Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 290 of 410
Found at i:89309996 original size:17 final size:19
Alignment explanation
Indices: 89309974--89310010 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
89309964 CACATTGAAG
89309974 TGTTTT-ATCGAAAA-CCT
1 TGTTTTCATCGAAAATCCT
*
89309991 TGTTTTCATTGAAAATCCT
1 TGTTTTCATCGAAAATCCT
89310010 T
1 T
89310011 CTTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (19 bp):
TGTTTTCATCGAAAATCCT
Found at i:89312873 original size:48 final size:48
Alignment explanation
Indices: 89312817--89312952 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 48
89312807 TCGATATGTG
89312817 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCAATCTACA
1 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCAATCTACA
* * * * * * * ***
89312865 ATCTCATGTAAGACCAAGTCTAGGACATGGCAATGGCATCAGTTTGTG
1 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCAATCTACA
* *
89312913 ATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATC
89312953 CTACCATGTG
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCAATCTACA
Found at i:89315495 original size:28 final size:29
Alignment explanation
Indices: 89315461--89315533 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
89315451 GTATAATAAG
89315461 CCCGCACACTTAGTGCT-TA-ATAGTCGAA
1 CCCGCACACTTAGTGCTATACA-AGTCGAA
* * *
89315489 CTCGCACACTTAGTGCTATACAATTTGAA
1 CCCGCACACTTAGTGCTATACAAGTCGAA
89315518 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
89315534 CAATTCATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 16 0.41
29 22 0.56
30 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
CCCGCACACTTAGTGCTATACAAGTCGAA
Found at i:89323187 original size:28 final size:29
Alignment explanation
Indices: 89323153--89323225 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
89323143 GTATAATAAG
89323153 CCCGCACACTTAGTGCT-TA-ATAGTCGAA
1 CCCGCACACTTAGTGCTATACA-AGTCGAA
* * *
89323181 CTCGCACACTTAGTGCTATACAATTTGAA
1 CCCGCACACTTAGTGCTATACAAGTCGAA
89323210 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
89323226 CAATTCATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 16 0.41
29 22 0.56
30 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
CCCGCACACTTAGTGCTATACAAGTCGAA
Found at i:89336489 original size:12 final size:13
Alignment explanation
Indices: 89336472--89336506 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
89336462 CCATTTTTCC
89336472 TATTTTATTTT-T
1 TATTTTATTTTAT
89336484 TATTTTATTTTAT
1 TATTTTATTTTAT
*
89336497 TTTTTTATTT
1 TATTTTATTT
89336507 CACCTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TATTTTATTTTAT
Found at i:89336494 original size:17 final size:18
Alignment explanation
Indices: 89336472--89336506 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
89336462 CCATTTTTCC
89336472 TATTTTA-TTTTTTATTT
1 TATTTTATTTTTTTATTT
89336489 TATTTTATTTTTTTATTT
1 TATTTTATTTTTTTATTT
89336507 CACCTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TATTTTATTTTTTTATTT
Found at i:89338103 original size:6 final size:6
Alignment explanation
Indices: 89338092--89338128 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
89338082 ATTGAGTCCA
*
89338092 TTTATT TTTA-T TTTA-T TTTATT TTTATA TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
89338129 GTTTATTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:89338113 original size:16 final size:16
Alignment explanation
Indices: 89338092--89338141 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
89338082 ATTGAGTCCA
89338092 TTTATTTTTATTTTAT
1 TTTATTTTTATTTTAT
89338108 TTTATTTTTATATTTAT
1 TTTATTTTTAT-TTTAT
*
89338125 TTT-TGTTTATTGTTAT
1 TTTATTTTTATT-TTAT
89338141 T
1 T
89338142 GTCTTAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 22 0.71
17 8 0.26
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTTAT
Found at i:89338117 original size:22 final size:22
Alignment explanation
Indices: 89338092--89338141 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
89338082 ATTGAGTCCA
89338092 TTTATTTTTATTTTAT-TTTATT
1 TTTATTTTTATTTT-TGTTTATT
*
89338114 TTTATATTTATTTTTGTTTATT
1 TTTATTTTTATTTTTGTTTATT
*
89338136 GTTATT
1 TTTATT
89338142 GTCTTAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTATTTTTATTTTTGTTTATT
Found at i:89340056 original size:30 final size:30
Alignment explanation
Indices: 89340001--89340058 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
89339991 GCACACGCCT
*
89340001 GTGTGAGCCACACTGGTTGGGCACATGCTC
1 GTGTGAGCCACACTGGTTGGCCACATGCTC
89340031 GTGTGAGCCACAC-GGTCTGGCCACATGC
1 GTGTGAGCCACACTGGT-TGGCCACATGC
89340059 CCATGTACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (30 bp):
GTGTGAGCCACACTGGTTGGCCACATGCTC
Found at i:89340530 original size:16 final size:16
Alignment explanation
Indices: 89340509--89340542 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
89340499 AGCAAACGTC
89340509 CTATTTAAGAGTAGAT
1 CTATTTAAGAGTAGAT
89340525 CTATTTAAGAGTAGAT
1 CTATTTAAGAGTAGAT
89340541 CT
1 CT
89340543 GGCATAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (16 bp):
CTATTTAAGAGTAGAT
Found at i:89343809 original size:27 final size:27
Alignment explanation
Indices: 89343614--89343809 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
89343604 CAATTTACAA
* *
89343614 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
89343641 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
89343668 AATTGCTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
89343695 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
89343722 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
89343749 AAATACCGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
89343776 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
89343803 AATTACC
1 AATTACC
89343810 ATTTTGCCCC
Statistics
Matches: 151, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:89344047 original size:25 final size:25
Alignment explanation
Indices: 89344013--89344082 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
89344003 AGGAAGTGCA
*
89344013 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
89344038 AAAGGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
89344063 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
89344083 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:89352772 original size:27 final size:27
Alignment explanation
Indices: 89352728--89352829 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 27
89352718 TATTGAAATG
* *
89352728 CCCTCGACTTGTAAAATTACCAAAGTA
1 CCCTCGATTTATAAAATTACCAAAGTA
* * ***
89352755 CCCTCGATTTATAGAATTATCATTTTA
1 CCCTCGATTTATAAAATTACCAAAGTA
* ***
89352782 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCAAAGTA
*
89352809 CCCTC-AGTTTACAAAATTACC
1 CCCTCGA-TTTATAAAATTACC
89352830 GTTTTACCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.02
27 63 0.98
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.34
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCAAAGTA
Found at i:89352786 original size:54 final size:53
Alignment explanation
Indices: 89352728--89352854 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 53
89352718 TATTGAAATG
* * *
89352728 CCCTCGACTTGTAAAATTACCAAAGTACCCTC-GATTTATAGAATTATCATTTTA
1 CCCTCGA-TTGTAAAATTACCAAAGTACCCTCAG-TTTACAAAATTACCATTTTA
*** *
89352782 CCCTCGATT-TACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
1 CCCTCGATTGT--AAAATTACCAAAGTACCCTCAGTTTACAAAATTACCATTTTA
*
89352836 CCCTCGATTGTGAAATTAC
1 CCCTCGATTGTAAAATTAC
89352855 TGAAATACCC
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
52 1 0.02
53 9 0.15
54 49 0.80
55 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (53 bp):
CCCTCGATTGTAAAATTACCAAAGTACCCTCAGTTTACAAAATTACCATTTTA
Found at i:89352834 original size:27 final size:27
Alignment explanation
Indices: 89352753--89352844 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
89352743 ATTACCAAAG
* * *
89352753 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
89352780 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
89352807 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCATTT
89352834 TACCCTCGATT
1 TACCCTCGATT
89352845 GTGAAATTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:89352908 original size:27 final size:27
Alignment explanation
Indices: 89352876--89352998 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 27
89352866 TGTAGGATAG
*
89352876 AATTACCAAAATACCTCTAGTTTATAA
1 AATTACCAAAATACCTCTAATTTATAA
* * ** * *
89352903 AGTTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCTCTAATTTATAA
* *
89352930 AATTACCGAAATATCCTC-AATTTGTAA
1 AATTACCAAAATA-CCTCTAATTTATAA
* *
89352957 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCTCTAATTTATAA
89352984 AATTA-CAGAAATACC
1 AATTACCA-AAATACC
89352999 CTTGACTTTC
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.06
27 70 0.90
28 3 0.04
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCTCTAATTTATAA
Found at i:89352987 original size:54 final size:54
Alignment explanation
Indices: 89352876--89352998 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
89352866 TGTAGGATAG
* * * ** ***
89352876 AATTACCAAAATACCTCTAGTTTATAAAGTTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCTCTAATTTATAAAATTACCAAAATACCACTAATTTACAA
* *
89352930 AATTACCGAAATATCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATA-CCTCTAATTTATAAAATTACCAAAATACCACTAATTTACAA
*
89352984 AATTACAGAAATACC
1 AATTACCGAAATACC
89352999 CTTGACTTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
53 2 0.04
54 51 0.89
55 4 0.07
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (54 bp):
AATTACCGAAATACCTCTAATTTATAAAATTACCAAAATACCACTAATTTACAA
Found at i:89353050 original size:27 final size:27
Alignment explanation
Indices: 89352977--89353062 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
89352967 ATACCCCTAA
* *
89352977 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
89353005 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
*
89353033 TTTACAAAATTACTGAAATGCCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
89353060 TTT
1 TTT
89353063 GTAGATTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 22 0.46
28 7 0.15
29 19 0.40
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:89353189 original size:26 final size:27
Alignment explanation
Indices: 89353107--89353193 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 27
89353097 GAGTAAAATA
*
89353107 CCTGTAATAGGTAAAAAGACCGTAA-AGC
1 CCTGT-AT-GGTAAAATGACCGTAATAGC
* *
89353135 CCTGTAGGGTAAAGTGACCGTAATA-C
1 CCTGTATGGTAAAATGACCGTAATAGC
89353161 CCTGTATGGTAAAATGA-CG-AATATGC
1 CCTGTATGGTAAAATGACCGTAATA-GC
89353187 CCT-TATG
1 CCTGTATG
89353194 TTCCGTATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.08
25 6 0.12
26 34 0.67
27 2 0.04
28 5 0.10
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (27 bp):
CCTGTATGGTAAAATGACCGTAATAGC
Found at i:89354064 original size:24 final size:25
Alignment explanation
Indices: 89353988--89354057 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
89353978 ACGAAGTGCT
* * * *
89353988 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
89354013 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
89354038 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
89354058 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:89354070 original size:24 final size:24
Alignment explanation
Indices: 89354013--89354084 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
89354003 TAGTTTACCG
89354013 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
89354037 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
89354061 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
89354085 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:89354326 original size:31 final size:31
Alignment explanation
Indices: 89354277--89354359 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
89354267 CGCTTACAGT
*
89354277 AAAGGCTTCGG-CCAGTGATATGGTTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
*
89354307 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
89354338 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
89354360 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 16 0.32
31 34 0.68
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:89356715 original size:27 final size:27
Alignment explanation
Indices: 89356685--89356776 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
89356675 ATTACCAAAG
* *
89356685 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
89356712 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
89356739 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
89356766 TACCCTCGATT
1 TACCCTCGATT
89356777 GTGAAATTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:89356718 original size:54 final size:53
Alignment explanation
Indices: 89356668--89356786 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 53
89356658 TGCCCTCAAC
* *
89356668 TTGTAAAATTACCAAAGTACCCTC-GATTTATAAAATTATCGTTTTACCCTCGA
1 TTGTAAAATTACCAAAGTACCCTCAG-TTTACAAAATTACCGTTTTACCCTCGA
***
89356721 TT-TACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGA
1 TTGT--AAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGA
*
89356775 TTGTGAAATTAC
1 TTGTAAAATTAC
89356787 TGAAATACCC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
52 1 0.02
53 9 0.16
54 44 0.79
55 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (53 bp):
TTGTAAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGA
Found at i:89358252 original size:18 final size:18
Alignment explanation
Indices: 89358229--89358264 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
89358219 TCTCAAAATG
89358229 AACTTACACATATTCTCA
1 AACTTACACATATTCTCA
89358247 AACTTACACATATTCTCA
1 AACTTACACATATTCTCA
89358265 TCTTTGACAT
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:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
AACTTACACATATTCTCA
Found at i:89358447 original size:41 final size:41
Alignment explanation
Indices: 89358402--89358499 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
89358392 ATAGACGGGC
*
89358402 CTGCTCACACAAGCTGTTGGTCAAGACGTAGCTACACGGTG
1 CTGCTCACACAAGCTATTGGTCAAGACGTAGCTACACGGTG
89358443 CTGCTCACACAAGCTATTGGTCAAGACGTAGCTACACGGTG
1 CTGCTCACACAAGCTATTGGTCAAGACGTAGCTACACGGTG
89358484 CTGCTCACACAAGCTA
1 CTGCTCACACAAGCTA
89358500 CCAAGTATCC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (41 bp):
CTGCTCACACAAGCTATTGGTCAAGACGTAGCTACACGGTG
Found at i:89365506 original size:41 final size:41
Alignment explanation
Indices: 89365424--89365507 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
89365414 AGAAGAATAT
* * * **
89365424 CCCTGAATTGCACATACATGCCACTGTTTGTACTTTGGTAC
1 CCCTAAATTGCACATAAATCCCACTGTTTGTACTTCAGTAC
89365465 CCCTAAATTGCACATAAATTCCCA-TGTTTGTACTTCAGTAC
1 CCCTAAATTGCACATAAA-TCCCACTGTTTGTACTTCAGTAC
89365506 CC
1 CC
89365508 TGAATGCACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 33 0.89
42 4 0.11
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (41 bp):
CCCTAAATTGCACATAAATCCCACTGTTTGTACTTCAGTAC
Found at i:89369420 original size:11 final size:11
Alignment explanation
Indices: 89369404--89369434 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
89369394 TCTCGAGTTA
89369404 TTTCTAAGGTG
1 TTTCTAAGGTG
89369415 TTTCTAAGGTG
1 TTTCTAAGGTG
89369426 TTTCTAAGG
1 TTTCTAAGG
89369435 CCTCGAGGGT
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:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (11 bp):
TTTCTAAGGTG
Found at i:89376239 original size:2 final size:2
Alignment explanation
Indices: 89376234--89376267 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
89376224 ACACACACAC
89376234 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
89376268 GTTCTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89378552 original size:48 final size:49
Alignment explanation
Indices: 89378478--89378705 Score: 210
Period size: 48 Copynumber: 4.8 Consensus size: 49
89378468 AGGTGTTACA
* * *
89378478 GATCCCATGTAAGACCATG-TCTGGGACATTGCTTTGGCATCGTTATGT
1 GATCCCATGTAAGACCATGTTCTGGGACATGGCATTGGCATCATTATGT
* **
89378526 GATCCCATGTAAGACCATGTTC-GGGACATGGCATTGGCATCATAATAA
1 GATCCCATGTAAGACCATGTTCTGGGACATGGCATTGGCATCATTATGT
* *
89378574 GA-CATCATGTAAGACCATAG--CTGGG-CTATCGGC-TTTG-AT-A-TATGT
1 GATC-CCATGTAAGACCAT-GTTCTGGGAC-AT-GGCATTGGCATCATTATGT
* *
89378619 GACCCCATGTAAGACCAT-TTCTGGGACGTGGCATTGGCATCATTATGT
1 GATCCCATGTAAGACCATGTTCTGGGACATGGCATTGGCATCATTATGT
* ** *
89378667 GGTCCCATGTAAGACCA-AATCTGGGATATGGCATTGGCA
1 GATCCCATGTAAGACCATGTTCTGGGACATGGCATTGGCA
89378706 CCCTACCTTG
Statistics
Matches: 146, Mismatches: 19, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
44 3 0.02
45 26 0.18
46 5 0.03
47 6 0.04
48 100 0.68
49 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (49 bp):
GATCCCATGTAAGACCATGTTCTGGGACATGGCATTGGCATCATTATGT
Found at i:89380790 original size:40 final size:40
Alignment explanation
Indices: 89380724--89380874 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
89380714 AAATTGAATG
* *
89380724 ATAT-CGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAAATT
