Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 28 of 328
Found at i:8130842 original size:28 final size:29
Alignment explanation
Indices: 8130763--8130832 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 29
8130753 TTTTAATATT
*
8130763 ATATATATCATACTGAT-TAAAAATGTAAAA
1 ATATATATAATA-T-ATATAAAAATGTAAAA
8130793 ATATATATAATATATATAAAAA-GTAAAAA
1 ATATATATAATATATATAAAAATGT-AAAA
8130822 ATAGTATATAA
1 ATA-TATATAA
8130833 AATTGAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 4 0.11
29 14 0.39
30 18 0.50
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATATAATATATATAAAAATGTAAAA
Found at i:8130937 original size:23 final size:23
Alignment explanation
Indices: 8130911--8130982 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
8130901 TTGTTTTGAC
**
8130911 TTTTTAAAATTTA-AAATTA-TA
1 TTTTTAAAATTTATAAAAAATTA
8130932 TGTTTTAGAAATTTATAAAAAATTA
1 T-TTTTA-AAATTTATAAAAAATTA
*
8130957 TTTTTAAAATTTATAAAAAAATA
1 TTTTTAAAATTTATAAAAAATTA
8130980 TTT
1 TTT
8130983 ATTATATACA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.02
22 5 0.11
23 26 0.59
24 9 0.20
25 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TTTTTAAAATTTATAAAAAATTA
Found at i:8131170 original size:28 final size:27
Alignment explanation
Indices: 8131129--8131212 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 27
8131119 AAGTCAAAAG
8131129 TATTTTTTAATATTTAAATATTTAATATTA
1 TATTTTTT--TATTTAAATATTTAAT-TTA
** *
8131159 TATTTTTTTATTTTTATTTTTAATTTA
1 TATTTTTTTATTTAAATATTTAATTTA
8131186 -ATTTTTTTATTGTAAATAAATTTAATT
1 TATTTTTTTATT-TAAAT--ATTTAATT
8131213 GCCACGTGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 11 0.24
27 6 0.13
28 13 0.29
29 7 0.16
30 8 0.18
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (27 bp):
TATTTTTTTATTTAAATATTTAATTTA
Found at i:8131621 original size:18 final size:17
Alignment explanation
Indices: 8131580--8131621 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
8131570 ATTTTACAAA
8131580 TTTTGTAATTTGATTCT
1 TTTTGTAATTTGATTCT
* *
8131597 TTTTGTAATTTTATTTT
1 TTTTGTAATTTGATTCT
8131614 TCTTTGTA
1 T-TTTGTA
8131622 TCCCTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.69
Consensus pattern (17 bp):
TTTTGTAATTTGATTCT
Found at i:8132185 original size:15 final size:15
Alignment explanation
Indices: 8132167--8132222 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
8132157 TATTCAAATT
8132167 AATATTTTAATAATA
1 AATATTTTAATAATA
*
8132182 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
8132201 AATATATTAATAATA
1 AATATTTTAATAATA
8132216 AAT-TTTT
1 AATATTTT
8132223 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:8152233 original size:28 final size:28
Alignment explanation
Indices: 8152201--8152257 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
8152191 GGTTGGCATC
8152201 TCCGGCAAGTTGATGTCAATAATGCCTT
1 TCCGGCAAGTTGATGTCAATAATGCCTT
8152229 TCCGGCAAGTTGATGTCAATAATGCCTT
1 TCCGGCAAGTTGATGTCAATAATGCCTT
8152257 T
1 T
8152258 TTAAATGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (28 bp):
TCCGGCAAGTTGATGTCAATAATGCCTT
Found at i:8153068 original size:35 final size:35
Alignment explanation
Indices: 8153028--8153097 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
8153018 TGATGATCGC
8153028 CGGTGTACAACGGGATACTGTGTGTATTTTGGTCA
1 CGGTGTACAACGGGATACTGTGTGTATTTTGGTCA
*
8153063 CGGTGTACAACGGGATATTGTGTGTATTTTGGTCA
1 CGGTGTACAACGGGATACTGTGTGTATTTTGGTCA
8153098 TACACCTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.13, G:0.31, T:0.36
Consensus pattern (35 bp):
CGGTGTACAACGGGATACTGTGTGTATTTTGGTCA
Found at i:8162553 original size:2 final size:2
Alignment explanation
Indices: 8162546--8162586 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8162536 TACTTTTATT
8162546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8162587 GACTATACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8164491 original size:23 final size:23
Alignment explanation
Indices: 8164465--8164517 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
8164455 AATTTTAAAA
*
8164465 TATTAAAATATAATTTTATCATT
1 TATTAAAATATAATTTCATCATT
** *
8164488 TATTAATTTATAATTTCATTATT
1 TATTAAAATATAATTTCATCATT
8164511 T-TTAAAA
1 TATTAAAA
8164518 CAACTAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAAAATATAATTTCATCATT
Found at i:8168265 original size:25 final size:25
Alignment explanation
Indices: 8168235--8168286 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
8168225 TACAATTGTC
8168235 TATATATTTATTAAATTTATAAACA
1 TATATATTTATTAAATTTATAAACA
8168260 TATATATTTATTAAATTTATAAACA
1 TATATATTTATTAAATTTATAAACA
8168285 TA
1 TA
8168287 GACAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
TATATATTTATTAAATTTATAAACA
Found at i:8168883 original size:29 final size:29
Alignment explanation
Indices: 8168851--8168922 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
8168841 AGGGGTTATA
*
8168851 AAAAAATAATTTTGACAAGATGGGTTTTG
1 AAAAAATAATTTTGACAAGATGAGTTTTG
* *
8168880 AAAAAATAA-TTTGACGAGTTGAGTTTTG
1 AAAAAATAATTTTGACAAGATGAGTTTTG
*
8168908 AAGAAATAATTTTGA
1 AAAAAATAATTTTGA
8168923 AGAAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 24 0.63
29 14 0.37
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (29 bp):
AAAAAATAATTTTGACAAGATGAGTTTTG
Found at i:8171444 original size:33 final size:33
Alignment explanation
Indices: 8171407--8171523 Score: 130
Period size: 33 Copynumber: 3.6 Consensus size: 33
8171397 ATGGACCTTT
* * *
8171407 CCTTTTCTAGTTGTACACCCGAGGTGCACA-ATC
1 CCTTTTCAAGTTGTACACACGAAGTGCACATA-C
** *
8171440 CCTTTTCAAGTACTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
* * *
8171473 CCTTTTCAATTTGTACACACAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACACGAAGTGCACATAC
8171506 CCTTTTCAAG-TGTACACA
1 CCTTTTCAAGTTGTACACA
8171524 TATAGTGTAC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
32 8 0.11
33 61 0.87
34 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACACGAAGTGCACATAC
Found at i:8171542 original size:32 final size:32
Alignment explanation
Indices: 8171440--8171651 Score: 129
Period size: 33 Copynumber: 6.5 Consensus size: 32
8171430 GTGCACAATC
* ** * * *
8171440 CCTTTTCAAGTACTACACACGAAGTGTACATAC
1 CCTTTTCAAGT-GTACACATAAAGTATACCTAT
* * ** * *
8171473 CCTTTTCAATTTGTACACACAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACATAAAGTATACCTAT
* * *
8171506 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACATAAAGTATACCTAT
* * *
8171538 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACATAAAGTATACCTAT
* * * *
8171571 CCTTTTCATA-TGGTATACACAAATTATACCTAA
1 CCTTTTCA-AGT-GTACACATAAAGTATACCTAT
* * * *
8171604 CCTTTTCAATTGTACACATAAAGTGTACATAG
1 CCTTTTCAAGTGTACACATAAAGTATACCTAT
8171636 CCTTTTCAAGTTGTAC
1 CCTTTTCAAG-TGTAC
8171652 CCTTTCGGGA
Statistics
Matches: 148, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
32 52 0.35
33 94 0.64
34 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACATAAAGTATACCTAT
Found at i:8171542 original size:98 final size:98
Alignment explanation
Indices: 8171440--8171646 Score: 227
Period size: 98 Copynumber: 2.1 Consensus size: 98
8171430 GTGCACAATC
* * * *
8171440 CCTTTTCAAGTACTACACACGAAGTGTACATACCCTTTTCA-ATTTGTACACACAAAGTGCACAT
1 CCTTTTCAAGTACTACACACAAAGTATACATACCCTTTTCATA-TGGTACACACAAAGTACACAT
* * **
8171504 AACCTTTTCAAGTGTACACATATAGTGTACCTTT
65 AACCTTTTCAAGTGTACACATAAAGTGTACATAG
** * * ** * * * *
8171538 CCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAATTATACCTA
1 CCTTTTCAAGTACTACACACAAAGTATACATACCCTTTTCATATGGTACACACAAAGTACACATA
