Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 21 of 345
Found at i:6978640 original size:15 final size:17
Alignment explanation
Indices: 6978619--6978663 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
6978609 TTATATATAT
6978619 TTTTATAAATTTAT-AA
1 TTTTATAAATTTATCAA
*
6978635 -TTTAT-AATTTTTCAA
1 TTTTATAAATTTATCAA
*
6978650 TTTTTTAAATTTAT
1 TTTTATAAATTTAT
6978664 TTTTCATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 4 0.17
17 6 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATAAATTTATCAA
Found at i:6985490 original size:35 final size:35
Alignment explanation
Indices: 6985441--6985510 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
6985431 TGAAGTTAAA
*
6985441 TTTTTTTTTGAAATAGCGAATAGTATACTAGAAAT
1 TTTTTTTTTGAAATAGCGAATAGTATACTAAAAAT
*
6985476 TTTTTTTTTTAAATAGCGAATAGTATACTAAAAAT
1 TTTTTTTTTGAAATAGCGAATAGTATACTAAAAAT
6985511 AAATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (35 bp):
TTTTTTTTTGAAATAGCGAATAGTATACTAAAAAT
Found at i:6987362 original size:51 final size:51
Alignment explanation
Indices: 6987286--6987550 Score: 424
Period size: 51 Copynumber: 5.2 Consensus size: 51
6987276 ACTTCTGATC
* *
6987286 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
6987337 AGTGATAAATGATAAGGGGTAGCTTTAGCTACACTTATCTGATTAATGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
6987388 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
6987439 AGTGATAAATGATAAGT-GTAGCTTTAGCTACATTTATCTGATCAATGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
6987489 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
6987540 AGTGATAAATG
1 AGTGATAAATG
6987551 TGATCAGTGT
Statistics
Matches: 194, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 46 0.24
51 148 0.76
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:6987511 original size:101 final size:102
Alignment explanation
Indices: 6987286--6987550 Score: 478
Period size: 101 Copynumber: 2.6 Consensus size: 102
6987276 ACTTCTGATC
* *
6987286 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
*
6987351 AGGGGTAGCTTTAGCTACACTTATCTGATTAATGACA
66 AGGGGTAGCTTTAGCTACACTTATCTGATCAATGACA
6987388 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
* *
6987453 A-GTGTAGCTTTAGCTACATTTATCTGATCAATGACA
66 AGGGGTAGCTTTAGCTACACTTATCTGATCAATGACA
6987489 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
6987551 TGATCAGTGT
Statistics
Matches: 158, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
101 94 0.59
102 64 0.41
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (102 bp):
AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
AGGGGTAGCTTTAGCTACACTTATCTGATCAATGACA
Found at i:6987593 original size:101 final size:97
Alignment explanation
Indices: 6987286--6987602 Score: 340
Period size: 101 Copynumber: 3.1 Consensus size: 97
6987276 ACTTCTGATC
* *
6987286 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
* *
6987351 AGGGGTAG-CTTTAGCTACACTTATCTGATT-AATGACA
66 A-GTGTAGCCTTGA-C-ACAC-TA--TGATTCAA-GACA
6987388 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
* *
6987453 AGTGTAG-CTTTAGCTACATTTATCTGA-TCAATGACA
66 AGTGTAGCCTTGA-C-ACA-CTA--TGATTCAA-GACA
6987489 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGTGA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA--TGA
* * *
6987554 TCAGTGTAAGACCGTGACAGGACTATGACTTCAA-A-A
64 TAAGTGT-AG-CCTTGACA-CACTATGA-TTCAAGACA
6987590 AGTGATAAGTGAT
1 AGTGATAAGTGAT
6987603 CATACGCAAT
Statistics
Matches: 196, Mismatches: 9, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
100 1 0.01
101 104 0.53
102 68 0.35
103 9 0.05
104 9 0.05
105 2 0.01
106 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (97 bp):
AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATGATA
AGTGTAGCCTTGACACACTATGATTCAAGACA
Found at i:6989064 original size:24 final size:26
Alignment explanation
Indices: 6989024--6989079 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
6989014 ATTGAGTGAC
*
6989024 CAAAATAAAAACTAC-AAATTATAAA
1 CAAAATAAAAACTACAAAACTATAAA
* *
6989049 CAAAATAAAATC-ACAAAACTGTAAA
1 CAAAATAAAAACTACAAAACTATAAA
6989074 CAAAAT
1 CAAAAT
6989080 CATAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.18
Consensus pattern (26 bp):
CAAAATAAAAACTACAAAACTATAAA
Found at i:6989469 original size:11 final size:12
Alignment explanation
Indices: 6989444--6989493 Score: 61
Period size: 11 Copynumber: 4.4 Consensus size: 12
6989434 TTTAATGTAC
*
6989444 TTATATTTATGA
1 TTATATTTATAA
6989456 TTATA-TTATAA
1 TTATATTTATAA
6989467 TTATA-TTAT-A
1 TTATATTTATAA
*
6989477 TTATATTTATAT
1 TTATATTTATAA
6989489 TTATA
1 TTATA
6989494 AATTCTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 6 0.18
11 18 0.53
12 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATATTTATAA
Found at i:6989476 original size:16 final size:16
Alignment explanation
Indices: 6989444--6989489 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
6989434 TTTAATGTAC
6989444 TTATATTTATGATTATA
1 TTATATTTAT-ATTATA
*
6989461 TTATAATTATATTATA
1 TTATATTTATATTATA
6989477 TTATATTTATATT
1 TTATATTTATATT
6989490 TATAAATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATATTTATATTATA
Found at i:6989493 original size:6 final size:5
Alignment explanation
Indices: 6989444--6989489 Score: 56
Period size: 5 Copynumber: 8.4 Consensus size: 5
6989434 TTTAATGTAC
6989444 TTATA TTTATGA TTATA TTATAA TTATA TTATA TTATA TTTATA TT
1 TTATA -TTAT-A TTATA TTAT-A TTATA TTATA TTATA -TTATA TT
6989490 TATAAATTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 18 0.49
6 18 0.49
7 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:6993300 original size:43 final size:43
Alignment explanation
Indices: 6993239--6993325 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
6993229 CTACTCTTTT
*
6993239 AGCTTTTGCAATTTAATCTCTATGTTCCTAGTTCTAATAATTC
1 AGCTTTTGCAATTTAATCTCTATGTTCCTAATTCTAATAATTC
6993282 AGCTTTTGCAATTTAATCTCTATGTTCCTAATTCTAATAATTC
1 AGCTTTTGCAATTTAATCTCTATGTTCCTAATTCTAATAATTC
6993325 A
1 A
6993326 ATCTCTCTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (43 bp):
AGCTTTTGCAATTTAATCTCTATGTTCCTAATTCTAATAATTC
Found at i:7001260 original size:2 final size:2
Alignment explanation
Indices: 7001242--7001279 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
7001232 TTTGTAAACA
*
7001242 AT AT TT AT AT CAT 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 AT AT AT AT AT AT A
7001280 AATAGGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7005386 original size:33 final size:32
Alignment explanation
Indices: 7005326--7005412 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 32
7005316 CAATATATAA
7005326 AAATATTTATTTAAATTTAATTATAAAAATAT
1 AAATATTTATTTAAATTTAATTATAAAAATAT
* * *
7005358 AAATATTTATTTAAAATTTACTTTTAAAAATGT
1 AAATATTTATTT-AAATTTAATTATAAAAATAT
7005391 AAATCCA-TTATATTAAATTTAA
1 AAAT--ATTTAT-TTAAATTTAA
7005413 AGTTAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 12 0.26
33 21 0.45
34 11 0.23
35 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (32 bp):
AAATATTTATTTAAATTTAATTATAAAAATAT
Found at i:7010931 original size:55 final size:55
Alignment explanation
Indices: 7010871--7010978 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
7010861 TACTCCTCCG
7010871 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAATT
1 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAATT
7010926 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAA
1 GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAA
7010979 AATTGTTATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (55 bp):
GTTCTAATGATCTCGATCTATACAAGAATTTGTGGGTTCAATGCAAATGCGAATT
Found at i:7011253 original size:75 final size:75
Alignment explanation
Indices: 7011129--7011268 Score: 208
Period size: 75 Copynumber: 1.9 Consensus size: 75
7011119 AGACACGTTA
* *
7011129 GATCACCAAATCCAAGAATCCAAACCCCCAACTGGACTCTTTCCCTGCACATCGTCTCTGGAACT
1 GATCACCAAATCCAAGAATCCAAAACCCCAACTGGACTCTTTCCCTGCACATCGTCTCTGCAACT
7011194 AGACTCCTTG
66 AGACTCCTTG
* * *** *
7011204 GATCACCAAATCCAAGAGTCCAAAACCCCTACTGGACTCTTTGTTTGCACATCGTTTCTGCAACT
1 GATCACCAAATCCAAGAATCCAAAACCCCAACTGGACTCTTTCCCTGCACATCGTCTCTGCAACT
7011269 TGCGATTGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.25
Consensus pattern (75 bp):
GATCACCAAATCCAAGAATCCAAAACCCCAACTGGACTCTTTCCCTGCACATCGTCTCTGCAACT
AGACTCCTTG
Found at i:7028182 original size:3 final size:3
Alignment explanation
Indices: 7028176--7028200 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7028166 CTTTCTAATT
7028176 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
7028201 ACTTTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7029775 original size:12 final size:12
Alignment explanation
Indices: 7029758--7029783 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7029748 CCTGATTTTT
7029758 CTTCAGCTTCTC
1 CTTCAGCTTCTC
7029770 CTTCAGCTTCTC
