTTTGGGGTACTGGA
* * * *
8428988 ACACTGATGGTTGGCACCCCTTTTTAAGATTAAAAAAATTTTGGGTGTTGGGACATTAAT-GACC
1 ACACTAATGGTTGGCACCCCTTTTTAA-ATTAAAAAAATTTTAGGTGTTGAGACACTAATAG-CC
* * *
8429052 GACACCCTTTTTCCAGATTAAAAAAA-TTTGGGGTACTGGA
64 AACACCCTTTTTACAGA-CAAAAAAATTTTGGGGTACTGGA
* * *
8429092 ACACTAATGGTTGACACCCCCTTTATCAATTAAAAAAATT
1 ACACTAATGGTTGGCA-CCCCTTTTTAAATTAAAAAAATT
8429132 GGGGTGTCAT
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
104 39 0.32
105 51 0.43
106 9 0.08
107 21 0.17
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (103 bp):
ACACTAATGGTTGGCACCCCTTTTTAAATTAAAAAAATTTTAGGTGTTGAGACACTAATAGCCAA
CACCCTTTTTACAGACAAAAAAATTTTGGGGTACTGGA
Found at i:8429108 original size:52 final size:52
Alignment explanation
Indices: 8428965--8429138 Score: 183
Period size: 52 Copynumber: 3.3 Consensus size: 52
8428955 TTTTATAGAC
* * *
8428965 AAAAAAATTTTTGGGGTGTTGGAACACTGATGGTTGGCACCCCTTTTTAAGATT
1 AAAAAAA--TTTGGGGTGTTGGAACACTAATGGTTGACACCCCTTTTTCAGATT
* * * ***
8429019 AAAAAAATTTTGGGTGTTGGGACATTAATGACCGACA-CCCTTTTTCCAGATT
1 AAAAAAATTTGGGGTGTTGGAACACTAATGGTTGACACCCCTTTTT-CAGATT
** *
8429071 AAAAAAATTTGGGGTACTGGAACACTAATGGTTGACACCCCCTTTATCA-ATT
1 AAAAAAATTTGGGGTGTTGGAACACTAATGGTTGACA-CCCCTTTTTCAGATT
8429123 AAAAAAA-TTGGGGTGT
1 AAAAAAATTTGGGGTGT
8429139 CATGTATCCA
Statistics
Matches: 97, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
51 15 0.15
52 66 0.68
53 2 0.02
54 14 0.14
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (52 bp):
AAAAAAATTTGGGGTGTTGGAACACTAATGGTTGACACCCCTTTTTCAGATT
Found at i:8433852 original size:3 final size:3
Alignment explanation
Indices: 8433844--8433883 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8433834 AGTAATTCCT
8433844 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8433884 CATATAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8434891 original size:44 final size:44
Alignment explanation
Indices: 8434810--8434897 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
8434800 TTAGGGTTTT
* * *
8434810 TCTGCTTAACTTTGTAGTGTTGGGCCAGGGACCGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
* * * *
8434854 TCTGTTTAATTTTGTAATGTTGGACTAGGAACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
8434898 ATTGGGCCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.15, C:0.16, G:0.31, T:0.39
Consensus pattern (44 bp):
TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
Found at i:8439552 original size:29 final size:30
Alignment explanation
Indices: 8439492--8439567 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
8439482 TAGTTAATAA
* *
8439492 TAATAATAATAATAATAATAATAATAGTAG
1 TAATGATAAAAATAATAATAATAATAGTAG
*
8439522 TAGT-AGTAAAAATAA-AATAATAATA-TGAG
1 TAATGA-TAAAAATAATAATAATAATAGT-AG
8439551 TAATGATAAAAATAATA
1 TAATGATAAAAATAATA
8439568 GTAAGAGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 1 0.03
29 25 0.64
30 13 0.33
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (30 bp):
TAATGATAAAAATAATAATAATAATAGTAG
Found at i:8439581 original size:24 final size:24
Alignment explanation
Indices: 8439535--8439583 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8439525 TAGTAAAAAT
*
8439535 AAAATAATAATATGAGTAATGATA
1 AAAATAATAATAAGAGTAATGATA
*
8439559 AAAATAATAGTAAGAG-AAGTGATA
1 AAAATAATAATAAGAGTAA-TGATA
8439583 A
1 A
8439584 TAATGATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.24
