Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 170 of 173
Found at i:51212019 original size:31 final size:31
Alignment explanation
Indices: 51211981--51212044 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
51211971 AGTTTTTAAA
51211981 AATTTATTTAACTAAAATCAGATCGGTCATC
1 AATTTATTTAACTAAAATCAGATCGGTCATC
51212012 AATTTATTTAACTAAAATCAGATCGGTCATC
1 AATTTATTTAACTAAAATCAGATCGGTCATC
51212043 AA
1 AA
51212045 AGTCATGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (31 bp):
AATTTATTTAACTAAAATCAGATCGGTCATC
Found at i:51213708 original size:24 final size:25
Alignment explanation
Indices: 51213681--51213728 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
51213671 AAGAGGAAAG
51213681 TTTAAAGAACATAAAA-GAAAAAAT
1 TTTAAAGAACATAAAACGAAAAAAT
** *
51213705 TTTAAATTACTTAAAACGAAAAAA
1 TTTAAAGAACATAAAACGAAAAAA
51213729 ATATGGGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (25 bp):
TTTAAAGAACATAAAACGAAAAAAT
Found at i:51222944 original size:13 final size:13
Alignment explanation
Indices: 51222928--51222952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51222918 AAAATTAATA
51222928 AACCCAATTACCC
1 AACCCAATTACCC
51222941 AACCCAATTACC
1 AACCCAATTACC
51222953 ATTTACCAAC
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:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:51222992 original size:25 final size:24
Alignment explanation
Indices: 51222956--51223036 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
51222946 AATTACCATT
51222956 TACC-AACCCAATAAACTAAAGTC
1 TACCAAACCCAATAAACTAAAGTC
* * *
51222979 TACCCAAACTCAAT-TACT--A-TT
1 TA-CCAAACCCAATAAACTAAAGTC
51223000 TACC-AACCCAATAAACTAAAGTC
1 TACCAAACCCAATAAACTAAAGTC
51223023 TATCCAAACCCAAT
1 TA-CCAAACCCAAT
51223037 TACCATTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
19 7 0.16
20 5 0.11
21 3 0.07
22 2 0.05
23 5 0.11
24 7 0.16
25 15 0.34
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.22
Consensus pattern (24 bp):
TACCAAACCCAATAAACTAAAGTC
Found at i:51222995 original size:44 final size:44
Alignment explanation
Indices: 51222936--51223058 Score: 212
Period size: 44 Copynumber: 2.8 Consensus size: 44
51222926 TAAACCCAAT
51222936 TACCC-AACCCAATTACCATTTACCAACCCAATAAACTAAAGTC
1 TACCCAAACCCAATTACCATTTACCAACCCAATAAACTAAAGTC
* *
51222979 TACCCAAACTCAATTACTATTTACCAACCCAATAAACTAAAGTC
1 TACCCAAACCCAATTACCATTTACCAACCCAATAAACTAAAGTC
*
51223023 TATCCAAACCCAATTACCATTTACCAACCCAATAAA
1 TACCCAAACCCAATTACCATTTACCAACCCAATAAA
51223059 ACAAACAGCT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 5 0.07
44 69 0.93
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.23
Consensus pattern (44 bp):
TACCCAAACCCAATTACCATTTACCAACCCAATAAACTAAAGTC
Found at i:51223431 original size:22 final size:21
Alignment explanation
Indices: 51223392--51223435 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
51223382 AGATTGAAAC
51223392 TTTTTATTTAGCTATTCACACT
1 TTTTTATTTAGCTATTCA-ACT
*
51223414 TTTTTATTTTA-CTTTTCAACT
1 TTTTTA-TTTAGCTATTCAACT
51223435 T
1 T
51223436 GGACATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTATTTAGCTATTCAACT
Found at i:51223584 original size:17 final size:16
Alignment explanation
Indices: 51223554--51223593 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
51223544 ATATTTGTGG
*
51223554 GGTTAATCGATTAATT
1 GGTTAATCGATTAATC
*
51223570 GGTTACATCGGTTAATC
1 GGTTA-ATCGATTAATC
51223587 GGTTAAT
1 GGTTAAT
51223594 TTTTAACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (16 bp):
GGTTAATCGATTAATC
Found at i:51223587 original size:8 final size:8
Alignment explanation
Indices: 51223554--51223593 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
51223544 ATATTTGTGG
51223554 GGTTAATC
1 GGTTAATC
* *
51223562 GATTAATT
1 GGTTAATC
51223570 GGTTACATC
1 GGTTA-ATC
51223579 GGTTAATC
1 GGTTAATC
51223587 GGTTAAT
1 GGTTAAT
51223594 TTTTAACCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (8 bp):
GGTTAATC
Found at i:51238555 original size:35 final size:35
Alignment explanation
Indices: 51238516--51238586 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
51238506 TCGGTGCAAG
51238516 TGTACACTTGAAAATAAGTTTTGATTTTGATTCAA
1 TGTACACTTGAAAATAAGTTTTGATTTTGATTCAA
51238551 TGTACACTTGAAAATAAGTTTTGATTTTGATTCAA
1 TGTACACTTGAAAATAAGTTTTGATTTTGATTCAA
51238586 T
1 T
51238587 TTTCATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (35 bp):
TGTACACTTGAAAATAAGTTTTGATTTTGATTCAA
Found at i:51242317 original size:17 final size:17
Alignment explanation
Indices: 51242284--51242317 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51242274 GATGAAGCTC
* *
51242284 AACGAGAATAAACAAGT
1 AACGAGAAGAAAAAAGT
51242301 AACGAGAAGAAAAAAGT
1 AACGAGAAGAAAAAAGT
51242318 GGCTATCAAG
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:0.62, C:0.09, G:0.21, T:0.09
Consensus pattern (17 bp):
AACGAGAAGAAAAAAGT
Found at i:51243692 original size:16 final size:16
Alignment explanation
Indices: 51243671--51243703 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51243661 TTTGAATTAG
51243671 GATTTAGGGTTTATAA
1 GATTTAGGGTTTATAA
51243687 GATTTAGGGTTTATAA
1 GATTTAGGGTTTATAA
51243703 G
1 G
51243704 TCAAGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.42
Consensus pattern (16 bp):
GATTTAGGGTTTATAA
Found at i:51255838 original size:88 final size:87
Alignment explanation
Indices: 51255591--51255845 Score: 327
Period size: 87 Copynumber: 2.9 Consensus size: 87
51255581 AATTCCTATT
* * * *
51255591 CAACATAAAAGAATCTAGAAAAAAAGGTA-T-CGAGTAACTTCAACTACTTAAACACGAAGTGAA
1 CAACATAAAAGAATCTAGAAAAAAAGATAGTGCAAGTAATTTCAACTACTTAAACACAAAGTGAA
*
51255654 TCAGTTCCTTACTAATCGTATG
66 TCAGTTCCTTACTAATCATATG
* * * * *
51255676 CAACATAAAAAAATCTAGAGAAAAAGA-AGTGCAGACTAATTGCAACTACTTAAACACAAAGTAA
1 CAACATAAAAGAATCTAGAAAAAAAGATAGTGCA-AGTAATTTCAACTACTTAAACACAAAGTGA
*
51255740 ATCAGCTCCTTACTAATCATATG
65 ATCAGTTCCTTACTAATCATATG
* * * *
51255763 CAACATAAAAGAATCTAGAAAAAAAAATAGTGCCAAGTAATTTCAACTGCCTCAACACAAAGTGA
1 CAACATAAAAGAATCTAGAAAAAAAGATAGTG-CAAGTAATTTCAACTACTTAAACACAAAGTGA
*
51255828 ATCAATTCCTTACTAATC
65 ATCAGTTCCTTACTAATC
51255846 GTTGTAAGAT
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
84 1 0.01
85 25 0.17
86 1 0.01
87 70 0.49
88 44 0.31
89 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (87 bp):
CAACATAAAAGAATCTAGAAAAAAAGATAGTGCAAGTAATTTCAACTACTTAAACACAAAGTGAA
TCAGTTCCTTACTAATCATATG
Found at i:51260372 original size:31 final size:31
Alignment explanation
Indices: 51260311--51260394 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
51260301 TTGGCAACTA
* *
51260311 TTCCCACATTGGGACCTGAACTTGATAATTG
1 TTCCCACATTGGGACCTGAACTAGACAATTG
* *
51260342 TTCCCATATTGTGG-CCTGAACTAGGCAATTG
1 TTCCCACATTG-GGACCTGAACTAGACAATTG
** * *
51260373 TTCTTACATTGGGGCTTGAACT
1 TTCCCACATTGGGACCTGAACT
51260395 TTTTTTGTCC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
30 2 0.05
31 39 0.91
32 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (31 bp):
TTCCCACATTGGGACCTGAACTAGACAATTG
Found at i:51260796 original size:31 final size:31
Alignment explanation
Indices: 51260720--51260819 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
51260710 ATTTAGGGTT
* *
51260720 TGAACTTGGCAACTATTCCCACATTGGGACC
1 TGAACTTGGCAATTGTTCCCACATTGGGACC
** *
51260751 TGAACTTGATAATTGTTCCCATATTGTGG-CC
1 TGAACTTGGCAATTGTTCCCACATTG-GGACC
* ** * *
51260782 TGAACTAGGCAATTGTTCTTACATTGGGGCT
1 TGAACTTGGCAATTGTTCCCACATTGGGACC
51260813 TGAACTT
1 TGAACTT
51260820 TTTTTGTCCA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
30 2 0.04
31 50 0.93
32 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (31 bp):
TGAACTTGGCAATTGTTCCCACATTGGGACC
Found at i:51260973 original size:424 final size:424
Alignment explanation
Indices: 51260185--51261036 Score: 1695
Period size: 424 Copynumber: 2.0 Consensus size: 424
51260175 ATGATCCTTT
51260185 ATTCTTGCCACTGTTTTGCCCTTTCTGCAGACTCTTAGAAAATAAATCTCAGGTTTGAGTTGTTT
1 ATTCTTGCCACTGTTTTGCCCTTTCTGCAGACTCTTAGAAAATAAATCTCAGGTTTGAGTTGTTT
*
51260250 CTCTCTTGAATATATTTATAGATGGGTTAAATAACTATTTAGGGTTTGATCTTGGCAACTATTCC
66 CTCTCTTGAATATATTTATAGATGGGTTAAATAACTATTTAGGGTTTGAACTTGGCAACTATTCC