*
8171603 ACCTTTTCAATTGTACACATAAAGTGTACATAG
66 ACCTTTTCAAGTGTACACATAAAGTGTACATAG
8171636 CCTTTTCAAGT
1 CCTTTTCAAGT
8171647 TGTACCCTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
98 88 0.99
99 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (98 bp):
CCTTTTCAAGTACTACACACAAAGTATACATACCCTTTTCATATGGTACACACAAAGTACACATA
ACCTTTTCAAGTGTACACATAAAGTGTACATAG
Found at i:8171640 original size:65 final size:65
Alignment explanation
Indices: 8171440--8171646 Score: 170
Period size: 65 Copynumber: 3.2 Consensus size: 65
8171430 GTGCACAATC
* * * * * *
8171440 CCTTTTCAAGTACTACACACGA-AGTGTACATACCCTTTTCAATTTGTACACACAAAGTGCACAT
1 CCTTTTCAAGTA-TACACA-TATAGTATACCTAACCTTTTCAAGTTGTACACACAAAGTGTACAT
8171504 AA
64 AA
* * ** * * * * **
8171506 CCTTTTCAAGTGTACACATATAGTGTACCTTTCCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTATACACATATAGTATACCTAACCTTTTCAAGTTGTACACACAAAGTGTACATAA
* *
8171571 CCTTTTCATATGGTATACACA-A-ATTATACCTAACCTTTTCAA-TTGTACACATAAAGTGTACA
1 CCTTTTCA-A--GTATACACATATAGTATACCTAACCTTTTCAAGTTGTACACACAAAGTGTACA
*
8171633 TAG
63 TAA
8171636 CCTTTTCAAGT
1 CCTTTTCAAGT
8171647 TGTACCCTTT
Statistics
Matches: 112, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
62 2 0.02
64 2 0.02
65 71 0.63
66 28 0.25
67 1 0.01
68 8 0.07
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (65 bp):
CCTTTTCAAGTATACACATATAGTATACCTAACCTTTTCAAGTTGTACACACAAAGTGTACATAA
Found at i:8172814 original size:13 final size:13
Alignment explanation
Indices: 8172796--8172821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8172786 ACACATAATT
8172796 GATAAAAATTTTC
1 GATAAAAATTTTC
8172809 GATAAAAATTTTC
1 GATAAAAATTTTC
8172822 ATGCAATATT
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GATAAAAATTTTC
Found at i:8176340 original size:20 final size:20
Alignment explanation
Indices: 8176315--8176362 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8176305 CAGTTCACAC
*
8176315 GCCCGTGTGGATCTTGTCCA
1 GCCCGTGTGGATCGTGTCCA
*
8176335 GCCCGTGTGGATCGTGTCTA
1 GCCCGTGTGGATCGTGTCCA
*
8176355 GCCTGTGT
1 GCCCGTGT
8176363 TTGTTGCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.27, G:0.33, T:0.31
Consensus pattern (20 bp):
GCCCGTGTGGATCGTGTCCA
Found at i:8190795 original size:19 final size:19
Alignment explanation
Indices: 8190773--8190844 Score: 99
Period size: 19 Copynumber: 3.6 Consensus size: 19
8190763 ATGCACATAA
8190773 CCTTTTCAAGTGTACATTT
1 CCTTTTCAAGTGTACATTT
**
8190792 CCTTTTCAAGTGGTATACATAA
1 CCTTTTCAAGT-G--TACATTT
8190814 CCTTTTCAAGTGTACATTT
1 CCTTTTCAAGTGTACATTT
8190833 CCTTTTCAAGTG
1 CCTTTTCAAGTG
8190845 GTATACACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 28 0.61
20 1 0.02
21 1 0.02
22 16 0.35
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (19 bp):
CCTTTTCAAGTGTACATTT
Found at i:8190824 original size:41 final size:41
Alignment explanation
Indices: 8190767--8190851 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
8190757 TTTATCATGC
8190767 ACATAACCTTTTCAAGTGTACATTTCCTTTTCAAGTGGTAT
1 ACATAACCTTTTCAAGTGTACATTTCCTTTTCAAGTGGTAT
8190808 ACATAACCTTTTCAAGTGTACATTTCCTTTTCAAGTGGTAT
1 ACATAACCTTTTCAAGTGTACATTTCCTTTTCAAGTGGTAT
8190849 ACA
1 ACA
8190852 CAAAGTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (41 bp):
ACATAACCTTTTCAAGTGTACATTTCCTTTTCAAGTGGTAT
Found at i:8190872 original size:33 final size:32
Alignment explanation
Indices: 8190821--8190916 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 32
8190811 TAACCTTTTC
* *
8190821 AAGTGTACATTTCCTTTTCAAGTGGTATACACA
1 AAGTATACCTTTCCTTTTCAA-TGGTATACACA
* *
8190854 AAGTATATCTTTCCTTTTCATATGGTATACTCA
1 AAGTATACCTTTCCTTTTCA-ATGGTATACACA
**
8190887 AAGTATACCTAACCTTTTCAAT--TATACACA
1 AAGTATACCTTTCCTTTTCAATGGTATACACA
8190917 TAAAGTGTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
30 7 0.13
32 2 0.04
33 44 0.81
34 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (32 bp):
AAGTATACCTTTCCTTTTCAATGGTATACACA
Found at i:8191295 original size:18 final size:18
Alignment explanation
Indices: 8191255--8191296 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8191245 CTAGTCCGAG
8191255 ACTTTTTCTTTCCTTCGA
1 ACTTTTTCTTTCCTTCGA
* *
8191273 TCTTTTTCTTT-GTTCGA
1 ACTTTTTCTTTCCTTCGA
8191290 CACTTTT
1 -ACTTTT
8191297 GGATCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.10, C:0.24, G:0.07, T:0.60
Consensus pattern (18 bp):
ACTTTTTCTTTCCTTCGA
Found at i:8191494 original size:25 final size:25
Alignment explanation
Indices: 8191455--8191503 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
8191445 AATTTACTCC
*
8191455 TTATTCCAATCTTATTCAAAATTCG
1 TTATTCCAAGCTTATTCAAAATTCG
*
8191480 TTATTCCAAGGTTATTCAAAATTC
1 TTATTCCAAGCTTATTCAAAATTC
8191504 CAATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (25 bp):
TTATTCCAAGCTTATTCAAAATTCG
Found at i:8193309 original size:52 final size:52
Alignment explanation
Indices: 8193247--8193352 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
8193237 TTGCTCCCAA
8193247 ATATAGCACCATTAAGAAGGCAACTTTAGAGAAGGGGAGACATTGGTGGGGG
1 ATATAGCACCATTAAGAAGGCAACTTTAGAGAAGGGGAGACATTGGTGGGGG
8193299 ATATAGCACCATTAAGAAGGCAACTTTAGAGAAGGGGAGACATTGGTGGGGG
1 ATATAGCACCATTAAGAAGGCAACTTTAGAGAAGGGGAGACATTGGTGGGGG
8193351 AT
1 AT
8193353 CGATCTTCCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.35, C:0.11, G:0.34, T:0.20
Consensus pattern (52 bp):
ATATAGCACCATTAAGAAGGCAACTTTAGAGAAGGGGAGACATTGGTGGGGG
Found at i:8194554 original size:2 final size:2
Alignment explanation
Indices: 8194547--8194582 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8194537 AGTCTTAGGC
8194547 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8194583 TATAAGTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8200063 original size:15 final size:15
Alignment explanation
Indices: 8200045--8200080 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
8200035 ATTATAACAA
8200045 AGCTTATTACATACG
1 AGCTTATTACATACG
8200060 AGCTTATTACATACG
1 AGCTTATTACATACG
*
8200075 AACTTA
1 AGCTTA
8200081 CCTCGAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (15 bp):
AGCTTATTACATACG
Found at i:8202014 original size:23 final size:23
Alignment explanation
Indices: 8201975--8202038 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
8201965 GCTGATGGAT
*
8201975 AGTAAGCTCT-ATTGAGCTAAAAC
1 AGTAAGCTCTGA-CGAGCTAAAAC
* **
8201998 GGTAAGCTCTGACGAGCTAAATT
1 AGTAAGCTCTGACGAGCTAAAAC
*
8202021 AGTAAGCTCTTACGAGCT
1 AGTAAGCTCTGACGAGCT
8202039 GATATATTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (23 bp):
AGTAAGCTCTGACGAGCTAAAAC
Found at i:8202053 original size:26 final size:23
Alignment explanation
Indices: 8201999--8202055 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 23
8201989 AGCTAAAACG
8201999 GTAAGCTCTGACGAGCTAAATTA
1 GTAAGCTCTGACGAGCTAAATTA
*
8202022 GTAAGCTCTTACGAGCTGATATATTA
1 GTAAGCTCTGACGAGCT-A-A-ATTA
8202048 GTAAGCTC
1 GTAAGCTC
8202056 ATATAAGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 16 0.53
24 1 0.03
25 1 0.03
26 12 0.40
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (23 bp):
GTAAGCTCTGACGAGCTAAATTA
Found at i:8214423 original size:34 final size:34
Alignment explanation
Indices: 8214380--8214448 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
8214370 GTCGTCAAAG
8214380 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
1 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
8214414 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
1 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