Consensus pattern (24 bp):
AAAATAATAATAAGAGTAATGATA
Found at i:8439586 original size:3 final size:3
Alignment explanation
Indices: 8439486--8439546 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
8439476 CATATCTAGT
* * * * *
8439486 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAG TAG TAG TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8439534 TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TA
8439547 TGAGTAATGA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:8444584 original size:94 final size:99
Alignment explanation
Indices: 8444481--8444662 Score: 284
Period size: 101 Copynumber: 1.9 Consensus size: 99
8444471 TCAGAGGTTA
8444481 AATTATAATT-A-ACCTT-TT-A-AATTATTGTGTCAAGATCACTCACCCTCTTTATAGAAGTTA
1 AATTATAATTCAGACCTTATTGATAATTATTGTGTCAAGATCACTCACCCTCTTTATAGAAGTTA
8444541 ATAGATAAGTTGATAAATAATATTTTAATATTTT
66 ATAGATAAGTTGATAAATAATATTTTAATATTTT
** *
8444575 AATTATAATTCAGAGGTTAAATTGATTATTATTGTGTCAAGATCACTCACCCTCTTTATAGAAGT
1 AATTATAATTCAGACCTT--ATTGATAATTATTGTGTCAAGATCACTCACCCTCTTTATAGAAGT
8444640 TAATAGATAAGTTGATAAATAAT
64 TAATAGATAAGTTGATAAATAAT
8444663 TATGTATTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
94 10 0.13
95 1 0.01
96 3 0.04
99 2 0.03
100 1 0.01
101 61 0.78
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.40
Consensus pattern (99 bp):
AATTATAATTCAGACCTTATTGATAATTATTGTGTCAAGATCACTCACCCTCTTTATAGAAGTTA
ATAGATAAGTTGATAAATAATATTTTAATATTTT
Found at i:8458372 original size:30 final size:30
Alignment explanation
Indices: 8458338--8458662 Score: 407
Period size: 30 Copynumber: 10.8 Consensus size: 30
8458328 GTATATGTTT
**
8458338 TATACATTGCCGAATTGATTCATATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * * *
8458368 TATACATTGTCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
**
8458398 TATACATTGCCGAATTGATTTGTATTTAAA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* *
8458428 TATACATTACCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * *
8458458 TATACATTGCTGAATTTATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * * *
8458488 TATACATTGTCGAATTTATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
*
8458518 TATACATTGCTGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * * * *
8458548 TACACATTACCTAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* *
8458578 TATACATTGCCGAATTTATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
*
8458608 TATACATTGCCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
*
8458638 TATACATTACCGAATTGATTTGTAT
1 TATACATTGCCGAATTGATTTGTAT
8458663 ATGTATACAT
Statistics
Matches: 252, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 252 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATTTGGA
Found at i:8458491 original size:90 final size:89
Alignment explanation
Indices: 8458338--8458672 Score: 458
Period size: 90 Copynumber: 3.7 Consensus size: 89
8458328 GTATATGTTT
* *
8458338 TATACATTGCCGAATTGATTCATATTTGGATATACATTGTCAAATTGATTTGTATATAGATATAC
1 TATACATTGCCGAATTGATTCGTATTTGGATATACATTG-CTAATTGATTTGTATATAGATATAC
* * *
8458403 ATTGCCGAATTGATTTGTATTTAAA
65 ATTGCCGAATTTATTTGTATATAGA
* * * * *
8458428 TATACATTACCGAATTGATTCGTATTTGGATATACATTGCTGAATTTATTCGTATTTGGATATAC
1 TATACATTGCCGAATTGATTCGTATTTGGATATACATTGCT-AATTGATTTGTATATAGATATAC
*
8458493 ATTGTCGAATTTATTTGTATATAGA
65 ATTGCCGAATTTATTTGTATATAGA
* * * *
8458518 TATACATTGCTGAATTGATTTGTATTTGGATACACATTACCTAATTGATTTGTATATAGATATAC
