Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 21 of 91
Found at i:6911413 original size:32 final size:32
Alignment explanation
Indices: 6911375--6911463 Score: 101
Period size: 32 Copynumber: 2.7 Consensus size: 32
6911365 CCCTGTTGAT
*
6911375 TTTATTTTTATATTTTCCTTA-A-TTATTATTTA
1 TTTATTTTTAT-TTTT-ATTATATTTATTATTTA
*
6911407 TTTATTTTTATTTTTATTATATTTATTATTTT
1 TTTATTTTTATTTTTATTATATTTATTATTTA
*
6911439 TTTATTTTTAATCTTTTATTTTATT
1 TTTATTTTT-AT-TTTTATTATATT
6911464 GAAATATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 3 0.06
31 5 0.10
32 29 0.58
33 2 0.04
34 11 0.22
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTATTTTTATTTTTATTATATTTATTATTTA
Found at i:6911425 original size:26 final size:26
Alignment explanation
Indices: 6911396--6911448 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
6911386 ATTTTCCTTA
6911396 ATTATTATTTATT-TATTTTTATTTTT
1 ATTA-TATTTATTATATTTTTATTTTT
*
6911422 ATTATATTTATTATTTTTTTATTTTT
1 ATTATATTTATTATATTTTTATTTTT
6911448 A
1 A
6911449 ATCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (26 bp):
ATTATATTTATTATATTTTTATTTTT
Found at i:6911429 original size:17 final size:17
Alignment explanation
Indices: 6911397--6911463 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
6911387 TTTTCCTTAA
6911397 TTATTATTTATT-TATTT
1 TTATT-TTTATTATATTT
6911414 TTATTTTTATTATATTT
1 TTATTTTTATTATATTT
6911431 ATTATTTTT-TTAT-TTT
1 -TTATTTTTATTATATTT
* *
6911447 TAATCTTTTATTTTATT
1 TTAT-TTTTATTATATT
6911464 GAAATATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 3 0.07
16 13 0.30
17 17 0.40
18 10 0.23
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTTATTATATTT
Found at i:6912485 original size:20 final size:20
Alignment explanation
Indices: 6912460--6912504 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
6912450 TTAGGATGAC
6912460 TTATTACC-TTG-TTCATATAT
1 TTATTACCATTGATT-AT-TAT
6912480 TTATTACCATTGATTATTAT
1 TTATTACCATTGATTATTAT
6912500 TTATT
1 TTATT
6912505 CTAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 16 0.70
21 5 0.22
22 2 0.09
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (20 bp):
TTATTACCATTGATTATTAT
Found at i:6921084 original size:12 final size:11
Alignment explanation
Indices: 6921067--6921097 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6921057 CGCCTCTCTG
*
6921067 TTTTTTTTTCC
1 TTTTTTTTTTC
6921078 TTTTTTTTTTC
1 TTTTTTTTTTC
6921089 TTTTTTTTT
1 TTTTTTTTT
6921098 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:6921103 original size:11 final size:11
Alignment explanation
Indices: 6921067--6921105 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6921057 CGCCTCTCTG
*
6921067 TTTTTTTTTCC
1 TTTTTTTTTAC
*
6921078 TTTTTTTTTTC
1 TTTTTTTTTAC
*
6921089 TTTTTTTTTAA
1 TTTTTTTTTAC
6921100 TTTTTT
1 TTTTTT
6921106 AATTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTAC
Found at i:6921460 original size:12 final size:12
Alignment explanation
Indices: 6921443--6921467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6921433 TTAATTGTTC
6921443 TAAATATGATTT
1 TAAATATGATTT
6921455 TAAATATGATTT
1 TAAATATGATTT
6921467 T
1 T
6921468 TGTTAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAAATATGATTT
Found at i:6926074 original size:18 final size:18
Alignment explanation
Indices: 6926051--6926093 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
6926041 ACAAGTATAT
* *
6926051 ATCCACTTTTGGTGGGTG
1 ATCCACTTGTGATGGGTG
* *
6926069 ATCCACATGTGATGGGTT
1 ATCCACTTGTGATGGGTG
6926087 ATCCACT
1 ATCCACT
6926094 ACTGGTGGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
ATCCACTTGTGATGGGTG
Found at i:6926398 original size:59 final size:59
Alignment explanation
Indices: 6926284--6926399 Score: 162
Period size: 59 Copynumber: 2.0 Consensus size: 59
6926274 TCTTCGATAT
* * * * *
6926284 CCATGATTATAATTATTAAATAATGTGGCATTCACTTCAGGGAATAGATAGATTTATGA
1 CCATGATCATAATTATTAAATAATGTCGCATTCACTTCAGGAAATAGACAAATTTATGA
*
6926343 CCATGATCATAATTATTAAATGATGTCGCATTCACTTCAGGAAAT-GAACAAATTTAT
1 CCATGATCATAATTATTAAATAATGTCGCATTCACTTCAGGAAATAG-ACAAATTTAT
6926400 AATTTGTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 1 0.02
59 49 0.98
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (59 bp):
CCATGATCATAATTATTAAATAATGTCGCATTCACTTCAGGAAATAGACAAATTTATGA
Found at i:6930709 original size:2 final size:2
Alignment explanation
Indices: 6930697--6930773 Score: 74
Period size: 2 Copynumber: 41.0 Consensus size: 2
6930687 TACAGACTCC
*
6930697 AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * *
6930738 -G AG A- AG A- AG AA AG AA AG AA AG AA AG A- AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6930774 TAGTANAAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
1 5 0.08
2 55 0.92
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6932328 original size:20 final size:20
Alignment explanation
Indices: 6932305--6932349 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6932295 ATCGAATAAG
*
6932305 TATGTTTTTTGAATTAAAAA
1 TATGATTTTTGAATTAAAAA
6932325 TATGATTTTTGAATTAAAAA
1 TATGATTTTTGAATTAAAAA
6932345 TATGA
1 TATGA
6932350 GTTTATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (20 bp):
TATGATTTTTGAATTAAAAA
Found at i:6935042 original size:21 final size:22
Alignment explanation
Indices: 6935006--6935061 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
6934996 GAACAAATTC
* *
6935006 AACAACATTTAACAATATT-TTA
1 AACAA-ATTCAACAATATTCTAA
*
6935028 AGCAAATTCAACAATATTCTAA
1 AACAAATTCAACAATATTCTAA
6935050 AACAAATTCAAC
1 AACAAATTCAAC
6935062 CTACTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.29
Consensus pattern (22 bp):
AACAAATTCAACAATATTCTAA
Found at i:6935130 original size:20 final size:20
Alignment explanation
Indices: 6935107--6935170 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
6935097 GAAATTCCAA
*
6935107 CAACAATAGTCTTAAAATTC
1 CAACAATAATCTTAAAATTC
* *
6935127 CAAC-AT-TTC-AAGAAATTC
1 CAACAATAATCTTA-AAATTC
*
6935145 CAACAATAATATTAAAATTC
1 CAACAATAATCTTAAAATTC
6935165 CAACAA
1 CAACAA
6935171 CTAACAATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 1 0.03
18 12 0.34
19 4 0.11
20 17 0.49
21 1 0.03
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (20 bp):
CAACAATAATCTTAAAATTC
Found at i:6939829 original size:21 final size:21
Alignment explanation
Indices: 6939760--6939834 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 21
6939750 CAGAATAATG
6939760 TTAACTAGTTAACATGAAGCC
1 TTAACTAGTTAACATGAAGCC
*
6939781 TTAA-TCAGTCAAACCAGTGTAATG--
1 TTAACT-AGT-TAA-CA-TG-AA-GCC
6939805 TTAACTAGTTAACATGAAGCC
1 TTAACTAGTTAACATGAAGCC
*
6939826 TTAATTAGT
1 TTAACTAGT
6939835 CAAGGTTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 17 0.40
22 4 0.10
23 4 0.10
24 9 0.21
25 3 0.07
26 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (21 bp):
TTAACTAGTTAACATGAAGCC
Found at i:6941273 original size:18 final size:18
Alignment explanation
Indices: 6941246--6941281 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6941236 TAATTTTTTT
6941246 AAATTGAAAGATTCATTG
1 AAATTGAAAGATTCATTG
*
6941264 AAATTTAAAGATTCATTG
1 AAATTGAAAGATTCATTG
6941282 TTAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (18 bp):
AAATTGAAAGATTCATTG
Found at i:6950803 original size:21 final size:20
Alignment explanation
Indices: 6950775--6950815 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6950765 AATCAAGGAT
6950775 TTGAAAAGCCATAGTTGACC
1 TTGAAAAGCCATAGTTGACC
**
6950795 TTGACAAAGTTATAGTTGACC
1 TTGA-AAAGCCATAGTTGACC
6950816 CTCCAAGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (20 bp):
TTGAAAAGCCATAGTTGACC
Found at i:6951359 original size:64 final size:64
Alignment explanation
Indices: 6951243--6951442 Score: 195
Period size: 64 Copynumber: 3.1 Consensus size: 64
6951233 AGTTAGTGTT
* * * * * *** *
6951243 GGTTTGTGGTTGAGCCCGTTAAAATCCATGGGTTTTGCTTGCTCCCACTAAAAGGCATTTGCAA
1 GGTTTGTGGCTGAACCCATTAAAAACCATGGGTTGTGCTTGCTCCTGTTAAAAGGCATTTGAAA
** * *
6951307 GGTTTGCT-GCTGAACCCATTAAAAACCATGGGTTGTGCTTGCTTTTGTTAAAAAGTATTTGAAA
1 GGTTTG-TGGCTGAACCCATTAAAAACCATGGGTTGTGCTTGCTCCTGTTAAAAGGCATTTGAAA
* * *** * *
6951371 GGTTTGTGGTTGAGCTTGTTAAAAACTATGGGTTGTGCTTGCTCCTGTTAAAAGGCATTTGTAA
1 GGTTTGTGGCTGAACCCATTAAAAACCATGGGTTGTGCTTGCTCCTGTTAAAAGGCATTTGAAA
*
6951435 GGGTTGTG
1 GGTTTGTG
6951443 ATTGCTCTAA
Statistics
Matches: 109, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
63 1 0.01
64 107 0.98
65 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (64 bp):
GGTTTGTGGCTGAACCCATTAAAAACCATGGGTTGTGCTTGCTCCTGTTAAAAGGCATTTGAAA
Found at i:6954745 original size:23 final size:21
Alignment explanation
Indices: 6954703--6954749 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
6954693 CAATATTTCC
*
6954703 ATATCATGATTAGCATTCAAA
1 ATATCATGATTAACATTCAAA
*
6954724 ATATACATGTTTAACATATCAAA
1 ATAT-CATGATTAACAT-TCAAA
6954747 ATA
1 ATA
6954750 GGTTTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
23 8 0.36
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (21 bp):
ATATCATGATTAACATTCAAA
Found at i:6960253 original size:2 final size:2
Alignment explanation
Indices: 6960246--6960281 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6960236 TGCATAAATT
6960246 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
6960282 ATTTGTATTA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6967154 original size:723 final size:722