* * ****
89380763 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
89380803 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
89380843 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
89380875 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
39 7 0.08
40 79 0.89
41 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:89380888 original size:40 final size:40
Alignment explanation
Indices: 89380761--89380890 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
89380751 ATGCTGGAAA
* * * *
89380761 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89380801 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
89380841 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89380881 TTATATCCGG
1 TTATATCCGG
89380891 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89382804 original size:37 final size:37
Alignment explanation
Indices: 89382754--89382865 Score: 154
Period size: 37 Copynumber: 3.0 Consensus size: 37
89382744 ACCTTTAGCT
* * *
89382754 CAGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
89382791 CAGACAAAATCTCCACACGTGGTCATCGGGTCTTA-C
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
89382827 CGGAACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAG-ACAAAATCTCCACACGTAGTCATCGGGTCTTACC
89382865 C
1 C
89382866 GGAATATATT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
36 3 0.05
37 61 0.92
38 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:89383140 original size:48 final size:48
Alignment explanation
Indices: 89383014--89383198 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
89383004 GCACATCGCC
*
89383014 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
89383064 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
89383112 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
89383160 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
89383199 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 2 0.02
50 41 0.33
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:89383203 original size:98 final size:97
Alignment explanation
Indices: 89383014--89383197 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
89383004 GCACATCGCC
*
89383014 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
89383079 GACCATTCAGCTTTACCACATATGCATATCTCA
65 GACCATTCAGCTTTACCACATATGCATATCTCA
*
89383112 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
* *
89383175 AGCCATTCGGCTTTACCCCATAT
66 A-CCATTCAGCTTTACCACATAT
89383198 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.42
98 46 0.57
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:89383247 original size:47 final size:47
Alignment explanation
Indices: 89383168--89383361 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
89383158 CATACATATT
* * * * *
89383168 TCACATTAGCCATTCGGCTTTACCCCATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
89383215 CCACATTGGTCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
89383262 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
89383309 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
89383356 TCACAT
1 TCACAT
89383362 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:89383278 original size:94 final size:94
Alignment explanation
Indices: 89383121--89383361 Score: 272
Period size: 94 Copynumber: 2.6 Consensus size: 94
89383111 ATACATATTT
* * * *
89383121 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* * *
89383183 GGCTTTACCCCATATATGCATGTTCATATTCAC
62 GGCCTTACCACATATATGCATGTTCACATTCAC
* * ** *
89383216 CACATTGGTCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
* *
89383281 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * *
89383310 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
89383362 AAAATCCTAA
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 91 0.73
95 18 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCAC
Found at i:89383288 original size:22 final size:22
Alignment explanation
Indices: 89383261--89383332 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
89383251 GCTCACATTC
89383261 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
89383283 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
89383307 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
89383330 ATC
1 ATC
89383333 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:89398794 original size:27 final size:27
Alignment explanation
Indices: 89398733--89398832 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
89398723 TAGTTTATTG
* ** **
89398733 CCACAAAGGCTATTCTTTCATAAATCG
1 CCACAAAGGCTATTCTTTCAGAGTTTA
*
89398760 CTACAAAGGCTATTCTTTCAGAGTTTA
1 CCACAAAGGCTATTCTTTCAGAGTTTA
* * *
89398787 CCATAAAGTCTATTCTTTCAGAGTTTG
1 CCACAAAGGCTATTCTTTCAGAGTTTA
89398814 CCACAAAGGCTATTCTTTC
1 CCACAAAGGCTATTCTTTC
89398833 CTGACGTGTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (27 bp):
CCACAAAGGCTATTCTTTCAGAGTTTA
Found at i:89400598 original size:29 final size:28
Alignment explanation
Indices: 89400566--89400667 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
89400556 GGGACGAGAT
* *
89400566 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
89400595 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* *
89400624 TGGCACTATGTGTGCG-GCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
89400652 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89400668 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
27 3 0.05
28 20 0.32
29 38 0.61
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:89405912 original size:34 final size:34
Alignment explanation
Indices: 89405846--89405912 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
89405836 TTTGATTTTG
** * *
89405846 AGATGATATTATAATGTGTTATGTGATATGGAAT
1 AGATGATAAGATAATGAGTTATGTAATATGGAAT
89405880 AGATGATAAGATAATGAGTTAATGTAAT-TGGAA
1 AGATGATAAGATAATGAGTT-ATGTAATATGGAA
89405913 CTTATGAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 22 0.79
35 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (34 bp):
AGATGATAAGATAATGAGTTATGTAATATGGAAT
Found at i:89408645 original size:26 final size:26
Alignment explanation
Indices: 89408616--89408683 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 26
89408606 CCCATTATAT
89408616 GGCTCTTCGTGAGCTT-TTCGATTAAA
1 GGCTCTTCGTGAGCTTCTT-GATTAAA
** * *
89408642 GGCTCTTTATGAGCTTCTTGATTTAT
1 GGCTCTTCGTGAGCTTCTTGATTAAA
*
89408668 GGCTCTCCG-GAGCTTC
1 GGCTCTTCGTGAGCTTC
89408684 CCAATATGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 7 0.21
26 25 0.74
27 2 0.06
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.40
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCTTGATTAAA
Found at i:89408789 original size:73 final size:73
Alignment explanation
Indices: 89408652--89408792 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
89408642 GGCTCTTTAT
* * * * *
89408652 GAGCTTCTTGATTTATGGCTCTCCGGAGCTTCCCAATATGGGTCGCCTGAACTTCCCGATATATG
1 GAGCTTCTTGATTAATGGCTCTCCAGAGCTACCCAATATGGCTCGCATGAACTTCCCGATATATG
89408717 GCTATCTG
66 GCTATCTG
* * * * *
89408725 GAGCTTCTTGATTAATGGCTTTTCAGAGCTACCCATTATTGGCTCGCATGAGCTTCCTGA-ATAT
1 GAGCTTCTTGATTAATGGCTCTCCAGAGCTACCCAATA-TGGCTCGCATGAACTTCCCGATATAT
89408789 GGCT
65 GGCT
89408793 CTTATTAGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 40 0.70
74 17 0.30
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (73 bp):
GAGCTTCTTGATTAATGGCTCTCCAGAGCTACCCAATATGGCTCGCATGAACTTCCCGATATATG
GCTATCTG
Found at i:89408803 original size:73 final size:73
Alignment explanation
Indices: 89408642--89408804 Score: 168
Period size: 73 Copynumber: 2.2 Consensus size: 73
89408632 TTCGATTAAA
* * * * *
89408642 GGCTCTTTATGAGCTTCTTGATTTATGGCTCTCCGGAGCTTCCCAATATGGGTCGCCTGAACTTC
1 GGCTC-TTATGAGCTTCTTGATTAATGGCTCTCCAGAGCTACCCAATATGGCTCGCATGAACTTC
89408707 CCGATATAT
65 CCGATATAT
* * * * * *
89408716 GGCTATCT-GGAGCTTCTTGATTAATGGCTTTTCAGAGCTACCCATTATTGGCTCGCATGAGCTT
1 GGCTCT-TATGAGCTTCTTGATTAATGGCTCTCCAGAGCTACCCAATA-TGGCTCGCATGAACTT
*
89408780 CCTGA-ATAT
64 CCCGATATAT
*
89408789 GGCTCTTATTAGCTTC
1 GGCTCTTATGAGCTTC
89408805 CCGTTATACA
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
72 1 0.01
73 48 0.68
74 22 0.31
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.36
Consensus pattern (73 bp):
GGCTCTTATGAGCTTCTTGATTAATGGCTCTCCAGAGCTACCCAATATGGCTCGCATGAACTTCC
CGATATAT
Found at i:89430603 original size:20 final size:21
Alignment explanation
Indices: 89430554--89430603 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
89430544 TCGCTACTTT
*
89430554 TAAAAAATATTTATATATGTA