1 TATACATTGCCGAATTGATTCGTATTTGGATATACATT-GCTAATTGATTTGTATATAGATATAC
*
8458583 ATTGCCGAATTTATTTGTATATGGA
65 ATTGCCGAATTTATTTGTATATAGA
* *
8458608 TATACATTGCCGAATTGATTCGTATTTGGATATACATTACCGAATTGATTTGTATAT-G-TATAC
1 TATACATTGCCGAATTGATTCGTATTTGGATATACATT-GCTAATTGATTTGTATATAGATATAC
8458671 AT
65 AT
8458673 ATATATTGAT
Statistics
Matches: 217, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
88 7 0.03
89 2 0.01
90 206 0.95
91 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (89 bp):
TATACATTGCCGAATTGATTCGTATTTGGATATACATTGCTAATTGATTTGTATATAGATATACA
TTGCCGAATTTATTTGTATATAGA
Found at i:8468900 original size:17 final size:17
Alignment explanation
Indices: 8468878--8468912 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8468868 CCGTCCTCAT
*
8468878 CCTTTCTCTCTTCTTCC
1 CCTTTCTATCTTCTTCC
*
8468895 CCTTTCTATTTTCTTCC
1 CCTTTCTATCTTCTTCC
8468912 C
1 C
8468913 TCCACAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.43, G:0.00, T:0.54
Consensus pattern (17 bp):
CCTTTCTATCTTCTTCC
Found at i:8470916 original size:21 final size:21
Alignment explanation
Indices: 8470889--8470931 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8470879 AGACTATTGA
*
8470889 TTTT-TTTTA-TTTTTTTATT
1 TTTTCTTTTAGTTGTTTTATT
8470908 TTTTCTTTTAGTTGTTTTATT
1 TTTTCTTTTAGTTGTTTTATT
8470929 TTT
1 TTT
8470932 ATTTTCTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
21 12 0.57
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (21 bp):
TTTTCTTTTAGTTGTTTTATT
Found at i:8482919 original size:24 final size:24
Alignment explanation
Indices: 8482888--8482941 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
8482878 ATCAAAACTT
8482888 AATT-TCACCAATTAAACTATAAA
1 AATTATCACCAATTAAACTATAAA
8482911 AATTATCACCAATTAAACTATAAA
1 AATTATCACCAATTAAACTATAAA
8482935 AATTATC
1 AATTATC
8482942 TTATTGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (24 bp):
AATTATCACCAATTAAACTATAAA
Found at i:8484385 original size:2 final size:2
Alignment explanation
Indices: 8484380--8484413 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8484370 ATTATATATA
8484380 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8484414 ATGTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8493841 original size:32 final size:31
Alignment explanation
Indices: 8493780--8493875 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
8493770 NNNNNNNNNN
*
8493780 AAGAGTAATTGAATCCTAATAAAACTCTTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
8493811 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
8493843 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
8493874 AA
1 AA
8493876 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:8494893 original size:14 final size:13
Alignment explanation
Indices: 8494827--8494893 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
8494817 TTTATTAATA
8494827 ATTTAT-TATATT
1 ATTTATATATATT
*
8494839 ATTCATCATATATT
1 ATTTAT-ATATATT
*
8494853 ACTATTTTATA-ATT
1 A-T-TTATATATATT
8494867 ATTTATAT-T-TT
1 ATTTATATATATT
8494878 ATTTACTATATATT
1 ATTTA-TATATATT
8494892 AT
1 AT
8494894 GAATATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 7 0.16
12 13 0.30
13 2 0.05
14 15 0.35
15 4 0.09
16 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:8496308 original size:14 final size:13
Alignment explanation
Indices: 8496291--8496357 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