Alignment explanation
Indices: 6965750--6967202 Score: 2818
Period size: 723 Copynumber: 2.0 Consensus size: 722
6965740 ACCTCTATCC
6965750 TAAATTTAATCTCTAGTGTTTTTTGGCCAAAATTTCTTTAGTTTACCACATGGAGTTCCAAACAT
1 TAAATTTAATCTCTAGTGTTTTTTGGCCAAAATTTCTTTAGTTTACCACATGGAGTTCCAAACAT
*
6965815 GAGAAATCTACAGCAAAGGCATGGCGAATGGAAATGCAGGATTTCAACACAAAATTTGCTACAAA
66 GAGAAATCTACAACAAAGGCATGGCGAATGGAAATGCAGGATTTCAACACAAAATTTGCTACAAA
6965880 ATTACAAGTGAGCTTTCAACAATCTTTCAAATACCCAAAAAGGTTATCAGGTTATTCCTACCTTT
131 ATTACAAGTGAGCTTTCAACAATCTTTCAAATACCCAAAAAGGTTATCAGGTTATTCCTACCTTT
6965945 ATTTCAAATTGAATGTCTATCTTACTGTTTTAGGATGTTTCAAAATAATATTCACTTTCCAAAAA
196 ATTTCAAATTGAATGTCTATCTTACTGTTTTAGGATGTTTCAAAATAATATTCACTTTCCAAAAA
*
6966010 AATAAAAAACATTTTGTTAATGTTGCTTTCATTGAAATACTAACTTAGGTTGATCTCACTAGCTT
261 AATAAAAAACATTTTGTTAATGTTGCTTTCATTGAAATACTAACTTAGGTGGATCTCACTAGCTT
6966075 TATGAAACTTAAAAGAGTAAAAGTTGTCAAGAGACAAAATACTCATACCTAAAACTTTGTGCAAT
326 TATGAAACTTAAAAGAGTAAAAGTTGTCAAGAGACAAAATACTCATACCTAAAACTTTGTGCAAT
6966140 TGCTAAAAAAAAATGTGTAATTTAAAAAGGAAACATTAAATTAGAAACAGAGGGTACAATTAGAA
391 TGCTAAAAAAAAATGTGTAATTTAAAAAGGAAACATTAAATTAGAAACAGAGGGTACAATTAGAA
*
6966205 GTTCAGGAACTAAAGTAAGTTGAGTGAATGTTAAATAACTAATAGGGTAATGCAACCTATGAATA
456 GTTCAGGAACTAAAGTAAGTTGAGTGAATGTTAAATAACTAATAGGGTAACGCAACCTATGAATA
6966270 AAACACCACAAAATTCGATCCTACAATTTCTTGTGTTTGACATTATATTAAAAATTCAACGCTTT
521 AAACACCACAAAATTCGATCCTACAATTTCTTGTGTTTGACATTATATTAAAAATTCAACGCTTT
6966335 TGAACAATCAACATAAAACAAAGGAAAACTTAAGAAAATGACTAGCTGAAATGTAGGTCATTTTT
586 TGAACAATCAACATAAAACAAAGGAAAACTTAAGAAAATGACTAGCTGAAATGTAGGTCATTTTT
6966400 AACCAAAATCTAACAGGAAAAAAAATCTCCAATGGGATCCTCTTCACTGGCAAAAAATTGTATTG
651 AACCAAAATCTAACAGGAAAAAAAATCTCCAATGGGATCCTCTTCACTGGCAAAAAATTGTATTG
6966465 ATTAAGA
716 ATTAAGA
*
6966472 TAAATTTAATCTCTAGTTTTTTTTTGGCCAAAATTTCTTTAGTTTACCACATGGAGTTCCAAACA
1 TAAATTTAATCTCTAG-TGTTTTTTGGCCAAAATTTCTTTAGTTTACCACATGGAGTTCCAAACA
*
6966537 TGAGAAATCTACAACAAAGGCATTGCGAATGGAAATGCAGGATTTCAACACAAAATTTGCTACAA
65 TGAGAAATCTACAACAAAGGCATGGCGAATGGAAATGCAGGATTTCAACACAAAATTTGCTACAA
6966602 AATTACAAGTGAGCTTTCAACAATCTTTCAAATACCCAAAAAGGTTATCAGGTTATTCCTACCTT
130 AATTACAAGTGAGCTTTCAACAATCTTTCAAATACCCAAAAAGGTTATCAGGTTATTCCTACCTT
6966667 TATTTCAAATTGAATGTCTATCTTACTGTTTTAGGATGTTTCAAAATAATATTCACTTTCCAAAA
195 TATTTCAAATTGAATGTCTATCTTACTGTTTTAGGATGTTTCAAAATAATATTCACTTTCCAAAA
6966732 AAATAAAAAACATTTTGTTAATGTTGCTTTCATTGAAATACTAACTTAGGTGGATCTCACTAGCT
260 AAATAAAAAACATTTTGTTAATGTTGCTTTCATTGAAATACTAACTTAGGTGGATCTCACTAGCT
6966797 TTATGAAACTTAAAAGAGTAAAAGTTGTCAAGAGACAAAATACTCATACCTAAAACTTTGTGCAA
325 TTATGAAACTTAAAAGAGTAAAAGTTGTCAAGAGACAAAATACTCATACCTAAAACTTTGTGCAA
6966862 TTGCTAAAAAAAAATGTGTAATTTAAAAAGGAAACATTAAATTAGAAACAGAGGGTACAATTAGA
390 TTGCTAAAAAAAAATGTGTAATTTAAAAAGGAAACATTAAATTAGAAACAGAGGGTACAATTAGA
*
6966927 AGTTCAGGAACTAAAGTAAGTTGAGTGAATGTTAAATAACTGATAGGGTAACGCAACCTATGAAT
455 AGTTCAGGAACTAAAGTAAGTTGAGTGAATGTTAAATAACTAATAGGGTAACGCAACCTATGAAT
6966992 AAAACACCACAAAATTCGATCCTACAATTTCTTGTGTTTGACATTATATTAAAAATTCAACGCTT
520 AAAACACCACAAAATTCGATCCTACAATTTCTTGTGTTTGACATTATATTAAAAATTCAACGCTT
6967057 TTGAACAATCAACATAAAACAAAGGAAAACTTAAGAAAATGACTAGCTGAAATGTAGGTCATTTT
585 TTGAACAATCAACATAAAACAAAGGAAAACTTAAGAAAATGACTAGCTGAAATGTAGGTCATTTT
* *
6967122 TAACCAAAATCTAACAGGAATAAAAATCTCCAATGGGATCCTCTTCACTGGCAAAATATTGTATT
650 TAACCAAAATCTAACAGGAAAAAAAATCTCCAATGGGATCCTCTTCACTGGCAAAAAATTGTATT
6967187 GATTAAGA
715 GATTAAGA
6967195 T-AATTTAA
1 TAAATTTAA
6967203 AAAAAAAATT
Statistics
Matches: 722, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
722 23 0.03
723 699 0.97
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (722 bp):
TAAATTTAATCTCTAGTGTTTTTTGGCCAAAATTTCTTTAGTTTACCACATGGAGTTCCAAACAT
GAGAAATCTACAACAAAGGCATGGCGAATGGAAATGCAGGATTTCAACACAAAATTTGCTACAAA
ATTACAAGTGAGCTTTCAACAATCTTTCAAATACCCAAAAAGGTTATCAGGTTATTCCTACCTTT
ATTTCAAATTGAATGTCTATCTTACTGTTTTAGGATGTTTCAAAATAATATTCACTTTCCAAAAA
AATAAAAAACATTTTGTTAATGTTGCTTTCATTGAAATACTAACTTAGGTGGATCTCACTAGCTT
TATGAAACTTAAAAGAGTAAAAGTTGTCAAGAGACAAAATACTCATACCTAAAACTTTGTGCAAT
TGCTAAAAAAAAATGTGTAATTTAAAAAGGAAACATTAAATTAGAAACAGAGGGTACAATTAGAA
GTTCAGGAACTAAAGTAAGTTGAGTGAATGTTAAATAACTAATAGGGTAACGCAACCTATGAATA
AAACACCACAAAATTCGATCCTACAATTTCTTGTGTTTGACATTATATTAAAAATTCAACGCTTT
TGAACAATCAACATAAAACAAAGGAAAACTTAAGAAAATGACTAGCTGAAATGTAGGTCATTTTT
AACCAAAATCTAACAGGAAAAAAAATCTCCAATGGGATCCTCTTCACTGGCAAAAAATTGTATTG
ATTAAGA
Found at i:6969129 original size:133 final size:132
Alignment explanation
Indices: 6968879--6969135 Score: 304
Period size: 133 Copynumber: 1.9 Consensus size: 132
6968869 GGGTGGGATA
*
6968879 GAGGATTTTGAGGGCATAACTTATACCATTTGTATCTCTCCAAACTCTCATTGCCTTTTTTTCCC
1 GAGGATTTTGAAGGCATAACTTATACCATTTGTATCTCTCCAAAC-CTCATTGCCTTTTTTTCCC
* * * **
6968944 CCTCAAACTCCCCCAAACGGAGCACATTGGGATGAAGAGGATTCCTCTTCTTAAAAAAAAAAAAT
65 CCTCAAACTCCACCAAACGGAGCACATTGGAACGAAGAGGATTCCTAATCTTAAAAAAAAAAAAT
6969009 TTT
130 TTT
* * * *
6969012 GAGGATTTTTAAGGCATAACTTATCCCCTTTGTATCTCTCCAAA-CTCATTGCTTTTTTCATTTT
1 GAGGATTTTGAAGGCATAACTTATACCATTTGTATCTCTCCAAACCTCATTGC--CTTT--TTTT
* * * * * *
6969076 TCCCCTCAAACTCCACC-GATGGAGGAGATTGGAACGAAGAGGATTCC-AATCTTAACAAAA
62 CCCCCTCAAACTCCACCAAACGGAGCACATTGGAACGAAGAGGATTCCTAATCTTAAAAAAA
6969136 TTTCAATCCT
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
131 8 0.08
133 53 0.51
134 24 0.23
135 19 0.18
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (132 bp):
GAGGATTTTGAAGGCATAACTTATACCATTTGTATCTCTCCAAACCTCATTGCCTTTTTTTCCCC
CTCAAACTCCACCAAACGGAGCACATTGGAACGAAGAGGATTCCTAATCTTAAAAAAAAAAAATT
TT
Found at i:6970605 original size:287 final size:286
Alignment explanation
Indices: 6970081--6970644 Score: 726
Period size: 287 Copynumber: 2.0 Consensus size: 286
6970071 TGTTGATGGG
* *
6970081 AGGGATTAGACTGGGGCAGTCCATCAAACAGGGGTTTCTCTAACTAATACCATAAGAATGACAGC
1 AGGGATTAGACTGGGGCAGTCCATCAAACAAGGGTTTCTCTAACTAATAACATAAGAATGACA-C
* * * * *
6970146 AACAAATATGTCTCCCATAATCAACTAAACTAGGGAATACAATAAATTTTTCCGGCACAATAATA
65 AACAAATATATCACCCATAATCAACTAAACCAGGGAATACAATAAATGTTTCCAGCACAATAATA
*
6970211 CTAAAAGGAGTTCCATTGACAGAAGGCACCATCTTCCAACAAAAGATGATGAAAGCAAAATAGTT
130 CTAAAAGGAATTCCATTGACAGAAGGCACCATCTTCCAACAAAAGATGATGAAAGCAAAATAGTT
* * * * ** * **
6970276 AAAACACCTCCTGTTCACAGAAGGTGCCATAGTTTGACGAAGTTTAAATTGCCTAAACTTCAGTA
195 AAAACAACTCCTGATCACAGAAAGTGCCATAATTCAACGAAGTATAAATCACCTAAACTTCAGTA
6970341 CATCACCTACCAAACCAGTTGGGGGAA
260 CATCACCTACCAAACCAGTTGGGGGAA
* * *
6970368 AGGGATTAGACTGGGGCAGTCCATCACATAAGGGTTTCTCTAAC-AAGTAACTTAAGAATGAC-C
1 AGGGATTAGACTGGGGCAGTCCATCAAACAAGGGTTTCTCTAACTAA-TAACATAAGAATGACAC
* * *
6970431 AAGAAATATATCACCCAT-ATACTAACTAAACCAGGGAATACATTAAATGTTTCCAGCACGATAA
65 AACAAATATATCACCCATAAT-C-AACTAAACCAGGGAATACAATAAATGTTTCCAGCACAATAA
* * * * * * *
6970495 TAGTAGAAGGACATTTCATT-AGGAGAAGGCACCATCTTCCAACATAAGATG-TGCAATGCAATA
128 TACTAAAAGGA-ATTCCATTGA-CAGAAGGCACCATCTTCCAACAAAAGATGATG-AAAGCAAAA
*
6970558 TAGTTAAAACAACT-CTGCATCATAGAAAGTGCCATAATTCAACGAAGTATAAATCACCTAAACT
190 TAGTTAAAACAACTCCTG-ATCACAGAAAGTGCCATAATTCAACGAAGTATAAATCACCTAAACT
*
6970622 TCAGTACTTCACCTACCAAACCA
254 TCAGTACATCACCTACCAAACCA
6970645 ATCCTTCTTG
Statistics
Matches: 238, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
284 2 0.01
285 17 0.07
286 53 0.22
287 166 0.70
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (286 bp):
AGGGATTAGACTGGGGCAGTCCATCAAACAAGGGTTTCTCTAACTAATAACATAAGAATGACACA
ACAAATATATCACCCATAATCAACTAAACCAGGGAATACAATAAATGTTTCCAGCACAATAATAC
TAAAAGGAATTCCATTGACAGAAGGCACCATCTTCCAACAAAAGATGATGAAAGCAAAATAGTTA
AAACAACTCCTGATCACAGAAAGTGCCATAATTCAACGAAGTATAAATCACCTAAACTTCAGTAC
ATCACCTACCAAACCAGTTGGGGGAA
Found at i:6976448 original size:22 final size:22
Alignment explanation
Indices: 6976401--6976448 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 22
6976391 ATTAGTAAAA
6976401 GTTAAAAAGGAACAATAAATAC
1 GTTAAAAAGGAACAATAAATAC
6976423 -TTAAAAA-GAA-AATAATATAC
1 GTTAAAAAGGAACAATAA-ATAC
6976443 GGTTAA
1 -GTTAA
6976449 TGTAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 7 0.30
22 4 0.17
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.23
Consensus pattern (22 bp):
GTTAAAAAGGAACAATAAATAC
Found at i:6977621 original size:18 final size:18
Alignment explanation
Indices: 6977598--6977633 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6977588 GCTCAACAAT
6977598 GATCTTATCTATAGATAC
1 GATCTTATCTATAGATAC
6977616 GATCTTATCTATAGATAC
1 GATCTTATCTATAGATAC
6977634 TTTAAAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
GATCTTATCTATAGATAC
Found at i:6987211 original size:20 final size:20
Alignment explanation
Indices: 6987164--6987211 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6987154 TCACCCTACA
*
6987164 TCTTCTGTTTCTCCTCAATT
1 TCTTCTGTTCCTCCTCAATT
**
6987184 TCCACTGTTCCT-CTCTAATT
1 TCTTCTGTTCCTCCTC-AATT
6987204 TCTTCTGT
1 TCTTCTGT
6987212 CTAATTCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.10, C:0.31, G:0.06, T:0.52
Consensus pattern (20 bp):
TCTTCTGTTCCTCCTCAATT
Found at i:6998355 original size:24 final size:24
Alignment explanation
Indices: 6998289--6998369 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
6998279 AACTTGCATT
*
6998289 AGTAGTAGGTTGAC-T--TGCACC
1 AGTAGTAGGTTCACTTGGTGCACC
* * *