1 TAAAAAATATTTACATATGTA
89430575 TATAAAAATATTTACA-AT-TA
1 TA-AAAAATATTTACATATGTA
89430595 TCAAAAAAT
1 T-AAAAAAT
89430604 TATATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.35
21 5 0.19
22 12 0.46
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAAAATATTTACATATGTA
Found at i:89436264 original size:32 final size:32
Alignment explanation
Indices: 89436223--89436293 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
89436213 GCAAGTAACT
*
89436223 AAATTATAATACATTCACGATGTGAGTGAAAA
1 AAATTATAATACATTCACGAAGTGAGTGAAAA
89436255 AAATTATAATACATTCACGAAGTGAGTGAAAA
1 AAATTATAATACATTCACGAAGTGAGTGAAAA
89436287 AAATTAT
1 AAATTAT
89436294 GTGTAAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.28
Consensus pattern (32 bp):
AAATTATAATACATTCACGAAGTGAGTGAAAA
Found at i:89453189 original size:5 final size:5
Alignment explanation
Indices: 89453179--89453213 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
89453169 CAGGATGTGA
89453179 AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
89453214 GAACATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:89453198 original size:11 final size:11
Alignment explanation
Indices: 89453178--89453213 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
89453168 ACAGGATGTG
89453178 AAAAATAAAAT
1 AAAAATAAAAT
89453189 -AAAATAAAAAT
1 AAAAAT-AAAAT
89453200 AAAAATAAAAT
1 AAAAATAAAAT
89453211 AAA
1 AAA
89453214 GAACATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:89457591 original size:34 final size:34
Alignment explanation
Indices: 89457548--89457622 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
89457538 AAGACGCTGC
89457548 TTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
1 TTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
89457582 TTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
1 TTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
*
89457616 TACATAT
1 TTCATAT
89457623 TTGTTCTAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (34 bp):
TTCATATGCAACTTGCTTGTTAGAGTTTTCGACA
Found at i:89457956 original size:11 final size:11
Alignment explanation
Indices: 89457940--89457969 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
89457930 CCCATTTGTG
89457940 AAAAATAAAAT
1 AAAAATAAAAT
89457951 AAAAATAAAAT
1 AAAAATAAAAT
89457962 -AAAATAAA
1 AAAAATAAA
89457970 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:89458906 original size:14 final size:15
Alignment explanation
Indices: 89458881--89458910 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
89458871 TGACTCGCCC
89458881 TTATTAATTTTTATA
1 TTATTAATTTTTATA
89458896 TTATT-ATTTTTATA
1 TTATTAATTTTTATA
89458910 T
1 T
89458911 AAAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTAATTTTTATA
Found at i:89466613 original size:22 final size:22
Alignment explanation
Indices: 89466572--89466623 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
89466562 ATAGAATTAT
89466572 TAAATATTTAATTAAAAATAATA
1 TAAATATTT-ATTAAAAATAATA
89466595 TAAATATTT-TTAAAAAATAATA
1 TAAATATTTATT-AAAAATAATA
*
89466617 AAAATAT
1 TAAATAT
89466624 AAACAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTTATTAAAAATAATA
Found at i:89468498 original size:40 final size:40
Alignment explanation
Indices: 89468443--89468545 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
89468433 TTAGCGGAGT
* *
89468443 CTTTTGAAAAAACGCCGCT-CTAGATCGAGT-ATTAGTGGCG
1 CTTTTCAAAAAACGCCGCTAAT-GATCGA-TCATTAGTGGCG
* * * *
89468483 CTTTTTAAAAAACGCCGCTAATGTTCTATCTTTAGTGGCG
1 CTTTTCAAAAAACGCCGCTAATGATCGATCATTAGTGGCG
89468523 CTTTTCAAAAAACGCCGCTAATG
1 CTTTTCAAAAAACGCCGCTAATG
89468546 CTCTTATCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.02
40 53 0.96
41 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (40 bp):
CTTTTCAAAAAACGCCGCTAATGATCGATCATTAGTGGCG
Found at i:89468534 original size:41 final size:41
Alignment explanation
Indices: 89468474--89468580 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 41
89468464 AGATCGAGTA
* *
89468474 TTAGTGGCGCTTTTTAAAAAACGCCGCTAATGTTC-TATCT
1 TTAGTGGCGCTTTTCAAAAAACGCCGCTAATGCTCTTATCT
89468514 TTAGTGGCGCTTTTCAAAAAACGCCGCTAATGCTCTTATCT
1 TTAGTGGCGCTTTTCAAAAAACGCCGCTAATGCTCTTATCT
* **
89468555 TTAGCGGCTTTTTTTCAAAAAACGCC
1 TTAGTGGC-GCTTTTCAAAAAACGCC
89468581 ACAAAAAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 33 0.55
41 12 0.20
42 15 0.25
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (41 bp):
TTAGTGGCGCTTTTCAAAAAACGCCGCTAATGCTCTTATCT
Found at i:89469094 original size:14 final size:14
Alignment explanation
Indices: 89469075--89469101 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89469065 TTAATCATCA
89469075 TTATAGTTTAGGGG
1 TTATAGTTTAGGGG
89469089 TTATAGTTTAGGG
1 TTATAGTTTAGGG
89469102 TATATGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TTATAGTTTAGGGG
Found at i:89469164 original size:15 final size:14
Alignment explanation
Indices: 89469143--89469180 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
89469133 CCTATTTTAA
89469143 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
89469157 GAGTTTATGAATTAT
1 G-GTTTATGGATTAT
89469172 GGTTTATGG
1 GGTTTATGG
89469181 TTTAGGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:89469181 original size:7 final size:7
Alignment explanation
Indices: 89469138--89469208 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
89469128 GAGTTCCTAT
*
89469138 TTTAAGG
1 TTTATGG
89469145 TTTATGG
1 TTTATGG
*
89469152 ATTATGAG
1 TTTATG-G
*
89469160 TTTATGA
1 TTTATGG
*
89469167 ATTATGG
1 TTTATGG
89469174 TTTATGG
1 TTTATGG
*
89469181 TTTAGGG
1 TTTATGG
* **
89469188 GTTGGGG
1 TTTATGG
*
89469195 TTTAAGG
1 TTTATGG
89469202 TTTATGG
1 TTTATGG
89469209 GTTAAGGGTT
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
7 43 0.88
8 6 0.12
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:89469196 original size:21 final size:21
Alignment explanation
Indices: 89469172--89469211 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
89469162 TATGAATTAT
*
89469172 GGTTTATGGTTTAGGGGTTGG
1 GGTTTAAGGTTTAGGGGTTGG
*
89469193 GGTTTAAGGTTTATGGGTT
1 GGTTTAAGGTTTAGGGGTT
89469212 AAGGGTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.45
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGGGTTGG
Found at i:89469373 original size:14 final size:14
Alignment explanation
Indices: 89469354--89469400 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
89469344 TATCATTATA
*
89469354 GTTTAGGGTTTACG
1 GTTTAGGGTTTAAG
* *
89469368 GTTTAGGGTATATG
1 GTTTAGGGTTTAAG
*
89469382 GTTAAGGGTTTAAG
1 GTTTAGGGTTTAAG
89469396 GTTTA
1 GTTTA
89469401 TGAGTTACGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.43
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:89469391 original size:21 final size:22
Alignment explanation
Indices: 89469367--89469407 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
89469357 TAGGGTTTAC
*
89469367 GGTTTAGGGTATATG-GTTAAG
1 GGTTTAAGGTATATGAGTTAAG
*
89469388 GGTTTAAGGTTTATGAGTTA
1 GGTTTAAGGTATATGAGTTA
89469408 CGATTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (22 bp):
GGTTTAAGGTATATGAGTTAAG
Found at i:89471171 original size:2 final size:2
Alignment explanation
Indices: 89471164--89471189 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89471154 CAATGCCTGC
89471164 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
89471190 TTGTACAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89472566 original size:26 final size:26
Alignment explanation
Indices: 89472537--89472644 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
89472527 TGGTACAAAT
*
89472537 TGATAATGTGTTAGGTAAATGTTCTA
1 TGATAATGTGTTAGGTAAATGTTCCA
* *
89472563 TGATAATG-GATTAGGTAAATATTCTA
1 TGATAATGTG-TTAGGTAAATGTTCCA
89472589 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGTGTTAGGTAAATGTTCCA
89472615 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGTGTTAGGTAAATGTTCCA
89472641 TGAT
1 TGAT
89472645 GGACATTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 1 0.01
26 75 0.97
27 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (26 bp):
TGATAATGTGTTAGGTAAATGTTCCA
Found at i:89479627 original size:26 final size:26
Alignment explanation
Indices: 89479598--89479702 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
89479588 TGGTACAAAT
89479598 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89479624 TGATAATGGATTA-GTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
89479648 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89479673 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89479699 TGAT