1 CTTCAGCTTCTC
7029782 CT
1 CT
7029784 GGTTCAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.08, T:0.42
Consensus pattern (12 bp):
CTTCAGCTTCTC
Found at i:7035000 original size:16 final size:16
Alignment explanation
Indices: 7034977--7035009 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7034967 TTGAATTGAA
*
7034977 AATTTTTTATTTT-TC
1 AATTTTTTTTTTTGTC
7034992 AATTTTTTTTTTTGTC
1 AATTTTTTTTTTTGTC
7035008 AA
1 AA
7035010 AATCAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (16 bp):
AATTTTTTTTTTTGTC
Found at i:7038690 original size:21 final size:21
Alignment explanation
Indices: 7038649--7038705 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
7038639 AGTAAACTAT
*
7038649 AAAAGATTATAAAA-TTAATAA
1 AAAATATT-TAAAATTTAATAA
*
7038670 AAAATATTTAAAATTTTATAA
1 AAAATATTTAAAATTTAATAA
* *
7038691 AGACATATTAAAAAT
1 A-AAATATTTAAAAT
7038706 ATATGAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 14 0.47
22 11 0.37
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAATATTTAAAATTTAATAA
Found at i:7039308 original size:27 final size:27
Alignment explanation
Indices: 7039271--7039349 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
7039261 TTAAATAAGT
*
7039271 TTTATTA-ATTTATAATTTTTTTACA-A
1 TTTATTAGATTTATAATTTTTATA-ATA
* *
7039297 TTTATTAGATTTTTTATTTTTATAATA
1 TTTATTAGATTTATAATTTTTATAATA
* * *
7039324 CTTATTAGTTTTTATAATTTTAATAA
1 TTTATTAG-ATTTATAATTTTTATAA
7039350 GTTTATATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 8 0.19
27 21 0.50
28 13 0.31
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTATTAGATTTATAATTTTTATAATA
Found at i:7039352 original size:19 final size:20
Alignment explanation
Indices: 7039330--7039368 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7039320 AATACTTATT
*
7039330 AGTTTTTAT-AATTTTAATA
1 AGTTTATATCAATTTTAATA
7039349 AGTTTATATCAATTTTAATA
1 AGTTTATATCAATTTTAATA
7039369 TTTTTAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
AGTTTATATCAATTTTAATA
Found at i:7039355 original size:27 final size:27
Alignment explanation
Indices: 7039256--7039355 Score: 66
Period size: 27 Copynumber: 3.7 Consensus size: 27
7039246 ACACATTCTT
*
7039256 TAATTTTAAATAAGTTTTATTA--ATTTA
1 TAATTTT-AATAAG-TTTATTAGTTTTTA
** *
7039283 TAATTTTTTTACAATTTATTAGATTTTT-
1 TAATTTTAATA-AGTTTATTAG-TTTTTA
*
7039311 T-ATTTTTATAA-TACTTATTAGTTTTTA
1 TAATTTTAATAAGT--TTATTAGTTTTTA
7039338 TAATTTTAATAAGTTTAT
1 TAATTTTAATAAGTTTAT
7039356 ATCAATTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
25 1 0.02
26 15 0.26
27 28 0.48
28 10 0.17
29 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (27 bp):
TAATTTTAATAAGTTTATTAGTTTTTA
Found at i:7039365 original size:28 final size:29
Alignment explanation
Indices: 7039195--7039374 Score: 64
Period size: 27 Copynumber: 6.4 Consensus size: 29
7039185 TTTATGAATT
* *
7039195 TTTTTTAATTTTTATAAGTTTATATCA-A
1 TTTTATAATTTTAATAAGTTTATATCAGA
* * ** *
7039223 TTTTATTATTTTTAAGAAGTCCA-A-CACA
1 TTTTA-TAATTTTAATAAGTTTATATCAGA
*
7039251 TTCTT-TAATTTTAAATAAGTTT-TATTA-A
1 TT-TTATAATTTT-AATAAGTTTATATCAGA
** *
7039279 -TTTATAATTTTTTTACAATTTAT-T-AGA
1 TTTTATAATTTTAATA-AGTTTATATCAGA
* * *
7039306 TTTT-TTATTTTTATAA-TACTTAT-T-AGT
1 TTTTATAATTTTAATAAGT--TTATATCAGA
7039333 TTTTATAATTTTAATAAGTTTATATCA-A
1 TTTTATAATTTTAATAAGTTTATATCAGA
*
7039361 TTTTAATATTTTTA
1 TTTT-ATAATTTTA
7039375 GCATTTTTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
25 1 0.01
26 6 0.05
27 46 0.41
28 35 0.31
29 25 0.22
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTTATAATTTTAATAAGTTTATATCAGA
Found at i:7039374 original size:20 final size:19
Alignment explanation
Indices: 7039339--7039391 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
7039329 TAGTTTTTAT
*
7039339 AATTTTAATAAGTTTATATC
1 AATTTTAAT-ATTTTATATC
*
7039359 AATTTTAATATTTT-TAGC
1 AATTTTAATATTTTATATC
*
7039377 ATTTTTAATATTTTA
1 AATTTTAATATTTTA
7039392 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.55
19 4 0.14
20 9 0.31
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
AATTTTAATATTTTATATC
Found at i:7040215 original size:29 final size:30
Alignment explanation
Indices: 7040183--7040241 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
7040173 TATAGTTTGA
*
7040183 TGTGTAATTGTATACATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
7040212 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
7040242 GATTCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:7041853 original size:2 final size:2
Alignment explanation
Indices: 7041846--7041884 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7041836 ACTTGTTGGT
7041846 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7041885 CTTTATTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7044009 original size:12 final size:12
Alignment explanation
Indices: 7043992--7044045 Score: 90
Period size: 12 Copynumber: 4.5 Consensus size: 12
7043982 AAGTACAAGC
7043992 ACAAACCCGAGG
1 ACAAACCCGAGG
*
7044004 ACAAACCCGAGC
1 ACAAACCCGAGG
7044016 ACAAACCCGAGG
1 ACAAACCCGAGG
*
7044028 AAAAACCCGAGG
1 ACAAACCCGAGG
7044040 ACAAAC
1 ACAAAC
7044046 ACGAACACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.46, C:0.33, G:0.20, T:0.00
Consensus pattern (12 bp):
ACAAACCCGAGG
Found at i:7044057 original size:24 final size:24
Alignment explanation
Indices: 7043989--7044057 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
7043979 CGTAAGTACA
* **
7043989 AGCACAAACCCGAGGACAAACCCG
1 AGCACAAACACGAACACAAACCCG
* ** *
7044013 AGCACAAACCCGAGGAAAAACCCG
1 AGCACAAACACGAACACAAACCCG
*
7044037 AGGACAAACACGAACACAAAC
1 AGCACAAACACGAACACAAAC
7044058 TACTTGCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.48, C:0.33, G:0.19, T:0.00
Consensus pattern (24 bp):
AGCACAAACACGAACACAAACCCG
Found at i:7046254 original size:92 final size:92
Alignment explanation
Indices: 7046095--7046269 Score: 206
Period size: 92 Copynumber: 1.9 Consensus size: 92
7046085 AAATTTCGCA
* * * * * * * **
7046095 TTTGGTACTTGTACTTTCATGAAATGTTCAATGTAATATTTGTACTTTGAAAATATTTAATGCGG
1 TTTGGTACATATACTTTCATAAAATGTTCAATATAATATCTCTACTTTAAAAATATCCAATGCGG
*
7046160 TACCTGAACTATCAATATTTATTTTCT
66 TACATGAACTATCAATATTTATTTTCT
* * * *
7046187 TTTGGTACATATACTTTTATAAAATGTTCAATATGATATCTCTACTTTAAAAATGTCCAATGTGG
1 TTTGGTACATATACTTTCATAAAATGTTCAATATAATATCTCTACTTTAAAAATATCCAATGCGG
* *
7046252 TACATTAACTATCGATAT
66 TACATGAACTATCAATAT
7046270 ATGTATTATT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
92 67 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (92 bp):
TTTGGTACATATACTTTCATAAAATGTTCAATATAATATCTCTACTTTAAAAATATCCAATGCGG
TACATGAACTATCAATATTTATTTTCT
Found at i:7051830 original size:13 final size:13
Alignment explanation
Indices: 7051812--7051838 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7051802 TTATTGTATG
7051812 AGTACAATTTAAT
1 AGTACAATTTAAT
7051825 AGTACAATTTAAT
1 AGTACAATTTAAT
7051838 A
1 A
7051839 TTATTTCATC
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AGTACAATTTAAT
Found at i:7053408 original size:93 final size:93
Alignment explanation
Indices: 7053249--7053419 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
7053239 GGATGGTTGA
* *
7053249 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
7053314 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
7053342 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
7053407 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
7053420 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:7053422 original size:46 final size:45
Alignment explanation
Indices: 7053253--7053424 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
7053243 GGTTGAGCAT
* * * *
7053253 CCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAACGC
* * *
7053299 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAAC---GC
7053344 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAACGC
*
7053392 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
7053425 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAACGC
Found at i:7058954 original size:16 final size:17
Alignment explanation
Indices: 7058933--7058967 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7058923 TAATGTTTAG
7058933 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
7058949 GAAAATTATCTTAATTGA
1 GAAAATTA-CTTAATTGA
7058967 G
1 G
7058968 GGGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:7060102 original size:50 final size:51
Alignment explanation
Indices: 7060024--7060153 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 51
7060014 GGACCATGGC
* *
7060024 AACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAAGATAAGT
1 AACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAAGACAAAT
* * *
7060075 GA-AAGTGATAAGTGATACCTTCGGCTACACTTATCTGATCAAGGACAAAT
1 AACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAAGACAAAT
* * *