51260315 CACATTGGGACCTGAACTTGATAATTGTTCCCATATTGTGGCCTGAACTAGGCAATTGTTCTTAC
131 CACATTGGGACCTGAACTTGATAATTGTTCCCATATTGTGGCCTGAACTAGGCAATTGTTCTTAC
51260380 ATTGGGGCTTGAACTTTTTTTGTCCAAGTTAGTCCCTGAACTTTAGGGTTTTCAAGGAAATATCA
196 ATTGGGGCTTGAACTTTTTTTGTCCAAGTTAGTCCCTGAACTTTAGGGTTTTCAAGGAAATATCA
51260445 GTGACTAACTTGGACAAAAAAAAAAGTTCAAGCCCCAATGGGAGAATACTTGCAAAGTTCAAGGG
261 GTGACTAACTTGGACAAAAAAAAAAGTTCAAGCCCCAATGGGAGAATACTTGCAAAGTTCAAGGG
51260510 CTAGCTTGGACCCAAAAAAAGTTTAGGCTCCAATGTGAGAATAGTTGCCAAGTTCAGGCCCCAGA
326 CTAGCTTGGACCCAAAAAAAGTTTAGGCTCCAATGTGAGAATAGTTGCCAAGTTCAGGCCCCAGA
51260575 AGTGATTTAATCTTTTATAGATGAAGGCAGGCAA
391 AGTGATTTAATCTTTTATAGATGAAGGCAGGCAA
51260609 ATTCTTGCCACTGTTTTGCCCTTTCTGCAGACTCTTAGAAAATAAATCTCAGGTTTGAGTTGTTT
1 ATTCTTGCCACTGTTTTGCCCTTTCTGCAGACTCTTAGAAAATAAATCTCAGGTTTGAGTTGTTT
51260674 CTCTCTTGAATATATTTATAGATGGGTTAAATAACTATTTAGGGTTTGAACTTGGCAACTATTCC
66 CTCTCTTGAATATATTTATAGATGGGTTAAATAACTATTTAGGGTTTGAACTTGGCAACTATTCC
51260739 CACATTGGGACCTGAACTTGATAATTGTTCCCATATTGTGGCCTGAACTAGGCAATTGTTCTTAC
131 CACATTGGGACCTGAACTTGATAATTGTTCCCATATTGTGGCCTGAACTAGGCAATTGTTCTTAC
51260804 ATTGGGGCTTGAACTTTTTTTGTCCAAGTTAGTCCCTGAACTTTAGGGTTTTCAAGGAAATATCA
196 ATTGGGGCTTGAACTTTTTTTGTCCAAGTTAGTCCCTGAACTTTAGGGTTTTCAAGGAAATATCA
51260869 GTGACTAACTTGGACAAAAAAAAAAGTTCAAGCCCCAATGGGAGAATACTTGCAAAGTTCAAGGG
261 GTGACTAACTTGGACAAAAAAAAAAGTTCAAGCCCCAATGGGAGAATACTTGCAAAGTTCAAGGG
51260934 CTAGCTTGGACCCAAAAAAAGTTTAGGCTCCAATGTGAGAATAGTTGCCAAGTTCAGGCCCCAGA
326 CTAGCTTGGACCCAAAAAAAGTTTAGGCTCCAATGTGAGAATAGTTGCCAAGTTCAGGCCCCAGA
51260999 AGTGATTTAATCTTTTATAGATGAAGGCAGGCAA
391 AGTGATTTAATCTTTTATAGATGAAGGCAGGCAA
51261033 ATTC
1 ATTC
51261037 CCACCAGTTT
Statistics
Matches: 427, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
424 427 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (424 bp):
ATTCTTGCCACTGTTTTGCCCTTTCTGCAGACTCTTAGAAAATAAATCTCAGGTTTGAGTTGTTT
CTCTCTTGAATATATTTATAGATGGGTTAAATAACTATTTAGGGTTTGAACTTGGCAACTATTCC
CACATTGGGACCTGAACTTGATAATTGTTCCCATATTGTGGCCTGAACTAGGCAATTGTTCTTAC
ATTGGGGCTTGAACTTTTTTTGTCCAAGTTAGTCCCTGAACTTTAGGGTTTTCAAGGAAATATCA
GTGACTAACTTGGACAAAAAAAAAAGTTCAAGCCCCAATGGGAGAATACTTGCAAAGTTCAAGGG
CTAGCTTGGACCCAAAAAAAGTTTAGGCTCCAATGTGAGAATAGTTGCCAAGTTCAGGCCCCAGA
AGTGATTTAATCTTTTATAGATGAAGGCAGGCAA
Found at i:51267358 original size:12 final size:15
Alignment explanation
Indices: 51267329--51267361 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
51267319 TGAGGATTTA
51267329 GCTGCTTCCTTTTCT
1 GCTGCTTCCTTTTCT
51267344 GCTGCTT-CTTTTGCT
1 GCTGCTTCCTTTT-CT
51267359 GCT
1 GCT
51267362 ATCCTCTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.30, G:0.18, T:0.52
Consensus pattern (15 bp):
GCTGCTTCCTTTTCT
Found at i:51270629 original size:18 final size:18
Alignment explanation
Indices: 51270593--51270631 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51270583 TGAAAAATAT
*
51270593 TAAAAAATATATTTTTTA
1 TAAAAAATATATTTATTA
51270611 TAAAAAAT-TATATTATTA
1 TAAAAAATATAT-TTATTA
51270629 TAA
1 TAA
51270632 GGGTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAAATATATTTATTA
Found at i:51275662 original size:10 final size:9
Alignment explanation
Indices: 51275632--51275656 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51275622 TTAAAATAAT
51275632 ATTTTAAAA
1 ATTTTAAAA
51275641 ATTTTAAAA
1 ATTTTAAAA
51275650 ATTTTAA
1 ATTTTAA
51275657 TTAATTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:51275956 original size:69 final size:69
Alignment explanation
Indices: 51275856--51275993 Score: 224
Period size: 69 Copynumber: 2.0 Consensus size: 69
51275846 TTTAAATAAT
*
51275856 CGAATTTACTTGTGGAGTTTAAAAAACTTCATCTACACCGAA-TAATTTATTATTATCGTTTAAT
1 CGAATTTACTTGTGGAGTTTAAAAAACTTCATCTACACC-AATTAATTTATTATTATAGTTTAAT
51275920 TTTTC
65 TTTTC
* **
51275925 CGAATTTATTTGTGGAGTTTAAAAAGTTTCATCTACACCAATTAATTTATTATTATAGTTTAATT
1 CGAATTTACTTGTGGAGTTTAAAAAACTTCATCTACACCAATTAATTTATTATTATAGTTTAATT
51275990 TTTC
66 TTTC
51275994 TTAGTCAATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
68 2 0.03
69 62 0.97
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (69 bp):
CGAATTTACTTGTGGAGTTTAAAAAACTTCATCTACACCAATTAATTTATTATTATAGTTTAATT
TTTC
Found at i:51276539 original size:19 final size:18
Alignment explanation
Indices: 51276498--51276542 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
51276488 TACTCTGTAC
*
51276498 TTTATAGAGAAATCTTAT
1 TTTATAGAGAAATCCTAT
*
51276516 TTTATTGAGAAATCCTATT
1 TTTATAGAGAAATCCTA-T
51276535 TTTATAGA
1 TTTATAGA
51276543 AATTTTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTATAGAGAAATCCTAT
Found at i:51282002 original size:30 final size:31
Alignment explanation
Indices: 51281948--51282006 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
51281938 TAATGTCAAG
* *
51281948 TATTAAATTGAACATTGAAGCCAAACTCATA
1 TATTAAATTGAACATTAAAACCAAACTCATA
51281979 TATTAAATTG-ACATTAAAACCAAACTCA
1 TATTAAATTGAACATTAAAACCAAACTCA
51282007 ATTACTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (31 bp):
TATTAAATTGAACATTAAAACCAAACTCATA
Found at i:51283683 original size:3 final size:3
Alignment explanation
Indices: 51283675--51283708 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
51283665 TTAATCAATC
51283675 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
51283709 GCAACGTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:51285405 original size:22 final size:23
Alignment explanation
Indices: 51285352--51285407 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
51285342 TTAAATTAAA
* * *
51285352 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
51285375 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
51285397 ATTAAAATTAA
1 ATTAAAATTAA
51285408 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:51285420 original size:16 final size:16
Alignment explanation
Indices: 51285383--51285422 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
51285373 TTAATAAAAT
* *
51285383 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
51285399 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
51285415 TAAAATTA
1 TAAAATTA
51285423 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:51285501 original size:59 final size:59
Alignment explanation
Indices: 51285433--51285572 Score: 244
Period size: 59 Copynumber: 2.4 Consensus size: 59
51285423 TCAAATTATT
* *
51285433 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
* *
51285492 AATTATTAATTGTATTAATTGTTGTAATAAAATTTATCACTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
51285551 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
51285573 ATTAATTGTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 77 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACACTTGATTAGTAAATTTATCA
Found at i:51285558 original size:20 final size:20
Alignment explanation
Indices: 51285473--51285551 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
51285463 AATCTAACAT
51285473 TTGATTAGTAAATTTATCAA
1 TTGATTAGTAAATTTATCAA
* *
51285493 ---ATTA-TTAATTGTATTAA
1 TTGATTAGTAAATT-TATCAA
* * *
51285510 TTGTTGTAATAAAATTTATCAC
1 TTGAT-TAGT-AAATTTATCAA
51285532 TTGATTAGTAAATTTATCAA
1 TTGATTAGTAAATTTATCAA
51285552 ATTATTAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
16 5 0.12
17 9 0.21
20 11 0.26
21 5 0.12
22 9 0.21
23 4 0.09
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (20 bp):
TTGATTAGTAAATTTATCAA
Found at i:51285566 original size:9 final size:9
Alignment explanation
Indices: 51285554--51285581 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51285544 TTTATCAAAT
51285554 TATTAATTG
1 TATTAATTG
51285563 TATTAATTG
1 TATTAATTG
51285572 TATTAATTG
1 TATTAATTG
51285581 T
1 T
51285582 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:51287282 original size:9 final size:9
Alignment explanation
Indices: 51287268--51287334 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
51287258 TTTACATACT
51287268 TTTTTTAAA
1 TTTTTTAAA
*
51287277 TTTTTTTAA
1 TTTTTTAAA
*
51287286 -TTTTAAAA
1 TTTTTTAAA
51287294 TATTTTTAAAATA
1 T-TTTTT--AA-A
*
51287307 CTTTTTTTAA
1 -TTTTTTAAA
51287317 TTTTTTAAA
1 TTTTTTAAA
51287326 TTTTTTAAA
1 TTTTTTAAA
51287335 ATAAAAATGG
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
