Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 194 of 425
Found at i:59013899 original size:25 final size:25
Alignment explanation
Indices: 59013871--59013940 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
59013861 TTACCTGATA
* *
59013871 CTGATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
59013896 CTGATACTGATTCTGATTTTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
*
59013921 CTAATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
59013941 AATTCAAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:59026294 original size:48 final size:47
Alignment explanation
Indices: 59026231--59026497 Score: 192
Period size: 46 Copynumber: 5.6 Consensus size: 47
59026221 GGGTTAAGCT
*
59026231 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CCTCATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATACGTC-TCGAG
* * * * *
59026280 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCCAT
1 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCT-ATACGTCTCGAG
* * *
59026329 GTCGATGCCATGTCCCAGACACAGTCTTACACT-GAC-AT--GTCTTGTA-
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAG-CTATACGTCTCG-AG
* * *
59026375 GCCGATGCATGTCCCAGACATGCCTTACACTAGCT-TACATCTCTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATACGTCTCGAG
* * * * *
59026421 GCCGATGCATGT-CCTGAACATGTCTTACACTGGC-ATTCGTCTCAAT
1 GCCGATGCATGTCCCAG-ACATGTCTTACACTAGCTATACGTCTCGAG
* *
59026467 GCTGATGCCATGTCCCATACATTGTCTTACA
1 GCCGATG-CATGTCCCAGACA-TGTCTTACA
59026498 ATGGCACACA
Statistics
Matches: 175, Mismatches: 27, Indels: 33
0.74 0.11 0.14
Matches are distributed among these distances:
44 11 0.06
45 18 0.10
46 52 0.30
47 9 0.05
48 41 0.23
49 18 0.10
50 26 0.15
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATACGTCTCGAG
Found at i:59026427 original size:46 final size:45
Alignment explanation
Indices: 59026231--59026497 Score: 175
Period size: 48 Copynumber: 5.6 Consensus size: 45
59026221 GGGTTAAGCT
* *
59026231 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCCTCATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTA-CATC-TCTAG
* * *
59026280 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCT-CTTGCGTATCCAT
1 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTACAT-C---TCTAG
* * * *
59026329 GTCGATGCCATGTCCCAGACACAGTCTTACACT-G--ACATGTCTTG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTACATCTCTAG
*
59026373 TAGCCGATGCATGTCCCAGACATGCCTTACACTAGCTTACATCTCTAG
1 --GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TACATCTCTAG
* * * * * *
59026421 GCCGATGCATGT-CCTGAACATGTCTTACACTGGCATTCGTCTCAAT
1 GCCGATGCATGTCCCAG-ACATGTCTTACACTAGC-TACATCTCTAG
* *
59026467 GCTGATGCCATGTCCCATACATTGTCTTACA
1 GCCGATG-CATGTCCCAGACA-TGTCTTACA
59026498 ATGGCACACA
Statistics
Matches: 176, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.06
45 17 0.10
46 48 0.27
47 9 0.05
48 50 0.28
49 18 0.10
50 23 0.13
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTACATCTCTAG
Found at i:59028665 original size:6 final size:6
Alignment explanation
Indices: 59028654--59028678 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59028644 GCAATGATGT
59028654 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
59028679 TGGTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:59035407 original size:50 final size:50
Alignment explanation
Indices: 59035332--59035726 Score: 364
Period size: 50 Copynumber: 7.8 Consensus size: 50
59035322 ATCGAAGCTC
* * * * *
59035332 TCTGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * *
59035382 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * *
59035432 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAA
* * * * * *
59035484 T-GGGTACGCATAGTAGCTTGTACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * ** *
59035533 TCCGGTACACGTAATAGCTTGCACTTAGTACTACACACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAA
* * * * *
59035584 TCGGGTACGCATAGCAGGCTGCACTTAGTACTACACATGTGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* *
59035634 TCTGGTACACGTAGTAGGCTACACTTAGTACTACACATGTGACCTAA-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
59035683 -CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACGTAGTAGCCTGCACTTAGTACTACACATGTG
59035727 TTCTCACAAC
Statistics
Matches: 279, Mismatches: 58, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 164 0.59
51 74 0.27
52 33 0.12
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:59035517 original size:101 final size:101
Alignment explanation
Indices: 59035332--59035675 Score: 370
Period size: 101 Copynumber: 3.4 Consensus size: 101
59035322 ATCGAAGCTC
* * * * * ** * * * * *
59035332 TCTGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGA-CCTATCAATCTGGTACACGTAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACGCATAG
* * * * * * *
59035396 TAGCCTACACTTAGTACTACACACGTGACTTATCCA
66 CAGGCTGCACTTAGTACTACACATGTGACCTAACAA
* **
59035432 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAAT-GGGTACGCATA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACT-ATCGGGTACGCATA
* * *
59035496 GTA-GCTTGTACTTAGTACTACACATGCGACCTAACAA
65 GCAGGC-TGCACTTAGTACTACACATGTGACCTAACAA
* * *
59035533 TCCGGTACACGTAATAGCTTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACGCATAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACGCATAG
59035598 CAGGCTGCACTTAGTACTACACATGTGACCTAACAA
66 CAGGCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
59035634 TCTGGTACACGTAGTAGGCTACACTTAGTACTACACATGTGA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
59035676 CCTAAAACTG
Statistics
Matches: 202, Mismatches: 37, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
100 39 0.19
101 159 0.79
102 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACGCATAG
CAGGCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:59035641 original size:151 final size:150
Alignment explanation
Indices: 59035332--59035680 Score: 405
Period size: 151 Copynumber: 2.3 Consensus size: 150
59035322 ATCGAAGCTC
* * * *
59035332 TCTGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTATCAATCTGGTACACGTAGT
1 TCTGGTACGCATAGTAG-CTGCACTTAGTACTACACATGCGACCTAACAATCCGGTACACGTAAT
** * * * *
59035397 AGCCTACACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTA
65 AGCCTACACTTAGTACTACACACGTGACGAAACCATCGGATACACATAGCAGCCTGCACTTAGTA
* *
59035462 CTACACACGTGATCGAAGTTAA
130 CTACACACGTGACCGAAG-CAA
* *
59035484 T-GGGTACGCATAGTAGCTTGTACTTAGTACTACACATGCGACCTAACAATCCGGTACACGTAAT
1 TCTGGTACGCATAGTAGC-TGCACTTAGTACTACACATGCGACCTAACAATCCGGTACACGTAAT
* * * * * *
59035548 AGCTTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACGCATAGCAGGCTGCACTTAGT
65 AGCCTACACTTAGTACTACACACGTGA-CGAAACCATCGGATACACATAGCAGCCTGCACTTAGT
* *
59035613 ACTACACATGTGACCTAA-CAA
129 ACTACACACGTGACCGAAGCAA
* * * *
59035634 TCTGGTACACGTAGTAGGCTACACTTAGTACTACACATGTGACCTAA
1 TCTGGTACGCATAGTA-GCTGCACTTAGTACTACACATGCGACCTAA
59035681 AACTGTCTTA
Statistics
Matches: 165, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
150 4 0.02
151 116 0.70
152 45 0.27
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (150 bp):
TCTGGTACGCATAGTAGCTGCACTTAGTACTACACATGCGACCTAACAATCCGGTACACGTAATA
GCCTACACTTAGTACTACACACGTGACGAAACCATCGGATACACATAGCAGCCTGCACTTAGTAC
TACACACGTGACCGAAGCAA
Found at i:59038688 original size:30 final size:30
Alignment explanation
Indices: 59038632--59038690 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
59038622 ATAGATAACA
*
59038632 AGAAAACCAAGATTAAGAAGTCCAAGATAG
1 AGAAAACCAAGATTAAGAAATCCAAGATAG
* *
59038662 AGAAATCCAAGA-TAAGGAAATTCAAGATA
1 AGAAAACCAAGATTAA-GAAATCCAAGATA
59038691 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (30 bp):
AGAAAACCAAGATTAAGAAATCCAAGATAG
Found at i:59038690 original size:15 final size:16
Alignment explanation
Indices: 59038632--59038690 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 16
59038622 ATAGATAACA
* *
59038632 AGAAAACCAAGATTA-
1 AGAAATCCAAGATAAG
*
59038647 AGAAGTCCAAGAT-AG
1 AGAAATCCAAGATAAG
59038662 AGAAATCCAAGATAAG
1 AGAAATCCAAGATAAG
*
59038678 -GAAATTCAAGATA
1 AGAAATCCAAGATA
59038691 CAATATCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.92
16 2 0.05
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (16 bp):
AGAAATCCAAGATAAG
Found at i:59042105 original size:16 final size:16
Alignment explanation
Indices: 59042086--59042117 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59042076 AATTGTTTTA
59042086 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
59042102 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
59042118 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:59042807 original size:15 final size:16
Alignment explanation
Indices: 59042787--59042816 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59042777 GAAAATTCCC
59042787 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
59042802 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
59042817 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:59044514 original size:26 final size:26
Alignment explanation
Indices: 59044482--59044563 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