7060125 AACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 AACAAGTGATAAGTGATAACTTCGGCTAC
7060154 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (51 bp):
AACAAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAAGACAAAT
Found at i:7060167 original size:31 final size:31
Alignment explanation
Indices: 7060129--7060215 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
7060119 ACAAATAACA
7060129 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
7060160 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
7060191 AGTGAATAGTGGTAGCCTCTGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
7060216 AAGTGACAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:7060296 original size:45 final size:45
Alignment explanation
Indices: 7060232--7060318 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
7060222 CAAGTAATTT
*
7060232 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGCTA
7060277 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATG
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATG
7060319 TGATTCGTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (45 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGCTA
Found at i:7060365 original size:36 final size:36
Alignment explanation
Indices: 7060315--7060386 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
7060305 ATCAGTGAGA
* *
7060315 TATGTGATTCGTGTAAGATCATAGCTGGGTTATGGC
1 TATGTGATTCGTGTAAGACCATAGCTGGGCTATGGC
*
7060351 TATGTGATTTGTGTAAGACCATAGCTGGGCTATGGC
1 TATGTGATTCGTGTAAGACCATAGCTGGGCTATGGC
7060387 ATCGATATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (36 bp):
TATGTGATTCGTGTAAGACCATAGCTGGGCTATGGC
Found at i:7060456 original size:42 final size:43
Alignment explanation
Indices: 7060360--7060524 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 43
7060350 CTATGTGATT
* *
7060360 TGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGA
1 TGTGTAAGACCATAGCTGGACTATGGCATCG--AT-T-ATATGAAGA
* *
7060406 TTACGTGTAAGACCATAGCTGGTCTATGGCATCGA-TATATGAATA
1 -T--GTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
* * *
7060451 TGTGTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
*
7060493 TGTGTAAGACCATAGCTGAACTATGGCATCGA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGA
7060525 GAAAACGAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 62 0.60
43 1 0.01
44 6 0.06
45 2 0.02
47 2 0.02
49 29 0.28
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
Found at i:7060475 original size:91 final size:88
Alignment explanation
Indices: 7060237--7060524 Score: 253
Period size: 91 Copynumber: 3.3 Consensus size: 88
7060227 AATTTCTGTA
* ** * * * *
7060237 TAAGACCATATCTGGGATATGGCATCAGTGTGATATGCTACTGTATAAGACCATA-TCTGGGATA
1 TAAGACCATAGCTGGTCTATGGCATC-G-AT-ATATGATA-TGTGTAAGACCATAGT-TGGGCTA
* *
7060301 TGGCATCA-GTGAGATATGTGATTCGTG
61 TGGCATCATATGTGATATGTGATTCGTG
* * * *
7060328 TAAGATCATAGCTGGGT-TATGG---C--TATGTGATTTGTGTAAGACCATAGCTGGGCTATGGC
1 TAAGACCATAGCT-GGTCTATGGCATCGATATATGATATGTGTAAGACCATAGTTGGGCTATGGC
7060387 ATCGATATGTGATATGTGATTACGTG
65 ATC-ATATGTGATATGTGATT-CGTG
7060413 TAAGACCATAGCTGGTCTATGGCATCGATATATGAATATGTGTAAGACCATAGTTGGGCTATGGC
1 TAAGACCATAGCTGGTCTATGGCATCGATATATG-ATATGTGTAAGACCATAGTTGGGCTATGGC
7060478 ATCATTATGTGA-A---GA-T-GTG
65 ATCA-TATGTGATATGTGATTCGTG
**
7060497 TAAGACCATAGCTGAACTATGGCATCGA
1 TAAGACCATAGCTGGTCTATGGCATCGA
7060525 GAAAACGAAG
Statistics
Matches: 167, Mismatches: 17, Indels: 33
0.77 0.08 0.15
Matches are distributed among these distances:
82 26 0.16
83 6 0.04
84 46 0.28
85 21 0.13
86 1 0.01
87 2 0.01
88 2 0.01
90 7 0.04
91 54 0.32
92 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (88 bp):
TAAGACCATAGCTGGTCTATGGCATCGATATATGATATGTGTAAGACCATAGTTGGGCTATGGCA
TCATATGTGATATGTGATTCGTG
Found at i:7061742 original size:127 final size:127
Alignment explanation
Indices: 7061604--7061946 Score: 447
Period size: 127 Copynumber: 2.7 Consensus size: 127
7061594 AAGGGATGTT
* * * * * *
7061604 TGATTATTTAGATAAACAAAAAATCGAAACCCAGCACATTAGGGCACGATTTCC-CGAATTCCCA
1 TGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACGA-TCCCTCGAATTTCTA
* * * **
7061668 AACATCAACCATCGCTTTTGTTTTAAAGCTTAGAAAATGCGAATGAAATTTAAAAGGAAAATC
65 AACATCAAACATCGCTTTCGTTTTAAAGCTTAGAAAACGCGAACAAAATTTAAAAGGAAAATC
*
7061731 TGATTATTTAGACAAATAAAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTTCTAA
1 TGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTTCTAA
* * * * * * *
7061796 ACATCAAATATCGCCTTCGTTTTAAGGTTTAGAAAACGCGGACAAAATTTTAAAGGAAAATT
66 ACATCAAACATCGCTTTCGTTTTAAAGCTTAGAAAACGCGAACAAAATTTAAAAGGAAAATC
* * *
7061858 TGACTATTTAGACAAACGAAAGA-CTGAAACCCAACACATTAGGGCACAATCCCTCGAATTTCTA
1 TGATTATTTAGACAAACAAAAGATC-GAAACCCAACACATTAGGGCACGATCCCTCGAATTTCTA
*
7061922 AACATCAAACATCACTTTCGTTTTA
65 AACATCAAACATCGCTTTCGTTTTA
7061947 TAAAGTCAAC
Statistics
Matches: 188, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
126 4 0.02
127 184 0.98
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (127 bp):
TGATTATTTAGACAAACAAAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTTCTAA
ACATCAAACATCGCTTTCGTTTTAAAGCTTAGAAAACGCGAACAAAATTTAAAAGGAAAATC
Found at i:7062378 original size:20 final size:17
Alignment explanation
Indices: 7062335--7062380 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 17
7062325 AGGACCAATG
7062335 AATTAAAATAATATAAA
1 AATTAAAATAATATAAA
7062352 AA-T-AAATAATATAACA
1 AATTAAAATAATATAA-A
7062368 AGATTTAAAATAA
1 A-A-TTAAAATAA
7062381 ATGATAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 11 0.46
16 3 0.12
17 3 0.12
19 1 0.04
20 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
AATTAAAATAATATAAA
Found at i:7062463 original size:25 final size:27
Alignment explanation
Indices: 7062411--7062483 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
7062401 AAGTACAAAA
7062411 TAAAATAAATAATATATAAAAAAAGGTT
1 TAAAATAAATAATATAT-AAAAAAGGTT
* *
7062439 TAAAAT-AATAATATAT-GAAACGGTT
1 TAAAATAAATAATATATAAAAAAGGTT
* * *
7062464 CAGAATAAACAATATATAAA
1 TAAAATAAATAATATATAAA
7062484 TTTTAAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
25 11 0.30
26 9 0.24
27 11 0.30
28 6 0.16
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.27
Consensus pattern (27 bp):
TAAAATAAATAATATATAAAAAAGGTT
Found at i:7063114 original size:3 final size:3
Alignment explanation
Indices: 7063106--7063144 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7063096 TATGTTCAAA
7063106 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
7063145 GAAAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7064951 original size:2 final size:2
Alignment explanation
Indices: 7064946--7064975 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7064936 TTCTTGAATC
7064946 TA TA 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 TA TA
7064976 AATTTCTCTA
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):
TA
Found at i:7065798 original size:108 final size:108
Alignment explanation
Indices: 7065626--7065826 Score: 357
Period size: 108 Copynumber: 1.9 Consensus size: 108
7065616 AAAAAACACG
* *
7065626 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
7065691 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
*
7065734 TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTATTTGAAATTTTATTATTT
1 TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
* *
7065799 AAAATTTATTCTAACTTAACATATCATT
66 AAAACTTATTCCAACTTAACATATCATT
7065827 TTAAAAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAAAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:7069359 original size:21 final size:21
Alignment explanation
Indices: 7069333--7069374 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7069323 TCGTCGTACA
7069333 AAGCCTTCTTTTCGCTGGAGC
1 AAGCCTTCTTTTCGCTGGAGC
7069354 AAGCCTTCTTTTCGCTGGAGC
1 AAGCCTTCTTTTCGCTGGAGC
7069375 CGTCGGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.24, T:0.33
Consensus pattern (21 bp):
AAGCCTTCTTTTCGCTGGAGC
Found at i:7071196 original size:29 final size:29
Alignment explanation
Indices: 7071164--7071224 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
7071154 TCACACTTTT
7071164 ATTAATCTCCTTATTTTTTAAATTTAAAA
1 ATTAATCTCCTTATTTTTTAAATTTAAAA
7071193 ATTAATCTCCTTATTTTTTAAATTTAAAA
1 ATTAATCTCCTTATTTTTTAAATTTAAAA
7071222 ATT
1 ATT
7071225 CAAACTCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTAATCTCCTTATTTTTTAAATTTAAAA
Found at i:7072172 original size:29 final size:26
Alignment explanation
Indices: 7072131--7072189 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
7072121 AACAAAATAT
7072131 TTGAGCTAATTAATGACGTTGTAAAAAAA
1 TTGAGCTAATTAATGA---TGTAAAAAAA
* * *
7072160 TTGAGGTATTTAATTATGTAAAAAAA
1 TTGAGCTAATTAATGATGTAAAAAAA
7072186 TTGA
1 TTGA
7072190 AGTACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.52
29 13 0.48
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (26 bp):