6998310 AGCAGCAGG-TCATTTGGTGCACC
1 AGTAGTAGGTTCACTTGGTGCACC
6998333 AGTAGTAGGTTCACTTGGTGCACC
1 AGTAGTAGGTTCACTTGGTGCACC
* *
6998357 ACTAGTAGCTTCA
1 AGTAGTAGGTTCA
6998370 TTTGCTATAC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.04
21 8 0.17
23 13 0.28
24 24 0.51
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (24 bp):
AGTAGTAGGTTCACTTGGTGCACC
Found at i:6999611 original size:2 final size:2
Alignment explanation
Indices: 6999604--6999651 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6999594 AAACTCAAGA
6999604 AT AT AT AT 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
6999646 AT AT AT
1 AT AT AT
6999652 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6999711 original size:2 final size:2
Alignment explanation
Indices: 6999704--6999753 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
6999694 NNNNNNNNNA
6999704 AT AT AT AT 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
*
6999746 AA AT AT AT
1 AT AT AT AT
6999754 TAATAAGTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7000938 original size:68 final size:68
Alignment explanation
Indices: 7000824--7001157 Score: 341
Period size: 68 Copynumber: 4.9 Consensus size: 68
7000814 CACATACAAG
* ** * **
7000824 CTTACTCATCTCATA-AGGTATATAAAAAATACATCATATGTATAATCTCATGGCATTCATCATG
1 CTTAATCATCTCATATA-GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATG
7000888 CTTT
65 CTTT
* * **
7000892 CTTAATCATCTCATGTAGTAAATGGAATATGGATCATATACATAATCTCATGGCATTCATCATGC
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
7000957 TTT
66 TTT
* * * * *
7000960 C-TCATCAACTCATGTAGTATATGGAATATACATCATATACACAATCTCATGGCATTTATCATGC
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
* *
7001024 ATA
66 TTT
* * * * *** * *
7001027 CTTAATCACCTCATATAGTATATGGAATTTACATCATATACACAATCTTATAATATACACCATGC
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
*
7001092 ATAT
66 -TTT
* * * * *
7001096 -TTAATCATCTCATATGGTATATGGAATTTACATTATATACATAATCTTATGGCATTTATCAT
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCAT
7001158 ACCAAACATG
Statistics
Matches: 220, Mismatches: 43, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
67 58 0.26
68 161 0.73
69 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (68 bp):
CTTAATCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
TTT
Found at i:7001091 original size:135 final size:136
Alignment explanation
Indices: 7000852--7001157 Score: 355
Period size: 135 Copynumber: 2.3 Consensus size: 136
7000842 TATATAAAAA
** * * * * *
7000852 ATACATCATATGTATAATCTCATGGCATTCATCATGCTTTCTTAATCATCTCATGTAGTAAATGG
1 ATACATCATATACATAATCTCATGGCATTTATCATGCATACTTAATCACCTCATATAGTAAATGG
** * ** * * * *
7000917 AATATGGATCATATACATAATCTCATGGCATTCATCATGC-T-TTCTCATCAACTCATGTAGTAT
66 AATATACATCATATACACAATCTCATAACATACACCATGCATATT-TAATCAACTCATATAGTAT
7000980 ATGGAAT
130 ATGGAAT
* *
7000987 ATACATCATATACACAATCTCATGGCATTTATCATGCATACTTAATCACCTCATATAGTATATGG
1 ATACATCATATACATAATCTCATGGCATTTATCATGCATACTTAATCACCTCATATAGTAAATGG
* * * * *
7001052 AATTTACATCATATACACAATCTTATAATATACACCATGCATATTTAATCATCTCATATGGTATA
66 AATATACATCATATACACAATCTCATAACATACACCATGCATATTTAATCAACTCATATAGTATA
7001117 TGGAAT
131 TGGAAT
* * *
7001123 TTACATTATATACATAATCTTATGGCATTTATCAT
1 ATACATCATATACATAATCTCATGGCATTTATCAT
7001158 ACCAAACATG
Statistics
Matches: 142, Mismatches: 27, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
135 86 0.61
136 54 0.38
137 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (136 bp):
ATACATCATATACATAATCTCATGGCATTTATCATGCATACTTAATCACCTCATATAGTAAATGG
AATATACATCATATACACAATCTCATAACATACACCATGCATATTTAATCAACTCATATAGTATA
TGGAAT
Found at i:7012276 original size:17 final size:17
Alignment explanation
Indices: 7012236--7012278 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
7012226 TTTCAAAACA
7012236 ATTTATAAAATCATTTC
1 ATTTATAAAATCATTTC
* *
7012253 ATTTA-AACA-CATTTT
1 ATTTATAAAATCATTTC
7012268 ATTTATAAAAT
1 ATTTATAAAAT
7012279 AAAAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTATAAAATCATTTC
Found at i:7017656 original size:2 final size:2
Alignment explanation
Indices: 7017649--7017695 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
7017639 TTTCACAAAC
*
7017649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7017691 AT AT A
1 AT AT A
7017696 CATAATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7019435 original size:21 final size:21
Alignment explanation
Indices: 7019411--7019460 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
7019401 TGAGTGATCC
7019411 TTGAACTGATTTGAATA-ATGT
1 TTGAACTG-TTTGAATATATGT
* *
7019432 TTGAAGTTGTTTGAATATATTT
1 TTGAA-CTGTTTGAATATATGT
7019454 TTGAACT
1 TTGAACT
7019461 TAATTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (21 bp):
TTGAACTGTTTGAATATATGT
Found at i:7019566 original size:21 final size:21
Alignment explanation
Indices: 7019542--7019616 Score: 107
Period size: 21 Copynumber: 3.5 Consensus size: 21
7019532 TGAAAATTAC
*
7019542 TTGAATGATCTTTGAACTTGT
1 TTGAATGATTTTTGAACTTGT
7019563 TTGAATGATTTTTGAAGC-TGT
1 TTGAATGATTTTTGAA-CTTGT
7019584 TTGAATGAGTTTTTGAACTTGT
1 TTGAATGA-TTTTTGAACTTGT
*
7019606 TTGAATTATTT
1 TTGAATGATTT
7019617 AATTAAGTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
21 30 0.61
22 19 0.39
ACGTcount: A:0.24, C:0.05, G:0.20, T:0.51
Consensus pattern (21 bp):
TTGAATGATTTTTGAACTTGT
Found at i:7019743 original size:22 final size:21
Alignment explanation
Indices: 7019650--7019747 Score: 98
Period size: 21 Copynumber: 4.8 Consensus size: 21
7019640 TGTTTCCATG
*
7019650 TGAA-AGTTTT-AAAATTGTT
1 TGAATAGTTTTGAAACTTGTT
*
7019669 TGAATGAGTTTTGAAA-TTGCT
1 TGAAT-AGTTTTGAAACTTGTT
*
7019690 TGAATGATTTTTG-AACTTGTT
1 TGAAT-AGTTTTGAAACTTGTT
7019711 TGAATAGTTTTGAAACTTGTT
1 TGAATAGTTTTGAAACTTGTT
*
7019732 TAGATTAGTTTT-AAAC
1 T-GAATAGTTTTGAAAC
7019748 CTCCCTTGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.06
20 8 0.12
21 44 0.65
22 12 0.18
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (21 bp):
TGAATAGTTTTGAAACTTGTT
Found at i:7019923 original size:20 final size:20
Alignment explanation
Indices: 7019888--7019961 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
7019878 TGGTTTTGCC
7019888 CAAAATGTAT-GAATACATTT
1 CAAAATGTATCG-ATACATTT
*
7019908 CAAAATGTATCGATAC--GT
1 CAAAATGTATCGATACATTT
*
7019926 ----ATGTATCGATACATTC
1 CAAAATGTATCGATACATTT
*
7019942 CAAAATGTAGCGATACATTT
1 CAAAATGTATCGATACATTT
7019962 GATCCAGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
14 12 0.29
18 1 0.02
20 28 0.67
21 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (20 bp):
CAAAATGTATCGATACATTT
Found at i:7019938 original size:34 final size:34
Alignment explanation
Indices: 7019892--7019957 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
7019882 TTTGCCCAAA
* *
7019892 ATGTATGAATACATTTCAAAATGTATCGATACGT
1 ATGTATGAATACATTCCAAAATGTAGCGATACGT
7019926 ATGTATCG-ATACATTCCAAAATGTAGCGATAC
1 ATGTAT-GAATACATTCCAAAATGTAGCGATAC
7019958 ATTTGATCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (34 bp):
ATGTATGAATACATTCCAAAATGTAGCGATACGT
Found at i:7020400 original size:32 final size:34
Alignment explanation
Indices: 7020361--7020439 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 34
7020351 CCTTGGCCTT
7020361 TAAAAGGCATTG-TG-AAGGTTGTGCTTGATCCA
1 TAAAAGGCATTGTTGAAAGGTTGTGCTTGATCCA
*
7020393 TAAAAGGCATTGTATTGAAAGGTTGTGCTTGATCCT
1 TAAAAGGCATTG--TTGAAAGGTTGTGCTTGATCCA
*
7020429 TGAAAGGCATT
1 TAAAAGGCATT
7020440 TTAAAAGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 12 0.29
35 2 0.05
36 27 0.66
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (34 bp):
TAAAAGGCATTGTTGAAAGGTTGTGCTTGATCCA
Found at i:7020634 original size:15 final size:16
Alignment explanation
Indices: 7020614--7020643 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7020604 ATTTATCAAA
7020614 TTTGTTC-TTAATTTG
1 TTTGTTCTTTAATTTG
7020629 TTTGTTCTTTAATTT
1 TTTGTTCTTTAATTT
7020644 ACTTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.70
Consensus pattern (16 bp):
TTTGTTCTTTAATTTG
Found at i:7027072 original size:21 final size:21
Alignment explanation
Indices: 7027042--7027103 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
7027032 ATTGCTTCAA
*
7027042 TGATCTTTGAACTTGTTTGAG
1 TGATCCTTGAACTTGTTTGAG
7027063 TGATCCTTGAACTTGTTTGAG
1 TGATCCTTGAACTTGTTTGAG
7027084 TGATCCTTGAACTTGTTTGA
1 TGATCCTTGAACTTGTTTGA
7027104 ATATGTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (21 bp):
TGATCCTTGAACTTGTTTGAG
Found at i:7027256 original size:22 final size:21
Alignment explanation
Indices: 7027199--7027274 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
7027189 ATCAAATTAC
*
7027199 TTGAATGATCTTTGAAGTTGT
1 TTGAATGATTTTTGAAGTTGT
*
7027220 GTGAATGATTTTTGAAGTTGT
1 TTGAATGATTTTTGAAGTTGT
* *
7027241 TTGAATGAGTTTTTGAACTGGT
1 TTGAATGA-TTTTTGAAGTTGT
*
7027263 TTGAATAATTTT
1 TTGAATGATTTT
7027275 AAACTTGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 30 0.62
22 18 0.38
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.49
Consensus pattern (21 bp):
TTGAATGATTTTTGAAGTTGT
Found at i:7027357 original size:21 final size:21
Alignment explanation
Indices: 7027331--7027413 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
7027321 AAAGTTTTAA
7027331 AAATTGCTTAAATGAGTTTTG
1 AAATTGCTTAAATGAGTTTTG
* * *