1 TGAT
89479703 GGACATTTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 4 0.06
24 17 0.24
25 17 0.24
26 33 0.46
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89479663 original size:49 final size:52
Alignment explanation
Indices: 89479598--89479702 Score: 171
Period size: 49 Copynumber: 2.1 Consensus size: 52
89479588 TGGTACAAAT
89479598 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTA-GTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
89479648 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
89479699 TGAT
1 TGAT
89479703 GGACATTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
49 30 0.59
50 15 0.29
51 6 0.12
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:89484261 original size:16 final size:16
Alignment explanation
Indices: 89484240--89484273 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
89484230 AAAGTGTGCA
89484240 TTCTATCTT-TATTTTG
1 TTCTAT-TTGTATTTTG
89484256 TTCTATTTGTATTTTG
1 TTCTATTTGTATTTTG
89484272 TT
1 TT
89484274 AGATTTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (16 bp):
TTCTATTTGTATTTTG
Found at i:89484481 original size:43 final size:43
Alignment explanation
Indices: 89484420--89484506 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
89484410 TTAAAATTTT
* * * * * *
89484420 ATGACCTTTAGTGGCGTTTTTGGGAGAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGAGGCGTTTGTGAGAAAAACGCCGCTAAAAGTC
*
89484463 ATGACTTTTAGAGGCGTTTGTGAGAAAAACGCCGCTAAAAGTC
1 ATGACCTTTAGAGGCGTTTGTGAGAAAAACGCCGCTAAAAGTC
89484506 A
1 A
89484507 ATTTTGCTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (43 bp):
ATGACCTTTAGAGGCGTTTGTGAGAAAAACGCCGCTAAAAGTC
Found at i:89484803 original size:24 final size:25
Alignment explanation
Indices: 89484771--89484820 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
89484761 TTTACTTGTG
89484771 AAAATTTCAGCTCATACCAG-CACT
1 AAAATTTCAGCTCATACCAGACACT
*
89484795 AAAATTTCAGTTCATACCAGACACT
1 AAAATTTCAGCTCATACCAGACACT
89484820 A
1 A
89484821 GCTCATTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (25 bp):
AAAATTTCAGCTCATACCAGACACT
Found at i:89486130 original size:29 final size:29
Alignment explanation
Indices: 89486097--89486153 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
89486087 CACAGTAAGG
89486097 TGCTATTGATAAATTTGTTTTTAAAAAAA
1 TGCTATTGATAAATTTGTTTTTAAAAAAA
*
89486126 TGCTATTGATAAATTTGTTTTTCAAAAA
1 TGCTATTGATAAATTTGTTTTTAAAAAA
89486154 GTAGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (29 bp):
TGCTATTGATAAATTTGTTTTTAAAAAAA
Found at i:89488574 original size:2 final size:2
Alignment explanation
Indices: 89488569--89488596 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89488559 AGGGTAAAAA
89488569 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
89488597 TATTTTGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89489814 original size:44 final size:45
Alignment explanation
Indices: 89489724--89489852 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
89489714 GACAGAACGA
*
89489724 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
89489770 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
89489814 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
89489853 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:89497204 original size:44 final size:45
Alignment explanation
Indices: 89497114--89497242 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
89497104 GACAGAACGA
*
89497114 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
89497160 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
89497204 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
89497243 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:89506610 original size:23 final size:22
Alignment explanation
Indices: 89506580--89506624 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
89506570 AAATTAAATC
*
89506580 TCTAAGATTTCAAAATCATATCT
1 TCTAAGATTGC-AAATCATATCT
*
89506603 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCAAATCATATCT
89506625 ATGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (22 bp):
TCTAAGATTGCAAATCATATCT
Found at i:89506630 original size:19 final size:19
Alignment explanation
Indices: 89506603--89506728 Score: 192
Period size: 19 Copynumber: 6.9 Consensus size: 19
89506593 AATCATATCT
89506603 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
89506622 TCTATGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
89506640 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
89506657 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
89506676 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
89506694 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
89506711 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
89506729 TGAAGATTAT
Statistics
Matches: 98, Mismatches: 3, Indels: 12
0.87 0.03 0.11
Matches are distributed among these distances:
17 32 0.33
18 31 0.32
19 35 0.36
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:89506659 original size:35 final size:36
Alignment explanation
Indices: 89506603--89506728 Score: 184
Period size: 35 Copynumber: 3.5 Consensus size: 36
89506593 AATCATATCT
* *
89506603 TCTAAGATTGCATATCATATCTATGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCTATCATA
89506640 TCTAAGATTG-TATCATATCTAAGATTGCGTATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGC-TATCATA
*
89506676 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCTATCATA
89506711 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
89506729 TGAAGATTAT
Statistics
Matches: 82, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
35 35 0.43
36 21 0.26
37 26 0.32
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCTATCATA
Found at i:89506673 original size:54 final size:54
Alignment explanation
Indices: 89506603--89506728 Score: 234
Period size: 54 Copynumber: 2.3 Consensus size: 54
89506593 AATCATATCT
*
89506603 TCTAAGATTGCATATCATATCTATGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
89506657 TCTAAGATTGCGTATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
89506711 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
89506729 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:89506726 original size:14 final size:15
Alignment explanation
Indices: 89506635--89506726 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 15
89506625 ATGATTGCAA
89506635 TCATATCTAAGATTG
1 TCATATCTAAGATTG
89506650 TATCATATCTAAGATTGCG
1 --TCATATCTAAGATT--G
89506669 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
89506686 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
89506704 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
89506721 -CATATC
1 TCATATC
89506727 ATTGAAGATT
Statistics
Matches: 70, Mismatches: 2, Indels: 9
0.86 0.02 0.11
Matches are distributed among these distances:
14 6 0.09
17 31 0.44
18 16 0.23
19 17 0.24
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:89507497 original size:261 final size:256
Alignment explanation
Indices: 89507033--89507523 Score: 702
Period size: 261 Copynumber: 1.9 Consensus size: 256
89507023 GCAAACTCAA
*
89507033 GACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTC
1 GACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCCAACACAGAGACGCCAAATCTGCTTCTTC
* * * *
89507098 GATTTGTTTTCTAACAATTCAGATATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGA
66 AATTTGTTCTCTAACAATTCAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGA
* * * *
89507163 AAGCCAAATCTACTGTGTCTTTGATTTGCTCCTTATGAACACAAGGATGCCAAATCATCTTGGAT
131 AAACCAAATCTACTATGTCTTCGATTTGCTCCTTATGAACACAAGGATGCCAAACCATCTTGGAT
89507228 CTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAACTTA
196 CTGCTTCAG-----TCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAACTTA
89507293 T
256 T
* * * *
89507294 GACTGTCCTGTTGATATCTTCGATCTGCTCTCTG-CCAAGTACAGAGACGCCAAATCTGTTTCTT
1 GACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCCAA-CACAGAGACGCCAAATCTGCTTCTT
* * *
89507358 CAATTTGTTCTCTAACAATAT-AGAGATGCCAAATCATCTTAGATTTGCTTCAGCTTAAGCACGC
65 CAATTTGTTCTCTAACAAT-TCAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGC
* *
89507422 GAAAACCAAATC-AGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCTT
129 GAAAACCAAATCTA-CTATGTCTTCGATTTGCTCCTTATGAA-CACAAGGATGCCAAACCATCTT
*
89507485 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGT
192 GGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGT
89507524 ATCTGCTCTC
Statistics
Matches: 207, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