59044472 ATCTCTCTGG
59044482 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * * *
59044508 TACACAT-G-CGACCTATCAATCT-G--G
1 TACACATAGTAG-CCT-GCACT-TAGTAC
59044532 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
59044558 TACACA
1 TACACA
59044564 CGTGACTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
23 1 0.03
24 12 0.30
25 8 0.20
26 18 0.45
27 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:59044550 original size:50 final size:50
Alignment explanation
Indices: 59044477--59044920 Score: 446
Period size: 50 Copynumber: 8.8 Consensus size: 50
59044467 ACAGAATCTC
*
59044477 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
59044527 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * ** *
59044577 TCTGATACACATAGTATCCAGCACTTAGTACTACACATGTGATCGAAGT-TA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * * *
59044628 GCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGTGATCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * *
59044678 TCCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * ** * *
59044728 TCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAA
* * * *
59044779 TCGGGTAC-GATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
59044828 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA-AAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
59044877 T-TGTATTAAACACATAGTAGCCTACACATAGTACTACACATGTG
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
59044921 TTCTCACAAC
Statistics
Matches: 328, Mismatches: 57, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.01
49 16 0.05
50 228 0.70
51 50 0.15
52 32 0.10
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:59044754 original size:151 final size:151
Alignment explanation
Indices: 59044480--59044916 Score: 612
Period size: 151 Copynumber: 2.9 Consensus size: 151
59044470 GAATCTCTCT
* *
59044480 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
59044545 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACATAGTATCCAGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCAGCACTTAGTACTA
* **
59044610 CACATGTGATCGAAGTTAGCG
131 CACACGTGATCGAAACTAGCG
* * * * *
59044631 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGTGATCTATCAATCCGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
59044696 CTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACGTAGTAGCCTGTACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCAGCACTTAGTACTA
*
59044761 CACACGTGATCGAAACTATCG
131 CACACGTGATCGAAACTAGCG
*
59044782 GGTACG-ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
59044846 CTGCACTTAGTACTACACACGTGACCTAA-AAT-TGTATTAAACACATAGTAGCCTA-CACATAG
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTG-A-T--ACACATAGTAGCC-AGCACTTAG
59044908 TACTACACA
126 TACTACACA
59044917 TGTGTTCTCA
Statistics
Matches: 252, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
148 2 0.01
149 3 0.01
150 82 0.33
151 139 0.55
152 26 0.10
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCAGCACTTAGTACTA
CACACGTGATCGAAACTAGCG
Found at i:59048015 original size:28 final size:29
Alignment explanation
Indices: 59047948--59048048 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
59047938 TATAGTGAAC
*
59047948 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
59047977 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
59048005 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
59048035 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59048049 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:59055856 original size:28 final size:29
Alignment explanation
Indices: 59055789--59055889 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
59055779 ATAGTGAATC
*
59055789 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
*
59055818 CGCACATTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
59055846 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
59055876 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59055890 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:59057057 original size:13 final size:14
Alignment explanation
Indices: 59057035--59057068 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
59057025 GCATCCATGC
59057035 TCATTTTTTTTTGT
1 TCATTTTTTTTTGT
59057049 TCATTTTTTTTTGT
1 TCATTTTTTTTTGT
59057063 TCATTT
1 TCATTT
59057069 CTTTAATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (14 bp):
TCATTTTTTTTTGT
Found at i:59059931 original size:44 final size:43
Alignment explanation
Indices: 59059845--59059960 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
59059835 ACATAGGATT
* *
59059845 TCGATATGTGATTTCATGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATGTGATTTCATGTAAGACCACGTCTAGGAAGTTGGCA
* *
59059888 TCGATCTGTGATTTGCGTGTAAGACC-CTGTCTAGGACAG-TGGCA
1 TCGATATGTGATTT-CATGTAAGACCAC-GTCTAGGA-AGTTGGCA
* *
59059932 TC-ATTATGTAATTACATGTAAGACCACGT
1 TCGA-TATGTGATTTCATGTAAGACCACGT
59059961 TTGGGACGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
43 27 0.45
44 32 0.53
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCACGTCTAGGAAGTTGGCA
Found at i:59062391 original size:46 final size:44
Alignment explanation
Indices: 59062280--59062451 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 44
59062270 ATATCTGTGC
* * * *
59062280 CGATGGCATGTCCTAGACATGGTCTTACACTGAC-ACATCTCGTA-GT
1 CGAT-GCATGTCC-AGACAT-GTCTTACACTGGCTTCGTCTC-AAGGT
59062326 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGG-
1 CGATGCATGT-CCAGACATGTCTTACACTGGCTT-CGTCTCAAGGT
* *
59062371 CTGATGCATGTCTCATACATGTCTTACACTAGCGC-TCGTCTCAATGT
1 C-GATGCATGTC-CAGACATGTCTTACACT-G-GCTTCGTCTCAAGGT
59062418 CGATGCCATGTCCAGACATGGTCTTACACTGGCT
1 CGATG-CATGTCCAGACAT-GTCTTACACTGGCT
59062452 CTCATAATGT
Statistics
Matches: 107, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
44 12 0.11
45 17 0.16
46 57 0.53
47 19 0.18
48 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCAGACATGTCTTACACTGGCTTCGTCTCAAGGT
Found at i:59062470 original size:93 final size:89
Alignment explanation
Indices: 59062231--59062485 Score: 218
Period size: 93 Copynumber: 2.7 Consensus size: 89
59062221 GTTAGGTGCT
**
59062231 GATGCCATGTCCAAGACATGGTCTTACACAAGCTCT-AGTATATCTGTGCCGATGGCATGTCCTA
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCA-TA-AT-TG-GCCGAT-GCATGTCC-A
*
59062295 GACATGGTCTTACACTGACACATCTCGTAGTC
59 GACAT-GTCTTACACTGACACATCTCATAGTC
* *
59062327 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-TCAA--GGCTGATGCATGTCTCAT
1 GATGCCATGT-CCAGACATGGTCTTACACTGGC-T-C-TCAT-AATTGGCCGATGCATGTC-CAG
* * *
59062387 ACATGTCTTACACTAGCGCTCGTCTCA-ATGTC
60 ACATGTCTTACACT-G-ACACATCTCATA-GTC
59062419 GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
1 GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATAAT-TGGCCGATGCATGT-CCAGACAT
59062484 GT
64 GT
59062486 AAAGCGCACA
Statistics
Matches: 132, Mismatches: 10, Indels: 37
0.74 0.06 0.21
Matches are distributed among these distances:
90 14 0.11
91 16 0.12
92 28 0.21
93 39 0.30
94 12 0.09
95 12 0.09
96 9 0.07
97 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (89 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATAATTGGCCGATGCATGTCCAGACATGT
CTTACACTGACACATCTCATAGTC
Found at i:59073304 original size:40 final size:40
Alignment explanation
Indices: 59073198--59073478 Score: 374
Period size: 40 Copynumber: 7.1 Consensus size: 40
59073188 AAACCAAGTA
* * *
59073198 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59073237 TCTTC-GGAC-TAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59073275 CCTTCGGGACTTAACCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59073315 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
59073355 CCTTCGGGACTTAGCTCAGACATAGTAACTCGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59073395 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59073435 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59073475 CCTT
1 CCTT
59073479 TGTTATCATC
Statistics
Matches: 215, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
37 3 0.01
38 28 0.13
39 9 0.04
40 175 0.81
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59081018 original size:40 final size:40
Alignment explanation
Indices: 59080832--59081113 Score: 432
Period size: 39 Copynumber: 7.2 Consensus size: 40
59080822 AAACCAAGTA
* * *
59080832 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59080871 TCTTCGGGAC-TAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59080910 CCTTCGGGACTTA-CCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59080949 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59080988 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59081028 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59081068 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59081108 CCTTCG
1 CCTTCG
59081114 TTATCATCTG
Statistics
Matches: 228, Mismatches: 9, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
38 3 0.01
39 116 0.51
40 109 0.48
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59089257 original size:46 final size:46
Alignment explanation
Indices: 59089184--59089283 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