TTGAGCTAATTAATGATGTAAAAAAA
Found at i:7075571 original size:17 final size:18
Alignment explanation
Indices: 7075549--7075585 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7075539 ACCACCCTAT
*
7075549 TTTATTT-TATGTTTGAA
1 TTTATTTATATGTTAGAA
7075566 TTTATTTATATGTTAGAA
1 TTTATTTATATGTTAGAA
7075584 TT
1 TT
7075586 AAGTAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (18 bp):
TTTATTTATATGTTAGAA
Found at i:7077155 original size:19 final size:19
Alignment explanation
Indices: 7077133--7077176 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7077123 ATTTAAATTG
*
7077133 ACAATCAATATATATTT-AA
1 ACAATCAAGA-ATATTTAAA
*
7077152 ACAATAAAGAATATTTAAA
1 ACAATCAAGAATATTTAAA
7077171 ACAATC
1 ACAATC
7077177 CAAACAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ACAATCAAGAATATTTAAA
Found at i:7082360 original size:101 final size:99
Alignment explanation
Indices: 7082223--7082424 Score: 298
Period size: 101 Copynumber: 2.0 Consensus size: 99
7082213 ACAGTTTACA
* *
7082223 AGTAGGTTACGTTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACTG
1 AGTAGGTTACATTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACAG
* * *
7082288 AAAAAAAAGTTGTAAAGATTATCCTAGGTTCTCCACT
66 -AAAAAAAGATCTAAAGATTATCCAAGGTT-TCC-CT
* *
7082325 AGTAGGTTACATTAAAG-AGTTTCATTCTTGATTTATTTCATGAGTTAATGCATTATTGGTACAG
1 AGTAGGTTACATTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACAG
*
7082389 AAAAATAGATCTAAAGATTATCCAAGGTTTCCCT
66 AAAAAAAGATCTAAAGATTATCCAAGGTTTCCCT
7082423 AG
1 AG
7082425 AAGACTGCTG
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.04
99 3 0.03
100 25 0.27
101 44 0.48
102 16 0.17
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (99 bp):
AGTAGGTTACATTAAAGAAATTTCATTCTTGATTTATTTCATGAGTTAATGCATGATTGGTACAG
AAAAAAAGATCTAAAGATTATCCAAGGTTTCCCT
Found at i:7090499 original size:18 final size:21
Alignment explanation
Indices: 7090478--7090516 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7090468 TAATAATATA
7090478 ATTTA-ATA-ATA-TAAAAAT
1 ATTTAGATATATATTAAAAAT
7090496 ATTTAGATATATATTAAAAAT
1 ATTTAGATATATATTAAAAAT
7090517 GAAAAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 3 0.17
21 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
ATTTAGATATATATTAAAAAT
Found at i:7092697 original size:21 final size:21
Alignment explanation
Indices: 7092660--7092699 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7092650 TGACAAATGC
*
7092660 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
7092681 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
7092700 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:7092970 original size:26 final size:27
Alignment explanation
Indices: 7092936--7092999 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
7092926 TAAGTACAAT
*
7092936 TAGTTGCGCCTTTGAAAA-GGCTCAAC
1 TAGTCGCGCCTTTGAAAAGGGCTCAAC
7092962 TAGTCGCGCCTTTGAAAAGGGCTCAAC
1 TAGTCGCGCCTTTGAAAAGGGCTCAAC
7092989 TAGTCGCGCCT
1 TAGTCGCGCCT
7093000 CTAAGATAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 17 0.47
27 19 0.53
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (27 bp):
TAGTCGCGCCTTTGAAAAGGGCTCAAC
Found at i:7093082 original size:27 final size:27
Alignment explanation
Indices: 7093052--7093109 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
7093042 TACTGATCTG
* *
7093052 AAAATAAAAAAAAATTATTTT-ATTTAA
1 AAAACAAAAAAAAA-TATTTTAATATAA
7093079 AAAACAAAAAAAAATATTTTAATATAA
1 AAAACAAAAAAAAATATTTTAATATAA
7093106 AAAA
1 AAAA
7093110 GAATCGTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAACAAAAAAAAATATTTTAATATAA
Found at i:7095020 original size:26 final size:26
Alignment explanation
Indices: 7094991--7095061 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
7094981 ATTGTATATT
7094991 TTATAATAATAAATTATAATTTAAAA
1 TTATAATAATAAATTATAATTTAAAA
** * *
7095017 TTATTTTAATAATTTATATATTTATAA
1 TTATAATAATAAATTATA-ATTTAAAA
*
7095044 TTTTAA-AAT-AATTA-AATT
1 TTATAATAATAAATTATAATT
7095062 AATTTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 3 0.08
24 1 0.03
25 4 0.11
26 18 0.50
27 10 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTATAATAATAAATTATAATTTAAAA
Found at i:7107302 original size:28 final size:30
Alignment explanation
Indices: 7107271--7107339 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
7107261 TTGGGGTGGA
* *
7107271 GAGGTGGTG-GGCT-GATGATA-GCTATGGT
1 GAGGTGGGGAGGCTGGATGATATGC-ATGAT
7107299 GAGG-GGGGAGGCTGGATGATATGCATGAT
1 GAGGTGGGGAGGCTGGATGATATGCATGAT
7107328 GAGGTGGGGAGG
1 GAGGTGGGGAGG
7107340 GGGAACTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.09
28 8 0.23
29 15 0.43
30 9 0.26
ACGTcount: A:0.20, C:0.06, G:0.52, T:0.22
Consensus pattern (30 bp):
GAGGTGGGGAGGCTGGATGATATGCATGAT
Found at i:7109888 original size:51 final size:51
Alignment explanation
Indices: 7109821--7109929 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
7109811 TATAAAAAGA
7109821 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
1 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
7109872 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
1 CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
7109923 CACTAGA
1 CA-TAGA
7109930 GCTAAGCATG
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 53 0.93
52 4 0.07
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (51 bp):
CATAGACTATCCCTTTGTAAGTGATATGAAGAGATAAATATGAAAAGTAAG
Found at i:7115427 original size:40 final size:41
Alignment explanation
Indices: 7115352--7115428 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
7115342 ATATATGAGC
* *
7115352 TTAAATTATTGATTATTTATTAATTTGTTGGATATAAATTA
1 TTAAATTATTGATTATTTATTAATTTATAGGATATAAATTA
*
7115393 TTAAATTATTTATT-TTTATTAA-TTATAGGCATATAA
1 TTAAATTATTGATTATTTATTAATTTATAGG-ATATAA
7115429 GTATTTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 5 0.16
40 14 0.44
41 13 0.41
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (41 bp):
TTAAATTATTGATTATTTATTAATTTATAGGATATAAATTA
Found at i:7119901 original size:15 final size:15
Alignment explanation
Indices: 7119883--7119912 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7119873 AAATTTTAAT
*
7119883 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
7119898 TTTTTATAATTTATA
1 TTTTTATAATTTATA
7119913 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:7131751 original size:19 final size:19
Alignment explanation
Indices: 7131727--7131765 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7131717 AGCAACAACC
7131727 TTGAAAAATTGCACATTCT
1 TTGAAAAATTGCACATTCT
7131746 TTGAAAAATTGCACATTCT
1 TTGAAAAATTGCACATTCT
7131765 T
1 T
7131766 CATAAAGAAA
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:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TTGAAAAATTGCACATTCT
Found at i:7144005 original size:22 final size:24
Alignment explanation
Indices: 7143979--7144035 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
7143969 TTATTTGATC
7143979 TTTTAATTTTATAAAAA-TAAT-T
1 TTTTAATTTTATAAAAATTAATGT
* **
7144001 TTTTAAATAAATAAAAATTAATGT
1 TTTTAATTTTATAAAAATTAATGT
7144025 TTTTGAATTTT
1 TTTT-AATTTT
7144036 GCTAATATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
22 14 0.54
23 4 0.15
24 5 0.19
25 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTAATTTTATAAAAATTAATGT
Found at i:7144104 original size:9 final size:9
Alignment explanation
Indices: 7144090--7144129 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
7144080 ACATTTAATT
7144090 AAATTTTAA
1 AAATTTTAA
7144099 AAATTTTAA
1 AAATTTTAA
**
7144108 AAATTCAAA
1 AAATTTTAA
7144117 AAATTTATAA
1 AAATTT-TAA
7144127 AAA
1 AAA
7144130 CTATTTCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTTTAA
Found at i:7144189 original size:34 final size:34
Alignment explanation
Indices: 7144138--7144203 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
7144128 AACTATTTCT
7144138 AAAAATTAAGTCATTAAAATTATTAA-AAATTATA
1 AAAAATTAAGTCATT-AAATTATTAATAAATTATA
* *
7144172 AAAAATTATGTTC-TTAAATTTTTAATAAATTA
1 AAAAATTAAG-TCATTAAATTATTAATAAATTA
7144204 ATTAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 9 0.32
34 17 0.61
35 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (34 bp):
AAAAATTAAGTCATTAAATTATTAATAAATTATA
Found at i:7148252 original size:38 final size:38
Alignment explanation
Indices: 7148193--7148295 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
7148183 GCAGAGGGAA
*
7148193 AGGGATGGTGGGGGAGAGGGAGAGGGTCGGAGTAGGGGG
1 AGGGATGGT-GGGGAGAGGGAGAGGGTCGGAATAGGGGG
* **
7148232 AGGGACGGTGGGGAGAGGGAGAGAATCGGAATAGGGGG
1 AGGGATGGTGGGGAGAGGGAGAGGGTCGGAATAGGGGG
7148270 AGGGATGGTGGGGAAGAGGGAGAGGG
1 AGGGATGGTGGGG-AGAGGGAGAGGG
7148296 ATGGGAGAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 38 0.68
39 18 0.32
ACGTcount: A:0.25, C:0.03, G:0.63, T:0.09
Consensus pattern (38 bp):
AGGGATGGTGGGGAGAGGGAGAGGGTCGGAATAGGGGG