8214448 T
1 T
8214449 TAGCTCGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (34 bp):
TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
Found at i:8215748 original size:22 final size:22
Alignment explanation
Indices: 8215720--8215766 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
8215710 AAAGGTTATC
8215720 ATAGTTTAGGAGTATAAATAAG
1 ATAGTTTAGGAGTATAAATAAG
8215742 ATAGTTTAGGAGTATAAATAAG
1 ATAGTTTAGGAGTATAAATAAG
8215764 ATA
1 ATA
8215767 CTGGTGCTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (22 bp):
ATAGTTTAGGAGTATAAATAAG
Found at i:8218529 original size:26 final size:26
Alignment explanation
Indices: 8218500--8218561 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
8218490 TATGTTATAA
*
8218500 AAATAATTATATT-ATTTATTTATATT
1 AAATAATTA-ATTAATATATTTATATT
8218526 AAATAA-TAATTAGATATATTTATATT
1 AAATAATTAATTA-ATATATTTATATT
*
8218552 AAATTATTAA
1 AAATAATTAA
8218562 CTCAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.10
25 2 0.06
26 23 0.74
27 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATAATTAATTAATATATTTATATT
Found at i:8220305 original size:112 final size:112
Alignment explanation
Indices: 8220108--8220329 Score: 390
Period size: 112 Copynumber: 2.0 Consensus size: 112
8220098 AGTCTATAAT
* *
8220108 CAAACTTACTTCAAAATTGCATCTTGAATTTTGGAGGTTGTGATGACTAAACGAGTGTTTTGATG
1 CAAACTTACTTCAAAATTGCAACTTGAATTTTGGAGGTTGTGACGACTAAACGAGTGTTTTGATG
8220173 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTAAC
66 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTAAC
* * *
8220220 CAAACTTACTTCGAAGTTGCAACTTGAATTTTGGAGGTTGTGACGACTAGACGAGTGTTTTGATG
1 CAAACTTACTTCAAAATTGCAACTTGAATTTTGGAGGTTGTGACGACTAAACGAGTGTTTTGATG
*
8220285 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAGTGAGTGAAGGTA
66 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTA
8220330 GTAAGCTGCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.28
Consensus pattern (112 bp):
CAAACTTACTTCAAAATTGCAACTTGAATTTTGGAGGTTGTGACGACTAAACGAGTGTTTTGATG
GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTAAC
Found at i:8229057 original size:55 final size:55
Alignment explanation
Indices: 8228936--8229064 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
8228926 TGCGACATGG
* * * * *
8228936 CCGTGGTCGAACCTGTCAAAACAACACGAGCGTGCTACATGCCCGTGTGGAAGAA
1 CCGTGGTTGAACCTGTTAAAACAACACGAGCGTGCGACATGCCCGTGTCGAACAA
* * * * * * * *
8228991 CCATGGGTGAACCTGTTAAAACAGCACGGGCGTGCGACATGCCTGTGTCTATCAC
1 CCGTGGTTGAACCTGTTAAAACAACACGAGCGTGCGACATGCCCGTGTCGAACAA
8229046 CCGTGGTTGAACCTGTTAA
1 CCGTGGTTGAACCTGTTAA
8229065 CTTAACACAG
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (55 bp):
CCGTGGTTGAACCTGTTAAAACAACACGAGCGTGCGACATGCCCGTGTCGAACAA
Found at i:8231044 original size:39 final size:40
Alignment explanation
Indices: 8230976--8231054 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
8230966 AAGATGTTTA
* *
8230976 AAAACATTTATTTATTATTTTATGTTTTTA-ATTTTTATT
1 AAAACATTTATTTATTATTTTATGATTTTAGAATTTTATT
*
8231015 AAAACTATTT-TTTATTTTTATTA-GATTTTAGAATTTTATT
1 AAAAC-ATTTATTTATTATT-TTATGATTTTAGAATTTTATT
8231055 TTTAATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (40 bp):
AAAACATTTATTTATTATTTTATGATTTTAGAATTTTATT
Found at i:8244324 original size:28 final size:27
Alignment explanation
Indices: 8244292--8244371 Score: 70
Period size: 33 Copynumber: 2.7 Consensus size: 27
8244282 ACAATGCATG
* *
8244292 CAGTAACAGTCTGGGCCTGGTCCCTATT
1 CAGTAACAGTCTGGGCCTAG-CCCTATA
8244320 CAGTATCAGTACAGTCTGGGCCTTAGCCCTATA
1 CAG--T-A--ACAGTCTGGGCC-TAGCCCTATA
*
8244353 CAGTAACAGTGTGGGCCTA
1 CAGTAACAGTCTGGGCCTA
8244372 AGCCTAATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
27 2 0.05
28 14 0.33
30 2 0.05
31 2 0.05
33 21 0.49
34 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (27 bp):
CAGTAACAGTCTGGGCCTAGCCCTATA
Found at i:8244350 original size:33 final size:34
Alignment explanation
Indices: 8244292--8244362 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
8244282 ACAATGCATG
* * *
8244292 CAGTAACAGTCTGGGCCTGGTCCCTATTCAGTAT
1 CAGTAACAGTCTGGGCCTAGTCCCTATACAGTAA
8244326 CAGT-ACAGTCTGGGCCTTAG-CCCTATACAGTAA
1 CAGTAACAGTCTGGGCC-TAGTCCCTATACAGTAA
8244359 CAGT
1 CAGT
8244363 GTGGGCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTAGTCCCTATACAGTAA
Found at i:8244384 original size:28 final size:28
Alignment explanation
Indices: 8244292--8244390 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 28
8244282 ACAATGCATG
*
8244292 CAGTAACAGTCTGGGCCT-GGTCCCTATT
1 CAGTAACAGTCTGGGCCTAAG-CCCTATT
* *
8244320 CAGTATCAGTACAGTCTGGGCCTTAGCCCTATA
1 CAG--T-A--ACAGTCTGGGCCTAAGCCCTATT
*
8244353 CAGTAACAGTGTGGGCCTAAG-CCTAATT
1 CAGTAACAGTCTGGGCCTAAGCCCT-ATT
*
8244381 CAGTATCAGT
1 CAGTAACAGT
8244391 ATAGTGCAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
27 3 0.05
28 28 0.48
30 2 0.03
31 2 0.03
33 22 0.38
34 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCTATT
Found at i:8249742 original size:23 final size:24
Alignment explanation
Indices: 8249716--8249811 Score: 80
Period size: 23 Copynumber: 4.3 Consensus size: 24
8249706 CCTGATCAGA
8249716 ATACGACGACACAT-AAGTGCCTG
1 ATACGACGACACATAAAGTGCCTG
* *
8249739 ATACGAC-ACAC--GAGGTGCCT-
1 ATACGACGACACATAAAGTGCCTG
* **
8249759 AAAATACGACACATAAAGTGCCTG
1 ATACGACGACACATAAAGTGCCTG
* *
8249783 ATA-TACGACACATAAAGTGCTTG
1 ATACGACGACACATAAAGTGCCTG
8249806 AT-CGAC
1 ATACGAC
8249812 AAAGCCGATA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
20 4 0.07
21 11 0.19
22 4 0.07
23 37 0.64
24 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (24 bp):
ATACGACGACACATAAAGTGCCTG
Found at i:8251138 original size:14 final size:15
Alignment explanation
Indices: 8251114--8251142 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8251104 GAATGGCTTC
8251114 TGCTATTCTTTCTTT
1 TGCTATTCTTTCTTT
8251129 TGCT-TTCTTTCTTT
1 TGCTATTCTTTCTTT
8251143 ATTTCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (15 bp):
TGCTATTCTTTCTTT
Found at i:8251211 original size:12 final size:12
Alignment explanation
Indices: 8251196--8251223 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8251186 GTTAATAATG
8251196 ATAATAATTATA
1 ATAATAATTATA
8251208 ATAATAATTATA
1 ATAATAATTATA
8251220 ATAA
1 ATAA
8251224 ATATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:8255122 original size:22 final size:20
Alignment explanation
Indices: 8255097--8255139 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
8255087 ATGTTTGGAC
8255097 ACATAAAAGCCAATGTATCGAT
1 ACAT-AAAG-CAATGTATCGAT
*
8255119 ACATAATGCAATGTATCGAT
1 ACATAAAGCAATGTATCGAT
8255139 A
1 A
8255140 TTGTGATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 3 0.15
22 4 0.20
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
ACATAAAGCAATGTATCGAT
Found at i:8255708 original size:43 final size:43
Alignment explanation
Indices: 8255559--8255785 Score: 212
Period size: 42 Copynumber: 5.4 Consensus size: 43
8255549 CGTTTATTTA
* * *
8255559 AAAAACGCTGCTAAAAACCATGACCTTTAGCGGCACTTTTCC-
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCACTTTTCCT
** * * * *
8255601 CGAAACACCGCTAAAGACCATGACTTTTAGCCGCTCTTTT-TT
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCACTTTTCCT
* ** * * *
8255643 TAAAACGCCGCTAAAGGTCATGACTTTTAGCGACGCTTCTCCT
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCACTTTTCCT
* *
8255686 AAAAACGCCGCTAAATACCATGACATTTAGCGGCACTTTT-CT
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCACTTTTCCT
* * * *