59089174 CAAACATGGT
*
59089184 CTTACACTGACTATCCTCTCGTAGCCGATGCATGTCCTAGACATAC
1 CTTACACTGACTATCCTCTCGTAGCCGATGCATGTCCCAGACATAC
* * * **
59089230 CTTACACTGGCT-TCCATCTTGTGGCCGATGCATGTCCCAGACATGT
1 CTTACACTGACTATCC-TCTCGTAGCCGATGCATGTCCCAGACATAC
59089276 CTTACACT
1 CTTACACT
59089284 ATCCCTCGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 3 0.06
46 44 0.94
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (46 bp):
CTTACACTGACTATCCTCTCGTAGCCGATGCATGTCCCAGACATAC
Found at i:59089388 original size:46 final size:46
Alignment explanation
Indices: 59089207--59089388 Score: 176
Period size: 46 Copynumber: 3.9 Consensus size: 46
59089197 TCCTCTCGTA
* ** * **
59089207 GCCGATGCATGTCCTAGACATACCTTACACTGGCT-TCCATCTTGTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATAATGTG
*
59089253 GCCGATGCATGTCCCAGACATGTCTTACACTATCCCTCGTC-TCAA--T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTA--GCTC-TCAT-AATGTG
* *
59089299 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTG
*
59089347 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA
59089389 GTGACACAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
45 4 0.04
46 57 0.51
47 30 0.27
48 19 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG
Found at i:59116004 original size:27 final size:29
Alignment explanation
Indices: 59115906--59116003 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
59115896 AATGAGATTG
59115906 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
59115934 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
59115963 GCACTAAGTGTGCG-GTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
59115990 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59116004 GACTTACTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.22
28 29 0.43
29 24 0.35
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:59119628 original size:13 final size:13
Alignment explanation
Indices: 59119610--59119636 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59119600 GCTAGACAGG
59119610 GACACGCCCGTGT
1 GACACGCCCGTGT
59119623 GACACGCCCGTGT
1 GACACGCCCGTGT
59119636 G
1 G
59119637 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:59123642 original size:27 final size:28
Alignment explanation
Indices: 59123586--59123655 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
59123576 AAATTTGTAC
59123586 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
59123614 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59123641 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59123656 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59123666 original size:27 final size:27
Alignment explanation
Indices: 59123586--59123667 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
59123576 AAATTTGTAC
* *
59123586 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
59123614 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
59123641 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
59123668 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:59133960 original size:6 final size:6
Alignment explanation
Indices: 59133951--59134068 Score: 91
Period size: 6 Copynumber: 19.3 Consensus size: 6
59133941 AACTAGAACT
* *
59133951 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AAAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
59134000 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* *
59134050 AAAATT AGAATC AG-ATC AG
1 AGAATC AGAATC AGAATC AG
59134069 GTAACAGAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
5 10 0.11
6 68 0.76
7 8 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:59133966 original size:18 final size:18
Alignment explanation
Indices: 59133936--59133976 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
59133926 AAGAAACATT
59133936 ATCAGAA-CTAGAACTAGA
1 ATCAGAATC-AGAACTAGA
59133954 ATCAGAATCAGAA-TCAGA
1 ATCAGAATCAGAACT-AGA
59133972 ATCAG
1 ATCAG
59133977 GTGACAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
ATCAGAATCAGAACTAGA
Found at i:59133990 original size:31 final size:31
Alignment explanation
Indices: 59133951--59134091 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
59133941 AACTAGAACT
* * *
59133951 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
59133982 AAAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
59134013 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
59134044 AGAATCAAAATTAGAATCAG-ATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
59134074 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
59134092 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
30 15 0.15
31 86 0.85
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:59134017 original size:19 final size:19
Alignment explanation
Indices: 59133993--59134050 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
59133983 AAATCAGAAT
59133993 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
59134012 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
59134024 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
59134043 CAGAATCA
1 CAGAATCA
59134051 AAATTAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:59134271 original size:27 final size:26
Alignment explanation
Indices: 59134228--59134301 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
59134218 GCTCAGTTAT
* *
59134228 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
59134255 CAGATATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
59134281 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
59134302 TTAACAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:59134495 original size:22 final size:22
Alignment explanation
Indices: 59134459--59134523 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
59134449 GCAATTACGT
59134459 TTGGCACACAA-CCATAATCAGG
1 TTGGCACA-AAGCCATAATCAGG
* * *
59134481 TTGGCACAGAGCCAT-GTGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
59134503 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
59134524 AAGGCTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.06
22 30 0.91
23 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:59135007 original size:27 final size:27
Alignment explanation
Indices: 59134949--59135252 Score: 319
Period size: 27 Copynumber: 11.3 Consensus size: 27
59134939 AGGGGCAAAA
* * *
59134949 TGGTAATTTTACCCTACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
59134975 CGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
59135002 TAGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
*
59135029 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
59135056 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
59135083 AGGTAATTCAACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
59135110 CGGTAATTCTATCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
59135137 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *** *
59135164 CGGTAATTTTA-TAAACAAAGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* * **
59135191 TAGTAATTTTACAAATA-AGGGGTATTT
1 TGGTAATTCTAC-CCTACAGGGGTATTT
*
59135218 TGGTAATTCTATCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
59135245 CT-GTAATT
1 -TGGTAATT
59135253 TCACAATCGA
Statistics
Matches: 234, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
26 19 0.08
27 212 0.91
28 1 0.00
29 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:59135297 original size:27 final size:27
Alignment explanation
Indices: 59135257--59135456 Score: 240
Period size: 27 Copynumber: 7.4 Consensus size: 27
59135247 GTAATTTCAC
*
59135257 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
59135284 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
59135311 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
59135338 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* **
59135365 AATCGAAGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
59135392 TATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
59135419 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
59135446 AATCAAGGGTA
1 AATCGAGGGTA
59135457 TTTCAGTAAT
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:59135468 original size:81 final size:81
Alignment explanation
Indices: 59135257--59135453 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
59135247 GTAATTTCAC
* * * * *
59135257 AATCGAAGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAAGGTAAAATAGTAATTTTGTAAATCAAGGGT
* *
59135321 AAAACGGTAATTTTGTA
65 AAAACGGTAATTCTATA
* * *
59135338 AATCGAGGGTAAAACGGTAATTCTATAAATCGAAGGTAAAATAGTAATTTTGTATATCGAGGGTG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAAGGTAAAATAGTAATTTTGTAAATCAAGGGTA
59135403 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
59135419 AATCGAGGGTAAAATGGTAATTCTATAAATC-AAGG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAAGG
59135454 GTATTTCAGT
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 4 0.04
81 99 0.95
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAAGGTAAAATAGTAATTTTGTAAATCAAGGGTA
AAACGGTAATTCTATA
Found at i:59136292 original size:15 final size:15
Alignment explanation