8496281 TATAATATTC
8496291 ATAATATATAGTAA
1 ATAATATATA-TAA
8496305 ATAA-A-ATATAA
1 ATAATATATATAA
*
8496316 ATAAT-TATAAAA
1 ATAATATATATAA
*
8496328 TAGTAATATATGATGA
1 -A-TAATATAT-ATAA
8496344 ATAATATA-ATAA
1 ATAATATATATAA
8496356 AT
1 AT
8496358 TATTAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 7 0.16
12 13 0.30
13 2 0.05
14 15 0.35
15 4 0.09
16 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
ATAATATATATAA
Found at i:8497357 original size:32 final size:31
Alignment explanation
Indices: 8497312--8497407 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
8497302 CTTAGATAAT
8497312 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
8497343 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
8497375 TTAAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
8497406 TT
1 TT
8497408 GTAATTTACC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:8499561 original size:13 final size:13
Alignment explanation
Indices: 8499543--8499568 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8499533 CTTACTCCAA
8499543 AGATAGAGGTATG
1 AGATAGAGGTATG
8499556 AGATAGAGGTATG
1 AGATAGAGGTATG
8499569 CCTAATTCAT
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:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (13 bp):
AGATAGAGGTATG
Found at i:8506923 original size:18 final size:17
Alignment explanation
Indices: 8506900--8506937 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
8506890 AAAAATTTAT
8506900 TATAAAATGACATAAAAA
1 TATAAAATGAC-TAAAAA
*
8506918 TAT-AAATTACTAAAAA
1 TATAAAATGACTAAAAA
8506934 TATA
1 TATA
8506938 TATAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 9 0.50
17 6 0.33
18 3 0.17
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (17 bp):
TATAAAATGACTAAAAA
Found at i:8509260 original size:53 final size:53
Alignment explanation
Indices: 8509197--8509302 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
8509187 CCTTGCAACT
*
8509197 GTTGCAAGGGCGTTGCGAAATAAACCTTTATTTTTTTGGAGTGATGCTTTACA
1 GTTGCAAGGGCGTTGCGAAATAAACATTTATTTTTTTGGAGTGATGCTTTACA
8509250 GTTGCAAGGGCGTTGCGAAATAAACATTTATTTTTTTGGAGTGATGCTTTACA
1 GTTGCAAGGGCGTTGCGAAATAAACATTTATTTTTTTGGAGTGATGCTTTACA
8509303 ACAATTACAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (53 bp):
GTTGCAAGGGCGTTGCGAAATAAACATTTATTTTTTTGGAGTGATGCTTTACA
Found at i:8511758 original size:18 final size:19
Alignment explanation
Indices: 8511725--8511762 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
8511715 AGACTCCAGG
*
8511725 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
8511744 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
8511762 T
1 T
8511763 GCCTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:8519455 original size:16 final size:16
Alignment explanation
Indices: 8519412--8519454 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
8519402 GGTGATATCC
8519412 CATTTTTGTTTTCTTG
1 CATTTTTGTTTTCTTG
** *
8519428 CATCATTGTTTTCTTT
1 CATTTTTGTTTTCTTG
8519444 CATTTTT-TTTT
1 CATTTTTGTTTT
8519455 TTTTTTTGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (16 bp):
CATTTTTGTTTTCTTG
Found at i:8529121 original size:15 final size:15
Alignment explanation
Indices: 8529098--8529131 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8529088 TAAAAAAGAT
8529098 TAAAGAAATAATAAA
1 TAAAGAAATAATAAA
* *
8529113 TAAATAAATAGTAAA
1 TAAAGAAATAATAAA