8255728 CAAAAACGTCACTAAA-ACCATGACTTTTAACGGCACTTTTTCT
1 -AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCACTTTTCCT
*
8255771 -CAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
8255786 GTCACTACAT
Statistics
Matches: 146, Mismatches: 34, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
41 11 0.08
42 87 0.60
43 48 0.33
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCACTTTTCCT
Found at i:8255715 original size:127 final size:125
Alignment explanation
Indices: 8255559--8255828 Score: 337
Period size: 127 Copynumber: 2.1 Consensus size: 125
8255549 CGTTTATTTA
* * * *
8255559 AAAAACGCTGCTAAAAACCATGACCTTTAGCGGCACTTTTCCCGAAACAC-CGCTAAAGACCATG
1 AAAAACGCCGCTAAAAACCATGACATTTAGCGGCACTTTTCCC-AAAAACGCACTAAA-ACCATG
* * * *
8255623 ACTTTTAGCCGCTCTTTTTTTAAAACGCCGCTAAAGGTCA-TGACTTTTAGCGACGCTTCTCC
64 ACTTTTAACCGCACTTTTTCTAAAACGCCGCTAAAGGTCACT-ACATTTAGCGACGCTTCTCC
* *
8255685 TAAAAACGCCGCTAAATACCATGACATTTAGCGGCACTTTTCTCAAAAACGTCACTAAAACCATG
1 -AAAAACGCCGCTAAAAACCATGACATTTAGCGGCACTTTTCCCAAAAACG-CACTAAAACCATG
* * * * *
8255750 ACTTTTAACGGCACTTTTTCTCAAACGCCGCTAAAGGTCACTACATTTAGCGACGTTTTTTC
64 ACTTTTAACCGCACTTTTTCTAAAACGCCGCTAAAGGTCACTACATTTAGCGACGCTTCTCC
*
8255812 ATAAACGCCGCTAAAAA
1 AAAAACGCCGCTAAAAA
8255829 GTATAAATTT
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
126 20 0.16
127 96 0.78
128 7 0.06
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (125 bp):
AAAAACGCCGCTAAAAACCATGACATTTAGCGGCACTTTTCCCAAAAACGCACTAAAACCATGAC
TTTTAACCGCACTTTTTCTAAAACGCCGCTAAAGGTCACTACATTTAGCGACGCTTCTCC
Found at i:8255751 original size:85 final size:83
Alignment explanation
Indices: 8255572--8255765 Score: 190
Period size: 85 Copynumber: 2.3 Consensus size: 83
8255562 AACGCTGCTA
* * * ** * *
8255572 AAAACCATGACCTTTAGCGGCACTTTTCCCGAAACACCGCTAAAGACCATGACTTTTAGCCGCTC
1 AAAACCATGACTTTTAGCGACACTTCTCCAAAAACACCGCTAAAGACCATGACATTTAGCCGCAC
** *
8255637 TTTTTTTAAAACGCCGCT
66 TTTTTCAAAAACGCCACT
** * * * *
8255655 AAAGGTCATGACTTTTAGCGACGCTTCTCCTAAAAACGCCGCTAAATACCATGACATTTAGCGGC
1 AAA-ACCATGACTTTTAGCGACACTTCTCC-AAAAACACCGCTAAAGACCATGACATTTAGCCGC
*
8255720 ACTTTTCTCAAAAACGTCACT
64 ACTTTT-TCAAAAACGCCACT
* *
8255741 AAAACCATGACTTTTAACGGCACTT
1 AAAACCATGACTTTTAGCGACACTT
8255766 TTTCTCAAAC
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
83 3 0.03
84 20 0.23
85 50 0.58
86 13 0.15
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (83 bp):
AAAACCATGACTTTTAGCGACACTTCTCCAAAAACACCGCTAAAGACCATGACATTTAGCCGCAC
TTTTTCAAAAACGCCACT
Found at i:8258982 original size:40 final size:40
Alignment explanation
Indices: 8258927--8259008 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
8258917 TGACAAATGA
8258927 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
1 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
8258967 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
1 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
8259007 AT
1 AT
8259009 ATGCAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
Found at i:8260464 original size:17 final size:18
Alignment explanation
Indices: 8260442--8260480 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
8260432 TATTGTTTAA
8260442 TTTTAAT-T-TTTTTTATT
1 TTTTAATATATTTTTT-TT
8260459 TTTTAATATATTTTTTTT
1 TTTTAATATATTTTTTTT
8260477 TTTT
1 TTTT
8260481 TTTTCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 7 0.35
19 6 0.30
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTAATATATTTTTTTT
Found at i:8260601 original size:15 final size:14
Alignment explanation
Indices: 8260579--8260629 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
8260569 ATATTAAATG
*
8260579 TTAATTTTTAATTT
1 TTAAATTTTAATTT
8260593 TTAAATTTTAATTT
1 TTAAATTTTAATTT
*
8260607 TT---TTATAATTT
1 TTAAATTTTAATTT
*
8260618 TTAAATTATAAT
1 TTAAATTTTAAT
8260630 GAAATCGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 10 0.31
14 22 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAAATTTTAATTT
Found at i:8260618 original size:8 final size:7
Alignment explanation
Indices: 8260579--8260608 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8260569 ATATTAAATG
8260579 TTAATTT
1 TTAATTT
8260586 TTAATTT
1 TTAATTT
*
8260593 TTAAATT
1 TTAATTT
8260600 TTAATTT
1 TTAATTT
8260607 TT
1 TT
8260609 TTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:8260619 original size:25 final size:24
Alignment explanation
Indices: 8260583--8260629 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
8260573 TAAATGTTAA
*
8260583 TTTTTAATTTTTAAATTTTAATTT
1 TTTTTAATTTTTAAATTATAATTT
8260607 TTTTATAATTTTTAAATTATAAT
1 TTTT-TAATTTTTAAATTATAAT
8260630 GAAATCGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTAATTTTTAAATTATAATTT
Found at i:8261661 original size:21 final size:21
Alignment explanation
Indices: 8261624--8261681 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
8261614 CTTAACCCTT
* *
8261624 AACCCTTAAGCCT-TAAACCCC
1 AACCCTTAA-ACTATAAACCAC
*
8261645 AACCCTTAAACTATAAACCAT
1 AACCCTTAAACTATAAACCAC
* *
8261666 AACCCATAAACCATAA
1 AACCCTTAAACTATAA
8261682 TCCCTAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (21 bp):
AACCCTTAAACTATAAACCAC
Found at i:8261667 original size:7 final size:7
Alignment explanation
Indices: 8261651--8261703 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
8261641 CCCCAACCCT
*
8261651 TAAACTA
1 TAAACCA
8261658 TAAACCA
1 TAAACCA
*
8261665 TAACCCA
1 TAAACCA
8261672 TAAACCA
1 TAAACCA
* *
8261679 TAATCCC
1 TAAACCA
8261686 TAAACCCA
1 TAAA-CCA
*
8261694 TAATCCA
1 TAAACCA
8261701 TAA
1 TAA
8261704 GCCCTAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:8261694 original size:22 final size:22
Alignment explanation
Indices: 8261666--8261711 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
8261656 TATAAACCAT
*
8261666 AACCCATAAACCATAATCCCTA
1 AACCCATAAACCATAAGCCCTA
*
8261688 AACCCATAATCCATAAGCCCTA
1 AACCCATAAACCATAAGCCCTA
8261710 AA
1 AA
8261712 TAGTAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCCATAAACCATAAGCCCTA
Found at i:8261696 original size:15 final size:15
Alignment explanation
Indices: 8261657--8261703 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
8261647 CCCTTAAACT
8261657 ATAAACCATAA-CCC
1 ATAAACCATAATCCC
8261671 ATAAACCATAATCCC
1 ATAAACCATAATCCC
8261686 -TAAACCCATAAT-CC
1 ATAAA-CCATAATCCC
8261700 ATAA
1 ATAA
8261704 GCCCTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAACCATAATCCC
Found at i:8262181 original size:14 final size:14
Alignment explanation
Indices: 8262162--8262188 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8262152 AAAAATTGGT
8262162 AAAAATTATAGAAA
1 AAAAATTATAGAAA
8262176 AAAAATTATAGAA
1 AAAAATTATAGAA
8262189 GAACTATATA
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:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAAATTATAGAAA
Found at i:8267129 original size:17 final size:19
Alignment explanation
Indices: 8267107--8267141 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8267097 GATATGATAC
8267107 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
8267124 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
8267142 ATCTGGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:8267440 original size:23 final size:21
Alignment explanation
Indices: 8267410--8267453 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8267400 AAATTAAATC
8267410 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
*
8267433 TCTAAGATTGCAATCATATCT
1 TCTAAGATTACAATCATATCT