Found at i:7149805 original size:12 final size:12
Alignment explanation
Indices: 7149790--7149814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7149780 TCTAAATAAA
7149790 AAATTAAATTTT
1 AAATTAAATTTT
7149802 AAATTAAATTTT
1 AAATTAAATTTT
7149814 A
1 A
7149815 TAGAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTAAATTTT
Found at i:7154966 original size:30 final size:30
Alignment explanation
Indices: 7154930--7155009 Score: 160
Period size: 30 Copynumber: 2.7 Consensus size: 30
7154920 TAATAGCCCG
7154930 ACTGGAAATGAGCAAGATGGCTCTAACCGT
1 ACTGGAAATGAGCAAGATGGCTCTAACCGT
7154960 ACTGGAAATGAGCAAGATGGCTCTAACCGT
1 ACTGGAAATGAGCAAGATGGCTCTAACCGT
7154990 ACTGGAAATGAGCAAGATGG
1 ACTGGAAATGAGCAAGATGG
7155010 GACCAACAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (30 bp):
ACTGGAAATGAGCAAGATGGCTCTAACCGT
Found at i:7162077 original size:21 final size:21
Alignment explanation
Indices: 7162016--7162077 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
7162006 TGGAAGTGTA
* *
7162016 TCCTCAATTTCCTCTACCACC
1 TCCTCAGTTTCCTCTACCTCC
7162037 TCCTCAGTTTCCTCTACCTCC
1 TCCTCAGTTTCCTCTACCTCC
*
7162058 TCCTCAGTTTCCTCTGCCTC
1 TCCTCAGTTTCCTCTACCTC
7162078 ATTCCACAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.11, C:0.47, G:0.05, T:0.37
Consensus pattern (21 bp):
TCCTCAGTTTCCTCTACCTCC
Found at i:7168223 original size:26 final size:26
Alignment explanation
Indices: 7168194--7168301 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
7168184 TGGTACAAAT
*
7168194 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
7168220 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
7168246 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
7168272 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
7168298 TGAT
1 TGAT
7168302 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:7168256 original size:52 final size:52
Alignment explanation
Indices: 7168194--7168301 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
7168184 TGGTACAAAT
7168194 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
7168246 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
7168298 TGAT
1 TGAT
7168302 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:7171030 original size:93 final size:93
Alignment explanation
Indices: 7170918--7171089 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
7170908 CGCCCATAAG
* *
7170918 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7170983 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
7171011 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7171076 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
7171090 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:7171086 original size:46 final size:46
Alignment explanation
Indices: 7170911--7171086 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
7170901 TGTAACCCGC
* * *
7170911 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7170957 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
7171007 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7171050 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7171087 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7178591 original size:93 final size:93
Alignment explanation
Indices: 7178479--7178650 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
7178469 CGCCCATAAG
* *
7178479 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7178544 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
7178572 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7178637 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
7178651 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:7178647 original size:46 final size:46
Alignment explanation
Indices: 7178472--7178647 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
7178462 TGTAACCCGC
* * *
7178472 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7178518 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
7178568 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7178611 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7178648 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7180153 original size:26 final size:26
Alignment explanation
Indices: 7180124--7180176 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7180114 TTTACAGTTT
*
7180124 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
7180150 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
7180176 T
1 T
7180177 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:7195221 original size:6 final size:6
Alignment explanation
Indices: 7195210--7195235 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7195200 AAGAGGGAAA
7195210 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
7195236 CTAATGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:7195853 original size:25 final size:25
Alignment explanation
Indices: 7195832--7195878 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7195822 AAACAAATCG
*
7195832 ACAA-AAAGAGAACCTAATCAAATA
1 ACAAGAAAGAAAACCTAATCAAATA
*
7195856 ACAAGAAAGAAAACCTATTCAAA
1 ACAAGAAAGAAAACCTAATCAAA
7195879 ATTCAGTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.62, C:0.17, G:0.09, T:0.13
Consensus pattern (25 bp):
ACAAGAAAGAAAACCTAATCAAATA
Found at i:7203251 original size:26 final size:25
Alignment explanation
Indices: 7203217--7203274 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
7203207 GTTATATATC
*
7203217 ATTTT-AAATTAACTTATATATTCTT
1 ATTTTAAAATTAACTTATATA-CCTT
**
7203242 ATTTTAAAATTATTTTATATACCTT
1 ATTTTAAAATTAACTTATATACCTT
7203267 ATTTTAAA
1 ATTTTAAA
7203275 CCCATTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTTAAAATTAACTTATATACCTT
Found at i:7203281 original size:25 final size:26
Alignment explanation
Indices: 7203230--7203283 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
7203220 TTAAATTAAC
* **
7203230 TTATATATTCTTATTTTAAAATTATT
1 TTATATATCCTTATTTTAAAACCATT
*
7203256 TTATATA-CCTTATTTTAAACCCATT
1 TTATATATCCTTATTTTAAAACCATT
7203281 TTA
1 TTA
7203284 CTTATTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATATATCCTTATTTTAAAACCATT
Found at i:7207657 original size:4 final size:4
Alignment explanation
Indices: 7207648--7207682 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
7207638 TAGCAAACCT
7207648 TGCC TGCC TGCC TGCC TGCC TGCC TGCC TGCC TGC
1 TGCC TGCC TGCC TGCC TGCC TGCC TGCC TGCC TGC
7207683 TTTTTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.26, T:0.26
Consensus pattern (4 bp):
TGCC
Found at i:7211978 original size:2 final size:2
Alignment explanation
Indices: 7211971--7211998 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7211961 GAAATTAGAA
7211971 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7211999 TGAATTAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7222160 original size:15 final size:15
Alignment explanation
Indices: 7222134--7222195 Score: 81
Period size: 15 Copynumber: 4.1 Consensus size: 15
7222124 CCCTAAACAC
7222134 GAAAAAGAAAA-AGAG
1 GAAAAAGAAAAGA-AG
7222149 AGAAAAAGAAAAGAAG
1 -GAAAAAGAAAAGAAG
*
7222165 GAAAAAGAAGAGAAG
1 GAAAAAGAAAAGAAG
*
7222180 GAAAAAGAAGAGAAG
1 GAAAAAGAAAAGAAG
7222195 G
1 G
7222196 TGTCAGATCT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
15 30 0.68
16 13 0.30
17 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAGAAG
Found at i:7235145 original size:14 final size:14
Alignment explanation
Indices: 7235112--7235147 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
7235102 CCACCTTCTC
7235112 CCTTTCAGCCACTG
1 CCTTTCAGCCACTG
*
7235126 -CTTTCAGCCGCTG
1 CCTTTCAGCCACTG
7235139 CCTTTCAGC
1 CCTTTCAGC
7235148 TCTTGAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.11, C:0.42, G:0.17, T:0.31
Consensus pattern (14 bp):
CCTTTCAGCCACTG
Found at i:7236898 original size:55 final size:55
Alignment explanation
Indices: 7236816--7236926 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
7236806 TGTTTTGAAG
7236816 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCTAGA
1 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCTAGA
7236871 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCTAGA
1 AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCTAGA
7236926 A
1 A
7236927 GCAGCTCCCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (55 bp):
AATGAAATTTGATAAACAGGAAATTTTAACTAATTGCAGAAAGAATAAGGCTAGA
Found at i:7245989 original size:64 final size:64
Alignment explanation
Indices: 7245908--7246038 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
7245898 CATCTGCTTT
7245908 TGATCACTTAACTATTAATTTTTTTATTTAATCATTCAACTTTTTAAAACTAAATATTTTAAGC
1 TGATCACTTAACTATTAATTTTTTTATTTAATCATTCAACTTTTTAAAACTAAATATTTTAAGC
7245972 TGATCACTTAACTATTAATTTTTTTATTTAATCATTCAACTTTTTAAAACTAAATATTTTAAGC
1 TGATCACTTAACTATTAATTTTTTTATTTAATCATTCAACTTTTTAAAACTAAATATTTTAAGC
7246036 TGA
1 TGA