8 6 0.13
9 25 0.54
10 5 0.11
11 1 0.02
12 2 0.04
13 6 0.13
14 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:51287293 original size:40 final size:40
Alignment explanation
Indices: 51287236--51287329 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
51287226 AAATATATTT
* *
51287236 ATTTTTTTAATTGTAAAATATTTTT-ACATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT-A
51287276 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
51287316 ATTTTTTAAATTTT
1 ATTTTTTTAATTTT
51287330 TTAAAATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 38 0.76
41 12 0.24
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:51287294 original size:17 final size:17
Alignment explanation
Indices: 51287269--51287302 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51287259 TTACATACTT
* *
51287269 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
51287286 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
51287303 AATACTTTTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:51287315 original size:31 final size:31
Alignment explanation
Indices: 51287277--51287337 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
51287267 TTTTTTTAAA
51287277 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAAT-TTTTTAAAATAC
*
51287308 TTTTTTTAATTTTTTAAATTTTTTAAAATA
1 TTTTTTTAATTTTTAAAATTTTTTAAAATA
51287338 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAATTTTTTAAAATAC
Found at i:51291484 original size:3 final size:3
Alignment explanation
Indices: 51291476--51291501 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51291466 CTTCATTATT
51291476 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
51291502 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:51295683 original size:132 final size:131
Alignment explanation
Indices: 51295522--51295784 Score: 368
Period size: 132 Copynumber: 2.0 Consensus size: 131
51295512 TTTTTCTGTA
*
51295522 AGCACTTGTTCATGCTTGTATATACTTGTAATCAATTTGTTAATTTATAATA-GGCATAGATGAG
1 AGCACTTGTTCATGCTTGTATATACTTGTAATCAATATGTTAATTTATAATAGGGCATAGATGAG
51295586 CTAGATACAAATTGTAACATAGTGTTT-CTGATCCAGCTGTAACCATGGATGTAACATAAATGCT
66 CTAGATACAAATTGTAACATAG-GTTTGCTGATCC--CTGTAACCATGGATGTAACATAAATGCT
51295650 CCCC
128 CCCC
* * *
51295654 AGCACTTGTTCATGCTTGTATATACTTGTAATCGATATGTTAGTTTGTAATAGGGGCATAGATGA
1 AGCACTTGTTCATGCTTGTATATACTTGTAATCAATATGTTAATTTATAATA-GGGCATAGATGA
* * * * * * * *
51295719 GCTTGATGCGAATTGTAACATAGGTTTGCTGATCCTTGTAACCGTTGATGTAGCATACATGCTCC
65 GCTAGATACAAATTGTAACATAGGTTTGCTGATCCCTGTAACCATGGATGTAACATAAATGCTCC
51295784 C
130 C
51295785 TTTTTCTGTA
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
132 74 0.64
133 4 0.03
134 38 0.33
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (131 bp):
AGCACTTGTTCATGCTTGTATATACTTGTAATCAATATGTTAATTTATAATAGGGCATAGATGAG
CTAGATACAAATTGTAACATAGGTTTGCTGATCCCTGTAACCATGGATGTAACATAAATGCTCCC
C
Found at i:51296278 original size:10 final size:10
Alignment explanation
Indices: 51296263--51296291 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
51296253 ATGTAACATA
51296263 CATGCTTGTT
1 CATGCTTGTT
51296273 CATGCTTGTT
1 CATGCTTGTT
51296283 CATGCTTGT
1 CATGCTTGT
51296292 ATACGCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (10 bp):
CATGCTTGTT
Found at i:51296299 original size:20 final size:20
Alignment explanation
Indices: 51296263--51296301 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51296253 ATGTAACATA
*
51296263 CATGCTTGTTCATGCTTGTT
1 CATGCTTGTTCACGCTTGTT
51296283 CATGCTTGTAT-ACGCTTGT
1 CATGCTTGT-TCACGCTTGT
51296302 AATTGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.46
Consensus pattern (20 bp):
CATGCTTGTTCACGCTTGTT
Found at i:51301570 original size:18 final size:19
Alignment explanation
Indices: 51301549--51301591 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
51301539 TTAAGTTTTG
51301549 TTTTAATATTT-TTAT-ATA
1 TTTTAAT-TTTATTATCATA
51301567 TTTTAATTTTATTATGCATA
1 TTTTAATTTTATTAT-CATA
51301587 TTTTA
1 TTTTA
51301592 TTACCTCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 11 0.50
20 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTAATTTTATTATCATA
Found at i:51309389 original size:19 final size:19
Alignment explanation
Indices: 51309349--51309410 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
51309339 ATTACAAAAT
*
51309349 AATTCAAAATAATTTTCAAA
1 AATTAAAAATAATTTT-AAA
51309369 AATTAAAAATAATATTT-AA
1 AATTAAAAATAAT-TTTAAA
*
51309388 AATAAAAAAT-ATTTATAAA
1 AATTAAAAATAATTT-TAAA
51309407 AATT
1 AATT
51309411 CCAAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 3 0.08
19 16 0.44
20 12 0.33
21 3 0.08
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAAAAATAATTTTAAA
Found at i:51309458 original size:11 final size:9
Alignment explanation
Indices: 51309424--51309468 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
51309414 AATTTTATAT
51309424 TTAAAAAAA
1 TTAAAAAAA
*
51309433 TTAAAAAAT
1 TTAAAAAAA
51309442 TCTAAAGAAAA
1 T-TAAA-AAAA
51309453 TATAAAAAAA
1 T-TAAAAAAA
51309463 TTAAAA
1 TTAAAA
51309469 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 14 0.45
10 9 0.29
11 8 0.26
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:51312136 original size:13 final size:13
Alignment explanation
Indices: 51312118--51312142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51312108 TTTATAACTT
51312118 TTAAAAGTAAAAA
1 TTAAAAGTAAAAA
51312131 TTAAAAGTAAAA
1 TTAAAAGTAAAA
51312143 TAATATTGAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
TTAAAAGTAAAAA
Found at i:51314689 original size:30 final size:29
Alignment explanation
Indices: 51314655--51314714 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
51314645 AGAGTTAGAG
*
51314655 AAAAAAAATTTAAGTCCCTTAAAAGTTGGT
1 AAAAAAAATTT-AGACCCTTAAAAGTTGGT
*
51314685 AAAAAAAATTTAGACGCTTAAAAGTTGGT
1 AAAAAAAATTTAGACCCTTAAAAGTTGGT
51314714 A
1 A
51314715 TTTCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.28
Consensus pattern (29 bp):
AAAAAAAATTTAGACCCTTAAAAGTTGGT
Found at i:51317642 original size:11 final size:11
Alignment explanation
Indices: 51317626--51317651 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51317616 AGATCTACTA
51317626 TTTTCTTGTTG
1 TTTTCTTGTTG
51317637 TTTTCTTGTTG
1 TTTTCTTGTTG
51317648 TTTT
1 TTTT
51317652 ACTACTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (11 bp):
TTTTCTTGTTG
Found at i:51318912 original size:58 final size:59
Alignment explanation
Indices: 51318791--51318943 Score: 159
Period size: 58 Copynumber: 2.6 Consensus size: 59
51318781 GGTTAAATCA
* * * * *
51318791 CTGAATTTGACAATTGTTCCCAACATTAGGACCTGAACTCTTTTTAGTCCAAGTTAGTAC
1 CTGAACTTAACAACTGTTCCC-ACATTAGGACCTAAACTCTTTTTAGTCCAAATTAGTAC
* * *
51318851 CTGAAC-TAGGCAACTGTTCCCACATTA-GAGCCTAAATTCTTTTT-GTCCAAATTAGTCC
1 CTGAACTTA-ACAACTGTTCCCACATTAGGA-CCTAAACTCTTTTTAGTCCAAATTAGTAC
* * *
51318909 CTGAACTTAACAATTGTTCCCACATTGGGAACTAA
1 CTGAACTTAACAACTGTTCCCACATTAGGACCTAA
51318944 TCATTTTGCT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
58 39 0.51
59 23 0.30
60 15 0.19
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (59 bp):
CTGAACTTAACAACTGTTCCCACATTAGGACCTAAACTCTTTTTAGTCCAAATTAGTAC
Found at i:51323013 original size:263 final size:262
Alignment explanation
Indices: 51322533--51323159 Score: 907
Period size: 263 Copynumber: 2.4 Consensus size: 262
51322523 TCAAAGCTTG
* * * *
51322533 AAAG-TTGAAACTCAACAGAAGCTCAATTGAGTTCCACTTTTAAAGCTTAACTCTCATGCTCAAT
1 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCTAAACTCTCATGCTCGAT
* ** * * * * *
51322597 TTCAAGCTCAATTATTAGTACTGGAGCTAGAATTCAGTGTTTAAATGTTTACATTGAAGTTTTTC
66 TTCAAGCTCAATTATTAGTGCTCAAACTAGAACTC-GTGTTTAAATGTTAAAATTGAAGTTTCTC
* * * *
51322662 AATACTCATTAAATATAGAAAAAAGCTGGATTAAGCTGATAACGTACTCAGATAAAGTATTAGTA
130 AATACTCATTAAACATAGAAAAAAGCTGGACTAAGCTGATAACGTACACAAATAAAGTATTAGTA
* * *
51322727 TACTCGAATTTGACCACTTCAACAGCTCAAGCCCTAAGAAGCTTGAGCTCAAGTTTGACTTGAAA
195 TACTCAAATTCGACCACTTCAACAGCTCAAGCCATAAGAAGCTTGAGCTCAAGTTTGACTTGAAA
51322792 ATC
260 ATC
*
51322795 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCTCAACTCTCATGCTCGAT
1 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCTAAACTCTCATGCTCGAT
** ** *
51322860 TTCAATTTCAATTATTAGTGCTTTAACTTGAACTCGTGTTTAAATGTTCAAAATTGAAGTTTCTC
66 TTCAAGCTCAATTATTAGTGCTCAAACTAGAACTCGTGTTTAAATGTT-AAAATTGAAGTTTCTC
51322925 AATACTCATTAAACATAGAAAAAAGCTGGACTAAGCTGATAA-GCTACACAAATAAAGTATTAGT
130 AATACTCATTAAACATAGAAAAAAGCTGGACTAAGCTGATAACG-TACACAAATAAAGTATTAGT
*
51322989 ATACTCAAATTCGACCAGTTCAACAGCTCAAGCCATAAGAAGCTTGAGCTCAAGTTTGACTTGAA
194 ATACTCAAATTCGACCACTTCAACAGCTCAAGCCATAAGAAGCTTGAGCTCAAGTTTGACTTGAA
*
51323054 ACTC
259 AATC
* * **
51323058 GAAGCCTGAAACTCAACAGAAGCTCAATCGAGTTCCATGTTTAAAGCTAAACTCTCATGCTCGAT
1 AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCTAAACTCTCATGCTCGAT
* * *
51323123 TTCCAGCTCAATGATTAGTGCTCAAACTCGAACTCGT
66 TTCAAGCTCAATTATTAGTGCTCAAACTAGAACTCGT
51323160 AGAATAGAAA
Statistics
Matches: 326, Mismatches: 36, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
262 18 0.06
263 308 0.94
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (262 bp):
AAAGCTTGAAACTCAACAGAAGCTCAATCGAGTTCCACATTTAAAGCTAAACTCTCATGCTCGAT
TTCAAGCTCAATTATTAGTGCTCAAACTAGAACTCGTGTTTAAATGTTAAAATTGAAGTTTCTCA
ATACTCATTAAACATAGAAAAAAGCTGGACTAAGCTGATAACGTACACAAATAAAGTATTAGTAT
ACTCAAATTCGACCACTTCAACAGCTCAAGCCATAAGAAGCTTGAGCTCAAGTTTGACTTGAAAA
TC
Found at i:51336871 original size:8 final size:8
Alignment explanation
Indices: 51336858--51336907 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
51336848 ACTAACATGA
51336858 AATTTTTT
1 AATTTTTT
51336866 AATTTTTT
1 AATTTTTT
*
51336874 AATTTGTT
1 AATTTTTT
51336882 AATTTTTCT
1 AATTTTT-T
**
51336891 TTTTTTTT
1 AATTTTTT
*
51336899 AAATTTTT
1 AATTTTTT
51336907 A
1 A
51336908 TAAAGTACGC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (8 bp):
AATTTTTT
Found at i:51349261 original size:4 final size:4
Alignment explanation
Indices: 51349252--51349285 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
51349242 ATCAAAGAGT
*
51349252 TTAA TTAA TTAA TTAA TTAA CTAA TTATA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA-A TTAA T
51349286 AAAAAAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:51350050 original size:20 final size:21
Alignment explanation
Indices: 51350027--51350073 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
51350017 TTTTTTAAAT
*
51350027 AATTAAG-TTTATTTTCTTTA
1 AATTAAGAGTTATTTTCTTTA
*
51350047 AATTAAGAGTTATTTTTTTTA
1 AATTAAGAGTTATTTTCTTTA
*
51350068 ATTTAA
1 AATTAA
51350074 TGTATTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (21 bp):
AATTAAGAGTTATTTTCTTTA
Found at i:51352328 original size:25 final size:27
Alignment explanation
Indices: 51352298--51352366 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
51352288 TTTGATTTAC
51352298 TATTTTAAATAATAAAAAT-TAA-AAA
1 TATTTTAAATAATAAAAATATAATAAA
* * *
51352323 TATTTTATATTAAT-ATAATATAATATA
1 TATTTTA-AATAATAAAAATATAATAAA
*
51352350 TTTTTTAAATAATAAAA
1 TATTTTAAATAATAAAA
51352367 CAAAATTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 11 0.32
26 13 0.38
27 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TATTTTAAATAATAAAAATATAATAAA
Found at i:51362500 original size:147 final size:147
Alignment explanation
Indices: 51362233--51362577 Score: 550
Period size: 147 Copynumber: 2.3 Consensus size: 147
51362223 TATACAGGAG
* * *
51362233 AAATGGTTACAGATGTTGGGATTCGAATCCCGAACCTACTGCATATCAGGGTGGTTGAATAAACC
1 AAATGGTTGCATATGTTGGGATTCGAATCCCGAACCTACTGCATATCGGGGTGGTTGAATAAACC
* * * *
51362298 AACTTAGCTTAACTCCGGGCTTTTCTCAAATTATCCGGTTTCATTGGATCCTTGCAGCAGCATAT
66 AACTGAGCTTAACTCCGAGCTTTTCTCAAATTATCCGGTTTCACTGGATCCTTGCAGCAGCATAC
51362363 GGATCAAGACATAGGGA
131 GGATCAAGACATAGGGA
* *
51362380 AAATGGTTGCATATGTTGGGATTCGAATCCCGAACTTGCTGCATATCGGGGTGGTTGAATAAACC
1 AAATGGTTGCATATGTTGGGATTCGAATCCCGAACCTACTGCATATCGGGGTGGTTGAATAAACC
*
51362445 AACTGAGCTTAACTCCGAG-TTCTTCTCAAATTATCCGGTTTCAGCT-GATCTTTGCAGCAGCAT
66 AACTGAGCTTAACTCCGAGCTT-TTCTCAAATTATCCGGTTTCA-CTGGATCCTTGCAGCAGCAT
51362508 ACGGATCAAGACATAGGGA
129 ACGGATCAAGACATAGGGA
* *
51362527 AAATGGTTGCATATGTTGGGATTCGAATCCCAAACCTACTGAATATCGGGG
1 AAATGGTTGCATATGTTGGGATTCGAATCCCGAACCTACTGCATATCGGGG
51362578 AGGTAACTGT
Statistics
Matches: 182, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
146 2 0.01
147 179 0.98
148 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (147 bp):
AAATGGTTGCATATGTTGGGATTCGAATCCCGAACCTACTGCATATCGGGGTGGTTGAATAAACC
AACTGAGCTTAACTCCGAGCTTTTCTCAAATTATCCGGTTTCACTGGATCCTTGCAGCAGCATAC
GGATCAAGACATAGGGA
Found at i:51369790 original size:12 final size:12
Alignment explanation
Indices: 51369773--51369807 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
51369763 TGGAAACCTC
*
51369773 GAAGAACAAGAA
1 GAAGAATAAGAA
51369785 GAAGAATAAGAA
1 GAAGAATAAGAA
51369797 GAAGAATAAGA
1 GAAGAATAAGA
51369808 GTGGAAGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.66, C:0.03, G:0.26, T:0.06
Consensus pattern (12 bp):
GAAGAATAAGAA
Found at i:51373888 original size:30 final size:30
Alignment explanation
Indices: 51373853--51373912 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51373843 TTATAGGGAC
*
51373853 TGGATCAA-ATTAGTCCCTCTATTTATTAAA
1 TGGATCAATATTAGTCCCTATA-TTATTAAA
* *
51373883 TGGATCAATTTTGGTCCCTATATTATTAAA
1 TGGATCAATATTAGTCCCTATATTATTAAA
51373913 AAGAACCCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (30 bp):
TGGATCAATATTAGTCCCTATATTATTAAA
Found at i:51379133 original size:31 final size:31
Alignment explanation
Indices: 51379059--51379122 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
51379049 AGCTGAATTG
51379059 AATATCAATTTATAAGTTTGAGTCTAGCTCC
1 AATATCAATTTATAAGTTTGAGTCTAGCTCC
51379090 AATATCAATTTATAAGTTTGAGTCTAGCTCC
1 AATATCAATTTATAAGTTTGAGTCTAGCTCC
51379121 AA
1 AA
51379123 ACTTAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (31 bp):
AATATCAATTTATAAGTTTGAGTCTAGCTCC
Found at i:51379919 original size:6 final size:6
Alignment explanation
Indices: 51379908--51379939 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
51379898 AGGGTTCTAT
51379908 ATATAC ATATAC ATATAC ATATAC ATATAC AT
1 ATATAC ATATAC ATATAC ATATAC ATATAC AT
51379940 TATCGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:51381463 original size:16 final size:16
Alignment explanation
Indices: 51381442--51381474 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51381432 AATAGCTGAA
51381442 ATTATTA-AGAAATTTT
1 ATTATTAGAG-AATTTT
51381458 ATTATTAGAGAATTTT
1 ATTATTAGAGAATTTT
51381474 A
1 A
51381475 AACCCAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
ATTATTAGAGAATTTT
Found at i:51384233 original size:19 final size:16
Alignment explanation
Indices: 51384211--51384261 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
51384201 TAATTTTTTT
51384211 TATTTTTAAAAATATTTAA
1 TATTTTT-AAAATA-TT-A
*
51384230 TATTATTAAAATATTA
1 TATTTTTAAAATATTA
*
51384246 TATTTTT-CAATATTA
1 TATTTTTAAAATATTA
51384261 T
1 T
51384262 TAAACATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 8 0.28
16 7 0.24
17 2 0.07
18 6 0.21
19 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTTTAAAATATTA
Found at i:51384249 original size:23 final size:23
Alignment explanation
Indices: 51384222--51384279 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
51384212 ATTTTTAAAA
51384222 ATATTTAATATTATTAAA-ATATT
1 ATATTTAATATTATTAAACATA-T
51384245 ATATTTTTCAATATTATTAAACATAT
1 ATA--TTT-AATATTATTAAACATAT
*
51384271 ATTTTTAAT
1 ATATTTAAT
51384280 TATTTATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 6 0.20
24 3 0.10
25 3 0.10
26 15 0.50
27 3 0.10
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTTAATATTATTAAACATAT
Found at i:51384283 original size:24 final size:25
Alignment explanation
Indices: 51384225--51384279 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 25
51384215 TTTAAAAATA
*
51384225 TTTAATATTATTAAAATATTATATT
1 TTTAATATTATTAAAACATTATATT
51384250 TTTCAATATTATT-AAACA-TATATT
1 TTT-AATATTATTAAAACATTATATT
51384274 TTTAAT
1 TTTAAT
51384280 TATTTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 9 0.32
25 7 0.25
26 9 0.32
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTAATATTATTAAAACATTATATT
Found at i:51384354 original size:20 final size:22
Alignment explanation