256 25 0.12
260 6 0.03
261 175 0.85
262 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (256 bp):
GACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCCAACACAGAGACGCCAAATCTGCTTCTTC
AATTTGTTCTCTAACAATTCAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGA
AAACCAAATCTACTATGTCTTCGATTTGCTCCTTATGAACACAAGGATGCCAAACCATCTTGGAT
CTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAACTTAT
Found at i:89507809 original size:205 final size:205
Alignment explanation
Indices: 89507355--89508058 Score: 1193
Period size: 205 Copynumber: 3.5 Consensus size: 205
89507345 AAATCTGTTT
* * * *
89507355 CTTCAATTTGTTCTCTAACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCTTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
* *
89507420 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
89507485 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAG
*
89507545 AGATGCTAGA
196 AGATGCCAGA
* * *
89507555 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
* *
89507620 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
89507685 GGATCTGCTTCAGTATAAACATCTGAAGGTTATATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAG
89507750 AGATGCCAGA
196 AGATGCCAGA
89507760 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
*
89507825 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
89507890 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCGAAATAG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAG
*
89507955 AGATGCCAAA
196 AGATGCCAGA
* *
89507965 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
89508030 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
89508059 CTGCTCTCCG
Statistics
Matches: 473, Mismatches: 26, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
200 134 0.28
202 1 0.00
205 338 0.71
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAG
AGATGCCAGA
Found at i:89508102 original size:44 final size:44
Alignment explanation
Indices: 89508036--89508143 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
89508026 ACACGTGAAA
* *
89508036 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCCGACAATACAGAGAT
* * *
89508082 GCCAAATCTGGTATCTTCGATTTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCCGACAATACAGAGAT
89508126 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
89508144 AAATTGTTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 45 0.80
46 11 0.20
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCCGACAATACAGAGAT
Found at i:89508171 original size:44 final size:43
Alignment explanation
Indices: 89508074--89508397 Score: 185
Period size: 44 Copynumber: 7.4 Consensus size: 43
89508064 CTCCGCCAAT
* * * * * * *
89508074 ACAGAGATGCCAAATCTGGTATCTTCGATTTGCTCTCTGA-CAAT
1 ACAGGGATGCCAAATCTGCTATCTTC-AATTGTTCCCT-ATAAAC
*
89508118 ACAGAGATGCCAAATCTGCTATCTTCAAATTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTC-AATTGTTCCCTATAAAC
** * * * * *
89508162 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCAAT-TG-TTCCCTATAAAC
* * * * *
89508206 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTCTAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCAAT-TGTTCCCTATAAAC
89508250 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCAA-TTGTTCCCTATAAAC
*** ** * * *
89508294 ACAGGGATGCC--ATGCTAAAATCTTTGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCAAT-TG-TTCCCTATAAAC
* * *
89508338 ACAGGAATGTC-AATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCAAT-TGTTCCCTATAAAC
* *
89508381 ATAGGGATGTCAAATCT
1 ACAGGGATGCCAAATCT
89508398 TGTTTCTTTG
Statistics
Matches: 220, Mismatches: 46, Indels: 28
0.75 0.16 0.10
Matches are distributed among these distances:
42 7 0.03
43 42 0.19
44 149 0.68
45 20 0.09
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
ACAGGGATGCCAAATCTGCTATCTTCAATTGTTCCCTATAAAC
Found at i:89508324 original size:132 final size:131
Alignment explanation
Indices: 89508118--89508397 Score: 461
Period size: 132 Copynumber: 2.1 Consensus size: 131
89508108 CTCTGACAAT
* *
89508118 ACAGAGATGCCAAATCTGCTATCTTCAAATTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAAATTGTTCCCTATAAACACAGGGATGCCATGCTAAAAT
* * *
89508183 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTCTAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCA-ATCTGCTATCTTCGATCTGTTCCCTATAA
89508248 AC
130 AC
*
89508250 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAAATTGTTCCCTATAAACACAGGGATGCCATGCTAAAAT
* *
89508315 CTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAATCTGCTATCTTCGATCTGTTCCCTATAAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAATCTGCTATCTTCGATCTGTTCCCTATAAA
89508380 C
131 C
* *
89508381 ATAGGGATGTCAAATCT
1 ACAGGGATGCCAAATCT
89508398 TGTTTCTTTG
Statistics
Matches: 138, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
131 44 0.32
132 94 0.68
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (131 bp):
ACAGGGATGCCAAATCTGCTATCTTCAAATTGTTCCCTATAAACACAGGGATGCCATGCTAAAAT
CCTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAATCTGCTATCTTCGATCTGTTCCCTATAAA
C
Found at i:89508357 original size:87 final size:87
Alignment explanation
Indices: 89508226--89508389 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 87
89508216 CAGATCTGTT
*
89508226 ATCTTCGATCTGTTCCCTCTAAACACAGGGATGCCAAATCTGCTATCTTCAA-CTTGTTCCCTAT
1 ATCTTCGATCTGTTCCCTCTAAACACAGGAATGCCAAATCTGCTATCTTCAATC-TGTTCCCTAT
89508290 AAACACAGGGATGCCATGCTAAA
65 AAACACAGGGATGCCATGCTAAA
* * * * * *
89508313 ATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTC-AATCTGCTATCTTCGATCTGTTCCCTAT
1 ATCTTCGATCTG-TTCCCTCTAAACACAGGAATGCCAAATCTGCTATCTTCAATCTGTTCCCTAT
*
89508377 AAACATAGGGATG
65 AAACACAGGGATG
89508390 TCAAATCTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
87 48 0.72
88 19 0.28
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (87 bp):
ATCTTCGATCTGTTCCCTCTAAACACAGGAATGCCAAATCTGCTATCTTCAATCTGTTCCCTATA
AACACAGGGATGCCATGCTAAA
Found at i:89509314 original size:16 final size:16
Alignment explanation
Indices: 89509295--89509354 Score: 70
Period size: 16 Copynumber: 3.7 Consensus size: 16
89509285 TCCATTTTTC
89509295 TTTTTTCTTTTTTTAT
1 TTTTTTCTTTTTTTAT
*
89509311 TTTTTTCTATTTTTAT
1 TTTTTTCTTTTTTTAT
89509327 TTTTCTT-TTTTCTCTT-T
1 TTTT-TTCTTTT-T-TTAT
89509344 TTTTTTCTTTT
1 TTTTTTCTTTT
89509355 CCTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 24 0.63
17 12 0.32
18 2 0.05
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTTTTTAT
Found at i:89509359 original size:16 final size:16
Alignment explanation
Indices: 89509295--89509365 Score: 67
Period size: 16 Copynumber: 4.4 Consensus size: 16
89509285 TCCATTTTTC
*
89509295 TTTTTTCTTTTTTTAT
1 TTTTTTCTTTTCTTAT
89509311 TTTTTTCTATTT-TTAT
1 TTTTTTCT-TTTCTTAT
*
89509327 TTTTCTT-TTTTCTCTTT
1 TTTT-TTCTTTTCT-TAT
89509344 TTTTTTCTTTTCCTT-T
1 TTTTTTCTTTT-CTTAT
89509360 TTTTTT
1 TTTTTT
89509366 TGAAATAGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
15 3 0.06
16 27 0.56
17 16 0.33
18 2 0.04
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTTCTTAT
Found at i:89514979 original size:22 final size:21
Alignment explanation
Indices: 89514944--89515056 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 21
89514934 AAAAGGTATC
* *
89514944 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
89514965 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
89514988 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
89515007 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
89515025 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
89515044 TGC-AATCATATCT
1 TACAAATCATATCT
89515057 AAGATTGTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
18 23 0.29
19 28 0.35
20 1 0.01
21 3 0.04
22 15 0.19
23 10 0.12
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:89514987 original size:23 final size:22
Alignment explanation
Indices: 89514944--89515001 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
89514934 AAAAGGTATC
* *
89514944 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
89514965 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
89514988 TGCATATCATATCT
1 TACAAATCATATCT
89515002 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:89515016 original size:18 final size:19
Alignment explanation
Indices: 89514980--89515088 Score: 190
Period size: 19 Copynumber: 5.9 Consensus size: 19
89514970 AATCATATCT
89514980 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
89514999 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
89515017 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