7246039 AGAGGATTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (64 bp):
TGATCACTTAACTATTAATTTTTTTATTTAATCATTCAACTTTTTAAAACTAAATATTTTAAGC
Found at i:7246240 original size:60 final size:61
Alignment explanation
Indices: 7246122--7246240 Score: 134
Period size: 60 Copynumber: 2.0 Consensus size: 61
7246112 ATAATAAATT
* * * ** * * *
7246122 TAATAAATTTAGCTCTCAATGTTTACAAAATTAGTCATTTTAGTTTTAATTTTCAAAATAA
1 TAATAAATTTAGCTCTCAATATTTAAAAAATTAGTCAATTTAGTCCTAACTCTAAAAATAA
*
7246183 TAATAAATTTGGC-CTCAATATTTAAAAAATATA-TCAATTTAGTCCTAACTCTAAAAAT
1 TAATAAATTTAGCTCTCAATATTTAAAAAAT-TAGTCAATTTAGTCCTAACTCTAAAAAT
7246241 TTAAAAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
60 34 0.71
61 14 0.29
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (61 bp):
TAATAAATTTAGCTCTCAATATTTAAAAAATTAGTCAATTTAGTCCTAACTCTAAAAATAA
Found at i:7248688 original size:14 final size:15
Alignment explanation
Indices: 7248663--7248691 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7248653 ACATATATTT
7248663 GAAAATAAAATAAGA
1 GAAAATAAAATAAGA
7248678 GAAAA-AAAATAAGA
1 GAAAATAAAATAAGA
7248692 TAATTAGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
GAAAATAAAATAAGA
Found at i:7248805 original size:18 final size:19
Alignment explanation
Indices: 7248784--7248829 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
7248774 TATATATATA
7248784 TATATAATTT-AGTATTT-T
1 TATATAATTTAAG-ATTTCT
*
7248802 TATATATTTTAAGATTTCT
1 TATATAATTTAAGATTTCT
7248821 TA-ATAATTT
1 TATATAATTT
7248830 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TATATAATTTAAGATTTCT
Found at i:7248808 original size:2 final size:2
Alignment explanation
Indices: 7248763--7248789 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7248753 AGGAACTTTA
7248763 AT 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 AT A
7248790 ATTTAGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7249920 original size:38 final size:38
Alignment explanation
Indices: 7249869--7249949 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
7249859 CTATGGTGAT
7249869 AAATAAAAAGCTTGATTATATTCTTAATTGGAGAAGAC
1 AAATAAAAAGCTTGATTATATTCTTAATTGGAGAAGAC
7249907 AAATAAAAAGCTTGATTATATTCTTAATTGGAGAAGAC
1 AAATAAAAAGCTTGATTATATTCTTAATTGGAGAAGAC
7249945 AAATA
1 AAATA
7249950 CAGAGCTCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (38 bp):
AAATAAAAAGCTTGATTATATTCTTAATTGGAGAAGAC
Found at i:7255030 original size:16 final size:17
Alignment explanation
Indices: 7255004--7255046 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
7254994 CGTCAATAAT
*
7255004 AATATAAAATTA-CAAAA
1 AATA-AAAATTATAAAAA
7255021 AATAAAAATTATAAAAA
1 AATAAAAATTATAAAAA
7255038 AATAAAAAT
1 AATAAAAAT
7255047 ATGAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAAATTATAAAAA
Found at i:7256390 original size:30 final size:30
Alignment explanation
Indices: 7256335--7256391 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7256325 ACTGCAGGGG
*
7256335 TCACATGGTTGTGTGGCCATGCCGTGTGAC
1 TCACATGGTTGTGTGGCCATCCCGTGTGAC
7256365 TCACATGGTT-TGTAGGCACA-CCCGTGT
1 TCACATGGTTGTGT-GGC-CATCCCGTGT
7256392 CTCAAGTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 19 0.79
31 2 0.08
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (30 bp):
TCACATGGTTGTGTGGCCATCCCGTGTGAC
Found at i:7257536 original size:2 final size:2
Alignment explanation
Indices: 7257529--7257560 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7257519 CAAGATATTG
*
7257529 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7257561 CATGATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7257800 original size:24 final size:24
Alignment explanation
Indices: 7257773--7257818 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7257763 AGTAATTCAC
*
7257773 CGTCAATTTATCCTTTACATTTTT
1 CGTCAATTCATCCTTTACATTTTT
7257797 CGTCAATTCATCCTTTACATTT
1 CGTCAATTCATCCTTTACATTT
7257819 GTAGTGCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.50
Consensus pattern (24 bp):
CGTCAATTCATCCTTTACATTTTT
Found at i:7258634 original size:17 final size:16
Alignment explanation
Indices: 7258593--7258630 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
7258583 ACTCAATAAC
7258593 CCCAAACCCTTACAAA
1 CCCAAACCCTTACAAA
7258609 CCCAAACCCTTACAAA
1 CCCAAACCCTTACAAA
7258625 CCCAAA
1 CCCAAA
7258631 ACCCAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.11
Consensus pattern (16 bp):
CCCAAACCCTTACAAA
Found at i:7259620 original size:26 final size:27
Alignment explanation
Indices: 7259576--7259629 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
7259566 TCTTCGTCTC
**
7259576 TCATTATTTTTGTTTTTATTAATATCA
1 TCATTATTTTTGTAATTATTAATATCA
7259603 TCATTATTTTTG-AATTATTAATATCA
1 TCATTATTTTTGTAATTATTAATATCA
7259629 T
1 T
7259630 TAATATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (27 bp):
TCATTATTTTTGTAATTATTAATATCA
Found at i:7260106 original size:23 final size:22
Alignment explanation
Indices: 7260074--7260119 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
7260064 ATAAGTTTTA
7260074 ATTATTATATTTT-ATATATATT
1 ATTATTATATTTTAATAT-TATT
7260096 ATTATGTATATTTTAATATTATT
1 ATTAT-TATATTTTAATATTATT
7260119 A
1 A
7260120 GGTATCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTATTATATTTTAATATTATT
Found at i:7260132 original size:23 final size:22
Alignment explanation
Indices: 7260079--7260124 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
7260069 TTTTAATTAT
*
7260079 TATATTTTATATATATTATTATG
1 TATATTTT-TATATATTATTAGG
7260102 TATA-TTTTA-ATATTATTAGG
1 TATATTTTTATATATTATTAGG
7260122 TAT
1 TAT
7260125 CTATTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 3 0.14
23 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TATATTTTTATATATTATTAGG
Found at i:7267008 original size:19 final size:19
Alignment explanation
Indices: 7266900--7267009 Score: 50
Period size: 19 Copynumber: 5.7 Consensus size: 19
7266890 AAAAAAGTTA
* *
7266900 ATTTTTAAT-TTTTAATTT
1 ATTTTTAATATTTTTATAT
*
7266918 ATTTATT-ATACTTCTTATA-
1 ATTT-TTAATA-TTTTTATAT
*
7266937 ATATTTTATTATTTTTA-AT
1 AT-TTTTAATATTTTTATAT
* *
7266956 ACTCTTT-ATAATTTTATAT
1 A-TTTTTAATATTTTTATAT
** *
7266975 ATTTGAAAACAATTTTTATAT
1 ATTT-TTAA-TATTTTTATAT
7266996 ATTTTTAATATTTT
1 ATTTTTAATATTTT
7267010 CTTCATAATT
Statistics
Matches: 65, Mismatches: 16, Indels: 21
0.64 0.16 0.21
Matches are distributed among these distances:
18 16 0.25
19 23 0.35
20 13 0.20
21 13 0.20
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTAATATTTTTATAT
Found at i:7267125 original size:9 final size:9
Alignment explanation
Indices: 7267111--7267144 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
7267101 TCATTTATAC
7267111 TAATTTTTA
1 TAATTTTTA
7267120 TAATTTTTA
1 TAATTTTTA
7267129 TAA-TTTTA
1 TAATTTTTA
7267137 TAATTTTT
1 TAATTTTT
7267145 TGCACTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TAATTTTTA
Found at i:7271841 original size:29 final size:30
Alignment explanation
Indices: 7271804--7271880 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
7271794 TCTAAATATC
* *
7271804 TAAACAAATAAAAAACT-ATA-TTTAAAGTA
1 TAAATAAATAAAAAA-TAATATTTTAAAGCA
*
7271833 TAAATAAATAAATAATAATATTTTAAAGCA
1 TAAATAAATAAAAAATAATATTTTAAAGCA
7271863 TAAAATAAAATACAAAAA
1 T-AAAT-AAATA-AAAAA
7271881 AAAAAAAGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.03
29 16 0.41
30 9 0.23
31 4 0.10
32 5 0.13
33 4 0.10
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (30 bp):
TAAATAAATAAAAAATAATATTTTAAAGCA
Found at i:7271971 original size:16 final size:16
Alignment explanation
Indices: 7271950--7271980 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7271940 GTGCTCTCCC
7271950 CTCCCCTCTCTCCTTT
1 CTCCCCTCTCTCCTTT
7271966 CTCCCCTCTCTCCTT
1 CTCCCCTCTCTCCTT
7271981 CTCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCCCCTCTCTCCTTT
Found at i:7273149 original size:20 final size:20
Alignment explanation
Indices: 7273112--7273158 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
7273102 AATGTCGTAT
7273112 TTTTACATATCACATATATA
1 TTTTACATATCACATATATA
*
7273132 TTTTA-ATATCATAT-TATA
1 TTTTACATATCACATATATA
7273150 TTTT-CATAT
1 TTTTACATAT
7273159 TATATCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 12 0.48
19 8 0.32
20 5 0.20
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTACATATCACATATATA
Found at i:7292913 original size:52 final size:53
Alignment explanation
Indices: 7292822--7292926 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
7292812 TAAGATTTTG
*
7292822 AATTATCCACTAGTTTTAAAATTAGTCAAACATAATATTAAAGTAGATTACAT
1 AATTATCCAATAGTTTTAAAATTAGTCAAACATAATATTAAAGTAGATTACAT
* * * *
7292875 AATTATCCAATAGTTTTAAAATTCGT-TAACATATTATTAGAGTAGATTACAT
1 AATTATCCAATAGTTTTAAAATTAGTCAAACATAATATTAAAGTAGATTACAT
7292927 GTCTATGATC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 23 0.49
53 24 0.51
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (53 bp):