8529128 TAAA
1 TAAA
8529132 ACAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (15 bp):
TAAAGAAATAATAAA
Found at i:8543489 original size:22 final size:23
Alignment explanation
Indices: 8543464--8543506 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8543454 TTTATTTAAT
*
8543464 TAATTAACA-TAAAAAATTATGA
1 TAATTAAAATTAAAAAATTATGA
*
8543486 TAATTAAAATTAAAATATTAT
1 TAATTAAAATTAAAAAATTAT
8543507 TTAGAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TAATTAAAATTAAAAAATTATGA
Found at i:8544571 original size:6 final size:6
Alignment explanation
Indices: 8544560--8544584 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8544550 TCTTTCATGC
8544560 GATTTG GATTTG GATTTG GATTTG G
1 GATTTG GATTTG GATTTG GATTTG G
8544585 TTATCCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (6 bp):
GATTTG
Found at i:8553717 original size:29 final size:29
Alignment explanation
Indices: 8553612--8553712 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
8553602 AAAAATAAAA
8553612 ATTTACCAAAATATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTTT
8553641 ATTTACCAAAATATTACAACTTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTTT
*
8553670 ATTTACCAAAATATTTA-AACTTTTTTATT
1 ATTTACCAAAATA-TTACAACTTTTTTTTT
8553699 ATTTACCAAAATAT
1 ATTTACCAAAATAT
8553713 ATAAAAAAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
28 1 0.01
29 66 0.94
30 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.50
Consensus pattern (29 bp):
ATTTACCAAAATATTACAACTTTTTTTTT
Found at i:8553819 original size:27 final size:27
Alignment explanation
Indices: 8553781--8553879 Score: 153
Period size: 27 Copynumber: 3.7 Consensus size: 27
8553771 GGACAATGGT
* *
8553781 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
8553808 ATTGGCGGCACCAATGGTGCGAATACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
8553835 ATTGGCGGCACCAATTGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
8553862 ATTGGCGGCACCACTGGT
1 ATTGGCGGCACCAATGGT
8553880 ATTATTAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.26, C:0.28, G:0.27, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:8554065 original size:19 final size:21
Alignment explanation
Indices: 8554027--8554065 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
8554017 AATAATTGAT
*
8554027 TATATTATTGTTATTATTTTG
1 TATATTATTGTTAATATTTTG
8554048 TATATT-TTG-TAATATTTT
1 TATATTATTGTTAATATTTT
8554066 TTGTTGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TATATTATTGTTAATATTTTG
Found at i:8554759 original size:18 final size:18
Alignment explanation
Indices: 8554716--8554760 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
8554706 TTGACATGGT
* *
8554716 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
**
8554734 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
8554752 TGGTGGCGA
1 TGGTGGCGA
8554761 TCATTGGGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.47, T:0.16
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:8557892 original size:26 final size:26
Alignment explanation
Indices: 8557863--8558088 Score: 452
Period size: 26 Copynumber: 8.7 Consensus size: 26
8557853 TTAGACCGAT
8557863 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8557889 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8557915 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8557941 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8557967 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8557993 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8558019 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8558045 AACATGTGAGTAACATATAGAATAGA