89515036 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
89515054 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
89515071 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
89515089 TGAAGATTAT
Statistics
Matches: 86, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.19
18 34 0.40
19 36 0.42
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:89515026 original size:37 final size:37
Alignment explanation
Indices: 89514980--89515088 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
89514970 AATCATATCT
89514980 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
89515017 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
89515054 TCTAAGATTG--TATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
89515089 TGAAGATTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 19 0.27
36 5 0.07
37 47 0.66
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
Found at i:89515108 original size:54 final size:55
Alignment explanation
Indices: 89514983--89515097 Score: 164
Period size: 54 Copynumber: 2.1 Consensus size: 55
89514973 CATATCTTCT
* *
89514983 AAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGCATATCATATCT
1 AAGATTACA-ATCATATCTAAGATTGCAATCATATCTAAGATTGCATATCATATCG
* *
89515039 AAGATTGCAATCATATCTAAGATTG-TATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACAATCATATCTAAGATTGCAATCATATCTAAGATTGCATATCATATCG
89515091 AAGATTA
1 AAGATTA
89515098 TATTTCCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
52 6 0.11
53 1 0.02
54 24 0.43
55 16 0.29
56 9 0.16
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (55 bp):
AAGATTACAATCATATCTAAGATTGCAATCATATCTAAGATTGCATATCATATCG
Found at i:89518226 original size:14 final size:14
Alignment explanation
Indices: 89518199--89518226 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89518189 GCTTTTATTG
89518199 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
89518213 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
89518227 AATTATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:89518657 original size:12 final size:13
Alignment explanation
Indices: 89518640--89518680 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
89518630 TTTCTATCTA
89518640 TCTTCTTTATT-T
1 TCTTCTTTATTAT
*
89518652 TCTTCTTTATTGT
1 TCTTCTTTATTAT
*
89518665 CCTT-TTTATTAT
1 TCTTCTTTATTAT
89518677 TCTT
1 TCTT
89518681 GTATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (13 bp):
TCTTCTTTATTAT
Found at i:89518859 original size:18 final size:17
Alignment explanation
Indices: 89518836--89518882 Score: 71
Period size: 15 Copynumber: 2.8 Consensus size: 17
89518826 AGTCAAATTC
89518836 TTGACTTGCGACTTTTTT
1 TTGACTTGCGAC-TTTTT
89518854 TTGACTTGCGAC--TTT
1 TTGACTTGCGACTTTTT
89518869 TTGACTTGCGACTT
1 TTGACTTGCGACTT
89518883 GAAAATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 15 0.56
18 12 0.44
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.49
Consensus pattern (17 bp):
TTGACTTGCGACTTTTT
Found at i:89519184 original size:17 final size:18
Alignment explanation
Indices: 89519147--89519185 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
89519137 TAAATCTAAA
89519147 TAAAACTATTAAGTATAC
1 TAAAACTATTAAGTATAC
* *
89519165 TAAAACT-TTAATTATCC
1 TAAAACTATTAAGTATAC
89519182 TAAA
1 TAAA
89519186 TAAGAAGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAACTATTAAGTATAC
Found at i:89520649 original size:25 final size:25
Alignment explanation
Indices: 89520609--89520664 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
89520599 TTTTTGTTTC
89520609 TTATAA-ATTATATTTTAAATTTTT
1 TTATAATATTATATTTTAAATTTTT
*
89520633 TTATAATATTA-ATTTTTGAATTTTT
1 TTATAATATTATA-TTTTAAATTTTT
*
89520658 ATATAAT
1 TTATAAT
89520665 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTATAATATTATATTTTAAATTTTT
Found at i:89527465 original size:29 final size:29
Alignment explanation
Indices: 89527433--89527592 Score: 207
Period size: 29 Copynumber: 5.5 Consensus size: 29
89527423 ATAGTGAATC
*
89527433 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
89527462 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAACT
89527492 CGCACACTTAGTGCTATATATTTTCAACT
1 CGCACACTTAGTGCTATATATTTTCAACT
* *
89527521 AGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
89527549 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
89527579 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89527593 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.17
29 48 0.41
30 46 0.39
31 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:89527488 original size:30 final size:30
Alignment explanation
Indices: 89527433--89527592 Score: 213
Period size: 30 Copynumber: 5.5 Consensus size: 30
89527423 ATAGTGAATC
*
89527433 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
89527462 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
89527492 CGCACACTTAGTGCTATAT-ATTTTCAACT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
89527521 AGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
89527549 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
89527579 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89527593 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 46 0.39
30 47 0.40
31 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:89527526 original size:59 final size:57
Alignment explanation
Indices: 89527433--89527592 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
89527423 ATAGTGAATC
* *
89527433 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAACTCGCACACTTAGTGCTATATAA---TCAAACT
*
89527492 CGCACACTTAGTGCTATATATTTTCAACTAGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAACTCGCACACTTAGTGCTATATAATCAAACT
* * * *
89527549 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAACTCGCACACTTAGTGC
89527593 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 48 0.53
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:89535293 original size:30 final size:30
Alignment explanation
Indices: 89535238--89535397 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
89535228 ATAGTGAATC
89535238 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
89535267 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
89535297 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
89535326 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
89535354 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
89535384 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89535398 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:89535330 original size:59 final size:57
Alignment explanation
Indices: 89535238--89535397 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
89535228 ATAGTGAATC
*
89535238 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
89535297 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
89535354 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
89535398 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:89537230 original size:13 final size:13
Alignment explanation
Indices: 89537213--89537248 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
89537203 AGCGGAAAAA
89537213 AATATATGAAATG
1 AATATATGAAATG
* *
89537226 GATATACGAAATG
1 AATATATGAAATG
89537239 AATATATGAA
1 AATATATGAA
89537249 TTAGACACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (13 bp):
AATATATGAAATG
Found at i:89541281 original size:46 final size:46
Alignment explanation
Indices: 89541214--89541486 Score: 411
Period size: 46 Copynumber: 5.9 Consensus size: 46
89541204 AGTGTGCTCT
*
89541214 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
89541260 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
89541306 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* **
89541352 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *** *
89541398 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * * *
89541444 TGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
89541487 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 210 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:89542213 original size:13 final size:12
Alignment explanation
Indices: 89542191--89542223 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
89542181 CAGGTGAAGG
89542191 AAAG-AAAGAAA
1 AAAGAAAAGAAA
89542202 AAGAGAAAAGAAA
1 AA-AGAAAAGAAA
89542215 AAAGAAAAG
1 AAAGAAAAG
89542224 GGAAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 9 0.45
13 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAA
Found at i:89542229 original size:14 final size:13