8267454 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:8267449 original size:21 final size:21
Alignment explanation
Indices: 8267423--8267472 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 21
8267413 AAGATTACAA
8267423 AATCATATCTTCTAAGATTGC
1 AATCATATCTTCTAAGATTGC
8267444 AATCATA---TCTAAGATTGC
1 AATCATATCTTCTAAGATTGC
8267462 ATATCATATCT
1 A-ATCATATCT
8267473 AAAATTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 12 0.48
19 6 0.24
21 7 0.28
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (21 bp):
AATCATATCTTCTAAGATTGC
Found at i:8267469 original size:19 final size:19
Alignment explanation
Indices: 8267433--8267487 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
8267423 AATCATATCT
8267433 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
8267451 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
8267470 TCTAAAATTGCATATCAT
1 TCTAAGATTGCATATCAT
8267488 TGAAGATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
18 12 0.34
19 23 0.66
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:8267915 original size:45 final size:45
Alignment explanation
Indices: 8267838--8268019 Score: 213
Period size: 45 Copynumber: 4.1 Consensus size: 45
8267828 GGAAGGCGAT
* * * *
8267838 ATCTGCTATCTTTGATCTACTCTCCGTTTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
8267883 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * ** * * *
8267928 ATCTACT-TCTTCAATCTGCTCCCTATTTAATACAGATATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
8267972 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
8268017 ATC
1 ATC
8268020 ATCTTGGATC
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
44 36 0.32
45 78 0.68
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:8268098 original size:78 final size:78
Alignment explanation
Indices: 8267984--8268253 Score: 425
Period size: 78 Copynumber: 3.5 Consensus size: 78
8267974 CTGTTATCTC
*
8267984 CGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-
1 CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAG
*
8268048 ATCTGTTATGTCTT
65 ATCTGCTATGTCTT
*
8268062 CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCAGA
1 CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGA
*
8268127 TCTGCTGTGTCTT
66 TCTGCTATGTCTT
*
8268140 CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTTAGA
1 CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGA
*
8268205 TCTGCTATATCTT
66 TCTGCTATGTCTT
* * * **
8268218 CAATCTGCTCTCCGTCAAATATGGAGATGCCAAATC
1 CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
8268254 TGTTTCTTCG
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
77 2 0.01
78 176 0.99
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (78 bp):
CGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGA
TCTGCTATGTCTT
Found at i:8280065 original size:17 final size:19
Alignment explanation
Indices: 8280043--8280077 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8280033 GATATGATAC
8280043 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
8280060 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
8280078 ATTCGGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:8280373 original size:23 final size:22
Alignment explanation
Indices: 8280345--8280390 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
8280335 CAAATTAAAT
8280345 TTCTAAGATTACAAAATCATATC
1 TTCTAAGATTAC-AAATCATATC
* *
8280368 TTCTAAGATTGCATATCATATC
1 TTCTAAGATTACAAATCATATC
8280390 T
1 T
8280391 AAGATTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (22 bp):
TTCTAAGATTACAAATCATATC
Found at i:8280405 original size:18 final size:19
Alignment explanation
Indices: 8280369--8280423 Score: 103
Period size: 18 Copynumber: 2.9 Consensus size: 19
8280359 AATCATATCT
8280369 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
8280388 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
8280406 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
8280424 TGAAGATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 18 0.51
19 17 0.49
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:8282208 original size:6 final size:6
Alignment explanation
Indices: 8282194--8282224 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8282184 ACAATAAGAA
*
8282194 GCTAAG GCTAGG GCTAGG GCTAGG GCTAGG G
1 GCTAGG GCTAGG GCTAGG GCTAGG GCTAGG G
8282225 TTAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.48, T:0.16
Consensus pattern (6 bp):
GCTAGG
Found at i:8284704 original size:2 final size:2
Alignment explanation
Indices: 8284697--8284740 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
8284687 AAAAGAATTA
*
8284697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8284738 AT A
1 AT A
8284741 AAGTGAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8285145 original size:23 final size:24
Alignment explanation
Indices: 8285095--8285147 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
8285085 GAATAAAATA
* *
8285095 AAAATATAATAAATGTTATATAAT
1 AAAATATAATAAATGATATATAAG
* *
8285119 AAAATATAATATA-GATATATAGG
1 AAAATATAATAAATGATATATAAG
8285142 AAAATA
1 AAAATA
8285148 ATATATGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (24 bp):
AAAATATAATAAATGATATATAAG
Found at i:8290093 original size:54 final size:54
Alignment explanation
Indices: 8290034--8290142 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
8290024 TGAATGGAGA
8290034 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
1 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
*
8290088 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATATACAAATCAGTTGT
1 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
8290142 G
1 G
8290143 TATATTAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (54 bp):
GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
Found at i:8290314 original size:16 final size:16
Alignment explanation
Indices: 8290295--8290325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8290285 ATATTAATTT
*
8290295 TATTTAATATTAAAAA
1 TATTTAACATTAAAAA
8290311 TATTTAACATTAAAA
1 TATTTAACATTAAAA
8290326 TAATATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTTAACATTAAAAA
Found at i:8290448 original size:21 final size:20
Alignment explanation
Indices: 8290409--8290451 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8290399 CTTACAAGTT
* *
8290409 AATTATTTTATTTATTGTTA
1 AATTAATTTATTTAATGTTA
8290429 AATTAATTTATTTAAATGTTA
1 AATTAATTTATTT-AATGTTA
8290450 AA
1 AA
8290452 ATTATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
AATTAATTTATTTAATGTTA
Found at i:8295878 original size:21 final size:23
Alignment explanation
Indices: 8295852--8295897 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
8295842 TCTATTTAAT
8295852 TATTTTAA-TTATTTAA-TTATA
1 TATTTTAATTTATTTAATTTATA
8295873 TATTTTAATTTATTTAATTTATA
1 TATTTTAATTTATTTAATTTATA
8295896 TA
1 TA
8295898 AGTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.35
22 8 0.35
23 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTTTAATTTATTTAATTTATA
Found at i:8295906 original size:21 final size:21
Alignment explanation
Indices: 8295857--8295908 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
8295847 TTAATTATTT
**
8295857 TAATTATTTAATTATATATTT
1 TAATTATTTAATTATATATAG
8295878 TAATTTATTTAATT-TATATAAG
1 TAA-TTATTTAATTATATAT-AG
8295900 TAATTATTT
1 TAATTATTT
8295909 GATAAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATTATTTAATTATATATAG
Found at i:8302202 original size:2 final size:2
Alignment explanation