7027352 AAATTGCGTGAATGATTTTTG
1 AAATTGCTTAAATGAGTTTTG
* * * *
7027373 AACTTGTTTGAAT-AGTTTTT
1 AAATTGCTTAAATGAGTTTTG
*
7027393 AAACTTGCTTAAATTAGTTTT
1 AAA-TTGCTTAAATGAGTTTT
7027414 AAACCTCCAT
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 7 0.14
21 36 0.73
22 6 0.12
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (21 bp):
AAATTGCTTAAATGAGTTTTG
Found at i:7027414 original size:21 final size:21
Alignment explanation
Indices: 7027323--7027417 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 21
7027313 CCATGTGAAA
*
7027323 AGTTTTAAAAATTGCTTAAATG
1 AGTTTT-AAACTTGCTTAAATG
* *
7027345 AGTTTTGAAA-TTGCGTGAATG
1 AGTTTT-AAACTTGCTTAAATG
* * * *
7027366 ATTTTTGAACTTGTTTGAAT-
1 AGTTTTAAACTTGCTTAAATG
*
7027386 AGTTTTTAAACTTGCTTAAATT
1 AG-TTTTAAACTTGCTTAAATG
7027408 AGTTTTAAAC
1 AGTTTTAAAC
7027418 CTCCATTGCA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.05
21 45 0.76
22 11 0.19
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (21 bp):
AGTTTTAAACTTGCTTAAATG
Found at i:7031876 original size:20 final size:20
Alignment explanation
Indices: 7031849--7031907 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
7031839 TGGTCTTGCT
7031849 CAAAATGTATGGATACATTC
1 CAAAATGTATGGATACATTC
* *
7031869 CCAAATGTATGGATATATTC
1 CAAAATGTATGGATACATTC
*
7031889 CAAAATGTATTGATACATT
1 CAAAATGTATGGATACATT
7031908 TGGTCTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
CAAAATGTATGGATACATTC
Found at i:7033149 original size:84 final size:83
Alignment explanation
Indices: 7033007--7033174 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 83
7032997 GCATTCTTTC
7033007 TCATTTTCCATGGTTGAAATTCATGATTTCATGGTGGATCCCTTGTTGGCCGAACCTAGGGGGAG
1 TCATTTTCCATGGTTGAAATTCATGATTTCATGGTGGATCCCTTGTTGGCCGAACCTAGGGGGAG
7033072 AAGATTTGATGATGAATT
66 AAGATTTGATGATGAATT
7033090 TNCATTTTCCATGGTTGAAATTCATGATTTCATGGTGGATCCCTTGTTGGCCGAACCTAGGGGGA
1 T-CATTTTCCATGGTTGAAATTCATGATTTCATGGTGGATCCCTTGTTGGCCGAACCTAGGGGGA
7033155 GAAGATTTGATGATGAATT
65 GAAGATTTGATGATGAATT
7033174 T
1 T
7033175 AGTTGGAAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 1 0.01
84 83 0.99
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (83 bp):
TCATTTTCCATGGTTGAAATTCATGATTTCATGGTGGATCCCTTGTTGGCCGAACCTAGGGGGAG
AAGATTTGATGATGAATT
Found at i:7034138 original size:20 final size:20
Alignment explanation
Indices: 7034115--7034155 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7034105 GAATTGAATG
7034115 GCTTATGGTGATATTGGCAT
1 GCTTATGGTGATATTGGCAT
7034135 GCTTATGGTGATATTGGCAT
1 GCTTATGGTGATATTGGCAT
7034155 G
1 G
7034156 AATGGCTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.39
Consensus pattern (20 bp):
GCTTATGGTGATATTGGCAT
Found at i:7036584 original size:21 final size:21
Alignment explanation
Indices: 7036558--7036599 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7036548 TATCAAAATA
*
7036558 ATCTTCATTTTAACCTTCTTC
1 ATCTTCATTTAAACCTTCTTC
*
7036579 ATCTTCATTTAAACTTTCTTC
1 ATCTTCATTTAAACCTTCTTC
7036600 TTCATTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.52
Consensus pattern (21 bp):
ATCTTCATTTAAACCTTCTTC
Found at i:7037338 original size:2 final size:2
Alignment explanation
Indices: 7037299--7037325 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7037289 TGTGTGTGTT
7037299 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 T
7037326 TCTTGTGATA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7038809 original size:70 final size:70
Alignment explanation
Indices: 7038732--7038865 Score: 189
Period size: 70 Copynumber: 1.9 Consensus size: 70
7038722 TATAATTTTG
* * * *
7038732 ATGATTATGTGGAGCGGCCACCAATATTGATTATGATTACGTAGCA-TGACCACTATTGTTGATT
1 ATGATTATGTGGAGCGACCACCAATATGGATTATGATCACGTAGCACT-ACCACTAATGTTGATT
7038796 TTGATT
65 TTGATT
* * *
7038802 ATGATTATGTGGTGCGACCACCAATATGGATTATGATCATGTGGCACTACCACTAATGTTGATT
1 ATGATTATGTGGAGCGACCACCAATATGGATTATGATCACGTAGCACTACCACTAATGTTGATT
7038866 ATGGGTATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 55 0.98
71 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (70 bp):
ATGATTATGTGGAGCGACCACCAATATGGATTATGATCACGTAGCACTACCACTAATGTTGATTT
TGATT
Found at i:7038854 original size:32 final size:32
Alignment explanation
Indices: 7038798--7038868 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
7038788 TGTTGATTTT
* **
7038798 GATTATGATTATGTGGTGCGACCACCAATATG
1 GATTATGATCATGTGGCACGACCACCAATATG
* * * *
7038830 GATTATGATCATGTGGCACTACCACTAATGTT
1 GATTATGATCATGTGGCACGACCACCAATATG
7038862 GATTATG
1 GATTATG
7038869 GGTATGTGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (32 bp):
GATTATGATCATGTGGCACGACCACCAATATG
Found at i:7043123 original size:37 final size:37
Alignment explanation
Indices: 7043036--7043132 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
7043026 GGTACTACGT
* * *
7043036 CCCACATCTGGCCCCTTAACACACGTATGGTACGGCGC
1 CCCACATCTGGCCCTTTAA-ACACGTATAGTACGGCAC
** * * * *
7043074 CTTACATTTGGCCCTTTAAACATGTGTAGTATGGCAC
1 CCCACATCTGGCCCTTTAAACACGTATAGTACGGCAC
7043111 CCCACATCTGGCCCTTTAAACA
1 CCCACATCTGGCCCTTTAAACA
7043133 GTCATCACAA
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
37 32 0.68
38 15 0.32
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.26
Consensus pattern (37 bp):
CCCACATCTGGCCCTTTAAACACGTATAGTACGGCAC
Found at i:7043286 original size:40 final size:40
Alignment explanation
Indices: 7043242--7043321 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
7043232 TTCTTCGATG
7043242 GACATTATTTCATCCACTTAAAACAATCAAATGGTGGAGA
1 GACATTATTTCATCCACTTAAAACAATCAAATGGTGGAGA
7043282 GACATTATTTCATCCACTTAAAACAATCAAATGGTGGAGA
1 GACATTATTTCATCCACTTAAAACAATCAAATGGTGGAGA
7043322 CTTACTCATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (40 bp):
GACATTATTTCATCCACTTAAAACAATCAAATGGTGGAGA
Found at i:7043370 original size:73 final size:73
Alignment explanation
Indices: 7043284--7043559 Score: 301
Period size: 73 Copynumber: 3.8 Consensus size: 73
7043274 GGTGGAGAGA
* * * *
7043284 CATTATTTCATCCAC-TTAAAACAAT-CAAATGGTGGAGACTTACTCATCCATTCTTATATCTTT
1 CATTATATCATCCACATT-TAATAATCCAAA-GGTGGAGACTTACTCATCCATTCTCATATCTTT
7043347 TACTTGTGGG
64 TACTTGTGGG
* *
7043357 CATTATATCATCCACATTTAGTAATCCACAA--TGGAGACTTACTCATCCACTCTCATATCTTTT
1 CATTATATCATCCACATTTAATAATCCA-AAGGTGGAGACTTACTCATCCATTCTCATATCTTTT
* *
7043420 CCTTATGGG
65 ACTTGTGGG
* * * *
7043429 TATAATATCATCAACATTTAATAATCCAAAGGTGGAGACTTACTCATCCACTT-TCATATCCTTT
1 CATTATATCATCCACATTTAATAATCCAAAGGTGGAGACTTACTCATCCA-TTCTCATATCTTTT
*
7043493 ACTTGTGAG
65 ACTTGTGGG
* * * ** * *
7043502 TATTATATCATCAACATTTATTAATCCAAAGGTAAAGACTCACTCATCCACTCTCATA
1 CATTATATCATCCACATTTAATAATCCAAAGGTGGAGACTTACTCATCCATTCTCATA
7043560 GTTTATATTC
Statistics
Matches: 173, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
71 2 0.01
72 62 0.36
73 102 0.59
74 5 0.03
75 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.36
Consensus pattern (73 bp):
CATTATATCATCCACATTTAATAATCCAAAGGTGGAGACTTACTCATCCATTCTCATATCTTTTA
CTTGTGGG
Found at i:7043401 original size:72 final size:72
Alignment explanation
Indices: 7043315--7043559 Score: 305
Period size: 73 Copynumber: 3.4 Consensus size: 72
7043305 CAATCAAATG
* * * *
7043315 GTGGAGACTTACTCATCCATTCTTATATCTTTTACTTGTGGGCATTATATCATCCACATTTAGTA
1 GTGGAGACTTACTCATCCATTCTCATATCTTTTACTTGTGGGTATTATATCATCAACATTTAATA
7043380 ATCCACAA
66 ATCCA-AA
* * * *
7043388 -TGGAGACTTACTCATCCACTCTCATATCTTTTCCTTATGGGTATAATATCATCAACATTTAATA
1 GTGGAGACTTACTCATCCATTCTCATATCTTTTACTTGTGGGTATTATATCATCAACATTTAATA
7043452 ATCCAAA
66 ATCCAAA
* * *
7043459 GGTGGAGACTTACTCATCCACTT-TCATATCCTTTACTTGTGAGTATTATATCATCAACATTTAT
1 -GTGGAGACTTACTCATCCA-TTCTCATATCTTTTACTTGTGGGTATTATATCATCAACATTTAA
7043523 TAATCCAAA
64 TAATCCAAA
** * *
7043532 GGTAAAGACTCACTCATCCACTCTCATA
1 -GTGGAGACTTACTCATCCATTCTCATA
7043560 GTTTATATTC
Statistics
Matches: 149, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
71 2 0.01
72 62 0.42
73 84 0.56
74 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (72 bp):
GTGGAGACTTACTCATCCATTCTCATATCTTTTACTTGTGGGTATTATATCATCAACATTTAATA
ATCCAAA
Found at i:7046069 original size:20 final size:21
Alignment explanation
Indices: 7046037--7046089 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
7046027 AACTAGAAAA
* *
7046037 AGTCAACTTTAAG-AAGCCAT
1 AGTCGACTATAAGAAAGCCAT
*
7046057 AGTCGACTATAAGAAAGGCAT
1 AGTCGACTATAAGAAAGCCAT
*
7046078 AGTTGACTATAA
1 AGTCGACTATAA
7046090 AAGGTCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTCGACTATAAGAAAGCCAT
Found at i:7048967 original size:61 final size:61
Alignment explanation
Indices: 7048900--7049173 Score: 458
Period size: 61 Copynumber: 4.5 Consensus size: 61
7048890 GCTTGTGCGA
* ** **
7048900 AGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATATTCACAACCGTGCATGTATAG
1 AGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCACAATTGTGCATGTGCAG
*
7048961 AGTGGGCAGTGCACATGCCGATAATGATGCTGTCGTGATATTCACAATTGTGCATGTGCAG
1 AGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCACAATTGTGCATGTGCAG
* * *
7049022 AGTGGGCAGTGCACATGCCGGTAATGATGTTGCCGTGATATTCACAATTGTGCATGTGCGG
1 AGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCACAATTGTGCATGTGCAG
*
7049083 AGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCACAATTGTCCATGTGCAG
1 AGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCACAATTGTGCATGTGCAG
7049144 AGTGGGCAGTGCACATGCCGGTAATGATGC
1 AGTGGGCAGTGCACATGCCGGTAATGATGC
7049174 ATATGAGCTG
Statistics
Matches: 199, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 199 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (61 bp):
AGTGGGCAGTGCACATGCCGGTAATGATGCTGTCGTGATATTCACAATTGTGCATGTGCAG
Found at i:7054818 original size:139 final size:139
Alignment explanation
Indices: 7054568--7054822 Score: 429
Period size: 139 Copynumber: 1.8 Consensus size: 139
7054558 AATGACGGAT
* * *
7054568 AACTTGACTTCCCTACCTCGAGTCTTGCTGCCTCCCAAAACTAAAAGTTCTTTGTCTCGCCCCAA
1 AACTTGACTTCCCTACCTCGAGTCTTGCTGCCTCCCAAAACTAAAAGTTCTCTGTCCCACCCCAA
** *
7054633 TATTAGCACCAGGTGAGTCATTCCCCCTTTGGGGCAATCGTGAGTCCCTTTGTGGACCCTAACGG
66 TATTAGCACCAGGCAAGTCACTCCCCCTTTGGGGCAATCGTGAGTCCCTTTGTGGACCCTAACGG
7054698 CTAGAAGAA
131 CTAGAAGAA
* * *
7054707 AACTTGACTTCCCTACCTCGAGTTTTGCTGCCTCCTAGAACTAAAAGTTCTCTGTCCCACCCCAA
1 AACTTGACTTCCCTACCTCGAGTCTTGCTGCCTCCCAAAACTAAAAGTTCTCTGTCCCACCCCAA
7054772 TATTAGCACCAGGCAAGTCACTCCCCCTTTGGGGCAATCGTGAGTCCCTTT
66 TATTAGCACCAGGCAAGTCACTCCCCCTTTGGGGCAATCGTGAGTCCCTTT
7054823 TGCTCTATCC
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 107 1.00
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (139 bp):
AACTTGACTTCCCTACCTCGAGTCTTGCTGCCTCCCAAAACTAAAAGTTCTCTGTCCCACCCCAA
TATTAGCACCAGGCAAGTCACTCCCCCTTTGGGGCAATCGTGAGTCCCTTTGTGGACCCTAACGG
CTAGAAGAA
Found at i:7067844 original size:13 final size:13
Alignment explanation
Indices: 7067826--7067851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7067816 AAGAGAAATT
7067826 ATGATTTTATAAA
1 ATGATTTTATAAA
7067839 ATGATTTTATAAA
1 ATGATTTTATAAA
7067852 TTTTCTAAAA
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:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:7069277 original size:16 final size:16
Alignment explanation
Indices: 7069246--7069286 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
7069236 CAGATATTTT
7069246 GATTTTAAAG-CATTG
1 GATTTTAAAGTCATTG
7069261 GATTTTAAAGTCATTG
1 GATTTTAAAGTCATTG
7069277 G-TTTTAAAGT
1 GATTTTAAAGT
7069287 TGTTTTAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (16 bp):
GATTTTAAAGTCATTG
Found at i:7074705 original size:13 final size:13
Alignment explanation
Indices: 7074687--7074711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7074677 AGAGAAATTG
7074687 TGATTTTATAAAA
1 TGATTTTATAAAA
7074700 TGATTTTATAAA
1 TGATTTTATAAA
7074712 TTTTCTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7079979 original size:91 final size:92
Alignment explanation
Indices: 7079832--7080013 Score: 314
Period size: 91 Copynumber: 2.0 Consensus size: 92
7079822 ATTGTAATTG
*
7079832 ATTGATTCTAATTTTGAAATGACAAAAATCATATGCAAAATTGATTAAATAGACTTTACCTTAAA
1 ATTGATTCTAATTTTGAAACGACAAAAATCATATGCAAAATTGATTAAATAGACTTTACCTTAAA
7079897 TTCTTCATATTCAAAATCGCTTATATA
66 TTCTTCATATTCAAAATCGCTTATATA
* *
7079924 ATTGATTCTAATTTTGAAACGA-AAAATAT-ATCTGCAAAATTGATTAAATAGACTTTATCTTAA
1 ATTGATTCTAATTTTGAAACGACAAAA-ATCATATGCAAAATTGATTAAATAGACTTTACCTTAA
7079987 ATTCTTCATATTCAAAATCGCTTATAT
65 ATTCTTCATATTCAAAATCGCTTATAT
7080014 GATTTCTTAT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
91 63 0.73
92 23 0.27
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.39
Consensus pattern (92 bp):
ATTGATTCTAATTTTGAAACGACAAAAATCATATGCAAAATTGATTAAATAGACTTTACCTTAAA
TTCTTCATATTCAAAATCGCTTATATA
Found at i:7083514 original size:29 final size:29
Alignment explanation
Indices: 7083441--7083523 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
7083431 GTATAATAAA
* *
7083441 ATTTTTTTGAACATGGCGTGTAACAACAAT
1 ATTTTTTT-AACATGGCATGTAACAACAAC
* * * * * *
7083471 ATTATTTCAATATGGCATTTAATAACTAC
1 ATTTTTTTAACATGGCATGTAACAACAAC
*
7083500 ATTTTTTTAACATGGCGTGTAACA
1 ATTTTTTTAACATGGCATGTAACA
7083524 TGTTTTGTAC
Statistics
Matches: 39, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
29 33 0.85
30 6 0.15
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (29 bp):
ATTTTTTTAACATGGCATGTAACAACAAC
Found at i:7083884 original size:82 final size:82
Alignment explanation
Indices: 7083444--7083885 Score: 368
Period size: 81 Copynumber: 5.4 Consensus size: 82
7083434 TAATAAAATT
* * * * * *
7083444 TTTTTGAACATGGCGTGTAACAACAATA---TTATTTCAATATGGCATTTAATAACTACATTTTT
1 TTTTTGTACATGGCATGTAACAACAATATTTTTTTTTCAACATGGCATGTAACAAC--C--TTTT
**
7083506 TTAA-CATGGCGTGTAACATG
62 TTAACCATGATGTGTAACATG
* * *
7083526 -TTTTGTACATGGCATGTAGCAACAATATTTTTTTTTCAACATGGCATTTAACAATCTTTTTTTA
1 TTTTTGTACATGGCATGTAACAACAATATTTTTTTTTCAACATGGCATGTAACAA-CCTTTTTTA
7083590 ACCATGATGTGTAACATG
65 ACCATGATGTGTAACATG
* * * * ** * *
7083608 TTTTTGTACATGGCGTGTAATAACAATATATTTTTTTCAATATGGTGTGTAACAATC-ATTTTAA
1 TTTTTGTACATGGCATGTAACAACAATATTTTTTTTTCAACATGGCATGTAACAACCTTTTTTAA
* *
7083672 CCAT-AGTGTGGAACATA
66 CCATGA-TGTGTAACATG
* * * * * ** *
7083689 TTTTTATACATGGCATGTAACAAGAATA-TTTTTTATCAACGTAGTGTATAACAACCTTTTTTAA
1 TTTTTGTACATGGCATGTAACAACAATATTTTTTTTTCAACATGGCATGTAACAACCTTTTTTAA
*
7083753 CCAT-A-GCATGCAACATG
66 CCATGATG--TGTAACATG
* * *
7083770 TTTTTGTACATGACGTATAA-AA-AATAATTTTTTTTTTCAACATGGCATGTAACAACCTTTTTT
1 TTTTTGTACATGGCATGTAACAACAAT-A-TTTTTTTTTCAACATGGCATGTAACAACCTTTTTT
7083833 AACCATGATGTGTAACATG
64 AACCATGATGTGTAACATG
* * * * *
7083852 TTTTTATACATGGTATGTAGCAATAACATTTTTT
1 TTTTTGTACATGGCATGTAACAACAATATTTTTT
7083886 CAACATGGTG
Statistics
Matches: 289, Mismatches: 54, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
79 4 0.01
80 25 0.09
81 109 0.38
82 76 0.26
83 50 0.17
84 24 0.08
85 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (82 bp):
TTTTTGTACATGGCATGTAACAACAATATTTTTTTTTCAACATGGCATGTAACAACCTTTTTTAA
CCATGATGTGTAACATG
Found at i:7084851 original size:29 final size:29
Alignment explanation
Indices: 7084809--7084895 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
7084799 CTAACAAAAT
* * * *
7084809 AAAGTTGTACGTGAATAGGTATAAGAGAA
1 AAAGCTGTACGTGAATAGGAACAAAAGAA
7084838 AAAGCTGTACGTGAATAGGAACAAAAGAA
1 AAAGCTGTACGTGAATAGGAACAAAAGAA
* ** * *
7084867 GAAGCTGTATATGAACAGGTACAAAAGAA
1 AAAGCTGTACGTGAATAGGAACAAAAGAA
7084896 TAAGGTAACA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.48, C:0.08, G:0.25, T:0.18
Consensus pattern (29 bp):
AAAGCTGTACGTGAATAGGAACAAAAGAA
Found at i:7085368 original size:15 final size:15
Alignment explanation
Indices: 7085348--7085382 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7085338 GCATTATATT
*
7085348 GTAACACCTTAAGTA
1 GTAACACCTCAAGTA
*
7085363 GTAACACCTCGAGTA
1 GTAACACCTCAAGTA
7085378 GTAAC
1 GTAAC
7085383 TGTTACTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (15 bp):
GTAACACCTCAAGTA
Found at i:7086323 original size:16 final size:16
Alignment explanation
Indices: 7086279--7086325 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
7086269 TTAGTAAAGC
*
7086279 TTCTTTAATTTAATTT
1 TTCTTTAATTTTATTT
** *
7086295 TT-TAAAATATTATTT
1 TTCTTTAATTTTATTT
7086310 TTCTTTAATTTTATTT
1 TTCTTTAATTTTATTT
7086326 ATTTGTTATT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (16 bp):
TTCTTTAATTTTATTT
Found at i:7103556 original size:145 final size:145
Alignment explanation
Indices: 7103289--7103582 Score: 462
Period size: 145 Copynumber: 2.0 Consensus size: 145
7103279 ATACGTATCG
* *
7103289 AACAAGCAATATAGTGATAAAGTAGAGTATCGTTCCCATCGAGTTTTGTTCCTAAATTTTTACTA
1 AACAAGCAATATAGTGATAAAGTAGAGTATCGTTCCCATCGAGATTTGTTCCTAAATTTGTACTA
* * * *
7103354 AGTACTAAAATCTTATAACAAATCAATCTTATTTAAGTAATCAAAATTTGTAGAAAATTAATCAA
66 AGTACTAAAATCTTAGAACAAATCAATCTTATTTAAGTAATCAAAATTCGCAAAAAATTAATCAA
7103419 AACAAAATTAAAATA
131 AACAAAATTAAAATA
* * * *
7103434 AACAAGTAATATAGTGATGAAGTAGAGTATCGTTCCCATGGAGATTTGTTCTTAAATTTGTACTA
1 AACAAGCAATATAGTGATAAAGTAGAGTATCGTTCCCATCGAGATTTGTTCCTAAATTTGTACTA
* * * *
7103499 GGTACTAAAATTTTAGAACAAATCAATCTTATTTAAGTAATCAAAATTCGCAAAAAATTAGTTAA
66 AGTACTAAAATCTTAGAACAAATCAATCTTATTTAAGTAATCAAAATTCGCAAAAAATTAATCAA
7103564 AACAAAATTAAAATA
131 AACAAAATTAAAATA
7103579 AACA
1 AACA
7103583 CTAAATTAAC
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
145 135 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (145 bp):
AACAAGCAATATAGTGATAAAGTAGAGTATCGTTCCCATCGAGATTTGTTCCTAAATTTGTACTA
AGTACTAAAATCTTAGAACAAATCAATCTTATTTAAGTAATCAAAATTCGCAAAAAATTAATCAA
AACAAAATTAAAATA
Found at i:7108592 original size:26 final size:28
Alignment explanation
Indices: 7108532--7108593 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 28
7108522 TCTTTTCTAT
*
7108532 TTTTATTAATAAAGTTACTATTTAAAAA
1 TTTTATTAATAAAGTTAATATTTAAAAA
* * *
7108560 ATATATTAAT-AA-TTAATATTTAAATA
1 TTTTATTAATAAAGTTAATATTTAAAAA
7108586 TTTTATTA
1 TTTTATTA
7108594 TTTTTATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 18 0.64
27 2 0.07
28 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTTATTAATAAAGTTAATATTTAAAAA
Found at i:7109229 original size:10 final size:10
Alignment explanation
Indices: 7109189--7109237 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
7109179 TTAATTTAAA
*
7109189 ATAAAAATAT
1 ATAAAATTAT
7109199 A-AAAATT-T
1 ATAAAATTAT
*
7109207 AATTAAATT-T
1 -ATAAAATTAT
7109217 ATAAAATTAT
1 ATAAAATTAT
7109227 ATAAAATTAT
1 ATAAAATTAT
7109237 A
1 A
7109238 AAAGTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 1 0.03
9 13 0.39
10 19 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAAAATTAT
Found at i:7116161 original size:11 final size:11
Alignment explanation
Indices: 7116145--7116175 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
7116135 ATTATTTTGT
7116145 ATTATATTAAA
1 ATTATATTAAA
7116156 ATTATATTAAA
1 ATTATATTAAA
7116167 ATTATATTA
1 ATTATATTA
7116176 TCTTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTATATTAAA
Found at i:7116765 original size:15 final size:14
Alignment explanation
Indices: 7116745--7116782 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
7116735 ATTATAATTG
7116745 AAATAAAAAATATTA
1 AAATAAAAAATA-TA
*
7116760 AAATAAAATATATA
1 AAATAAAAAATATA
7116774 AAATAAAAA
1 AAATAAAAA
7116783 TTAGAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAAAAAATATA
Found at i:7116769 original size:13 final size:13
Alignment explanation
Indices: 7116751--7116797 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
7116741 ATTGAAATAA
7116751 AAAATATTAAAAT
1 AAAATATTAAAAT
7116764 AAAATATATAAAAT
1 AAAATAT-TAAAAT
7116778 AAAA-ATTAGAAATT
1 AAAATATTA-AAA-T
7116792 AAAATA
1 AAAATA
7116798 AAATATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.07
13 12 0.40
14 15 0.50
15 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
AAAATATTAAAAT
Found at i:7116884 original size:41 final size:37
Alignment explanation
Indices: 7116838--7116934 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 37
7116828 AATATAGGTG
* *
7116838 AAAAAAATTAAAATAAAATATGTAATATAAAAATTTATATT
1 AAAAAAATGAAAATAAAATAT-T-ATAT-AAAA-TTATAAT
7116879 AAAAAAATGAAAATAAAATA-TATATAAAATTATAAT
1 AAAAAAATGAAAATAAAATATTATATAAAATTATAAT
*
7116915 -AAGAAATGAAAATAAAATAT
1 AAAAAAATGAAAATAAAATAT
7116935 ATGACATTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
35 18 0.35
36 6 0.12
37 4 0.08
38 4 0.08
39 1 0.02
41 19 0.37
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (37 bp):
AAAAAAATGAAAATAAAATATTATATAAAATTATAAT
Found at i:7116929 original size:35 final size:38
Alignment explanation
Indices: 7116838--7116936 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 38
7116828 AATATAGGTG
* *
7116838 AAAAAAATTAAAATAAAATATGTAATATAAAAATTTATATT
1 AAAAAAATGAAAATAAAATA--T-ATATAAAAATTTATAAT
7116879 AAAAAAATGAAAATAAAATATATAT-AAAA-TTATAAT
1 AAAAAAATGAAAATAAAATATATATAAAAATTTATAAT
*
7116915 -AAGAAATGAAAATAAAATATAT
1 AAAAAAATGAAAATAAAATATAT
7116937 GACATTAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
35 21 0.38
36 6 0.11
37 4 0.07
38 4 0.07
39 1 0.02
41 19 0.35
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (38 bp):
AAAAAAATGAAAATAAAATATATATAAAAATTTATAAT
Found at i:7116958 original size:40 final size:38
Alignment explanation
Indices: 7116842--7116963 Score: 115
Period size: 35 Copynumber: 3.2 Consensus size: 38
7116832 TAGGTGAAAA
* * * *
7116842 AAATTAAAATAAAATATGTAATATAAAAATTTATATTAAAA
1 AAATGAAAATAAAATATATAAT-TAAAAA--TATATTTAAG
* *
7116883 AAATGAAAATAAAATATAT-A-TAAAATTATA-ATAAG
1 AAATGAAAATAAAATATATAATTAAAAATATATTTAAG
7116918 AAATGAAAATAAAATATATGACATTAAAAATATATTTAAG
1 AAATGAAAATAAAATATAT-A-ATTAAAAATATATTTAAG
*
7116958 AGATGA
1 AAATGA
7116964 TATTATATAA
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
35 21 0.31
36 4 0.06
38 6 0.09
39 9 0.13
40 10 0.15
41 17 0.25
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (38 bp):
AAATGAAAATAAAATATATAATTAAAAATATATTTAAG
Found at i:7117081 original size:101 final size:101
Alignment explanation
Indices: 7116963--7117165 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
7116953 TTAAGAGATG
7116963 ATATTATATAAAAATTAACAATAAAAAATACAAGTATATTAAACTTGTATTTTAATAAATAGGGG
1 ATATTATATAAAAATTAACAATAAAAAATACAAGTATATTAAACTTGTATTTTAATAAATAGGGG
*
7117028 TAATTCTAAAAATTAACATTACATTCACAACAAAGT
66 TAATTATAAAAATTAACATTACATTCACAACAAAGT
7117064 ATATTATATAAAAATTAACAATAAAAAATACAAGTATATTAAACTTGTATTTTAATAAATAGGGG
1 ATATTATATAAAAATTAACAATAAAAAATACAAGTATATTAAACTTGTATTTTAATAAATAGGGG
* *
7117129 TAATTATGAAAATTAACATTACATTCACAGCAAAGT
66 TAATTATAAAAATTAACATTACATTCACAACAAAGT
7117165 A
1 A
7117166 CTTGTAAATC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (101 bp):
ATATTATATAAAAATTAACAATAAAAAATACAAGTATATTAAACTTGTATTTTAATAAATAGGGG
TAATTATAAAAATTAACATTACATTCACAACAAAGT
Found at i:7127916 original size:15 final size:15
Alignment explanation
Indices: 7127894--7127936 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7127884 CTTATAGTAT
7127894 AATGTGATTGCAA-A
1 AATGTGATTGCAAGA
* *
7127908 AATTGTGATTGGAAGT
1 AA-TGTGATTGCAAGA
7127924 AATGTGATTGCAA
1 AATGTGATTGCAA
7127937 TAAAGATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (15 bp):
AATGTGATTGCAAGA
Found at i:7131729 original size:6 final size:6
Alignment explanation
Indices: 7131718--7131802 Score: 62
Period size: 6 Copynumber: 14.2 Consensus size: 6
7131708 TTAGATTATT
* * * * * *
7131718 TATATA TATATA CATATA TATTTG TATCTA TATCTA TATATA AATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
7131766 TATATT TGTATC TATATC TATATC TATATC TATATA T
1 TATATA TATATA TATATA TATATA TATATA TATATA T
7131803 TTAGAGTGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:7131767 original size:32 final size:32
Alignment explanation
Indices: 7131720--7131804 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
7131710 AGATTATTTA
*
7131720 TATATATATACATATATATTTGTATCTATATC
1 TATATATATATATATATATTTGTATCTATATC
*
7131752 TATATATAAATATATATATTTGTATCTATATC
1 TATATATATATATATATATTTGTATCTATATC
* *
7131784 TATATCTATATCTATATATTT
1 TATATATATATATATATATTT
7131805 AGAGTGTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (32 bp):
TATATATATATATATATATTTGTATCTATATC
Found at i:7131982 original size:2 final size:2
Alignment explanation
Indices: 7131969--7132100 Score: 138
Period size: 2 Copynumber: 64.0 Consensus size: 2
7131959 TATCTTTTAG
* * *
7131969 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT GT AT ACT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * *
7132012 AT AT AT AT AT AT AT AT GT AT ACT CT AT AT AT AT AT AT GT AT ACT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T
* * * *
7132056 CT AT AT AT AT AT AT AT AT GT AT ACT CT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
7132099 AT
1 AT
7132101 GTATCATACA
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
2 102 0.96
3 4 0.04
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7132019 original size:27 final size:27
Alignment explanation
Indices: 7131982--7132104 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
7131972 TATACATATA
7131982 TATATATATATATATATATGTATACTC
1 TATATATATATATATATATGTATACTC
7132009 TATATATATATATATATATGTATACTC
1 TATATATATATATATATATGTATACTC
7132036 ------TATATATATATATGTATACTC
1 TATATATATATATATATATGTATACTC
7132057 --TATATATATATATATATGTATACTC
1 TATATATATATATATATATGTATACTC
*
7132082 TAAATATATATATATATATGTAT
1 TATATATATATATATATATGTAT
7132105 CATACATGTA
Statistics
Matches: 89, Mismatches: 1, Indels: 12
0.87 0.01 0.12
Matches are distributed among these distances:
21 21 0.24
25 21 0.24
27 47 0.53
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
TATATATATATATATATATGTATACTC
Found at i:7132305 original size:2 final size:2
Alignment explanation
Indices: 7132264--7132294 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7132254 AGTGTGTGTG
7132264 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 T
7132295 TGTAGATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7134393 original size:32 final size:33
Alignment explanation
Indices: 7134357--7134426 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
7134347 AAATGACTAG
* *
7134357 AATTTGTTGT-GGTTTATATGTTGTATTGGCGC
1 AATTTGTTGTAGGTTTATATGCTGTATTGGCAC
*
7134389 AATTTGTTGTGAGGTTTATATGCTGTTTTGGCAC
1 AATTTGTTGT-AGGTTTATATGCTGTATTGGCAC
7134423 AATT
1 AATT
7134427 AGATGGTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 10 0.30
34 23 0.70
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.49
Consensus pattern (33 bp):
AATTTGTTGTAGGTTTATATGCTGTATTGGCAC
Found at i:7134686 original size:35 final size:34
Alignment explanation
Indices: 7134603--7134695 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
7134593 GGTTTTTTTT
* * *
7134603 TTTTTTTGTAATTGGGATATATTGTATAGGCGCC
1 TTTTTTTGTAATTGGCATATATTGTAAAGGCACC
* * * *
7134637 TTTTTTTGTGATTGGCCTATATTGTAAAGGTATC
1 TTTTTTTGTAATTGGCATATATTGTAAAGGCACC
* *
7134671 TTTCTTTTGTAATTGGAATACATTG
1 TTT-TTTTGTAATTGGCATATATTG
7134696 ACATGAGCTC
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
34 30 0.64
35 17 0.36
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (34 bp):
TTTTTTTGTAATTGGCATATATTGTAAAGGCACC
Found at i:7139753 original size:43 final size:43
Alignment explanation
Indices: 7139688--7139782 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
7139678 TTTTGTATGA
*
7139688 TAATGATGACCTAGCTAGGTGTGGTGTGGGAGTGCACATAAGC
1 TAATGATGACCCAGCTAGGTGTGGTGTGGGAGTGCACATAAGC
* * *
7139731 TAATGATGACCCAGTTATGTGTGGTGTGGGAGTGCACATAAGG
1 TAATGATGACCCAGCTAGGTGTGGTGTGGGAGTGCACATAAGC
*
7139774 TGATGATGA
1 TAATGATGA
7139783 TGATGATGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.26, C:0.12, G:0.35, T:0.27
Consensus pattern (43 bp):
TAATGATGACCCAGCTAGGTGTGGTGTGGGAGTGCACATAAGC
Found at i:7141501 original size:29 final size:30
Alignment explanation
Indices: 7141469--7141537 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 30
7141459 TTGTTAATTT
* *
7141469 AAAAGGAAGACATAGAATATTCATG-TCTA