Alignment explanation
Indices: 89542195--89542223 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
89542185 TGAAGGAAAG
89542195 AAAGAAAAAGAGA
1 AAAGAAAAAGAGA
89542208 AAAGAAAAA-AGA
1 AAAGAAAAAGAGA
89542220 AAAG
1 AAAG
89542224 GGAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAGA
Found at i:89543175 original size:6 final size:6
Alignment explanation
Indices: 89543164--89543189 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
89543154 ACTCTTTACC
89543164 TTACTG TTACTG TTACTG TTACTG TT
1 TTACTG TTACTG TTACTG TTACTG TT
89543190 TCGGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (6 bp):
TTACTG
Found at i:89543183 original size:57 final size:60
Alignment explanation
Indices: 89543120--89543249 Score: 158
Period size: 57 Copynumber: 2.2 Consensus size: 60
89543110 TTGTGTCGAC
* *
89543120 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGAACTCT-T-TACC-TTACTGTTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGAACTCTGTGTACCGCTACTGTTACTAT
* ** * * *
89543177 TACTGTTACTGTTTCGGATTTTTTCCGATGAGGTACTTTGTGTACCGCTACTGTTACTAT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGAACTCTGTGTACCGCTACTGTTACTAT
*
89543237 TACTATTACTGTT
1 TACTGTTACTGTT
89543250 ATCGTTATTG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 33 0.54
58 1 0.02
59 4 0.07
60 23 0.38
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (60 bp):
TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGAACTCTGTGTACCGCTACTGTTACTAT
Found at i:89543422 original size:18 final size:18
Alignment explanation
Indices: 89543384--89543435 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
89543374 TTAAAAACTA
* **
89543384 ACTGCTACTGAATAATTG
1 ACTGATACTGAATAAACG
* *
89543402 ACTGTTATTGAATAAACG
1 ACTGATACTGAATAAACG
89543420 ACTGATACTGAATAAA
1 ACTGATACTGAATAAA
89543436 TGATTATTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (18 bp):
ACTGATACTGAATAAACG
Found at i:89543446 original size:18 final size:18
Alignment explanation
Indices: 89543410--89543465 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
89543400 TGACTGTTAT
*
89543410 TGAATAAACGACTGA-TAC
1 TGAATAAACGA-TTATTAC
*
89543428 TGAATAAATGATTATTAC
1 TGAATAAACGATTATTAC
* *
89543446 TGATTAACCGATTATTAC
1 TGAATAAACGATTATTAC
89543464 TG
1 TG
89543466 TTGACTGACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 2 0.06
18 30 0.94
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (18 bp):
TGAATAAACGATTATTAC
Found at i:89553143 original size:42 final size:42
Alignment explanation
Indices: 89553092--89553190 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
89553082 CTCATATAAA
* * * * *
89553092 TTTTCGTTCAGCTC-TATTGAGTTGCTGTTTAACCCTTATTGG
1 TTTTTGTTCAGCTCTTA-CGAGTTGCCGTTCAACCCTTATGGG
*
89553134 TTTTTGTTCAGCTCTTACGAGTTTCCGTTCAACCCTTATGGG
1 TTTTTGTTCAGCTCTTACGAGTTGCCGTTCAACCCTTATGGG
* *
89553176 TTTCTGTTTAGCTCT
1 TTTTTGTTCAGCTCT
89553191 CATGAGCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (42 bp):
TTTTTGTTCAGCTCTTACGAGTTGCCGTTCAACCCTTATGGG
Found at i:89553157 original size:21 final size:21
Alignment explanation
Indices: 89553093--89553209 Score: 71
Period size: 21 Copynumber: 5.6 Consensus size: 21
89553083 TCATATAAAT
89553093 TTTC-GTTCAGCTC-TATTGAG
1 TTTCTGTTCAGCTCTTA-TGAG
* * * *
89553113 TTGCTGTTTAACCCTTATTG-G
1 TTTCTGTTCAGCTCTTA-TGAG
* *
89553134 TTTTTGTTCAGCTCTTACGAG
1 TTTCTGTTCAGCTCTTATGAG
* * * *
89553155 TTTCCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTTATGAG
* *
89553176 TTTCTGTTTAGCTCTCATGAG
1 TTTCTGTTCAGCTCTTATGAG
89553197 CTTT-TGTTCAGCT
1 -TTTCTGTTCAGCT
89553210 TTCGAGCTTC
Statistics
Matches: 70, Mismatches: 23, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
20 4 0.06
21 58 0.83
22 8 0.11
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (21 bp):
TTTCTGTTCAGCTCTTATGAG
Found at i:89553206 original size:42 final size:42
Alignment explanation
Indices: 89553093--89553206 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 42
89553083 TCATATAAAT
* * * *
89553093 TTTC-GTTCAGCTCT-ATTGAGTTGCTGTTTAACCCTTATTGG
1 TTTCTGTTCAGCTCTCA-CGAGTTTCTGTTCAACCCTTATGGG
* * *
89553134 TTTTTGTTCAGCTCTTACGAGTTTCCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTCACGAGTTTCTGTTCAACCCTTATGGG
* *
89553176 TTTCTGTTTAGCTCTCATGAGCTTT-TGTTCA
1 TTTCTGTTCAGCTCTCACGAG-TTTCTGTTCA
89553207 GCTTTCGAGC
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
41 3 0.05
42 52 0.88
43 4 0.07
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCACGAGTTTCTGTTCAACCCTTATGGG
Found at i:89553922 original size:35 final size:35
Alignment explanation
Indices: 89553876--89553946 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
89553866 GGTTGTATTG
89553876 AAGGTTTTGTTATGGTATATGAGTGTGCTAGATGA
1 AAGGTTTTGTTATGGTATATGAGTGTGCTAGATGA
89553911 AAGGTTTTGTTATGGTATATGAGTGTGCTAGATGA
1 AAGGTTTTGTTATGGTATATGAGTGTGCTAGATGA
89553946 A
1 A
89553947 GTGTTTAGGT
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:0.27, C:0.03, G:0.31, T:0.39
Consensus pattern (35 bp):
AAGGTTTTGTTATGGTATATGAGTGTGCTAGATGA
Found at i:89561263 original size:21 final size:21
Alignment explanation
Indices: 89561239--89561281 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
89561229 CATAAACACT
89561239 ATTTAAATATTATGTCA-ATTA
1 ATTTAAATATTAT-TCAGATTA
* *
89561260 ATTTCAATCTTATTCAGATTA
1 ATTTAAATATTATTCAGATTA
89561281 A
1 A
89561282 ATAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTTAAATATTATTCAGATTA
Found at i:89563758 original size:41 final size:42
Alignment explanation
Indices: 89563713--89563797 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 42
89563703 CACGTCCATA
* *
89563713 TGCCCACTAGACATGGCCGTGTGT-CAAAACACACGCCCGTG
1 TGCCCACCAGACACGGCCGTGTGTCCAAAACACACGCCCGTG
* *
89563754 TGCCCACCAGACACGGTCGTGTGTCCAAAATACACGCCCGTG
1 TGCCCACCAGACACGGCCGTGTGTCCAAAACACACGCCCGTG
89563796 TG
1 TG
89563798 GGATCCCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 21 0.54
42 18 0.46
ACGTcount: A:0.24, C:0.34, G:0.25, T:0.18
Consensus pattern (42 bp):
TGCCCACCAGACACGGCCGTGTGTCCAAAACACACGCCCGTG
Found at i:89563795 original size:21 final size:21
Alignment explanation
Indices: 89563729--89563797 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
89563719 CTAGACATGG
89563729 CCGTGTGT-CAAAACACACGC
1 CCGTGTGTCCAAAACACACGC
* ** * *
89563749 CCGTGTGCCCACCAGACACGG
1 CCGTGTGTCCAAAACACACGC
* *
89563770 TCGTGTGTCCAAAATACACGC
1 CCGTGTGTCCAAAACACACGC
89563791 CCGTGTG
1 CCGTGTG
89563798 GGATCCCTAA
Statistics
Matches: 36, Mismatches: 12, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
20 7 0.19
21 29 0.81
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (21 bp):
CCGTGTGTCCAAAACACACGC
Found at i:89564379 original size:11 final size:12
Alignment explanation
Indices: 89564365--89564393 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
89564355 CTCTAGAAGT
89564365 AAAAAAGA-AAA
1 AAAAAAGAGAAA
89564376 AAAAAAGAGAAA
1 AAAAAAGAGAAA
89564388 AAAAAA
1 AAAAAA
89564394 CTAGAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:89564399 original size:15 final size:13
Alignment explanation
Indices: 89564365--89564393 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
89564355 CTCTAGAAGT
89564365 AAAAA-AGAAAAA
1 AAAAAGAGAAAAA
89564377 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
89564390 AAAA
1 AAAA
89564394 CTAGAGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Found at i:89578370 original size:20 final size:20
Alignment explanation
Indices: 89578345--89578398 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
89578335 CATGGACAGA
89578345 CCACACGGGCATGTTCCAGG
1 CCACACGGGCATGTTCCAGG
* *
89578365 CCACACGGGCGTGTTTCAGG
1 CCACACGGGCATGTTCCAGG
89578385 CCACACGGGCATGT
1 CCACACGGGCATGT
89578399 GTCCCTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (20 bp):
CCACACGGGCATGTTCCAGG
Found at i:89583197 original size:23 final size:23
Alignment explanation
Indices: 89583164--89583210 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
89583154 GAGAGATGAA
*
89583164 ACACGATAAACATAATTCATAAG
1 ACACGACAAACATAATTCATAAG
89583187 ACACGACAAACATAATTCATAAG
1 ACACGACAAACATAATTCATAAG
89583210 A
1 A
89583211 TATTTTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (23 bp):
ACACGACAAACATAATTCATAAG
Found at i:89591752 original size:2 final size:2
Alignment explanation
Indices: 89591745--89591769 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89591735 GGCCATTTGC
89591745 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
89591770 CATACCCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.