Indices: 51384314--51384355 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
51384304 AATATTAATA
*
51384314 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
51384336 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
51384356 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:51384439 original size:15 final size:15
Alignment explanation
Indices: 51384421--51384477 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
51384411 ATTAAATATT
51384421 AATATTTTAATAATA
1 AATATTTTAATAATA
*
51384436 AATAATTATTACAATTATA
1 AAT-ATT-TT--AATAATA
*
51384455 AATATATTAATAATA
1 AATATTTTAATAATA
51384470 AATATTTT
1 AATATTTT
51384478 GTCGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 16 0.47
16 3 0.09
17 4 0.12
18 2 0.06
19 9 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:51385820 original size:24 final size:24
Alignment explanation
Indices: 51385771--51385820 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
51385761 CTCGGTTAAT
* * * *
51385771 AATTTAATTAATTTTTTTTTATAA
1 AATTGAATCAATTTTTTTATAGAA
51385795 AATTGAATCAATTTTTTTATAGAA
1 AATTGAATCAATTTTTTTATAGAA
51385819 AA
1 AA
51385821 GTTTAAAGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
AATTGAATCAATTTTTTTATAGAA
Found at i:51388240 original size:15 final size:15
Alignment explanation
Indices: 51388201--51388241 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
51388191 ATAATTTAAA
*
51388201 TTCAGCATTTATTTT
1 TTCAACATTTATTTT
* *
51388216 TTTAATATTTATTTT
1 TTCAACATTTATTTT
51388231 TTCAACATTTA
1 TTCAACATTTA
51388242 AAATTTTCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (15 bp):
TTCAACATTTATTTT
Found at i:51390365 original size:25 final size:25
Alignment explanation
Indices: 51390315--51390366 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
51390305 AATATATATT
* * *
51390315 AATATTTATATTAATATTAAACAAA
1 AATAATTATATTAAAATAAAACAAA
*
51390340 AATAATTATATTAAAATAAAATAAA
1 AATAATTATATTAAAATAAAACAAA
51390365 AA
1 AA
51390367 ATCCTCCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAATTATATTAAAATAAAACAAA
Found at i:51391661 original size:18 final size:18
Alignment explanation
Indices: 51391619--51391661 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
51391609 CCAACTCATT
51391619 TTTTAT-TTATTTATATA
1 TTTTATATTATTTATATA
* * *
51391636 TATCATATTATTTTTATA
1 TTTTATATTATTTATATA
51391654 TTTTATAT
1 TTTTATAT
51391662 AAATTATAAG
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATTATTTATATA
Found at i:51392035 original size:21 final size:22
Alignment explanation
Indices: 51392006--51392050 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
51391996 TTGGTGAAGG
*
51392006 AAGAGCTTAAT-AGATAC-TTTT
1 AAGAACTTAATCAGA-ACATTTT
51392027 AAGAACTTAATCAGAACATTTT
1 AAGAACTTAATCAGAACATTTT
51392049 AA
1 AA
51392051 CCTTTTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (22 bp):
AAGAACTTAATCAGAACATTTT
Found at i:51410411 original size:110 final size:110
Alignment explanation
Indices: 51410218--51410430 Score: 282
Period size: 110 Copynumber: 1.9 Consensus size: 110
51410208 ACATTCTCCG
* *
51410218 AATATAATCATACAAGCATCCAATACTTACCCCAAGTCCAAGTAACAAACTAGCATTCCTAATGT
1 AATATAATCATACAAGCATCCAATACTCACCCCAAGTCCAAGTAACAAACTAGCATTCCTAAAGT
51410283 ATACATATATTATACAAAACTGACATTGAACATACCCTTATCAGA
66 ATACATATATTATACAAAACTGACATTGAACATACCCTTATCAGA
* * * * ** * * * **
51410328 AATATACTCATACACGTATCCAATACTCACCCCAAGTTCGGGTAACGAATTGGCATTGGTAAAGT
1 AATATAATCATACAAGCATCCAATACTCACCCCAAGTCCAAGTAACAAACTAGCATTCCTAAAGT
* * *
51410393 ATGCATATATTATACAAAACTTAGATTGAACATACCCT
66 ATACATATATTATACAAAACTGACATTGAACATACCCT
51410431 CATTGGACTG
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
110 87 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (110 bp):
AATATAATCATACAAGCATCCAATACTCACCCCAAGTCCAAGTAACAAACTAGCATTCCTAAAGT
ATACATATATTATACAAAACTGACATTGAACATACCCTTATCAGA
Found at i:51412715 original size:15 final size:18
Alignment explanation
Indices: 51412668--51412718 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
51412658 GTAAAAGAAA
*
51412668 AACTGATTTAATTGATTG
1 AACTGATTAAATTGATTG
51412686 AACTGATTAATATTGATT-
1 AACTGATTAA-ATTGATTG
51412704 AA-TG-TTAAATTGATT
1 AACTGATTAAATTGATT
51412719 CAGTTAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 2 0.06
18 11 0.35
19 7 0.23
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (18 bp):
AACTGATTAAATTGATTG
Found at i:51416280 original size:16 final size:15
Alignment explanation
Indices: 51416252--51416293 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
51416242 AAAAGTGTTC
51416252 CTGACCTGAAATGGT
1 CTGACCTGAAATGGT
*
51416267 CTGAACCTGCAATGGT
1 CTG-ACCTGAAATGGT
51416283 CTGACCTGAAA
1 CTGACCTGAAA
51416294 ATTTGGCCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (15 bp):
CTGACCTGAAATGGT
Found at i:51417679 original size:14 final size:15
Alignment explanation
Indices: 51417647--51417678 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
51417637 ACAAATTTAC
51417647 TTTTATAAGATAAAT
1 TTTTATAAGATAAAT
51417662 TTTTA-AAG-TAAAT
1 TTTTATAAGATAAAT
51417675 TTTT
1 TTTT
51417679 TCTAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTTATAAGATAAAT
Found at i:51419312 original size:90 final size:90
Alignment explanation
Indices: 51419035--51419385 Score: 438
Period size: 90 Copynumber: 3.8 Consensus size: 90
51419025 CACCGAGTTG
* * * *
51419035 AGTGTCGGCCTGTCGGGTACAATATGCATTCCCCATGTCCGAATGTGTATTGAAAATTGTTAGTT
1 AGTGTCGACCTGTCGGGTACAATATGCATTCCCCATGTCTGAATATGTATTGACAATTGTTAGTT
51419100 GCAATGTTACTAGGAGTCTAGTGTTAGTGTT
66 GCAATGTTACTAGGAGTC--GTG-TA---TT
* * * * * *
51419131 AGTGTCGGCCTGTCAGGG-ATAATATGCATTCCCCGTATC-GAGTATGTATTGACAATTGTTAGC
1 AGTGTCGACCTGTC-GGGTACAATATGCATTCCCCATGTCTGAATATGTATTGACAATTGTTAGT
* * * *
51419194 TGCAATGCTACTTGGAGTCGAGTGTT
65 TGCAATGTTACTAGGAGTCGTGTATT
* *
51419220 AGTGTCGACCTGTCGGGTACAATATGCATTCCCCATGTCTGAATATGCATTGACGATTGTTAGTT
1 AGTGTCGACCTGTCGGGTACAATATGCATTCCCCATGTCTGAATATGTATTGACAATTGTTAGTT
*
51419285 GCAATGTTACTCGGAGTCGTGTATT
66 GCAATGTTACTAGGAGTCGTGTATT
* *
51419310 AGTGTC-AGCCTGTCGGGTGCAATATGCATTCCCCATGTCTGAGTATGTATTGACAATTGTTAGT
1 AGTGTCGA-CCTGTCGGGTACAATATGCATTCCCCATGTCTGAATATGTATTGACAATTGTTAGT
51419374 TGCAATGTTACT
65 TGCAATGTTACT
51419386 TTCCTGTTGG
Statistics
Matches: 224, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
88 3 0.01
89 34 0.15
90 112 0.50
92 1 0.00
93 2 0.01
95 37 0.17
96 32 0.14
97 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (90 bp):
AGTGTCGACCTGTCGGGTACAATATGCATTCCCCATGTCTGAATATGTATTGACAATTGTTAGTT
GCAATGTTACTAGGAGTCGTGTATT
Found at i:51419435 original size:70 final size:70
Alignment explanation
Indices: 51419318--51419456 Score: 181
Period size: 70 Copynumber: 2.0 Consensus size: 70
51419308 TTAGTGTCAG
* * * * *
51419318 CCTGTCGGGTGCAATATGCATTCCCCATGTCTGAGTATGTATTGACAATTGTTAGTTGCAATGTT
1 CCTGTCGGGTACAATATGCATTCCCCATGTCTGAGTATGCATAGACAATTGTTAATTACAATGTT
51419383 ACTTT
66 ACTTT
* * * *
51419388 CCTGTTGGGTACAATATTCATTCCCCGTGT-TCGAGTATGCATAGACAATTGTTAATTACGATGT
1 CCTGTCGGGTACAATATGCATTCCCCATGTCT-GAGTATGCATAGACAATTGTTAATTACAATGT
51419452 TACTT
65 TACTT
51419457 GGAGCCGAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 1 0.02
70 58 0.98
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (70 bp):
CCTGTCGGGTACAATATGCATTCCCCATGTCTGAGTATGCATAGACAATTGTTAATTACAATGTT
ACTTT
Found at i:51419768 original size:2 final size:2
Alignment explanation
Indices: 51419761--51419785 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51419751 ATGGAAATTT
51419761 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
51419786 TATATACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:51438263 original size:24 final size:29
Alignment explanation
Indices: 51438207--51438266 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 29
51438197 AAGTTATATA
*
51438207 TATATTTCATTGATTTTTTAATAATTTTC
1 TATATTTCATTGATTTATTAATAATTTTC
*
51438236 TATATTTC-TT-ATTTATTAA-AATTTTA
1 TATATTTCATTGATTTATTAATAATTTTC
51438262 TATAT
1 TATAT
51438267 AACCATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 11 0.38
27 8 0.28
28 2 0.07
29 8 0.28
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (29 bp):
TATATTTCATTGATTTATTAATAATTTTC