Indices: 8302189--8302230 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8302179 TTCTCAACTG
*
8302189 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8302231 TTAATATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8302309 original size:26 final size:25
Alignment explanation
Indices: 8302256--8302313 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
8302246 ACATTGAATG
* *
8302256 TAATTTTAAGTATTTAGTTTTTAAT
1 TAATTTTAAATAATTAGTTTTTAAT
*
8302281 TAATTTTAAAATAATTATTTTTTAAT
1 TAATTTT-AAATAATTAGTTTTTAAT
8302307 TAATTTT
1 TAATTTT
8302314 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (25 bp):
TAATTTTAAATAATTAGTTTTTAAT
Found at i:8302321 original size:14 final size:15
Alignment explanation
Indices: 8302276--8302321 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
8302266 TATTTAGTTT
8302276 TTAATTAATTTTAAAA
1 TTAATT-ATTTTAAAA
**
8302292 -TAATTATTTTTTAA
1 TTAATTATTTTAAAA
8302306 TTAATT-TTTTAAAA
1 TTAATTATTTTAAAA
8302320 TT
1 TT
8302322 TTAATTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTATTTTAAAA
Found at i:8302415 original size:19 final size:19
Alignment explanation
Indices: 8302371--8302416 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8302361 ATTAACTTAT
8302371 TTAATAATTCAAATATAATA
1 TTAA-AATTCAAATATAATA
** *
8302391 AAAAAATTCAAATATCATA
1 TTAAAATTCAAATATAATA
8302410 TTAAAAT
1 TTAAAAT
8302417 ATTGATATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAAATTCAAATATAATA
Found at i:8303286 original size:2 final size:2
Alignment explanation
Indices: 8303279--8303311 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8303269 CTCATGCTTT
8303279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8303312 AATAGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8303937 original size:19 final size:19
Alignment explanation
Indices: 8303897--8303936 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8303887 TTTAAGTATT
*
8303897 AAATTAAATATTAAAATTA
1 AAATCAAATATTAAAATTA
8303916 AAATCAAATATT-AAATTA
1 AAATCAAATATTAAAATTA
8303934 AAA
1 AAA
8303937 AAAAATTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATCAAATATTAAAATTA
Found at i:8303942 original size:18 final size:19
Alignment explanation
Indices: 8303902--8303942 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
8303892 GTATTAAATT
**
8303902 AAATATTAAAATTAAAATC
1 AAATATTAAAATTAAAAAA
8303921 AAATATT-AAATTAAAAAA
1 AAATATTAAAATTAAAAAA
8303939 AAAT
1 AAAT
8303943 TAGCTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATATTAAAATTAAAAAA
Found at i:8307471 original size:2 final size:2
Alignment explanation
Indices: 8307464--8307491 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8307454 CTGAAACTCG
8307464 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
8307492 GCTTTAGCAG
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8308928 original size:18 final size:19
Alignment explanation
Indices: 8308891--8308929 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
8308881 ATTACAAAAT
*
8308891 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
*
8308910 AATTTAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
8308928 AA
1 AA
8308930 ATTCTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:8308943 original size:18 final size:18
Alignment explanation
Indices: 8308876--8308944 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
8308866 TCTCTCCCAA
*
8308876 TAAAAATTACAAAATAATTC
1 TAAAAATTA-TAAA-AATTC
* * *
8308896 AAAATAATTTTTAAAATT-
1 TAAA-AATTATAAAAATTC
8308914 TAAAATATTTATAAAAATTC
1 TAAAA-A-TTATAAAAATTC
8308934 TAAAAATTATA
1 TAAAAATTATA
8308945 TTTTTTTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
17 1 0.03
18 9 0.24
19 14 0.37
20 10 0.26
21 4 0.11
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAATTATAAAAATTC
Found at i:8311269 original size:16 final size:17
Alignment explanation
Indices: 8311241--8311272 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8311231 GAACGAAAGA
8311241 GGAAAAAATAAAAGAAC
1 GGAAAAAATAAAAGAAC
8311258 GGAAAAAA-AAAAGAA
1 GGAAAAAATAAAAGAA
8311273 AAGGAGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (17 bp):
GGAAAAAATAAAAGAAC
Found at i:8312694 original size:2 final size:2
Alignment explanation
Indices: 8312687--8312735 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
8312677 CTTTTTAGTG
8312687 TA TA TA TA TA TA 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 TA TA TA TA TA TA
8312729 TA TA TA T
1 TA TA TA T
8312736 TAATTTGGCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8317028 original size:41 final size:41
Alignment explanation
Indices: 8316971--8317052 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
8316961 TGCAATATAG
8316971 ATGGGTCTCCGGGCTTATCTAATGTATTGGGTATTAATTAT
1 ATGGGTCTCCGGGCTTATCTAATGTATTGGGTATTAATTAT
8317012 ATGGGTCTCCGGGCTTATCTAATGTATTGGGTATTAATTAT
1 ATGGGTCTCCGGGCTTATCTAATGTATTGGGTATTAATTAT
8317053 TTGTGTTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (41 bp):
ATGGGTCTCCGGGCTTATCTAATGTATTGGGTATTAATTAT
Found at i:8319258 original size:19 final size:19
Alignment explanation
Indices: 8319230--8319267 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8319220 AACTAGAGAA
8319230 TGTTGACAAACCCTAATAC
1 TGTTGACAAACCCTAATAC
*
8319249 TGTTGCCAAACCCTAATAC
1 TGTTGACAAACCCTAATAC
8319268 CCTCTTCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (19 bp):
TGTTGACAAACCCTAATAC
Found at i:8320746 original size:2 final size:2
Alignment explanation
Indices: 8320739--8320787 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
8320729 ATCGTAGAAA
*
8320739 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8320781 AT AT AT A
1 AT AT AT A
8320788 AAAGACTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8321713 original size:24 final size:25
Alignment explanation
Indices: 8321670--8321716 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8321660 TATGGTAACC
*
8321670 AATTTTTAATTATAGAAATTAATGA
1 AATTTTTAATTAGAGAAATTAATGA
8321695 AATTTTTAATTAGAG-AATTAAT
1 AATTTTTAATTAGAGAAATTAAT
8321717 TTACTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (25 bp):
AATTTTTAATTAGAGAAATTAATGA
Found at i:8331701 original size:31 final size:31
Alignment explanation
Indices: 8331665--8331723 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
8331655 AAAGAAAAAA
8331665 TGACTTAAATAAAAAAATTTGAATAGTTCAG
1 TGACTTAAATAAAAAAATTTGAATAGTTCAG
* * **
8331696 TGACTTAAGTGAAAACTTTTGAATAGTT
1 TGACTTAAATAAAAAAATTTGAATAGTT
8331724 TAATGATCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAAAATTTGAATAGTTCAG
Found at i:8332051 original size:31 final size:30
Alignment explanation
Indices: 8332010--8332087 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
8332000 ATAAACGTCA
*
8332010 AATTTATACATAAATTTTAGTTTAATGTAT
1 AATTTATACATAAATTTTAATTTAATGTAT
*
8332040 AATTTAATACATAAATTTTAATTT-A-GTGT
1 AATTT-ATACATAAATTTTAATTTAATGTAT
8332069 AATTATATACATGAAATTT
1 AATT-TATACAT-AAATTT
8332088 GAGTTGTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 13 0.30
30 13 0.30
31 17 0.40
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (30 bp):
AATTTATACATAAATTTTAATTTAATGTAT
Found at i:8333426 original size:15 final size:14
Alignment explanation
Indices: 8333391--8333450 Score: 93
Period size: 14 Copynumber: 4.2 Consensus size: 14
8333381 AGTAAAATAT
*
8333391 TTTCCGGAAAATGA
1 TTTCTGGAAAATGA
8333405 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
*
8333419 TTTCCTGGAAAATAA
1 TTT-CTGGAAAATGA
8333434 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
8333448 TTT
1 TTT