AATTATCCAATAGTTTTAAAATTAGTCAAACATAATATTAAAGTAGATTACAT
Found at i:7308827 original size:40 final size:40
Alignment explanation
Indices: 7308742--7308892 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
7308732 AATTGAATGA
* * * **
7308742 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
7308782 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
7308823 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
7308862 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
7308893 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:7308906 original size:40 final size:40
Alignment explanation
Indices: 7308779--7308908 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
7308769 ATGCTGGAAA
* * *
7308779 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
7308819 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
7308859 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
7308899 TTATATCCGG
1 TTATATCCGG
7308909 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:7317124 original size:40 final size:40
Alignment explanation
Indices: 7317080--7317183 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 40
7317070 TGCTGGAAAT
* *
7317080 TACATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-
1 TACATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CA
7317120 TACATCCGGGCTAAGA-CC-AAGGC-ATTCGTGCGAGTCA
1 TACATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCA
*
7317157 TTCTATCCGGGCTAAGACCCGAAGGCA
1 TAC-ATCCGGGCTAAGACCCGAAGGCA
7317184 TTTGGCACAT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
36 1 0.02
37 5 0.09
38 25 0.45
39 4 0.07
40 20 0.36
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (40 bp):
TACATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCA
Found at i:7325426 original size:39 final size:40
Alignment explanation
Indices: 7325342--7325491 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
7325332 AATTGAATGA
* * * **
7325342 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
7325382 TATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
7325422 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
7325461 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
7325492 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
38 1 0.01
39 34 0.38
40 53 0.59
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:7325505 original size:40 final size:40
Alignment explanation
Indices: 7325379--7325507 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
7325369 ATGCTGGAAA
* * *
7325379 TTATATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
7325418 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
7325458 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
7325498 TTATATCCGG
1 TTATATCCGG
7325508 TTATATTCCG
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
39 15 0.21
40 57 0.79
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:7332645 original size:40 final size:38
Alignment explanation
Indices: 7332545--7332687 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 38
7332535 ATTGAATGAT
* * * *
7332545 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-TAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCT---AGTCTAC
*
7332585 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT--CTAC
* *
7332625 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTC-TAC
7332664 TATCCGGGCTAAGACCCGAAGGCA
1 -ATCCGGGCTAAGACCCGAAGGCA
7332688 TTTGAGCACA
Statistics
Matches: 88, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 5 0.06
40 80 0.91
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTCTAC
Found at i:7332708 original size:40 final size:40
Alignment explanation
Indices: 7332585--7332710 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 40
7332575 TGGAAATTAC
* * * * *
7332585 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
* ** *
7332625 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
* *
7332665 ATCCGGGCTAAGACCCGAAGGCATTTGAGC-ACATGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGGTTAT
7332705 ATCCGG
1 ATCCGG
7332711 TTATATTCCG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
Found at i:7335389 original size:2 final size:2
Alignment explanation
Indices: 7335382--7335408 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7335372 TTGAATGCAG
7335382 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
7335409 GCCACGCAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7336655 original size:11 final size:11
Alignment explanation
Indices: 7336639--7336663 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7336629 AAGTTGGCAC
7336639 ATAACTCTAGT
1 ATAACTCTAGT
7336650 ATAACTCTAGT
1 ATAACTCTAGT
7336661 ATA
1 ATA
7336664 GCTGATCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (11 bp):
ATAACTCTAGT
Found at i:7355990 original size:2 final size:2
Alignment explanation
Indices: 7355983--7356019 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7355973 AGCCTTCTAA
7355983 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
7356020 AATTTCGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7359283 original size:37 final size:38
Alignment explanation
Indices: 7359183--7359284 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
7359173 ATATATTTGG
7359183 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
7359219 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
7359261 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
7359285 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:7359571 original size:39 final size:39
Alignment explanation
Indices: 7359473--7359571 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 39
7359463 TATGGTATTT
* * * *
7359473 AAATATATATAT-ATATATATGTATATAATAGTATTTAA
1 AAATATATACATAATATATATATATATAATAGCATTAAA
* * * *
7359511 GAATATATACATAAGAAATATATA-ACTAATGGCATTAAA
1 AAATATATACATAATATATATATATA-TAATAGCATTAAA
7359550 AAATATATACATAATATATATA
1 AAATATATACATAATATATATA
7359572 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
38 11 0.23
39 37 0.77
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAATATATACATAATATATATATATATAATAGCATTAAA
Found at i:7360078 original size:17 final size:16
Alignment explanation
Indices: 7360048--7360085 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
7360038 GTGGCTAGGG
7360048 TTTTTTTAGTTTTT-T
1 TTTTTTTAGTTTTTCT
7360063 TTTTTGTTAGGTTTTTCT
1 TTTTT-TTA-GTTTTTCT
7360081 TTTTT
1 TTTTT
7360086 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 3 0.15
17 6 0.30
18 6 0.30
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.82
Consensus pattern (16 bp):
TTTTTTTAGTTTTTCT
Found at i:7361191 original size:72 final size:72
Alignment explanation
Indices: 7360979--7361545 Score: 635
Period size: 72 Copynumber: 7.7 Consensus size: 72
7360969 GTGATCTGAA
*
7360979 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCA--
* *
7361044 ATGTGAAC-CGAG
61 ACGTG-TCTCGAG
* *
7361056 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAACG
*
7361121 TGTCTTGAG
64 TGTCTCGAG
** *
7361130 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
*
7361195 TCTTGAG
66 TCTCGAG
* ** * *
7361202 GTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
*
7361267 TCTTGAG
66 TCTCGAG
** * * * *
7361274 GCTCAACTCATTTCTTGCAATATGAGTTGAATTTTAAAAACAG--ATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
*
7361337 TCCCGAG
66 TCTCGAG
7361344 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC-A---G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
*
7361405 TCCCGAG
66 TCTCGAG
* * *
7361412 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG----AAATTACCTCA
** * *
7361477 GTGTGTGATCTGAA
61 ACGTGT-CTC-GAG
*
7361491 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAA
7361546 AACGGAAATT
Statistics
Matches: 441, Mismatches: 32, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
68 44 0.10
69 11 0.02
70 63 0.14
72 164 0.37
73 10 0.02
74 34 0.08
76 21 0.05
77 45 0.10
78 1 0.00
79 32 0.07
80 3 0.01
81 13 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
TCTCGAG
Found at i:7361352 original size:214 final size:213
Alignment explanation
Indices: 7360979--7362417 Score: 730
Period size: 240 Copynumber: 6.2 Consensus size: 213
7360969 GTGATCTGAA
7360979 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
* *
7361044 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAA
63 A-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TATTTTAAAAACAG-AATTGAA
** **
7361109 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
125 AATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGA
**
7361174 AATTGAAATTACCTCAACGTGTCTTGAG
190 AATTGAAATTACCTC-A---GTCCCGAG
* ** * *
7361202 GTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGC-GT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCAGT
* * ** * * *