Found at i:51441772 original size:29 final size:29
Alignment explanation
Indices: 51441723--51441779 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
51441713 CTCTTTATAC
51441723 ATTTAGAATTTAGCCCCTTTA-TTTTTAT
1 ATTTAGAATTTAGCCCCTTTACTTTTTAT
* **
51441751 ATTTAGGAATTTAGTCTTTTTACTTTTTA
1 ATTTA-GAATTTAGCCCCTTTACTTTTTA
51441780 AATAGCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.56
Consensus pattern (29 bp):
ATTTAGAATTTAGCCCCTTTACTTTTTAT
Found at i:51451539 original size:5 final size:5
Alignment explanation
Indices: 51451529--51451558 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
51451519 ATTGGGGCCC
51451529 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
51451559 TTCTGCTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:51465764 original size:2 final size:2
Alignment explanation
Indices: 51465757--51465781 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51465747 AGCTTAAATT
51465757 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 T
51465782 CTAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51468530 original size:12 final size:12
Alignment explanation
Indices: 51468508--51468538 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
51468498 TTTCATTAAA
51468508 TAAAA-AAATAT
1 TAAAACAAATAT
51468519 TAAAACAAATAT
1 TAAAACAAATAT
51468531 TAAAACAA
1 TAAAACAA
51468539 CAAACGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
TAAAACAAATAT
Found at i:51469360 original size:16 final size:17
Alignment explanation
Indices: 51469336--51469373 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
51469326 TGTTTTAATC
*
51469336 TTTTAATTTTCTCT-GT
1 TTTTGATTTTCTCTAGT
*
51469352 TTTTGATTTTCTTTAGT
1 TTTTGATTTTCTCTAGT
51469369 TTTTG
1 TTTTG
51469374 TTTGAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTTGATTTTCTCTAGT
Found at i:51474174 original size:28 final size:28
Alignment explanation
Indices: 51474127--51474180 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
51474117 GATTCGGGGT
** *
51474127 TCAAGATTCAAGATTCAAAAATTTAAGA
1 TCAAGATTCAAGATAAAAAAAATTAAGA
*
51474155 TCAAGATTCGAGATAAAAAAAATTAA
1 TCAAGATTCAAGATAAAAAAAATTAA
51474181 AATTATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (28 bp):
TCAAGATTCAAGATAAAAAAAATTAAGA
Found at i:51477748 original size:19 final size:19
Alignment explanation
Indices: 51477726--51477765 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
51477716 ATTTTCAACA
51477726 TAAAATTAAATA-AAATAAT
1 TAAAATTAAATATAAA-AAT
*
51477745 TAAAATTGAATATAAAAAT
1 TAAAATTAAATATAAAAAT
51477764 TA
1 TA
51477766 CACTAACGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAATTAAATATAAAAAT
Found at i:51479198 original size:22 final size:22
Alignment explanation
Indices: 51479153--51479201 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
51479143 ATTATCCATA
*
51479153 ATATTACATTTATTTCTGTTAG
1 ATATTACATTTATTTCTGTAAG
*
51479175 ATATTACTTTTATTT-TGATAAG
1 ATATTACATTTATTTCTG-TAAG
51479197 ATATT
1 ATATT
51479202 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
ATATTACATTTATTTCTGTAAG
Found at i:51485500 original size:124 final size:127
Alignment explanation
Indices: 51485302--51485562 Score: 456
Period size: 124 Copynumber: 2.1 Consensus size: 127
51485292 AAAGAGAAAA
*
51485302 ATTATCGTTAATTTAACGAACAAAGCCTTCATATATATATATATATGAAGGAAACGCCAGAAGAT
1 ATTA-CGTTAATTTAACGAACAAAGCCTT-ATATATATATATATATGAAGGAAACGCCAAAAGAT
51485367 TGGAATAAATTCAAAGAAGAAAAAAGAGCAAAACAAGAGGATCGGAGATGGCGTGCAGAGCGGC
64 TGGAATAAATTCAAAGAAGAAAAAAGAGCAAAACAAGAGGATCGGAGATGGCGTGCAGAGCGGC
*
51485431 ATTGCGTTAATTTAACGAACAAAGCC-T-T-TATATATATATATGAAGGAAACGCCAAAAGATTG
1 ATTACGTTAATTTAACGAACAAAGCCTTATATATATATATATATGAAGGAAACGCCAAAAGATTG
*
51485493 GAATAAATTCAAAGAAGAAAAAAGAGCAAAACAAGAGGATCGGAGATGGCGTGCAGAGCGGT
66 GAATAAATTCAAAGAAGAAAAAAGAGCAAAACAAGAGGATCGGAGATGGCGTGCAGAGCGGC
51485555 ATTACGTT
1 ATTACGTT
51485563 CCATTTTCAT
Statistics
Matches: 128, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
124 101 0.79
125 1 0.01
127 1 0.01
128 22 0.17
129 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (127 bp):
ATTACGTTAATTTAACGAACAAAGCCTTATATATATATATATATGAAGGAAACGCCAAAAGATTG
GAATAAATTCAAAGAAGAAAAAAGAGCAAAACAAGAGGATCGGAGATGGCGTGCAGAGCGGC
Found at i:51486331 original size:21 final size:22
Alignment explanation
Indices: 51486276--51486331 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
51486266 AAATAGACTT
51486276 AATATTAATTTTGCTAAATAGTA
1 AATATTAATTTT-CTAAATAGTA
* *
51486299 GATGA-T-ATTTTTTAAATAGTA
1 AAT-ATTAATTTTCTAAATAGTA
51486320 AATATTAATTTT
1 AATATTAATTTT
51486332 ATTCCAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 10 0.37
23 3 0.11
24 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (22 bp):
AATATTAATTTTCTAAATAGTA
Found at i:51491678 original size:31 final size:32
Alignment explanation
Indices: 51491625--51491700 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
51491615 TATAACATTA
* *
51491625 GGTACTTGAACTTGATA-TTTTTTCTTAAATT
1 GGTACTTAAACTTGACACTTTTTTCTTAAATT
*
51491656 GGTACTTAAATTTGACACTTTTTTCTTAAATT
1 GGTACTTAAACTTGACACTTTTTTCTTAAATT
51491688 GGTACTTAAACTT
1 GGTACTTAAACTT
51491701 ACTTTTTGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 14 0.35
32 26 0.65
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (32 bp):
GGTACTTAAACTTGACACTTTTTTCTTAAATT
Found at i:51495251 original size:30 final size:30
Alignment explanation
Indices: 51495217--51495283 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
51495207 ATAAGTTACA
* * *
51495217 ATTTAGTCATTGAATTATTCGAAA-GTTTTC
1 ATTTAGTCACTAAACTATTC-AAATGTTTTC
*
51495247 ATTTAAGTCACTAAACTATTCAAATGTTTTT
1 ATTT-AGTCACTAAACTATTCAAATGTTTTC
51495278 ATTTAG
1 ATTTAG
51495284 AAAAAGTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (30 bp):
ATTTAGTCACTAAACTATTCAAATGTTTTC
Found at i:51497816 original size:18 final size:18
Alignment explanation
Indices: 51497783--51497835 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
51497773 ATTAACCTAA
*
51497783 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
51497802 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
51497820 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
51497836 TAATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:51497953 original size:9 final size:9
Alignment explanation
Indices: 51497939--51498032 Score: 109
Period size: 9 Copynumber: 10.4 Consensus size: 9
51497929 GTAATGATTC
51497939 AATTCGGTT
1 AATTCGGTT
*
51497948 AATTCGGGT
1 AATTCGGTT
* *
51497957 AATTTGGGT
1 AATTCGGTT
51497966 AATTCGGTT
1 AATTCGGTT
**
51497975 AATTCGGAC
1 AATTCGGTT
51497984 AATTCGGTT
1 AATTCGGTT
51497993 AATTCGAG-T
1 AATTCG-GTT
*
51498002 ACTTCGGTT
1 AATTCGGTT
*
51498011 AATTAGGTT
1 AATTCGGTT
51498020 AATTCGGTT
1 AATTCGGTT
51498029 AATT
1 AATT
51498033 TTTAACCAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
8 1 0.01
9 69 0.97
10 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:51498291 original size:27 final size:28
Alignment explanation
Indices: 51498254--51498319 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
51498244 AGGGGTCTAA
* * *
51498254 AATATTATTTTTCAGTTTTTAAGGG-TC
1 AATATTTTTTTTCAGCTTTTAAGGGCCC
*
51498281 AATATTTTTTTTTAGCTTTTAAGGGCCC
1 AATATTTTTTTTCAGCTTTTAAGGGCCC
51498309 AA-ATTTTTTTT
1 AATATTTTTTTT
51498320 ACCAACTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (28 bp):
AATATTTTTTTTCAGCTTTTAAGGGCCC
Found at i:51499247 original size:22 final size:21
Alignment explanation
Indices: 51499222--51499268 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
51499212 TAAAACTTAT
*
51499222 TTTAT-AAATTAATATTTATATA
1 TTTATAAAATT-ATAATTATA-A
51499244 TTTATAAAATTATAATTATAA
1 TTTATAAAATTATAATTATAA
51499265 TTTA
1 TTTA
51499269 ATTCTATTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 13 0.57
23 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATAAAATTATAATTATAA
Found at i:51502588 original size:21 final size:22
Alignment explanation
Indices: 51502546--51502588 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
51502536 TGGGAAATCC
* *
51502546 TTTTATATATATATTTAAAATT
1 TTTTAAATATATAATTAAAATT
*
51502568 TTTTAAATA-ATAATTATAATT