8333451 ACTTTTCTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 29 0.69
15 13 0.31
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:8333430 original size:29 final size:28
Alignment explanation
Indices: 8333391--8333450 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 28
8333381 AGTAAAATAT
*
8333391 TTTCCGGAAAATGATTTCTGGAAAATGA
1 TTTCCGGAAAATAATTTCTGGAAAATGA
8333419 TTTCCTGGAAAATAATTTCTGGAAAATGA
1 TTTCC-GGAAAATAATTTCTGGAAAATGA
8333448 TTT
1 TTT
8333451 ACTTTTCTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (28 bp):
TTTCCGGAAAATAATTTCTGGAAAATGA
Found at i:8333947 original size:22 final size:22
Alignment explanation
Indices: 8333922--8334007 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
8333912 ATCCAAGTGC
8333922 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* *
8333944 ATAACTAATATTACAGCACATT
1 ATAACTAATATTACACCACATG
* **
8333966 ATAAC-AACATT-GTCCA-AGTG
1 ATAACTAATATTACACCACA-TG
8333986 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
8334008 TATCAATATC
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 10 0.20
22 30 0.61
23 4 0.08
24 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:8334998 original size:32 final size:32
Alignment explanation
Indices: 8334952--8335012 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
8334942 TGTCAATCAT
8334952 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
8334984 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
8335013 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:8335019 original size:27 final size:30
Alignment explanation
Indices: 8334952--8335025 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
8334942 TGTCAATCAT
*
8334952 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
8334984 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
8335012 -TCAATATCTAACAA
1 TTCAATATCTAACAA
8335026 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:8336523 original size:2 final size:2
Alignment explanation
Indices: 8336516--8336550 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8336506 AAGTGCATAC
8336516 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 A
8336551 ATTTTCTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8337031 original size:2 final size:2
Alignment explanation
Indices: 8337020--8337049 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8337010 GAACCTTTAC
8337020 TA TA -A 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 T
8337050 GGTTTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8338415 original size:81 final size:81
Alignment explanation
Indices: 8338280--8338442 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
8338270 TAAGCTCCTC
8338280 TGAATTGAGCTCCCTTTCCCTCTGCTAGTTTGTCAAGATCGTTAATCAGCATCTCTAAGTTCATC
1 TGAATTGAGCTCCCTTTCCCTCTGCTAGTTTGTCAAGATCGTTAATCAGCATCTCTAAGTTCATC
8338345 ACTATGGCATTAATGT
66 ACTATGGCATTAATGT
8338361 TGAATTGAGCTCCCTTTCCCTCTGCTAGTTTGTCAAGATCGTTAATCAGCATCTCTAAGTTCATC
1 TGAATTGAGCTCCCTTTCCCTCTGCTAGTTTGTCAAGATCGTTAATCAGCATCTCTAAGTTCATC
8338426 ACTATGGCATTAATGT
66 ACTATGGCATTAATGT
8338442 T
1 T
8338443 TCCACAAATG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (81 bp):
TGAATTGAGCTCCCTTTCCCTCTGCTAGTTTGTCAAGATCGTTAATCAGCATCTCTAAGTTCATC
ACTATGGCATTAATGT
Found at i:8349748 original size:19 final size:18
Alignment explanation
Indices: 8349725--8349770 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
8349715 GTACATAGGG
*
8349725 TTTTTTTTTTTACATTTCAC
1 TTTTTTTTTTAAC-TTT-AC
*
8349745 TTTTTCTTTTAACTTTAC
1 TTTTTTTTTTAACTTTAC
8349763 TTTTTTTT
1 TTTTTTTT
8349771 AAAAGTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTTAACTTTAC
Found at i:8358145 original size:31 final size:31
Alignment explanation
Indices: 8358090--8358151 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
8358080 ATATTTTTAT
* *
8358090 TTGATCAATTTTAGTTCATATACTTTTCAAA
1 TTGATCAATTTTAATTCATATACTTTCCAAA
*
8358121 TTGATCAATTTTAATAT-ATGTACTTTCCAAA
1 TTGATCAATTTTAAT-TCATATACTTTCCAAA
8358152 CAAATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (31 bp):
TTGATCAATTTTAATTCATATACTTTCCAAA
Found at i:8359292 original size:29 final size:29
Alignment explanation
Indices: 8359250--8359307 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
8359240 ATTAAGAAGC
8359250 CGGTTATATAGAAAAGTAAAGCTGTCGGA
1 CGGTTATATAGAAAAGTAAAGCTGTCGGA
8359279 CGGTTATATAGAAAAGTAAAGCTGTCGGA
1 CGGTTATATAGAAAAGTAAAGCTGTCGGA
8359308 TGGAATGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.24
Consensus pattern (29 bp):
CGGTTATATAGAAAAGTAAAGCTGTCGGA
Found at i:8361173 original size:44 final size:44
Alignment explanation
Indices: 8361108--8361198 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
8361098 TCAGTATAGT
*
8361108 TTCATCAAGATGTTGAGTAAAAGAATAAGATAAAAGATTCAAAC
1 TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
* * * * * *
8361152 TTCATTAAGATGTTGATTAAAATAACCAGATACAAGATTCAAGC
1 TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
8361196 TTC
1 TTC
8361199 TAGTTGCAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (44 bp):
TTCATCAAGATGTTGAGTAAAAGAACAAGATAAAAGATTCAAAC
Found at i:8361614 original size:102 final size:102
Alignment explanation
Indices: 8361438--8361639 Score: 377
Period size: 102 Copynumber: 2.0 Consensus size: 102
8361428 TTTCATGAAG
8361438 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
8361503 ATGCAGTATTTTCAGTAACTATTTCATTCTCATCAAC
66 ATGCAGTATTTTCAGTAACTATTTCATTCTCATCAAC
*
8361540 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTTCCCATGCACAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
* *
8361605 ATGCAGTATTTTCAGTACCTATTTCATTCTTATCA
66 ATGCAGTATTTTCAGTAACTATTTCATTCTCATCA
8361640 TCTTCACCTG
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (102 bp):
AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
ATGCAGTATTTTCAGTAACTATTTCATTCTCATCAAC
Found at i:8362046 original size:12 final size:12
Alignment explanation
Indices: 8362029--8362056 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8362019 CAATCAAAAG
8362029 CTCTCTTTCACT
1 CTCTCTTTCACT
8362041 CTCTCTTTCACT
1 CTCTCTTTCACT
8362053 CTCT
1 CTCT
8362057 TTTATCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (12 bp):
CTCTCTTTCACT
Found at i:8375129 original size:21 final size:21
Alignment explanation
Indices: 8375105--8375144 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8375095 TGTACATGTG
* *
8375105 TTAGTATACTTTGTATAGGAT
1 TTAGAATACTTTATATAGGAT
*
8375126 TTAGAATAGTTTATATAGG
1 TTAGAATACTTTATATAGG
8375145 GTTTTAGGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (21 bp):
TTAGAATACTTTATATAGGAT
Found at i:8378541 original size:20 final size:19
Alignment explanation
Indices: 8378486--8378551 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
8378476 CATATTAAAA
*
8378486 ATATTATTCTATAATTTTAAT
1 ATATTATT-TACAA-TTTAAT
* ** *
8378507 ATTTTATAAAGAATTCTAAT
1 ATATTATTTACAATT-TAAT
8378527 ATATTATTTACAATTTAAT
1 ATATTATTTACAATTTAAT
8378546 ATATTA
1 ATATTA
8378552 AAATGTGTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 12 0.33
20 18 0.50
21 6 0.17
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (19 bp):
ATATTATTTACAATTTAAT
Found at i:8379162 original size:17 final size:17
Alignment explanation
Indices: 8379142--8379176 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8379132 TTTTCCCTCC
8379142 TCTTCCCTTTTTTCTTT
1 TCTTCCCTTTTTTCTTT
**
8379159 TCTTTTCTTTTTTCTTT
1 TCTTCCCTTTTTTCTTT
8379176 T
1 T