1 AACATGTGAGTAACATATAGAATAGA
8558071 AACATGTGAGTAACATAT
1 AACATGTGAGTAACATAT
8558089 GGAAATACCA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 200 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (26 bp):
AACATGTGAGTAACATATAGAATAGA
Found at i:8560214 original size:22 final size:21
Alignment explanation
Indices: 8560186--8560299 Score: 82
Period size: 22 Copynumber: 5.4 Consensus size: 21
8560176 TCTTCTTCTT
8560186 TTTTTTTCTCTTCTCCTTTCCC
1 TTTTTTTCTCTTCT-CTTTCCC
8560208 TTTTTTTCT-TTCCTTCTTT--C
1 TTTTTTTCTCTT-C-TCTTTCCC
*
8560228 TTTCTTTTTTCTTCTC-TTCTCC
1 TTT-TTTTCTCTTCTCTTTC-CC
*
8560250 TTTTCTTCTTCTT-TCTTT-CC
1 TTTTTTTC-TCTTCTCTTTCCC
8560270 -TTTTTTCTCTTCTCCTTT-CC
1 TTTTTTTCTCTTCT-CTTTCCC
8560290 TTTTCTTTCT
1 TTTT-TTTCT
8560300 TCCCTCTCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
18 4 0.05
19 9 0.12
20 14 0.19
21 16 0.21
22 31 0.41
23 1 0.01
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTTCTCTTCTCTTTCCC
Found at i:8560224 original size:40 final size:41
Alignment explanation
Indices: 8560180--8560320 Score: 139
Period size: 41 Copynumber: 3.4 Consensus size: 41
8560170 CCCTCTTCTT
8560180 CTTCTTT-TTTTTTCTCTTCTCCTTTCCCTTTTTTTCTTTC
1 CTTCTTTCTTTTTTCTCTTCTCCTTTCCCTTTTTTTCTTTC
* *
8560220 CTTCTTTCTTTCTTT-T-TTCTTCTCTTCTCCTTTTCTTC-TTC
1 CTTCTTTCTTT-TTTCTCTTCTCCT-TTC-CCTTTTTTTCTTTC
* *
8560261 TTTCTTTCCTTTTTTCTCTTCTCCTTT-CCTTTTCTTTCTTCC
1 CTTCTTT-CTTTTTTCTCTTCTCCTTTCCCTTTT-TTTCTTTC
8560303 CTCTCCTTTCTTTCTTTC
1 CT-T-CTTTCTTT-TTTC
8560321 CTTTTTTCTC
Statistics
Matches: 82, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
40 19 0.23
41 22 0.27
42 22 0.27
43 11 0.13
44 8 0.10
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (41 bp):
CTTCTTTCTTTTTTCTCTTCTCCTTTCCCTTTTTTTCTTTC
Found at i:8560258 original size:26 final size:25
Alignment explanation
Indices: 8560156--8560268 Score: 90
Period size: 26 Copynumber: 4.4 Consensus size: 25
8560146 TTTTTCCCTT
*
8560156 TTTTTTCCTTTCTTCCCTCTTCTTCTTC
1 TTTTTT-CTTTCTTCTC-CTT-TTCTTC
* * *
8560184 TTTTTTTTTCTCTTCTCCTTTCCCT-
1 TTTTTTCTT-TCTTCTCCTTTTCTTC
*
8560209 TTTTTTCTTTC--CTTC-TTTCTTTC
1 TTTTTTCTTTCTTCTCCTTTTC-TTC
8560232 TTTTTTCTTCTCTTCTCCTTTTCTTC
1 TTTTTTCTT-TCTTCTCCTTTTCTTC
*
8560258 TTCTTTCTTTC
1 TTTTTTCTTTC
8560269 CTTTTTTCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
21 3 0.04
22 4 0.06
23 9 0.13
24 4 0.06
25 10 0.15
26 17 0.25
27 9 0.13
28 12 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTTCTTTCTTCTCCTTTTCTTC
Found at i:8560258 original size:34 final size:35
Alignment explanation
Indices: 8560215--8560300 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 35
8560205 CCCTTTTTTT
*
8560215 CTTTCCTTCTTTCTTTCTTT-TTTCTTCTCTTCTC
1 CTTTTCTTCTTTCTTTCTTTCTTTCTTCTCTTCTC
*
8560249 CTTTTCTTC-TTCTTTCTTTCCTTTTTTCTCTTCTC
1 CTTTTCTTCTTTCTTTCTTT-CTTTCTTCTCTTCTC
*
8560284 C-TTTCCT-TTTCTTTCTT
1 CTTTTCTTCTTTCTTTCTT
8560301 CCCTCTCCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 10 0.22
34 22 0.48
35 14 0.30
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (35 bp):
CTTTTCTTCTTTCTTTCTTTCTTTCTTCTCTTCTC
Found at i:8560263 original size:37 final size:35
Alignment explanation