1 TTTTAAATATATAATTAAAATT
51502589 ATAAAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAATATATAATTAAAATT
Found at i:51509955 original size:20 final size:21
Alignment explanation
Indices: 51509930--51509969 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
51509920 GTCATAACTT
*
51509930 AATAAAAATATT-TTTTTATG
1 AATAAAAAAATTATTTTTATG
51509950 AATAAAAAAATTATTTTTAT
1 AATAAAAAAATTATTTTTAT
51509970 AGTATATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
AATAAAAAAATTATTTTTATG
Found at i:51523020 original size:20 final size:22
Alignment explanation
Indices: 51522997--51523037 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
51522987 ATTTGATTAT
51522997 TTAAAAATAA-A-ATATTTTTA
1 TTAAAAATAATATATATTTTTA
*
51523017 TTAAAATTAATATATATTTTT
1 TTAAAAATAATATATATTTTT
51523038 TATAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAAAATAATATATATTTTTA
Found at i:51523044 original size:20 final size:20
Alignment explanation
Indices: 51522997--51523046 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
51522987 ATTTGATTAT
* *
51522997 TTAAAAATAAAATATTTTTA
1 TTAAAATTAATATATTTTTA
51523017 TTAAAATTAATATATATTTT-
1 TTAAAATTAATATAT-TTTTA
*
51523037 TTATAATTAA
1 TTAAAATTAA
51523047 ATTTGCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATTAATATATTTTTA
Found at i:51526103 original size:2 final size:2
Alignment explanation
Indices: 51526098--51526136 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
51526088 TATATATATA
51526098 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
51526137 CACTTGTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:51532707 original size:30 final size:30
Alignment explanation
Indices: 51532669--51532820 Score: 193
Period size: 30 Copynumber: 5.1 Consensus size: 30
51532659 TAAATTTTTT
* *
51532669 TTACATTTTGACCTCTAAACTTTTTTAAAA
1 TTACATTTTGACCTCTAAAATTTTTCAAAA
*
51532699 TTATATTTTGACCTCTAAAATTTTTCAAAA
1 TTACATTTTGACCTCTAAAATTTTTCAAAA
* * * *
51532729 TTACATTTTAACCCCTAAACTTTTT-TAAA
1 TTACATTTTGACCTCTAAAATTTTTCAAAA
*
51532758 TTACATTTTGA-CTCTTAAATTTTCTCAAAA
1 TTACATTTTGACCTCTAAAATTTT-TCAAAA
51532788 TTACATTTTGACCT-TAAAATTTTCTCAAAA
1 TTACATTTTGACCTCTAAAATTTT-TCAAAA
51532818 TTA
1 TTA
51532821 TGTTTCGACA
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
28 9 0.09
29 14 0.13
30 80 0.76
31 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (30 bp):
TTACATTTTGACCTCTAAAATTTTTCAAAA
Found at i:51532786 original size:59 final size:60
Alignment explanation
Indices: 51532669--51532796 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 60
51532659 TAAATTTTTT
* * *
51532669 TTACATTTTGACCTCTAAACTTTTTTAAAATTATATTTTGACCTCTAAAATTTTTCAAAA
1 TTACATTTTAACCCCTAAACTTTTTTAAAATTACATTTTGACCTCTAAAATTTTTCAAAA
*
51532729 TTACATTTTAACCCCTAAACTTTTTT-AAATTACATTTTGA-CTCTTAAATTTTCTCAAAA
1 TTACATTTTAACCCCTAAACTTTTTTAAAATTACATTTTGACCTCTAAAATTTT-TCAAAA
51532788 TTACATTTT
1 TTACATTTT
51532797 GACCTTAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
58 11 0.17
59 28 0.44
60 24 0.38
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (60 bp):
TTACATTTTAACCCCTAAACTTTTTTAAAATTACATTTTGACCTCTAAAATTTTTCAAAA
Found at i:51533188 original size:20 final size:20
Alignment explanation
Indices: 51533163--51533203 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
51533153 AGTTTCCAAG
51533163 AAAAAG-AAAAAGAAGAAAAA
1 AAAAAGAAAAAAG-AGAAAAA
51533183 AAAAAGAAAAAAGAGAAAAA
1 AAAAAGAAAAAAGAGAAAAA
51533203 A
1 A
51533204 GATTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAGAGAAAAA
Found at i:51533211 original size:10 final size:9
Alignment explanation
Indices: 51533163--51533205 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
51533153 AGTTTCCAAG
51533163 AAAAAGA-A
1 AAAAAGAGA
*
51533171 AAAGAAGAAA
1 AAA-AAGAGA
*
51533181 AAAAAAAGA
1 AAAAAGAGA
51533190 AAAAAGAGA
1 AAAAAGAGA
51533199 AAAAAGA
1 AAAAAGA
51533206 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 3 0.10
9 23 0.77
10 4 0.13
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:51533360 original size:14 final size:14
Alignment explanation
Indices: 51533315--51533361 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
51533305 GGCCCCCCCA
51533315 AAAAAACAAAACAG
1 AAAAAACAAAACAG
* *
51533329 CAAAAAA-AAAATAA
1 -AAAAAACAAAACAG
*
51533343 AAAAAACAAAGCAG
1 AAAAAACAAAACAG
51533357 AAAAA
1 AAAAA
51533362 TAGAAGCAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (14 bp):
AAAAAACAAAACAG
Found at i:51533414 original size:24 final size:24
Alignment explanation
Indices: 51533386--51533431 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
51533376 ACAGCAAGTG
**
51533386 CAGGCCCAGTGCAGCAGCAGGCTC
1 CAGGCCCAGCACAGCAGCAGGCTC
51533410 CAGGCCCAGCACAGCAGCAGGC
1 CAGGCCCAGCACAGCAGCAGGC
51533432 CAACCCAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.39, G:0.33, T:0.04
Consensus pattern (24 bp):
CAGGCCCAGCACAGCAGCAGGCTC
Found at i:51533513 original size:12 final size:12
Alignment explanation
Indices: 51533496--51533540 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
51533486 CAGCAGGCCT
51533496 AAAAAAGAAGAG
1 AAAAAAGAAGAG
51533508 AAAAAAGAGAGAG
1 AAAAAAGA-AGAG
*
51533521 AAAAAAAAAGA-
1 AAAAAAGAAGAG
51533532 AAAAAAGAA
1 AAAAAAGAA
51533541 AAAGCCCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 8 0.27
12 11 0.37
13 11 0.37
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAGAG
Found at i:51534007 original size:18 final size:18
Alignment explanation
Indices: 51533984--51534133 Score: 115
Period size: 18 Copynumber: 8.1 Consensus size: 18
51533974 ATTTATCAAT
*
51533984 ATTTTCGTGTTTTCAACA
1 ATTTTCGTGTTTTCAAAA
51534002 ATTTTCGTGTTTTCAAAAAAAATA
1 ATTTTCGTGTTTTC-----AAA-A
**
51534026 ATTTTCGTGTTTAAAAAA
1 ATTTTCGTGTTTTCAAAA
* *
51534044 ATTCTCGTGTTTT-AAAG
1 ATTTTCGTGTTTTCAAAA
51534061 ATTTTCGTGTTTTCAAAA
1 ATTTTCGTGTTTTCAAAA
* * *
51534079 ATTTTCGT-ATTTCTAAG
1 ATTTTCGTGTTTTCAAAA
* * *
51534096 ATTCTCGTATTTCCCAAAA
1 ATTTTCGTGTTT-TCAAAA
*
51534115 ATTTCCGTGTTTTCAAAA
1 ATTTTCGTGTTTTCAAAA
51534133 A
1 A
51534134 AAATTCCCGT
Statistics
Matches: 103, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
17 28 0.27
18 45 0.44
19 15 0.15
23 2 0.02
24 13 0.13
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
ATTTTCGTGTTTTCAAAA
Found at i:51534029 original size:24 final size:22
Alignment explanation
Indices: 51534001--51534044 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
51533991 TGTTTTCAAC
51534001 AATTTTCGTGTTTTCAAAAAAAAT
1 AATTTTCGTG-TTT-AAAAAAAAT
51534025 AATTTTCGTGTTTAAAAAAA
1 AATTTTCGTGTTTAAAAAAA
51534045 TTCTCGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (22 bp):
AATTTTCGTGTTTAAAAAAAAT
Found at i:51534072 original size:35 final size:35
Alignment explanation
Indices: 51534026--51534103 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
51534016 AAAAAAAATA
*
51534026 ATTTTCGTGTTTAAAAAAATTCTCGTGTTT-TAAAG
1 ATTTTCGTGTTTAAAAAAATTCTCGTATTTCT-AAG
** *
51534061 ATTTTCGTGTTTTCAAAAATTTTCGTATTTCTAAG
1 ATTTTCGTGTTTAAAAAAATTCTCGTATTTCTAAG
*
51534096 ATTCTCGT
1 ATTTTCGT
51534104 ATTTCCCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 36 0.97
36 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.49
Consensus pattern (35 bp):
ATTTTCGTGTTTAAAAAAATTCTCGTATTTCTAAG
Found at i:51536524 original size:11 final size:12
Alignment explanation
Indices: 51536508--51536540 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51536498 TTTGAATAAA
51536508 ATATTTTTT-AT
1 ATATTTTTTAAT
51536519 ATATTTTTTTAAT
1 ATA-TTTTTTAAT
51536532 ATATTTTTT
1 ATATTTTTT
51536541 TAAAAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 12 0.60
13 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATATTTTTTAAT
Found at i:51536533 original size:13 final size:13
Alignment explanation
Indices: 51536511--51536543 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
51536501 GAATAAAATA
51536511 TTTTTT-ATATAT
1 TTTTTTAATATAT
51536523 TTTTTTAATATAT
1 TTTTTTAATATAT
51536536 TTTTTTAA
1 TTTTTTAA
51536544 AAAATACAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTTAATATAT
Found at i:51536630 original size:27 final size:27
Alignment explanation