1 AAAAAGAAAACATAGAATATTCATGCTCTA
* * *
7141498 AAAAATAAAATATAGAATATTTATGCTCTA
1 AAAAAGAAAACATAGAATATTCATGCTCTA
* *
7141528 AGAAATAAAA
1 AAAAAGAAAA
7141538 AGGTATACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (30 bp):
AAAAAGAAAACATAGAATATTCATGCTCTA
Found at i:7141534 original size:30 final size:29
Alignment explanation
Indices: 7141480--7141537 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
7141470 AAAGGAAGAC
7141480 ATAGAATATTCATGTCTAAAAAATAAAAT
1 ATAGAATATTCATGTCTAAAAAATAAAAT
* *
7141509 ATAGAATATTTATGCTCTAAGAAATAAAA
1 ATAGAATATTCATG-TCTAAAAAATAAAA
7141538 AGGTATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (29 bp):
ATAGAATATTCATGTCTAAAAAATAAAAT
Found at i:7144953 original size:42 final size:42
Alignment explanation
Indices: 7144894--7145016 Score: 201
Period size: 42 Copynumber: 2.9 Consensus size: 42
7144884 GTTGATTTGA
7144894 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* * *
7144936 ACCCGACTATGTGCGAGTAGGAGTGTATATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
7144978 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
7145017 TTGCCCCCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:7145287 original size:26 final size:26
Alignment explanation
Indices: 7145251--7145312 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
7145241 TTGCATATGA
7145251 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
7145277 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
7145303 GTTGATGATG
1 GATGATGATG
7145313 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:7152516 original size:2 final size:2
Alignment explanation
Indices: 7152509--7152546 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7152499 GGGACCAACA
*
7152509 AT AT AT AT AT AT AT AT AT TT 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
7152547 GTCATGCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7152760 original size:40 final size:38
Alignment explanation
Indices: 7152663--7152765 Score: 170
Period size: 38 Copynumber: 2.7 Consensus size: 38
7152653 AAAGTACCCA
7152663 TGTGCACGATGTAGGGGGATGCACACGATGGCACTAAT
1 TGTGCACGATGTAGGGGGATGCACACGATGGCACTAAT
*
7152701 TGTGCACGATGTAAGGGGATGCACACGATGGCACTAAT
1 TGTGCACGATGTAGGGGGATGCACACGATGGCACTAAT
*
7152739 TGTGCACACGATGTGGGGGGATGCACA
1 TGTG--CACGATGTAGGGGGATGCACA
7152766 TGAGCTGGGT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 41 0.68
40 19 0.32
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.20
Consensus pattern (38 bp):
TGTGCACGATGTAGGGGGATGCACACGATGGCACTAAT
Found at i:7171214 original size:34 final size:34
Alignment explanation
Indices: 7171168--7171232 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
7171158 CTAGATAGCC
*
7171168 ATTTGCTTTTTAAGCTTTAATGTTTTCTCATGCA
1 ATTTGCTCTTTAAGCTTTAATGTTTTCTCATGCA
7171202 ATTTGCTCTTTAAGCTTTAATGTTTTCTCAT
1 ATTTGCTCTTTAAGCTTTAATGTTTTCTCAT
7171233 TGTGAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (34 bp):
ATTTGCTCTTTAAGCTTTAATGTTTTCTCATGCA
Found at i:7173883 original size:39 final size:39
Alignment explanation
Indices: 7173827--7173999 Score: 204
Period size: 39 Copynumber: 4.4 Consensus size: 39
7173817 TCAACTAAGC
* * ** *
7173827 TCATGTGCACTCTCACACCACACATTTCAAATATCATCA
1 TCATGTGCTCTCCCACACCACACATGGCATATATCATCA
7173866 TCATGTGCTCTCCCACACCACACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCACACATGGCATATATCATCA
* *
7173905 TCATGTGCTCTCCCACACTACACATGGCATATATCATCG
1 TCATGTGCTCTCCCACACCACACATGGCATATATCATCA
* * * *** *
7173944 GCGTGTGCTCTCTCACAGTGCACATGGCACATATCATCGA
1 TCATGTGCTCTCCCACACCACACATGGCATATATCATC-A
7173984 -CATGTGCTCTCCCACA
1 TCATGTGCTCTCCCACA
7174000 AAGCACACTA
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.27
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACCACACATGGCATATATCATCA
Found at i:7189412 original size:33 final size:33
Alignment explanation
Indices: 7189353--7189415 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
7189343 TGATGCTAAC
* *
7189353 ATATCATGATTAATAATGATATGATATGTTGAT
1 ATATCATAATTAATAATGAGATGATATGTTGAT
*
7189386 ATATCATAATTGATAATGACGA-GATATGTT
1 ATATCATAATTAATAATGA-GATGATATGTT
7189416 AATTTGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (33 bp):
ATATCATAATTAATAATGAGATGATATGTTGAT
Found at i:7193280 original size:3 final size:3
Alignment explanation
Indices: 7193272--7193308 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
7193262 TCTTAATTTA
*
7193272 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7193309 CTGGTTGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7195437 original size:3 final size:3
Alignment explanation
Indices: 7195429--7195467 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
7195419 CACTCCTAGT
7195429 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7195468 AGATTTTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7199516 original size:19 final size:20
Alignment explanation
Indices: 7199471--7199522 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
7199461 TACGAAAAAT
*
7199471 AAAAAAAAAAAACAACAAAG
1 AAAAACAAAAAACAACAAAG
** *
7199491 ACTAACAAAAAA-AACCAAG
1 AAAAACAAAAAACAACAAAG
7199510 AAAAACAAGAAAA
1 AAAAACAA-AAAA
7199523 TAAGAAAGCA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.79, C:0.13, G:0.06, T:0.02
Consensus pattern (20 bp):
AAAAACAAAAAACAACAAAG
Found at i:7201868 original size:13 final size:13
Alignment explanation
Indices: 7201850--7201874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7201840 AATAAAAAGA
7201850 TTCCTTACCTTAC
1 TTCCTTACCTTAC
7201863 TTCCTTACCTTA
1 TTCCTTACCTTA
7201875 GAATCTCCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCCTTACCTTAC
Found at i:7202942 original size:31 final size:31
Alignment explanation
Indices: 7202907--7202984 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
7202897 ATGACAGAGC
* * *
7202907 TTTGTTCAATTTAGTCCTTGTATTATAGAAT
1 TTTGTTCAATTTAGTCCCTATAGTATAGAAT
*
7202938 TTTGTTCAATTTAGTCCCTATAGTATAGAGT
1 TTTGTTCAATTTAGTCCCTATAGTATAGAAT
7202969 TTTGTTCAATTTAGTC
1 TTTGTTCAATTTAGTC
7202985 AATGTACTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (31 bp):
TTTGTTCAATTTAGTCCCTATAGTATAGAAT
Found at i:7203021 original size:62 final size:62
Alignment explanation
Indices: 7202902--7203021 Score: 145
Period size: 62 Copynumber: 1.9 Consensus size: 62
7202892 TCTGTATGAC
** * * *
7202902 AGAGCTTTGTTCAATTTAGTCCTTGTATTATAGAATTTTGTTCAATTTAGTCCCTATAGTAT
1 AGAGCTTTGTTCAATTTAGTCAATGTATTATACAATTTTATTCAATTTAGGCCCTATAGTAT
* *
7202964 AGAGTTTTGTTCAATTTAGTCAATGTACTT-TACAATTTTATTTAATTT-GGCCTCTATA
1 AGAGCTTTGTTCAATTTAGTCAATGTA-TTATACAATTTTATTCAATTTAGGCC-CTATA
7203022 ATGTGGGACA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
61 3 0.06
62 44 0.90
63 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.47
Consensus pattern (62 bp):
AGAGCTTTGTTCAATTTAGTCAATGTATTATACAATTTTATTCAATTTAGGCCCTATAGTAT
Found at i:7204178 original size:205 final size:205
Alignment explanation
Indices: 7203794--7204178 Score: 519
Period size: 208 Copynumber: 1.9 Consensus size: 205
7203784 AGAAGTACAT
*
7203794 TTAGATACAAAAGAAAGTTGGAACAATTAAAAATTCAATCTTAATTTTCATGAAAAACATTTTAT
1 TTAGATACAAAAGAAAGTTGGAACAATTAAAAACTCAATCTTAATTTTCATGAAAAACATTTTAT
* * ** * *
7203859 ATGCAATGATATTAATTTACAAAAAGGCTTACATATTATGTATAGATCGTAGTTGCATAAGTTCT
66 ATGCAATGATATTAATTTACAAAAAGGCTTACATATTAAGGATAGATCAAAGCTGCATAAATTCT
*
7203924 GCTCAGTTATCAATTTTACTAGTTGATTTTAAATGCAAAACATAAAAAATTGAAAGAAAAATCAA
131 ACTCAGTTATCAATTTTACTAGTTGATTTTAAATGCAAAACATAAAAAATTGAAAGAAAAATCAA
7203989 GTTTAAAAAA
196 GTTTAAAAAA
* * * * *
7203999 TTAGATACAAAAGAAGAAGATTTGAATACTTAAAAAACTCAATTTTAATTTTCATGAATAACATT
1 TTAGATACAAAAG-A-AAG-TTGGAACAATT-AAAAACTCAATCTTAATTTTCATGAAAAACATT
* * * *
7204064 TTATATGCAATGATATTAGTTTA-TAAAGGGCTTACATATTAAGGATAGATTAAAGCTGCATAAA
62 TTATATGCAATGATATTAATTTACAAAAAGGCTTACATATTAAGGATAGATCAAAGCTGCATAAA
* *
7204128 TTCTATTTAGTTATC-ATTTTA-TCA-TTGA-TTTAAATGCAAAACATAAAAAAT
127 TTCTACTCAGTTATCAATTTTACT-AGTTGATTTTAAATGCAAAACATAAAAAAT
7204179 ACATTTGCAT
Statistics
Matches: 156, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
205 36 0.23
206 6 0.04
207 10 0.06
208 52 0.33
209 52 0.33
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (205 bp):
TTAGATACAAAAGAAAGTTGGAACAATTAAAAACTCAATCTTAATTTTCATGAAAAACATTTTAT
ATGCAATGATATTAATTTACAAAAAGGCTTACATATTAAGGATAGATCAAAGCTGCATAAATTCT
ACTCAGTTATCAATTTTACTAGTTGATTTTAAATGCAAAACATAAAAAATTGAAAGAAAAATCAA
GTTTAAAAAA
Found at i:7206816 original size:35 final size:36
Alignment explanation
Indices: 7206770--7206845 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
7206760 GTCTTGGTAG
* * *
7206770 AGGTTATGCTTGATCCTGTGAAAAG-TATGTTGTGA
1 AGGTTACGCTTGATCCTGTGAAAAGACATGTTGTAA
* *
7206805 AGGTTACGCTTGATCTTGTTAAAAGACATGTTGTAA
1 AGGTTACGCTTGATCCTGTGAAAAGACATGTTGTAA
7206841 AGGTT
1 AGGTT
7206846 GAACCTGATC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (36 bp):
AGGTTACGCTTGATCCTGTGAAAAGACATGTTGTAA
Found at i:7209504 original size:23 final size:23
Alignment explanation
Indices: 7209477--7209527 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
7209467 TGGCCCAATC
*
7209477 TTTCCTCGATGAGGACACAACTT
1 TTTCCTCGATGAGGACACAACCT
*
7209500 TTTCCTCGATGGGGACACAACCT
1 TTTCCTCGATGAGGACACAACCT
7209523 TTTCC
1 TTTCC