7361266 G-TCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGA-ATTTTAAAAACAG-ATTGAAATTAC
66 GAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTAAAAACAGAATTGAAAATAC
* *
7361328 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG
130 CTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
7361393 AAATTACCTCAGTCCCGAG
195 AAATTACCTCAGTCCCGAG
* *
7361412 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG----AAAATACCTCA
** * * * * *
7361477 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATT
61 G-CAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TATT------------TT
* ** ** *
7361542 GAAAAACGGAAATTGAAAATACCTCGGCGTGT-GAGTTAAGGCTCAATTCACCAT-TCGCAATAT
110 -AAAAACAG-AATTGAAAATACCTCAACGTGTCCCG---AGGCTCAACTCACC-TCTCGCAATAT
* * * **
7361605 GAGCTGATCTTTTTGAAACACAGAAATTAAAGAATAGAAATGGAAAACACCTCAGCATCTTGAG
169 GAGTTGA--ATTTTGAAA-ACAGAAA-T------T-GAAAT------TACCTCAG--TCCCGAG
* * * *
7361669 GTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-GAAAACAGAAATTGAAAATACCTCAGC
* * *
7361734 -GTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAACTTAACTTGAAAA
63 AGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTT-AAA---AAC------A
* * * * *
7361796 GCAGATTTTGAAAATGCCTCGATATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
117 G-A-A--TTGAAAATACCTC-A-ACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * ** * * *
7361861 TTTTTGAAAAATATAAATTGAAAAAAAAAAAAACCTCAGTGTGTGATCTGAA
176 ATTTTG-AAAACAGAAATTG-------AAATTACCTCA----GT--CCCGAG
*
7361913 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
* * * * * *
7361978 ATGTGAACTGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAATAGAAATT
63 A-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTT-G---ATATTTTAAAAACAG-AATT
** **
7362043 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
122 GAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAC
7362108 AGAAATTGAAATTACCTCAGCGTGTCCCGAG
187 AGAAATTGAAATTACCTCA----GTCCCGAG
7362139 GCTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGAACAAAAAT
1 GCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATT---G----AAAAT
* * * * * *
7362203 GGAAAACACCTCAGC-GT---CTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTG
55 -------ACCTCAGCAGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TATTTT-
** * ** * *
7362264 AAAAACAGAAATTGAAAATAATTCAACATGTCTTGAGGCTCAACTCACCGCTCGCAATACGAGTT
110 AAAAACAG-AATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
7362329 GATTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTATCCTGAG
174 GA------ATTTTGAAAACAGAAATTGAAATTACCTCA--G--TCCCGAG
* *
7362379 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
7362418 TAAAACATCA
Statistics
Matches: 972, Mismatches: 123, Indels: 229
0.73 0.09 0.17
Matches are distributed among these distances:
210 38 0.04
211 11 0.01
213 1 0.00
214 79 0.08
215 11 0.01
216 11 0.01
217 34 0.03
218 34 0.03
220 22 0.02
221 10 0.01
223 27 0.03
226 50 0.05
227 1 0.00
228 14 0.01
229 1 0.00
233 13 0.01
234 65 0.07
235 14 0.01
236 88 0.09
237 10 0.01
238 48 0.05
239 3 0.00
240 89 0.09
241 10 0.01
242 2 0.00
243 3 0.00
244 60 0.06
246 39 0.04
247 16 0.02
248 5 0.01
249 47 0.05
250 4 0.00
251 7 0.01
252 2 0.00
253 36 0.04
255 18 0.02
257 33 0.03
259 16 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (213 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCAGT
GAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTAAAAACAGAATTGAAAATACC
TCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
AATTACCTCAGTCCCGAG
Found at i:7361397 original size:142 final size:144
Alignment explanation
Indices: 7360979--7362417 Score: 835
Period size: 162 Copynumber: 9.3 Consensus size: 144
7360969 GTGATCTGAA
* *
7360979 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAACAG-AATTGAAAATACCTCAGC
** *
7361044 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAA
63 --GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAA
*
7361109 AATACCTCAACGTGTCTTGAG
125 ATTACCTC-ACGTGTCTTGAG
** * *
7361130 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAG-AATTGAAAATACCTCAGCGT
** * ** *
7361194 GTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTAC
65 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTAC
7361258 CTCAGCGTGTCTTGAG
130 CTCA-CGTGTCTTGAG
** * *
7361274 GCTCAACTCATTTCTTGCAATATGAGTTGAATTTT-AAAAACAG-ATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAATTGAAAATACCTCAGCGTG
7361337 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACC
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACC
**
7361401 TCA---GTCCCGAG
131 TCACGTGTCTTGAG
* * *
7361412 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACA-GAATTG----AAAATACCTCA
* * * * *
7361477 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATT
61 GCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATT
* ** * *
7361542 GAAAAACGGAAATTGAAAATACCTCGGCGTGTGAGTTAA
122 --------GAAA-T-----TACCTC-ACGTGT-CTTGAG
* * * * * *
7361581 G-GCTCAATTCACCAT-TCGCAATATGAGCTGATCTTTTTGAAACACAGAAATTAAAGAATAGAA
1 GCTC-AA-CTCACC-TCTCGCAATATGAGTTGA--ATTTTGAAAAACAG-AATT---G---A-AA
* ** * *
7361644 ATGGAAAACACCTCAGC--ATCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTA
53 AT-------ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-
* *
7361707 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
109 GAAAACAGAAATTGAAATTACCTC-ACGTGTCTTGAG
*
7361744 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA---AAC------AG-A-A--TTGAAA
* ** * * * *
7361809 ATGCCTCGATATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAT
53 ATACCTC-A-GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAC
* ** * * *
7361873 ATAAATTGAAAAAAAAAAAAACCTCAGTGTGTGATCTGAA
115 AGAAATTG-------AAATTACCTCA-CGTGT-CT-TGAG
*
7361913 GCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAA---TTTTGAAAAACAG-AATTGAAAATACCTCAG
** * * * * *
7361977 CATGTGAACTGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAATAGAAAT
62 C--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-G---ATTTTTTGAAAACAGAAAT
*
7362042 TGAAAATACCTCAACGTGTCTTGAG
121 TGAAATTACCTC-ACGTGTCTTGAG
** *
7362067 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAG-AATTGAAAATACCTCAGCGT
7362131 GTCCCGAGGCTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGA
65 GTCCCGAGGCTCAACTCACC-TCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATT---G-
* *
7362195 ACAAAAATGGAAAACACCTCA-GCGTCTTGAG
123 ----AAAT------TACCTCACGTGTCTTGAG
* * * * ** *
7362226 GTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATAATTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAACAG-AATTGAAAATACCTCAGC
* ** * * *
7362291 ATGTCTTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTTGACAACAGAAATTG
63 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTGAAAACAGAAATTG
* *
7362356 AAATTACCTCAGCGTATCCTGAG
123 AAATTACCTCA-CGTGTCTTGAG
*
7362379 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAA
7362418 TAAAACATCA
Statistics
Matches: 1026, Mismatches: 143, Indels: 239
0.73 0.10 0.17
Matches are distributed among these distances:
138 37 0.04
139 6 0.01
141 4 0.00
142 80 0.08
143 1 0.00
144 79 0.08
145 15 0.01
146 42 0.04
147 41 0.04
148 24 0.02
149 45 0.04
150 14 0.01
151 62 0.06
152 5 0.00
153 35 0.03
154 29 0.03
155 6 0.01
156 13 0.01
157 5 0.00
158 9 0.01
159 82 0.08
160 27 0.03
161 12 0.01
162 112 0.11
163 18 0.02
164 24 0.02
165 13 0.01
166 12 0.01
167 13 0.01
168 7 0.01
169 38 0.04
170 25 0.02
171 9 0.01
172 17 0.02
174 3 0.00
175 5 0.00
178 46 0.04
179 3 0.00
180 1 0.00
182 7 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (144 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAATTGAAAATACCTCAGCGTG
TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACC
TCACGTGTCTTGAG
Found at i:7361604 original size:91 final size:91
Alignment explanation
Indices: 7361466--7361724 Score: 266
Period size: 91 Copynumber: 2.9 Consensus size: 91
7361456 AAATTGAAAA
* * *
7361466 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGCTGATCTTTTTGAA
**
7361531 AGGCAGAAATTGAAAAACGGAAATTG
66 ACACAGAAATTGAAAAACGGAAATTG
* *
7361557 AAAATACCTCGGCGTGTGAGT-T-AAGGCTCAATTCACCAT-TCGCAATATGAGCTGATCTTTTT
1 AAAATACCTCAGCGTGTGA-TCTGAA-GCTCAACTCACC-TCTCGCAATATGAGCTGATCTTTTT
** *
7361619 GAAACACAGAAATT-AAAGAATAGAAATGG
63 GAAACACAGAAATTGAAA-AACGGAAATTG
* * * * *
7361648 AAAACACCTCAGC-----ATCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAA
1 AAAATACCTCAGCGTGTGATC-TGAAGCTCAACTCACCTCTCGCAATATGAGCTGATCTTTTTGA
*
7361708 AAAACAGAAATTGAAAA
65 AACACAGAAATTGAAAA
7361725 TACCTCAACG
Statistics
Matches: 141, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
85 1 0.01
86 2 0.01
87 46 0.33
88 4 0.03
90 5 0.04
91 81 0.57
92 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (91 bp):
AAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGCTGATCTTTTTGAA
ACACAGAAATTGAAAAACGGAAATTG
Done.