Indices: 51536600--51536653 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
51536590 GCGTCTACCT
51536600 GGTGCCTCATAAAGAGGCGCCAATGAA
1 GGTGCCTCATAAAGAGGCGCCAATGAA
* *
51536627 GGTGCCTTATAGAGAGGCGCCAATGAA
1 GGTGCCTCATAAAGAGGCGCCAATGAA
51536654 ATTTATGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.17
Consensus pattern (27 bp):
GGTGCCTCATAAAGAGGCGCCAATGAA
Found at i:51536821 original size:8 final size:8
Alignment explanation
Indices: 51536808--51536879 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
51536798 CATACAAAAA
51536808 ATTACAAT
1 ATTACAAT
51536816 ATTACAAT
1 ATTACAAT
* * *
51536824 ATATCCCGAC
1 AT-T-ACAAT
51536834 ATTACAAT
1 ATTACAAT
*
51536842 ATTCATACAAA
1 A-T--TACAAT
*
51536853 ATTATAAT
1 ATTACAAT
51536861 ATTACAAT
1 ATTACAAT
51536869 ATTACAAT
1 ATTACAAT
51536877 ATT
1 ATT
51536880 CATACAAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
8 35 0.71
9 3 0.06
10 5 0.10
11 6 0.12
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (8 bp):
ATTACAAT
Found at i:51536899 original size:22 final size:22
Alignment explanation
Indices: 51536869--51536955 Score: 120
Period size: 22 Copynumber: 3.7 Consensus size: 22
51536859 ATATTACAAT
51536869 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
51536891 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
51536917 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
51536940 ATTACAATATTCATAC
1 ATTACAATATTCATAC
51536956 TAAATATAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 31 0.53
23 5 0.09
24 1 0.02
25 1 0.02
26 5 0.09
27 15 0.26
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:51536931 original size:49 final size:49
Alignment explanation
Indices: 51536861--51536960 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
51536851 AAATTATAAT
*
51536861 ATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAA
1 ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
* *
51536910 ATTATAATATTACAATATTCATACAAAAAAATTACAATATTCATACTAA
1 ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
51536959 AT
1 AT
51536961 ATAGATAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (49 bp):
ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
Found at i:51537034 original size:27 final size:27
Alignment explanation
Indices: 51536996--51537052 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
51536986 ATAACAAAAA
51536996 AATATTGCAATTTTATATGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
* * *
51537023 AATATTGTAATTTTGTGTGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
51537050 AAT
1 AAT
51537053 GTCGGGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (27 bp):
AATATTGCAATTTTATATGAATATTGT
Found at i:51537240 original size:19 final size:19
Alignment explanation
Indices: 51537216--51537267 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
51537206 ACAAACACAA
51537216 AAATTTATAACATAATCCT
1 AAATTTATAACATAATCCT
*
51537235 AAATTTATAACATAATCTT
1 AAATTTATAACATAATCCT
51537254 AAATTT-TAA-ATAAT
1 AAATTTATAACATAAT
51537268 TTGTATGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 5 0.16
18 3 0.09
19 24 0.75
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTTATAACATAATCCT
Found at i:51537502 original size:19 final size:19
Alignment explanation
Indices: 51537478--51537518 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
51537468 ACAAACACAA
*
51537478 AAATTTATAATATAATCCT
1 AAATTTATAATATAACCCT
51537497 AAATTTATAATATAACCCT
1 AAATTTATAATATAACCCT
51537516 AAA
1 AAA
51537519 CCCGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTTATAATATAACCCT
Found at i:51537573 original size:27 final size:27
Alignment explanation
Indices: 51537535--51537610 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
51537525 AAAATCAGAG
*
51537535 CATTGGCGCCTCCCAGATAGGTACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
51537562 CATTGGCGCCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
51537589 CATTGGCGCCTCCCAAATAGGC
1 CATTGGCGCCTCCCAGATAGGC
51537611 GCCAATACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.18
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:51543691 original size:25 final size:26
Alignment explanation
Indices: 51543663--51543717 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
51543653 TGCCTGGCCC
*
51543663 AATAAATACCA-AAAAAA-CAAATAAA
1 AATAAA-ACCATAAAAAATAAAATAAA
*
51543688 AATAAAACTATAAAAAATAAAATAAA
1 AATAAAACCATAAAAAATAAAATAAA
51543714 AATA
1 AATA
51543718 GTAAATAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 12 0.46
26 11 0.42
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.16
Consensus pattern (26 bp):
AATAAAACCATAAAAAATAAAATAAA
Found at i:51543722 original size:21 final size:21
Alignment explanation
Indices: 51543681--51543722 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
51543671 CCAAAAAAAC
*
51543681 AAATAAAAATAAAACTATAAA
1 AAATAAAAATAAAAATATAAA
51543702 AAAT-AAAATAAAAATAGTAAA
1 AAATAAAAATAAAAATA-TAAA
51543723 TAATGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
AAATAAAAATAAAAATATAAA
Found at i:51544265 original size:18 final size:18
Alignment explanation
Indices: 51544242--51544277 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51544232 GTGATTTGAA
51544242 TTTTTTCTTTTTCCTTTC
1 TTTTTTCTTTTTCCTTTC
* *
51544260 TTTTTTGTTTTTTCTTTC
1 TTTTTTCTTTTTCCTTTC
51544278 GGTTCTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTTCTTTTTCCTTTC
Found at i:51545027 original size:23 final size:23
Alignment explanation
Indices: 51545001--51545056 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
51544991 TTATAAATTC
51545001 TTTTATTTTATTATATAGTATTA
1 TTTTATTTTATTATATAGTATTA
* *
51545024 TTTTATGTTT-TTGTATATTATTA
1 TTTTAT-TTTATTATATAGTATTA
* *
51545047 CTTAATTTTA
1 TTTTATTTTA
51545057 CAAATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 3 0.11
23 21 0.78
24 3 0.11
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTTATTTTATTATATAGTATTA
Found at i:51550740 original size:23 final size:24
Alignment explanation
Indices: 51550694--51550740 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
51550684 GCATTCTTTT
* *
51550694 TAAAAGTGAAAATTAAAAATCAAG
1 TAAAAGTGAAAATGAAAAAACAAG
*
51550718 TAAAATTGAAAA-GAAAAAACAAG
1 TAAAAGTGAAAATGAAAAAACAAG
51550741 CGAATGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.66, C:0.04, G:0.13, T:0.17
Consensus pattern (24 bp):
TAAAAGTGAAAATGAAAAAACAAG
Found at i:51552728 original size:23 final size:23
Alignment explanation
Indices: 51552702--51552749 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
51552692 GAAAAGTTAA
*
51552702 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAAGATG
51552725 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAAGATG
51552748 AA
1 AA
51552750 AAATTATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.31, T:0.19
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAAGATG
Found at i:51552780 original size:42 final size:42
Alignment explanation
Indices: 51552721--51552801 Score: 137
Period size: 42 Copynumber: 1.9 Consensus size: 42
51552711 GAGACTTGAA
51552721 TATGAAGAGTGAAGAGACTTGAAG-ATGAAAAATTATACACAT
1 TATGAAGAGTGAAGAGACTTG-AGTATGAAAAATTATACACAT
*
51552763 TATGAAGAGTGAAGAGACTTGAGTATGAAAAGTTATACA
1 TATGAAGAGTGAAGAGACTTGAGTATGAAAAATTATACA
51552802 TATGCATGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.25
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAGTATGAAAAATTATACACAT
Found at i:51552791 original size:23 final size:23
Alignment explanation
Indices: 51552702--51552791 Score: 73
Period size: 23 Copynumber: 4.1 Consensus size: 23
51552692 GAAAAGTTAA
*
51552702 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAGTATG
51552725 AAGAGTGAAGAGACTTGAAG-ATG
1 AAGAGTGAAGAGACTTG-AGTATG
* * * * * *
51552748 AAAAAT-TATACAC---ATTATG
1 AAGAGTGAAGAGACTTGAGTATG
51552767 AAGAGTGAAGAGACTTGAGTATG
1 AAGAGTGAAGAGACTTGAGTATG
51552790 AA
1 AA
51552792 AAGTTATACA
Statistics
Matches: 48, Mismatches: 13, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
18 1 0.02
19 7 0.15
20 4 0.08
22 4 0.08
23 31 0.65
24 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.27, T:0.22
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAGTATG
Done.