7209528 AAATCCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (23 bp):
TTTCCTCGATGAGGACACAACCT
Found at i:7226987 original size:2 final size:2
Alignment explanation
Indices: 7226928--7226975 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7226918 TATAATATTG
7226928 AT AT AT AT 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
7226970 AT AT AT
1 AT AT AT
7226976 TATGTCATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7240205 original size:20 final size:20
Alignment explanation
Indices: 7240159--7240202 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7240149 CATGTTGATA
7240159 AGTTTAATTTAAGTTATTTT
1 AGTTTAATTTAAGTTATTTT
* *
7240179 AGTTTAATTTATGTTGTTTT
1 AGTTTAATTTAAGTTATTTT
7240199 -GTTT
1 AGTTT
7240203 TAAATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (20 bp):
AGTTTAATTTAAGTTATTTT
Found at i:7246953 original size:2 final size:2
Alignment explanation
Indices: 7246946--7246989 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7246936 TATAGTGTTG
7246946 AT AT AT AT 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
7246988 AT
1 AT
7246990 TATGTCATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7252765 original size:17 final size:18
Alignment explanation
Indices: 7252735--7252768 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7252725 TGAATTTGGG
7252735 TATTTTTGATAAGCTAGA
1 TATTTTTGATAAGCTAGA
7252753 TATTTTTGA-AAGCTAG
1 TATTTTTGATAAGCTAG
7252769 GAAATAAATA
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:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (18 bp):
TATTTTTGATAAGCTAGA
Found at i:7261261 original size:22 final size:22
Alignment explanation
Indices: 7261233--7261281 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
7261223 CTCTTTACAG
7261233 CCACATAATTTAATGCTAGCTT
1 CCACATAATTTAATGCTAGCTT
7261255 CCACATAATTTAATGCTAGCTT
1 CCACATAATTTAATGCTAGCTT
7261277 CCACA
1 CCACA
7261282 AAATCCGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (22 bp):
CCACATAATTTAATGCTAGCTT
Found at i:7268907 original size:2 final size:2
Alignment explanation
Indices: 7268900--7268948 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
7268890 ACAAAACCTC
* *
7268900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA TA AA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
7268943 TA TA TA
1 TA TA TA
7268949 ACCACCGGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:7269031 original size:42 final size:41
Alignment explanation
Indices: 7268993--7269119 Score: 182
Period size: 42 Copynumber: 3.0 Consensus size: 41
7268983 ACGTGCATTA
* * * *
7268993 CCACACTGCACATAGCCAAGTCAGCACAGCTCATGTGCACT
1 CCACACCGCACATGGCTAGGTCAGCACAGCTCATGTGCACT
*
7269034 CATACACCGCACATGGCTAGGTCAGCACAGCTCATGTGCACT
1 C-CACACCGCACATGGCTAGGTCAGCACAGCTCATGTGCACT
*
7269076 CCTACACCGCACATGGCTAGGTCAGCACAACTCATGTGCACT
1 CC-ACACCGCACATGGCTAGGTCAGCACAGCTCATGTGCACT
7269118 CC
1 CC
7269120 TATATCACAC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.01
42 76 0.99
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.18
Consensus pattern (41 bp):
CCACACCGCACATGGCTAGGTCAGCACAGCTCATGTGCACT
Found at i:7269120 original size:42 final size:42
Alignment explanation
Indices: 7269012--7269141 Score: 206
Period size: 42 Copynumber: 3.1 Consensus size: 42
7269002 ACATAGCCAA
*
7269012 GTCAGCACAGCTCATGTGCACTCATACACCGCACATGGCTAG
1 GTCAGCACAGCTCATGTGCACTCCTACACCGCACATGGCTAG
7269054 GTCAGCACAGCTCATGTGCACTCCTACACCGCACATGGCTAG
1 GTCAGCACAGCTCATGTGCACTCCTACACCGCACATGGCTAG
* * * * *
7269096 GTCAGCACAACTCATGTGCACTCCTATATCACACATGGCTGG
1 GTCAGCACAGCTCATGTGCACTCCTACACCGCACATGGCTAG
7269138 GTCA
1 GTCA
7269142 TAATTATCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (42 bp):
GTCAGCACAGCTCATGTGCACTCCTACACCGCACATGGCTAG
Found at i:7270232 original size:18 final size:18
Alignment explanation
Indices: 7270209--7270245 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7270199 AAACCAAGCT
7270209 TTTTCTCTCTTCCTCTCC
1 TTTTCTCTCTTCCTCTCC
* *
7270227 TTTTCTTTCTTCTTCTCC
1 TTTTCTCTCTTCCTCTCC
7270245 T
1 T
7270246 AGAGTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTCTCTCTTCCTCTCC
Found at i:7275676 original size:37 final size:37
Alignment explanation
Indices: 7275635--7275777 Score: 181
Period size: 37 Copynumber: 4.0 Consensus size: 37
7275625 ATGATGTTGA
7275635 AGTGTGCGAGTAGGAAGTGCACACATGATGATGATAG
1 AGTGTGCGAGTAGGAAGTGCACACATGATGATGATAG
* *
7275672 AGTGTGCGAGTAGGGAGTGCACACATAATGATGATAG
1 AGTGTGCGAGTAGGAAGTGCACACATGATGATGATAG
*
7275709 AGTGTGCGAGTAGGGAA-T----ACATGATGATG-TTG
1 AGTGTGCGAGTA-GGAAGTGCACACATGATGATGATAG
* *
7275741 AAGTTTGCGAGTAGGGAGTGCACACATGATGATGATA
1 -AGTGTGCGAGTAGGAAGTGCACACATGATGATGATA
7275778 TTGCATTGAG
Statistics
Matches: 90, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
32 5 0.06
33 22 0.24
37 59 0.66
38 4 0.04
ACGTcount: A:0.31, C:0.10, G:0.35, T:0.24
Consensus pattern (37 bp):
AGTGTGCGAGTAGGAAGTGCACACATGATGATGATAG
Found at i:7275838 original size:2 final size:2
Alignment explanation
Indices: 7275833--7275868 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7275823 GTATATACAA
7275833 AT 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
7275869 GTTATAGAAA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7275975 original size:23 final size:23
Alignment explanation
Indices: 7275932--7275978 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7275922 AATTGCTCCT
*
7275932 AAATTGCTTTTCATTTCAACAAG
1 AAATTGCTTTTCATGTCAACAAG
*
7275955 AAATTGGCTTTTGATGT-AACAAG
1 AAATT-GCTTTTCATGTCAACAAG
7275978 A
1 A
7275979 CCCATGTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (23 bp):
AAATTGCTTTTCATGTCAACAAG
Found at i:7284642 original size:42 final size:42
Alignment explanation
Indices: 7284571--7284696 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
7284561 GTAATGATAT
* * * *
7284571 TGACCCGACTATGTGCA-AGTAGGAGTGCACATAAGTCGTTGC
1 TGACCCGGCTATGTG-AGAGTGGGAGTGCACATAAGCCGTTAC
*
7284613 TGACCCGGCTATGTGAGAGTGGGACTGCACATAAGCCGTTAC
1 TGACCCGGCTATGTGAGAGTGGGAGTGCACATAAGCCGTTAC
* *
7284655 TGACCCGGCTATGTGTGAGTGGGAGTGCGCATAAGCCGTTAC
1 TGACCCGGCTATGTGAGAGTGGGAGTGCACATAAGCCGTTAC
7284697 ATATGAGATG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (42 bp):
TGACCCGGCTATGTGAGAGTGGGAGTGCACATAAGCCGTTAC
Found at i:7290128 original size:19 final size:19
Alignment explanation
Indices: 7290104--7290140 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7290094 ACCAAATCTG
*
7290104 GATCGGTGCTCCCCAATGA
1 GATCGGCGCTCCCCAATGA
7290123 GATCGGCGCTCCCCAATG
1 GATCGGCGCTCCCCAATG
7290141 CTCTCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.35, G:0.27, T:0.19
Consensus pattern (19 bp):
GATCGGCGCTCCCCAATGA
Found at i:7291216 original size:14 final size:14
Alignment explanation
Indices: 7291197--7291235 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7291187 ATATTTATAA
7291197 AAATGAATAATTTT
1 AAATGAATAATTTT
*
7291211 AAATGAAAAATTTT
1 AAATGAATAATTTT
**
7291225 TTATGAATAAT
1 AAATGAATAAT
7291236 AGTAATGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (14 bp):
AAATGAATAATTTT
Found at i:7293785 original size:241 final size:247
Alignment explanation
Indices: 7293356--7293832 Score: 653
Period size: 241 Copynumber: 2.0 Consensus size: 247
7293346 AATAGGTGAA
* * * *
7293356 AATGTCAAATCAAAAAGAGTAAGTTATGTTAAAAAGGATTTTTAGTAATTTTTTCCAAATGAAGA
1 AATGTCAAATCAAAAAGAATAAGTTACGTTAAAAAGGATTTTTAATAATTTTTTCCAAATGAAAA
** *
7293421 AAGGTAAAAATGTCAAATCAAGTTTGATAACATTACAGCCTAAGTTGCAATTTGAAATTATATTT
66 AAGGTAAAAATGTCAAATCAAGTTTGATAACATTACAAACTAAGTTGCAATTTGAAATTATATTC
** * *
7293486 ATTTTTAATGTAATCACATTATATCCATTTGGTTGTAATATGATTGTATTGCAATCTTATA-T-T
131 ATTTTTAATACAATCACATTATATCCATTTGATTGTAATATGATTGAATTGCAATCTTATATTAT
* * *
7293549 A-G-TTTATTTCAAAACAAACGTTGTAGTGTATTTTAATTTTTATACTTGAC
196 ATGACTTATTTCAAAACAAACGTTGCAATGTATTTTAATTTTTATACTTGAC
* * *
7293599 AATGTCAAATCAAAAATAATAAGTTACGTTAAGAATGATTTTTAATAA-TTTTTCCAAATGAAAA
1 AATGTCAAATCAAAAAGAATAAGTTACGTTAAAAAGGATTTTTAATAATTTTTTCCAAATGAAAA
* * * * *
7293663 AAGG-CAAAATGTTAAATCACA-TTTGATAACATTGCAAAGTAAGTTGCAATTTGAGATTATATT
66 AAGGTAAAAATGTCAAATCA-AGTTTGATAACATTACAAACTAAGTTGCAATTTGAAATTATATT
* * *
7293726 CGTTTTTAATACAATCACATTGTATCCATTTGATTGTAATATGATTGAATTGTAATCTTATATTA
130 CATTTTTAATACAATCACATTATATCCATTTGATTGTAATATGATTGAATTGCAATCTTATATTA
*
7293791 TATTGACTTATTTCAAAGCAAACGTTGCAATGTATTTTAATT
195 TA-TGACTTATTTCAAAACAAACGTTGCAATGTATTTTAATT
7293833 GAGCACATTG
Statistics
Matches: 202, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
241 104 0.51
242 21 0.10
243 44 0.22
245 1 0.00
246 32 0.16
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (247 bp):
AATGTCAAATCAAAAAGAATAAGTTACGTTAAAAAGGATTTTTAATAATTTTTTCCAAATGAAAA
AAGGTAAAAATGTCAAATCAAGTTTGATAACATTACAAACTAAGTTGCAATTTGAAATTATATTC
ATTTTTAATACAATCACATTATATCCATTTGATTGTAATATGATTGAATTGCAATCTTATATTAT
ATGACTTATTTCAAAACAAACGTTGCAATGTATTTTAATTTTTATACTTGAC
Found at i:7298923 original size:26 final size:25
Alignment explanation
Indices: 7298885--7298937 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
7298875 AAGAGTAAAA
7298885 ATATCAGATTATCATATCATCATATC
1 ATATCAGATTATCATATCATCAT-TC
*
7298911 ATATCA-ATATATCTTATCATCATTC
1 ATATCAGAT-TATCATATCATCATTC
7298936 AT
1 AT
7298938 TATAATAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATCAGATTATCATATCATCATTC
Done.