Indices: 8560211--8560300 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 35
8560201 CTTTCCCTTT
*
8560211 TTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCC
1 TTTTC-TT-CTTCTTTCTTTC-CTTTT-TTCTCTTCTCC
8560250 TTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCC
1 TTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCC
*
8560285 TTTCCTT-TTCTTTCTT
1 TTTTCTTCTTCTTTCTT
8560301 CCCTCTCCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
34 9 0.18
35 17 0.35
36 4 0.08
37 12 0.24
38 2 0.04
39 5 0.10
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (35 bp):
TTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCC
Found at i:8560287 original size:83 final size:83
Alignment explanation
Indices: 8560173--8560334 Score: 233
Period size: 83 Copynumber: 1.9 Consensus size: 83
8560163 CTTTCTTCCC
*
8560173 TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCCTTTT-TTTCTTTCCT-T-CTTTCTTTCTTT
1 TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTT-CCTTTTCTTTCTTCCCTCTCCTTTCTTTCTTT
8560235 -TTTCTTCTCTTCTCCTTT
65 CTTTCTTCTCTTCTCCTTT
8560253 TCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTCCCTCTCCTTTCTTTCT
1 TCTTCTTC-TTCTTT--TTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTCCCTCTCCTTTCTTTCT
*
8560318 TTCCTTTTTTCTCTTCT
63 TT-CTTTCTTCTCTTCT
8560335 GCCCCACCAC
Statistics
Matches: 72, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
80 8 0.11
81 6 0.08
82 6 0.08
83 27 0.38
84 1 0.01
85 12 0.17
87 12 0.17
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (83 bp):
TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTCCCTCTCCTTTCTTTCTTTC
TTTCTTCTCTTCTCCTTT
Found at i:8560312 original size:18 final size:19
Alignment explanation
Indices: 8560231--8560322 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 19
8560221 TTCTTTCTTT
*
8560231 CTTT-TTTCTTCTCTTCTC
1 CTTTCTTTCTTCTCCTCTC
* *
8560249 CTTT-TCTTCTTCTTTCTTTC
1 CTTTCT-TTCTTC-TCCTCTC
* *
8560269 CTTTTTTCTCTTCTCCTTTC
1 CTTTCTT-TCTTCTCCTCTC
8560289 CTTTTCTTTCTTC-CCTCTC
1 C-TTTCTTTCTTCTCCTCTC
8560308 CTTTCTTTCTT-TCCT
1 CTTTCTTTCTTCTCCT
8560323 TTTTTCTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
18 18 0.29
19 12 0.19
20 21 0.34
21 11 0.18
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (19 bp):
CTTTCTTTCTTCTCCTCTC
Found at i:8560440 original size:27 final size:27
Alignment explanation
Indices: 8560363--8560431 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
8560353 CATAAAACCA
8560363 ATTGGTGCCGCCAATGGTATTGGCACC
1 ATTGGTGCCGCCAATGGTATTGGCACC
*
8560390 ATTGGTGCCGCCAATGGTTTTGGCACC
1 ATTGGTGCCGCCAATGGTATTGGCACC
*
8560417 TTTGGTGCCGCCAAT
1 ATTGGTGCCGCCAAT
8560432 ACCATTGGCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (27 bp):
ATTGGTGCCGCCAATGGTATTGGCACC
Found at i:8560532 original size:29 final size:28
Alignment explanation
Indices: 8560500--8560600 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 28
8560490 GTTTTTTTAT
8560500 ATATTTTGGTAAATAATAAAAAAGTT-TAA
1 ATATTTTGGTAAATAA-AAAAAAGTTGT-A
8560529 ATATTTTGGTAAATAAAAGAAAAGTTGTA
1 ATATTTTGGTAAATAAAA-AAAAGTTGTA
8560558 ATATTTTGGTAAATAAAAAAATAGTTGTA
1 ATATTTTGGTAAATAAAAAAA-AGTTGTA
8560587 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
8560601 TTTTATTTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
28 5 0.07
29 63 0.91
30 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Done.