Indices: 59136272--59136310 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
59136262 ACCATGCTCA
59136272 AGGCCCAAAACTTCT
1 AGGCCCAAAACTTCT
59136287 AGGCCCAAAACTTCT
1 AGGCCCAAAACTTCT
59136302 AGGCCCAAA
1 AGGCCCAAA
59136311 TTCAAGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (15 bp):
AGGCCCAAAACTTCT
Found at i:59137452 original size:6 final size:6
Alignment explanation
Indices: 59137441--59137556 Score: 87
Period size: 6 Copynumber: 19.0 Consensus size: 6
59137431 TTAGAACTAA
* *
59137441 AATCAG AATCAG AATCAG AATCAG -GTGACAA AATCAG AATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG AATCAG
* * * *
59137490 TATCAGG TAA-CAG AATCAA AATCAG AATCAG TATCAGG TAA-CA- AATCAA
1 AATCA-G -AATCAG AATCAG AATCAG AATCAG AATCA-G -AATCAG AATCAG
*
59137539 AATCAG AATCAG TATCAG
1 AATCAG AATCAG AATCAG
59137557 GTAACAGAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
4 2 0.02
5 5 0.06
6 70 0.80
7 8 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:59137475 original size:31 final size:31
Alignment explanation
Indices: 59137439--59137577 Score: 199
Period size: 31 Copynumber: 4.5 Consensus size: 31
59137429 TATTAGAACT
* * *
59137439 AAAATCAGAATCAGAATCAGAATCAGGTGAC
1 AAAATCAAAATCAGAATCAGTATCAGGTAAC
*
59137470 AAAATCAGAATCAGAATCAGTATCAGGTAAC
1 AAAATCAAAATCAGAATCAGTATCAGGTAAC
*
59137501 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AAAATCAAAATCAGAATCAGTATCAGGTAAC
59137532 -AAATCAAAATCAGAATCAGTATCAGGTAAC
1 AAAATCAAAATCAGAATCAGTATCAGGTAAC
* *
59137562 AGAATAAAAAATCAGA
1 AAAAT-CAAAATCAGA
59137578 TTGTGAATGT
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
30 29 0.29
31 61 0.62
32 9 0.09
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (31 bp):
AAAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:59137779 original size:26 final size:27
Alignment explanation
Indices: 59137716--59137790 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
59137706 GCTCAGTTAT
* * *
59137716 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACTAGATA
59137743 CAGATATTGTGGCAGAGCCACTAGA-A
1 CAGATATTGTGGCAGAGCCACTAGATA
* *
59137769 CAGATAATGTGGCAAAGCCACT
1 CAGATATTGTGGCAGAGCCACT
59137791 TAACAGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACTAGATA
Found at i:59137976 original size:22 final size:22
Alignment explanation
Indices: 59137948--59138012 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
59137938 GCAAATACGA
*
59137948 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
59137970 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
59137992 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
59138013 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:59138547 original size:27 final size:27
Alignment explanation
Indices: 59138438--59138738 Score: 288
Period size: 27 Copynumber: 11.3 Consensus size: 27
59138428 GGGGCAAAAT
* * * *
59138438 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
59138464 GGTAATTCCACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59138491 AG-AATTCTACCCTACA-GGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59138516 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
59138543 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59138570 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
59138597 GTTAATTCTACCCTACAGGGTTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59138624 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *** * *
59138651 GGTAATTTTA-TAAACAAAGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* * ** *
59138678 AGTAATTTTA-CAAACCAGGGGTATTTT
1 GGTAATTCTACCCTA-CAGGGGTATTTC
* *
59138705 GGTAATTTTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59138732 AGTAATT
1 GGTAATT
59138739 TCACAATCGA
Statistics
Matches: 232, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
25 9 0.04
26 41 0.18
27 179 0.77
28 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:59138818 original size:54 final size:53
Alignment explanation
Indices: 59138743--59138918 Score: 235
Period size: 54 Copynumber: 3.3 Consensus size: 53
59138733 GTAATTTCAC
* * *
59138743 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGTGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAATGGTAATTCTATA
* * *
59138797 AATCTAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAATGGTAATTCTATA
* * *
59138851 AATCGAGGGTGAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAAT-GAGGGTAAAATGGTAATTCTATA
*
59138905 AATTGAGGGTAAAA
1 AATCGAGGGTAAAA
59138919 TGTTAATTCT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 105 0.99
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (53 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATGAGGGTAAAATGGTAATTCTATA
Found at i:59138871 original size:81 final size:81
Alignment explanation
Indices: 59138786--59138940 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
59138776 GTGTAAAATA
* * * *
59138786 GTAATTCTGTAAATCTAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTACA
*
59138851 AATCGAGGGTGAAACG
66 AATCAAGGGTGAAACG
* * *
59138867 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATTGAGGGTAAAATGTTAATTCTACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTACA
59138932 AATCAAGGG
66 AATCAAGGG
59138941 CATTTCAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTACA
AATCAAGGGTGAAACG
Found at i:59138929 original size:27 final size:27
Alignment explanation
Indices: 59138747--59138928 Score: 213
Period size: 27 Copynumber: 6.7 Consensus size: 27
59138737 TTTCACAATC
* * *
59138747 GAGGGTAAAACGGTAATTTTGTAAACT
1 GAGGGTAAAATGGTAATTCTGTAAATT
* *
59138774 GAGTGTAAAATAGTAATTCTGTAAATCT
1 GAGGGTAAAATGGTAATTCTGTAAAT-T
59138802 -AGGGTAAAATGGTAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATT
* *
59138828 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATT
* * * *
59138855 GAGGGTGAAACGGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATT
* * *
59138882 GAGGGTGAAACGGTAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATT
*
59138909 GAGGGTAAAATGTTAATTCT
1 GAGGGTAAAATGGTAATTCT
59138929 ACAAATCAAG
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATT
Found at i:59145386 original size:49 final size:49
Alignment explanation
Indices: 59145314--59145414 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 49
59145304 TCCTCAGGCG
*
59145314 TGCACGACAATTCATCAAACACTCTGATGGTGTTCTATAAACAAAACTT
1 TGCACGACAATTCATCAAACACTCTGATGGTATTCTATAAACAAAACTT
* *
59145363 TGCACGACAATTCATTAAACACTCTGATGGTATTCTCTAAACAAAACTT
1 TGCACGACAATTCATCAAACACTCTGATGGTATTCTATAAACAAAACTT
59145412 TGC
1 TGC
59145415 TTTCTCCGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.30
Consensus pattern (49 bp):
TGCACGACAATTCATCAAACACTCTGATGGTATTCTATAAACAAAACTT
Found at i:59150621 original size:23 final size:22
Alignment explanation
Indices: 59150587--59150649 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
59150577 ATACGTATTA
59150587 TATATATTTTATAATTAT-TTACT
1 TATAT-TTTTAT-ATTATATTACT
59150610 TATATTTATTATATTATATTACT
1 TATATTT-TTATATTATATTACT
*
59150633 TCATATTTTTCTATTAT
1 T-ATATTTTTATATTAT
59150650 CATATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 7 0.19
23 23 0.64
24 6 0.17
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTTTTATATTATATTACT
Found at i:59150656 original size:26 final size:23
Alignment explanation
Indices: 59150605--59150698 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 23
59150595 TTATAATTAT
*
59150605 TTACTTATATTTATTATATTATA
1 TTACTTATATTTATTATATCATA
*
59150628 TTACTTCATATTTTTCTATTATCATA
1 TTACTT-ATATTTAT-TA-TATCATA
* ** *
59150654 TTAATATATATTTTAACACAT-ATCA
1 TTACT-TATA-TTTATTATATCAT-A
59150679 TTACTTATTATTTATTATAT
1 TTACTTA-TATTTATTATAT
59150699 TATGTTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
23 6 0.11
24 18 0.34
25 11 0.21
26 14 0.26
27 4 0.08
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (23 bp):
TTACTTATATTTATTATATCATA
Found at i:59150708 original size:40 final size:37
Alignment explanation
Indices: 59150664--59150738 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 37
59150654 TTAATATATA
59150664 TTTTAACACATATCATTACTTAT-TATTTATTATATTATGT
1 TTTTAACACATA--A-TACTTATATATTT-TTATATTATGT
* *
59150704 TTTTATCACATAATATTTATATATTTTTATATTAT
1 TTTTAACACATAATACTTATATATTTTTATATTAT
59150739 TTTACATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 15 0.47
38 6 0.19
40 11 0.34
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTAACACATAATACTTATATATTTTTATATTATGT
Found at i:59150794 original size:18 final size:17
Alignment explanation
Indices: 59150773--59150821 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
59150763 CATATTATTA
59150773 TCATCTATTATATATTTT
1 TCATCTATTAT-TATTTT
* *
59150791 TCATGTA-TATTATTAT
1 TCATCTATTATTATTTT
59150807 TCA-C-ATTATTATTTT
1 TCATCTATTATTATTTT
59150822 CATATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 1 0.04
15 8 0.31
16 8 0.31
17 3 0.12
18 6 0.23
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (17 bp):
TCATCTATTATTATTTT
Found at i:59150976 original size:21 final size:22
Alignment explanation
Indices: 59150942--59150985 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