8379177 GCTAGCCTGT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTCCCTTTTTTCTTT
Found at i:8379731 original size:79 final size:75
Alignment explanation
Indices: 8379602--8379748 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 75
8379592 AAAGAATTGA
* *
8379602 TCGAGAAATCAACAAAAAATAGAAACTATCAGAATACCAATTGACAACACAATCTCAGAACAAAA
1 TCGAAAAATCAACAAAAAATAGAAACTATCAGAATACCAATCGACAACACAATCTCAGAACAAAA
8379667 AAATAGAAAC
66 AAATAGAAAC
* * *
8379677 TCGAAAAATCAACAAAAAAATAGAAACTAATATTAGAATACCAATCGGCTACACAATCTCAGAAC
1 TCGAAAAATCAAC-AAAAAATAGAAAC---TATCAGAATACCAATCGACAACACAATCTCAGAAC
8379742 AAAAAAA
62 AAAAAAA
8379749 AAAAGAATCT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
75 12 0.19
76 13 0.21
79 38 0.60
ACGTcount: A:0.57, C:0.18, G:0.09, T:0.16
Consensus pattern (75 bp):
TCGAAAAATCAACAAAAAATAGAAACTATCAGAATACCAATCGACAACACAATCTCAGAACAAAA
AAATAGAAAC
Found at i:8380339 original size:14 final size:15
Alignment explanation
Indices: 8380316--8380346 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
8380306 AGAATGAGGG
8380316 AAAATAAAAAACAAA
1 AAAATAAAAAACAAA
8380331 AAAAT-AAAAACAAA
1 AAAATAAAAAACAAA
8380345 AA
1 AA
8380347 GAAGGCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAATAAAAAACAAA
Found at i:8383972 original size:17 final size:17
Alignment explanation
Indices: 8383950--8383983 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8383940 TTTCTTTTGA
*
8383950 ATTTTTATGAACTTTTT
1 ATTTTTATGAAATTTTT
*
8383967 ATTTTTTTGAAATTTTT
1 ATTTTTATGAAATTTTT
8383984 TTATAATTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (17 bp):
ATTTTTATGAAATTTTT
Found at i:8396738 original size:7 final size:7
Alignment explanation
Indices: 8396726--8396759 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
8396716 ATACAAATTC
8396726 AAAAATA
1 AAAAATA
8396733 AAAAATA
1 AAAAATA
8396740 AAAAATA
1 AAAAATA
*
8396747 AACAATA
1 AAAAATA
8396754 AAAAAT
1 AAAAAT
8396760 CATAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:8403011 original size:17 final size:18
Alignment explanation
Indices: 8402991--8403024 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8402981 AAGTTGATTA
8402991 AAATTGC-AAAATTAAAT
1 AAATTGCGAAAATTAAAT
8403008 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
8403025 ATAGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:8405728 original size:14 final size:14
Alignment explanation
Indices: 8405709--8405740 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8405699 ATAGAGCCAT
8405709 ATAGAAGTTGCTGA
1 ATAGAAGTTGCTGA
*
8405723 ATAGAAGTTGTTGA
1 ATAGAAGTTGCTGA
8405737 ATAG
1 ATAG
8405741 TCCTTGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (14 bp):
ATAGAAGTTGCTGA
Found at i:8413636 original size:46 final size:48
Alignment explanation
Indices: 8413564--8413668 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 48
8413554 GACAGGACCG
* * *
8413564 GACAGAAATGAGCCATGTAAGTCCATATCAG-T-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
*
8413610 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAG--ATATATATGGCATTGGA
8413660 GACAGGAAT
1 GACAGGAAT
8413669 AATTCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 28 0.55
49 1 0.02
50 22 0.43
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
Found at i:8433734 original size:18 final size:18
Alignment explanation
Indices: 8433713--8433747 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8433703 ACACTTAACC
8433713 CATTATTGTTGAAATCCT
1 CATTATTGTTGAAATCCT
8433731 CATTATTGTTGAAATCC
1 CATTATTGTTGAAATCC
8433748 CCTAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
CATTATTGTTGAAATCCT
Found at i:8446279 original size:46 final size:45
Alignment explanation
Indices: 8446229--8446398 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 45
8446219 TTGAGCATCT
*
8446229 GAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGTGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-AATGTCC
* * * *
8446275 GAACTCATTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA-T--G--TCC
* * * *
8446322 GAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCAAACG-CTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-TAATGTC-C
* *
8446368 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
8446399 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 4 0.04
46 53 0.54
47 25 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAATGTCC
Found at i:8446382 original size:93 final size:93
Alignment explanation
Indices: 8446223--8446393 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
8446213 GGATGGTTGA
* ** *
8446223 GCATCTGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
8446288 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
* * * * *
8446316 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCAAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCATTGAG
8446380 TTGAGTCTGAGTTC
65 TTGAGTCTGAGTTC
8446394 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 1 0.01
93 67 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:8455626 original size:119 final size:121
Alignment explanation
Indices: 8455409--8455629 Score: 295
Period size: 119 Copynumber: 1.8 Consensus size: 121
8455399 TTCATTTTTC
* * * **
8455409 TATCATTTAATTTACATTCTTAGGTTAGTTATCATACATTTTGTGTTAAATCAAGTTATTAGGAA
1 TATCATTTAATTTACATTCCTAAGTTAGATATCATACATTCCGTGTTAAATCAAG-TATTAGGAA
* *
8455474 CACCTCATACCCATGACATTACTATGTTTATTCTCATGCTATTACCATGCCAATGTA
65 AACCTCATACCCATGACATTACTATGTTCATTCTCATGCTATTACCATGCCAATGTA
* **
8455531 TATCATTTAATTTGCATTCCTAAGTTA-ATATCATACATTCCGTGTTAAATTGAG-ATTAGGAAA
1 TATCATTTAATTTACATTCCTAAGTTAGATATCATACATTCCGTGTTAAATCAAGTATTAGGAAA
* *
8455594 ACCTCATACCCATTACATTTCTAT-TCTCATTCTCAT
66 ACCTCATACCCATGACATTACTATGT-TCATTCTCAT
8455630 TGTTATTGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
118 1 0.01
119 39 0.45
121 22 0.26
122 24 0.28
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (121 bp):
TATCATTTAATTTACATTCCTAAGTTAGATATCATACATTCCGTGTTAAATCAAGTATTAGGAAA
ACCTCATACCCATGACATTACTATGTTCATTCTCATGCTATTACCATGCCAATGTA
Found at i:8457792 original size:16 final size:16
Alignment explanation
Indices: 8457771--8457807 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
8457761 TAAAATGTTC
8457771 AACTTGAAATGTTTGA
1 AACTTGAAATGTTTGA
8457787 AACTTGAAATGTTTGA
1 AACTTGAAATGTTTGA
8457803 AACTT
1 AACTT
8457808 TTATGTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (16 bp):
AACTTGAAATGTTTGA
Found at i:8462335 original size:18 final size:20
Alignment explanation
Indices: 8462298--8462335 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8462288 ACAATTTCTA
8462298 ATAAAATTTATATATATTTT
1 ATAAAATTTATATATATTTT
*
8462318 ATAATATTTA-AT-TATTTT
1 ATAAAATTTATATATATTTT
8462336 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAAAATTTATATATATTTT
Found at i:8471246 original size:2 final size:2
Alignment explanation
Indices: 8471217--8471269 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
8471207 GTATTATTCC
* * *
8471217 AT AT TT AT AT TT AT AT -T CT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8471257 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
8471270 AGTATAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:8473549 original size:3 final size:3
Alignment explanation
Indices: 8473541--8473572 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8473531 AGAAGAGAAG
*
8473541 TTC TTC TTC TTC TTC TTC CTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
8473573 TTTTGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Done.