59150932 TATTTCAAAA
*
59150942 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
59150963 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
59150985 T
1 T
59150986 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:59154671 original size:12 final size:12
Alignment explanation
Indices: 59154654--59154678 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59154644 AAGCTGATGC
59154654 GTTGAGTATGAT
1 GTTGAGTATGAT
59154666 GTTGAGTATGAT
1 GTTGAGTATGAT
59154678 G
1 G
59154679 CGTGAGTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTGAGTATGAT
Found at i:59155027 original size:24 final size:24
Alignment explanation
Indices: 59155000--59155059 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
59154990 TCAAAGGTTC
59155000 GAACAATTGCAAAAGGATATGCAA
1 GAACAATTGCAAAAGGATATGCAA
59155024 GAACAATTGCAAAAGGATATGCAA
1 GAACAATTGCAAAAGGATATGCAA
*
59155048 GACCAATTGCAA
1 GAACAATTGCAA
59155060 GAGCAATTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (24 bp):
GAACAATTGCAAAAGGATATGCAA
Found at i:59155034 original size:12 final size:12
Alignment explanation
Indices: 59155000--59155068 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
59154990 TCAAAGGTTC
59155000 GAACAATTGCAA
1 GAACAATTGCAA
**
59155012 -AAGGATATGCAA
1 GAACAAT-TGCAA
59155024 GAACAATTGCAA
1 GAACAATTGCAA
**
59155036 -AAGGATATGCAA
1 GAACAAT-TGCAA
*
59155048 GACCAATTGCAA
1 GAACAATTGCAA
*
59155060 GAGCAATTG
1 GAACAATTG
59155069 GCCAAAATGC
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
11 8 0.19
12 28 0.65
13 7 0.16
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.17
Consensus pattern (12 bp):
GAACAATTGCAA
Found at i:59163054 original size:40 final size:40
Alignment explanation
Indices: 59162992--59163208 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
59162982 AAGCCAAGTA
* * *
59162992 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
59163031 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
59163071 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
59163111 CCTTCGAGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
59163151 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
59163191 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59163209 TTATCATCCA
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
39 26 0.16
40 134 0.84
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:59171114 original size:40 final size:40
Alignment explanation
Indices: 59171052--59171268 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
59171042 AAGCCAAGTA
* * *
59171052 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
59171091 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
59171131 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
59171171 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
59171211 CCTTC-GGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
59171250 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59171269 TTATCATCCA
Statistics
Matches: 165, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 46 0.28
40 118 0.72
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:59173382 original size:22 final size:22
Alignment explanation
Indices: 59173349--59173444 Score: 74
Period size: 23 Copynumber: 4.4 Consensus size: 22
59173339 CGAAAATCAA
* * *
59173349 AAAAGAAAAAACAAACAGAAAAT
1 AAAA-AAAAAACAAAAACAAAAC
*
59173372 TAAAAAAAAACAAAAAACAAAAC
1 AAAAAAAAAAC-AAAAACAAAAC
59173395 AAAAAAAAAACAAAAA-ATAAA-
1 AAAAAAAAAACAAAAACA-AAAC
* *
59173416 AAAATAAAAATAAAAA-AAAA-
1 AAAAAAAAAACAAAAACAAAAC
*
59173436 AAGAAAAAA
1 AAAAAAAAA
59173445 GAGAGAAGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
20 10 0.16
21 16 0.26
22 15 0.24
23 21 0.34
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAACAAAAACAAAAC
Found at i:59173388 original size:29 final size:26
Alignment explanation
Indices: 59173347--59173442 Score: 97
Period size: 26 Copynumber: 3.5 Consensus size: 26
59173337 TTCGAAAATC
*
59173347 AAAAAAGAAAAAACAAACAGAAAATTAA
1 AAAAAAAAAAAAACAAACA-AAAA-TAA
59173375 AAAAAAACAAAAAACAAAACAAAAA-AA
1 AAAAAAA-AAAAAAC-AAACAAAAATAA
*
59173402 AAACAAAAAATAAAA-AAATAAAAATAA
1 AAA-AAAAAA-AAAACAAACAAAAATAA
59173429 AAAAAAAAAGAAAA
1 AAAAAAAAA-AAAA
59173443 AAGAGAGAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
26 18 0.30
27 12 0.20
28 14 0.23
29 11 0.18
30 5 0.08
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.05
Consensus pattern (26 bp):
AAAAAAAAAAAAACAAACAAAAATAA
Found at i:59173393 original size:23 final size:21
Alignment explanation
Indices: 59173347--59173444 Score: 97
Period size: 21 Copynumber: 4.5 Consensus size: 21
59173337 TTCGAAAATC
* *
59173347 AAAAAAGAAAAAACAAACAGAA
1 AAAAAAAAAAAAACAAA-AAAA
**
59173369 AATTAAAAAAAAACAAAAAACA
1 AAAAAAAAAAAAACAAAAAA-A
*
59173391 AAACAAAAAAAAAACAAAAAAT
1 AAA-AAAAAAAAAACAAAAAAA
* *
59173413 AAAAAAATAAAAATAAAAAAA
1 AAAAAAAAAAAAACAAAAAAA
*
59173434 AAAAGAAAAAA
1 AAAAAAAAAAA
59173445 GAGAGAAGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
21 26 0.42
22 20 0.32
23 16 0.26
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAAAAACAAAAAAA
Found at i:59173436 original size:18 final size:17
Alignment explanation
Indices: 59173347--59173443 Score: 79
Period size: 18 Copynumber: 5.4 Consensus size: 17
59173337 TTCGAAAATC
*
59173347 AAAAAAGAAAAAACAAACA
1 AAAAAATAAAAAA-AAA-A
* * *
59173366 GAAAATTAAAAAAAAAC
1 AAAAAATAAAAAAAAAA
*
59173383 AAAAAACAAAACAAAAAA
1 AAAAAATAAAA-AAAAAA
59173401 AAAACAA-AAAATAAAAAA
1 AAAA-AATAAAA-AAAAAA
59173419 ATAAAAATAAAAAAAAAA
1 A-AAAAATAAAAAAAAAA
59173437 AGAAAAA
1 A-AAAAA
59173444 AGAGAGAAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
17 8 0.12
18 37 0.58
19 19 0.30
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.05
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAA
Found at i:59173461 original size:1 final size:1
Alignment explanation
Indices: 59173373--59173444 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
59173363 ACAGAAAATT
* * * * * * *
59173373 AAAAAAAAACAAAAAACAAAACAAAAAAAAAACAAAAAATAAAAAAATAAAAATAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
59173438 GAAAAAA
1 AAAAAAA
59173445 GAGAGAAGAG
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.89, C:0.06, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:59173831 original size:54 final size:54
Alignment explanation
Indices: 59173766--59173874 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
59173756 TTAATTTCCT
59173766 TTGTATCTTTTTCGATAATTCATTCAAATCCAATTATTCTTAGAGATTTATTTA
1 TTGTATCTTTTTCGATAATTCATTCAAATCCAATTATTCTTAGAGATTTATTTA
59173820 TTGTATCTTTTTCGATAATTCATTCAAATCCAATTATTCTTAGAGATTTATTTA
1 TTGTATCTTTTTCGATAATTCATTCAAATCCAATTATTCTTAGAGATTTATTTA
59173874 T
1 T
59173875 CTTCCATTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.50
Consensus pattern (54 bp):
TTGTATCTTTTTCGATAATTCATTCAAATCCAATTATTCTTAGAGATTTATTTA
Found at i:59175184 original size:24 final size:24
Alignment explanation
Indices: 59175081--59175224 Score: 195
Period size: 24 Copynumber: 6.0 Consensus size: 24
59175071 GCTTTATCAT
* *
59175081 ATAACTGGAGGCCT-AGCCTCTTATA
1 ATAACTGG-GGCATAAGCC-CTTTTA
59175106 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
59175131 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59175154 ATCACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59175178 GTAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59175202 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59175225 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
23 23 0.21
24 55 0.51
25 24 0.22
26 6 0.06
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:59175301 original size:20 final size:20
Alignment explanation
Indices: 59175278--59175340 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
59175268 GAACATCTCG
59175278 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
59175298 TGTGCATCTCATACATGTCA
1 TGTGCATATCATACATATCA
59175318 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
59175338 TGT
1 TGT
59175341 TTATCAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:59175406 original size:25 final size:25
Alignment explanation
Indices: 59175377--59175424 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59175367 ATTAATAAAC
* * *
59175377 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59175402 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59175425 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:59177730 original size:206 final size:206
Alignment explanation
Indices: 59177368--59177919 Score: 813
Period size: 206 Copynumber: 2.7 Consensus size: 206
59177358 GCAAATCTGG
59177368 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
59177433 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
* **
59177498 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACAG-AGAGCAGATACATAGCAGATCTGGCCT
130 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAAG-GCAGACACATAGCAGATCTAACCT
* *
59177562 TCAGATGTTTATA
194 TCAGATGATTAGA
* * * * *
59177575 CTGAAGTAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATC-AAAATCATAGCT
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCT
* *
59177639 GATTTAGCTTTCACGTGCTTACGCTGAAACAAGTCTAAGATGATTTGGCATCTCTATATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
* ** *
59177704 AGAACAAGTCGAAGTTTGGCATCTCCATATTCGATGGAAGGCAGACACATAGTAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAAGGCAGACACATAGCAGATCTAACCTT
59177769 CAGATGATTAGA
195 CAGATGATTAGA
* * *
59177781 CTGAAGCAGATCCAAGATGGTTTGGTATCATTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * ** *
59177846 ATTTGGTTTTCGCGTGCTTACGCT-AAAGCAAATCTAAGATGATTTGGCATCTCCGTATTGTTAG
66 ATTTGGCTTTCACGTGCTTACGCTGAAA-CAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
59177910 AGAACAAATC
130 AGAACAAATC
59177920 AAAGAAGCAG
Statistics
Matches: 307, Mismatches: 34, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
205 6 0.02
206 290 0.94
207 11 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAGA
GAACAAATCGAAGTTTGGCATCTCCATATTCGACAGAAGGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:59179737 original size:23 final size:22
Alignment explanation
Indices: 59179703--59179765 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
59179693 ATACGTATTA
59179703 TATATATTTTATAATTAT-TTACT
1 TATAT-TTTTAT-ATTATATTACT
59179726 TATATTTATTATATTATATTACT
1 TATATTT-TTATATTATATTACT
*
59179749 TCATATTTTTCTATTAT
1 T-ATATTTTTATATTAT
59179766 CATATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 7 0.19
23 23 0.64
24 6 0.17
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTTTTATATTATATTACT
Found at i:59179772 original size:26 final size:23
Alignment explanation
Indices: 59179721--59179814 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 23
59179711 TTATAATTAT
*
59179721 TTACTTATATTTATTATATTATA
1 TTACTTATATTTATTATATCATA
*
59179744 TTACTTCATATTTTTCTATTATCATA
1 TTACTT-ATATTTAT-TA-TATCATA
* ** *
59179770 TTAATATATATTTTAACACAT-ATCA
1 TTACT-TATA-TTTATTATATCAT-A
59179795 TTACTTATTATTTATTATAT
1 TTACTTA-TATTTATTATAT
59179815 TATGTTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
23 6 0.11
24 18 0.34
25 11 0.21
26 14 0.26
27 4 0.08
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (23 bp):
TTACTTATATTTATTATATCATA
Found at i:59179824 original size:40 final size:37
Alignment explanation
Indices: 59179780--59179854 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 37
59179770 TTAATATATA
59179780 TTTTAACACATATCATTACTTAT-TATTTATTATATTATGT
1 TTTTAACACATA--A-TACTTATATATTT-TTATATTATGT
* *
59179820 TTTTATCACATAATATTTATATATTTTTATATTAT
1 TTTTAACACATAATACTTATATATTTTTATATTAT
59179855 TATATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 15 0.47
38 6 0.19
40 11 0.34
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTAACACATAATACTTATATATTTTTATATTATGT
Found at i:59185081 original size:43 final size:43
Alignment explanation
Indices: 59184924--59185082 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
59184914 TTACGCCATA
* * * *
59184924 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTA
1 TCCCAGACATGGTCTTACATGTAATCACAATA-CGATGCCAATG
* * * * *
59184967 TCCTAGACAGGGTTTTACATGAAATC-GAATAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAAT-ACGATGCCAATG
** * *
59185010 TCCCAGACATGGTCTTACACATATTCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAATACGATGCCAATG
*
59185053 TCCCAGGCATGGTCTTACATGTAATCACAA
1 TCCCAGACATGGTCTTACATGTAATCACAA
59185083 CTCAGCAACC
Statistics
Matches: 91, Mismatches: 22, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
43 87 0.96
44 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACAATACGATGCCAATG
Found at i:59194640 original size:61 final size:61
Alignment explanation
Indices: 59194545--59194720 Score: 352
Period size: 61 Copynumber: 2.9 Consensus size: 61
59194535 TATTTGAGTA
59194545 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
1 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
59194606 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
1 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
59194667 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTAC
1 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTAC
59194721 TTTTGAGAAA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 115 1.00
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (61 bp):
ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
Found at i:59197908 original size:40 final size:40
Alignment explanation
Indices: 59197696--59197901 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
59197686 AACCTAAGTA
* * *
59197696 CCTTCAGGATTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
59197735 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
59197775 CCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
59197815 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
59197855 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
59197895 CCTTCGG
1 CCTTCGG
59197902 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.08
40 144 0.92
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:59200586 original size:40 final size:40
Alignment explanation
Indices: 59200499--59200647 Score: 128
Period size: 40 Copynumber: 3.7 Consensus size: 40
59200489 AATTGAATGA
* * * **
59200499 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
59200539 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
59200580 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
59200619 TATCCGGGCTAAGACCCGAAGGCATTTGT
1 TATCCGGGCTAAGACCCGAAGGCAATTGT
59200648 CAAATCGTGA
Statistics
Matches: 88, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 80 0.91
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:59202603 original size:13 final size:13
Alignment explanation
Indices: 59202585--59202610 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59202575 TTTTTATTCT
59202585 TTAACATAAAATA
1 TTAACATAAAATA
59202598 TTAACATAAAATA
1 TTAACATAAAATA
59202611 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:59209313 original size:40 final size:40
Alignment explanation
Indices: 59209104--59209306 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
59209094 AACCCAAGTA
* * *
59209104 CCTTC-GGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
59209142 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
59209182 CCTTC-GGACTTAGCCCGGATATAGTAACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
59209220 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
59209260 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
59209300 CCTTCGG
1 CCTTCGG
59209307 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
38 14 0.09
39 64 0.41
40 79 0.50
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:59210702 original size:13 final size:13
Alignment explanation
Indices: 59210684--59210709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59210674 ATTTTTATTT
59210684 TTAACATAAAATA
1 TTAACATAAAATA
59210697 TTAACATAAAATA
1 TTAACATAAAATA
59210710 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:59211113 original size:27 final size:27
Alignment explanation
Indices: 59211071--59211273 Score: 183
Period size: 27 Copynumber: 7.5 Consensus size: 27
59211061 CATGACAACT
* * *
59211071 AAGAATAGCCTCTATGGCAAACTCTTA
1 AAGAATAGCCTTTATGGCGAACTCTGA
* * * *
59211098 ATGAATAGTCTTTATGGCGTACTCTAA
1 AAGAATAGCCTTTATGGCGAACTCTGA
* * ** *
59211125 AAGAATAGACTTTGTGATGAACTTTGA
1 AAGAATAGCCTTTATGGCGAACTCTGA
*
59211152 AAGAATAGCCTTTATGGTGAACTCTGA
1 AAGAATAGCCTTTATGGCGAACTCTGA
* *
59211179 AAGAATAGACCTTTTTGGCAAACTCTGA
1 AAGAATAG-CCTTTATGGCGAACTCTGA
* *
59211207 AAGAATAGACTTTATGGCGAACTTTGA
1 AAGAATAGCCTTTATGGCGAACTCTGA
* * * * *
59211234 AAGAATAACCTTTGTTGCGAACTTTAAA
1 AAGAATAGCCTTTATGGCGAACTCT-GA
59211262 AAGAAT-GCCTTT
1 AAGAATAGCCTTT
59211274 GTGACAAACT
Statistics
Matches: 143, Mismatches: 31, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
27 112 0.78
28 31 0.22
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (27 bp):
AAGAATAGCCTTTATGGCGAACTCTGA
Found at i:59211233 original size:82 final size:81
Alignment explanation
Indices: 59211071--59211246 Score: 217
Period size: 82 Copynumber: 2.2 Consensus size: 81
59211061 CATGACAACT
* * * * **
59211071 AAGAATAGCCTCTATGGCAAACTCTTAATGAATAGTCTTTATGGCGTACTCTAAAAGAATAGACT
1 AAGAATAGCCTTTATGGCAAACTCTGAAAGAATAGCCTTTATGGCAAACTCTAAAAGAATAGACT
* *
59211136 TTGTGATGAACTTTGA
66 TTATGACGAACTTTGA
** * *
59211152 AAGAATAGCCTTTATGGTGAACTCTGAAAGAATAGACCTTTTTGGCAAACTCTGAAAGAATAGAC
1 AAGAATAGCCTTTATGGCAAACTCTGAAAGAATAG-CCTTTATGGCAAACTCTAAAAGAATAGAC
*
59211217 TTTATGGCGAACTTTGA
65 TTTATGACGAACTTTGA
*
59211234 AAGAATAACCTTT
1 AAGAATAGCCTTT
59211247 GTTGCGAACT
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
81 30 0.38
82 50 0.62
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (81 bp):
AAGAATAGCCTTTATGGCAAACTCTGAAAGAATAGCCTTTATGGCAAACTCTAAAAGAATAGACT
TTATGACGAACTTTGA
Found at i:59211265 original size:55 final size:55
Alignment explanation
Indices: 59211100--59211267 Score: 191
Period size: 55 Copynumber: 3.1 Consensus size: 55
59211090 AACTCTTAAT
* * * *
59211100 GAATAGTCTTTATGGCGTACTCTAAAAGAATAGA-CTTTG-TGATGAACTTTGAAA
1 GAATAGACTTTATGGCGAACTCTGAAAGAATAGACCTTTGTTG-CGAACTTTGAAA
* * * *
59211154 GAATAGCCTTTATGGTGAACTCTGAAAGAATAGACCTTT-TTGGCAAACTCTGAAA
1 GAATAGACTTTATGGCGAACTCTGAAAGAATAGACCTTTGTT-GCGAACTTTGAAA
* *
59211209 GAATAGACTTTATGGCGAACTTTGAAAGAATA-ACCTTTGTTGCGAACTTTAAAAA
1 GAATAGACTTTATGGCGAACTCTGAAAGAATAGACCTTTGTTGCGAACTTT-GAAA
59211264 GAAT
1 GAAT
59211268 GCCTTTGTGA
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
54 43 0.45
55 52 0.54
56 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (55 bp):
GAATAGACTTTATGGCGAACTCTGAAAGAATAGACCTTTGTTGCGAACTTTGAAA
Found at i:59213531 original size:29 final size:29
Alignment explanation
Indices: 59213496--59213552 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
59213486 TCCTAAAGAC
59213496 TTTCCTTTCAGAGATTTGCCACAAAGGCG
1 TTTCCTTTCAGAGATTTGCCACAAAGGCG
* *
59213525 TTTCCTTTCATAGATTTTCCACAAAGGC
1 TTTCCTTTCAGAGATTTGCCACAAAGGC
59213553 CTTCTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (29 bp):
TTTCCTTTCAGAGATTTGCCACAAAGGCG
Found at i:59213911 original size:53 final size:53
Alignment explanation
Indices: 59213824--59213930 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
59213814 TTAAATTTCT
*
59213824 CCATATGATGCCATAACCCACCAATTATGATCTTACATGATATGATCTTCTTC
1 CCATATGATGCCATAACCCACCAATTAAGATCTTACATGATATGATCTTCTTC
* * * * *
59213877 CCATATGATGCCATAATCCACTAGTTACAG-TCTTACATGATATGGTTTTCTTC
1 CCATATGATGCCATAACCCACCAATTA-AGATCTTACATGATATGATCTTCTTC
59213930 C
1 C
59213931 TATCATAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 46 0.98
54 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (53 bp):
CCATATGATGCCATAACCCACCAATTAAGATCTTACATGATATGATCTTCTTC
Found at i:59227525 original size:40 final size:40
Alignment explanation
Indices: 59227470--59227633 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 40
59227460 TGAATGATAC
* *
59227470 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
59227510 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
59227550 CTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
59227590 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
59227630 CCGG
1 CCGG
59227634 TTAAATTCCA
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:59235702 original size:40 final size:39
Alignment explanation
Indices: 59235647--59235846 Score: 215
Period size: 40 Copynumber: 5.0 Consensus size: 39
59235637 AATGATACCC
* * *
59235647 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATATCCG
* *
59235687 GGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCTG
1 GGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATATCCG
*
59235727 GGCTAAGACCCGAAGGCATTCGTG-GAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATATCCG
* * *
59235766 GGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATATCCG
* * **
59235806 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATATCCG
59235846 G
1 G
59235847 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 38 0.28
40 96 0.70
41 2 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATATCCG
Found at i:59235779 original size:79 final size:80
Alignment explanation
Indices: 59235647--59235823 Score: 223
Period size: 79 Copynumber: 2.2 Consensus size: 80
59235637 AATGATACCC
* * *
59235647 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
1 GGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
* *** * *
59235712 GAGTTGTTATATCTG
66 AAGTTACCAAATCCG
* *
59235727 GGCTAAGACCCGAAGGCATTCGTG-GAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTG
1 GGCTAAGACCCGAAGGCATTCATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTCGTG
59235790 CAAGTTACCAAATCCG
65 CAAGTTACCAAATCCG
*
59235806 GGTTAAGACCCGAAGGCA
1 GGCTAAGACCCGAAGGCA
59235824 ATTGTGCTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 61 0.73
80 23 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
GGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
AAGTTACCAAATCCG
Found at i:59242868 original size:21 final size:20
Alignment explanation
Indices: 59242829--59242868 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59242819 TATGAATGAG
59242829 TTTTGATGATTGATGATAGA
1 TTTTGATGATTGATGATAGA
* *
59242849 TTTTGAATGGTTGTTGATAG
1 TTTTG-ATGATTGATGATAG
59242869 TGAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGATGATTGATGATAGA
Found at i:59250173 original size:18 final size:18
Alignment explanation
Indices: 59250150--59250190 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
59250140 CAACGATAAA
*
59250150 AAAAACGTAAAAATCATC
1 AAAAACCTAAAAATCATC
*
59250168 AAAAACCTAGAAATCATC
1 AAAAACCTAAAAATCATC
59250186 AAAAA
1 AAAAA
59250191 TCGAGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAAACCTAAAAATCATC
Found at i:59255211 original size:46 final size:46
Alignment explanation
Indices: 59255064--59255282 Score: 180
Period size: 47 Copynumber: 4.7 Consensus size: 46
59255054 TTATGAGAAA
* * ** *
59255064 CAGTGTAGGACCATGTTTGGGACATGGCATTAGCATTGAGACA-AGGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATATA--GC
* * *
59255112 TAGTGTAAGA-CATGTCCGGGACAT-GCATCGGCCTCGAGACCTA-AGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGA--TATAGC
*
59255158 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGAT-ATAGC
* * ** *
59255204 CAATGTAAGACCATGTCGGGGACATGGCATCAACTTGAAATATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATAT-AGC
*
59255251 CAGTGTAAGACCATGTCTAGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
59255283 ACACCTTACC
Statistics
Matches: 140, Mismatches: 22, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 58 0.41
47 61 0.44
48 17 0.12
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATAGC
Found at i:59258441 original size:40 final size:40
Alignment explanation
Indices: 59258347--59258531 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
59258337 TATTCAAATG
* *
59258347 ATATCCAGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
59258388 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
59258428 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
59258468 ATATCCGGGCTAAG-TCCTGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
*
59258508 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
59258532 CTTGTGCAAG
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.02
40 89 0.72
41 30 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:59258514 original size:80 final size:81
Alignment explanation
Indices: 59258347--59258531 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
59258337 TATTCAAATG
* * * *
59258347 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
59258412 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
59258428 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCTGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCC-GAAGG
* *
59258491 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
59258508 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
59258532 CTTGTGCAAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 5 0.05
80 57 0.61
81 31 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:59266439 original size:40 final size:40
Alignment explanation
Indices: 59266345--59266526 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
59266335 TATTCAAATG
* *
59266345 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
59266386 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAG-TGACT
* *
59266426 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
59266466 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
59266506 ATATCC-GACTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59266527 ATTACTTGAG
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 14 0.12
40 77 0.64
41 28 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:59268127 original size:9 final size:9
Alignment explanation
Indices: 59268113--59268137 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59268103 CTAGGGTTTT
59268113 CAAGCTTTC
1 CAAGCTTTC
59268122 CAAGCTTTC
1 CAAGCTTTC
59268131 CAAGCTT
1 CAAGCTT
59268138 AATAGTAAGT
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:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (9 bp):
CAAGCTTTC
Found at i:59269329 original size:68 final size:66
Alignment explanation
Indices: 59269257--59269428 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
59269247 CATCATGTGT
* * * *
59269257 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
59269320 TGTAG
62 TGTAG
** * *
59269325 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
59269390 AG
65 AG
* * * *
59269392 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
59269429 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:59269362 original size:64 final size:64
Alignment explanation
Indices: 59269281--59269464 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
59269271 AGACATTATG
* * *
59269281 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
59269345 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59269410 AA
63 AA
* * *
59269412 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
59269465 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59272914 original size:30 final size:30
Alignment explanation
Indices: 59272880--59272940 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59272870 TTCCCGAGCC
59272880 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
59272910 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
59272940 T
1 T
59272941 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:59282306 original size:47 final size:47
Alignment explanation
Indices: 59282249--59282731 Score: 772
Period size: 47 Copynumber: 10.3 Consensus size: 47
59282239 GTATGAGATA
*
59282249 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
59282296 TATATATGTGACAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
59282343 TATATATGTGACAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
59282389 TATATATGTGAGAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
59282435 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
59282482 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
59282529 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
59282576 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
59282623 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
59282670 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
59282717 TATAAATGTGATAAG
1 TATATATGTGATAAG
59282732 TCCCGAAGCG
Statistics
Matches: 410, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 8 0.02
46 72 0.18
47 330 0.80
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:59282892 original size:37 final size:37
Alignment explanation
Indices: 59282849--59282931 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
59282839 CCGAGCTCTA
* *
59282849 AAGACCCGATGACTACGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGAGT
* *
59282886 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGAGT
*
59282923 AAGCCCCGA
1 AAGACCCGA
59282932 ACTAAAGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGAGT
Found at i:59290995 original size:40 final size:39
Alignment explanation
Indices: 59290950--59291079 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
59290940 CGGAATATAA
59290950 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
59290990 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59291030 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
59291070 CCGGATATAA
1 CCGGATATAA
59291080 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59291094 original size:40 final size:40
Alignment explanation
Indices: 59290966--59291117 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
59290956 ATAACCATGT
* * *
59290966 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
59291006 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
59291046 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
59291086 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
59291118 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:59291100 original size:80 final size:80
Alignment explanation
Indices: 59290966--59291115 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
59290956 ATAACCATGT
*
59290966 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
59291030 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
59291046 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
59291109 CCCGGAT
64 CCCGGAT
59291116 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:59299016 original size:38 final size:37
Alignment explanation
Indices: 59298969--59299077 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 37
59298959 TATAACACGT
*
59298969 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AATCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGCAA-CTA
*
59299007 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGA--TAGCAACTA
*
59299047 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
59299078 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
38 30 0.48
39 2 0.03
40 30 0.48
41 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGCAACTA
Found at i:59299095 original size:40 final size:40
Alignment explanation
Indices: 59298969--59299117 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
59298959 TATAACACGT
* *
59298969 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATCT-C-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* ** * *
59299007 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
59299047 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
59299087 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
59299118 CATTCAATTT
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
38 29 0.32
39 16 0.18
40 45 0.50
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:59301360 original size:27 final size:27
Alignment explanation
Indices: 59301298--59301391 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
59301288 ATAGTGAATC
59301298 CGCA-ACTTAGTGCTATA-TATCAGC-
1 CGCACACTTAGTGCTATATTATCAGCT
*
59301322 CGCACACTTAGTGCTATATTTTCAGCT
1 CGCACACTTAGTGCTATATTATCAGCT
* *
59301349 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATTATC-AGCT
59301377 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59301392 GTACAATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
24 4 0.06
25 13 0.21
26 6 0.10
27 21 0.34
28 18 0.29
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATTATCAGCT
Found at i:59301413 original size:30 final size:28
Alignment explanation
Indices: 59301297--59301420 Score: 96
Period size: 28 Copynumber: 4.5 Consensus size: 28
59301287 TATAGTGAAT
* *
59301297 CCGCA-ACTTAGTGCTATA-TATC--AG
1 CCGCACACTTAGTGCTATACAATCAAAC
*** *
59301321 CCGCACACTTAGTGCTATATTTTC-AGC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
59301348 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
59301376 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
59301406 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59301421 CAATCTTGTC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
24 5 0.06
25 13 0.16
26 3 0.04
27 21 0.25
28 22 0.27
30 19 0.23
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:59301416 original size:58 final size:52
Alignment explanation
Indices: 59301297--59301420 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 52
59301287 TATAGTGAAT
* * * *
59301297 CCGCA-ACTTAGTGCTATATATCAGCCGCACACTTAGTGCTATATTTTCAGC
1 CCGCACACTTAGTGCTATATATCAACCGCACACTTAGTGCTAAATTTTAAAC
*
59301348 TCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATAT-ATC-AAC-CGCACACTTAGTGC--TA-AATTTTAAAC
59301406 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
59301421 CAATCTTGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 4 0.07
52 14 0.23
53 3 0.05
54 2 0.03
55 14 0.23
57 2 0.03
58 21 0.35
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (52 bp):
CCGCACACTTAGTGCTATATATCAACCGCACACTTAGTGCTAAATTTTAAAC
Found at i:59309723 original size:29 final size:29
Alignment explanation
Indices: 59309690--59309791 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
59309680 GTGACGAGAT
*
59309690 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
59309719 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59309748 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59309777 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
59309792 GAGCTCGAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59309807 original size:29 final size:29
Alignment explanation
Indices: 59309690--59309851 Score: 107
Period size: 29 Copynumber: 5.6 Consensus size: 29
59309680 GTGACGAGAT
* **
59309690 TGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* * **
59309719 TGGCACTGAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* **
59309748 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
**
59309777 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTCGAAACGTA
** * * *
59309806 TGGCACTGTGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAA-CGTA
59309835 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
59309852 AATCGAGTAT
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.02
29 111 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTCGAAACGTA
Found at i:59309820 original size:58 final size:59
Alignment explanation
Indices: 59309686--59309812 Score: 179
Period size: 58 Copynumber: 2.2 Consensus size: 59
59309676 TACGGTGACG
* * *
59309686 AGAT-TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
*
59309743 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
* *
59309801 GGGTATGGCACT
1 AGATATGGCACT
59309813 GTGTGTGCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 3 0.05
58 57 0.93
59 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (59 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:59312904 original size:93 final size:90
Alignment explanation
Indices: 59312746--59312913 Score: 239
Period size: 93 Copynumber: 1.8 Consensus size: 90
59312736 CGCCCATAAG
* *
59312746 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACCATGAGTGAACTCAGACTCAACTCAACG
1 CGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCACCATAAGTGAACTCAGACTCAACTCAACG
59312811 AGTTCGGATGACTAGTTACATCCCA
66 AGTTCGGATGACTAGTTACATCCCA
* * * *
59312836 CGAACTCGGACTCAACTCAACAAGTTC-GGACATTTGCATCCATAAGTGAACTCGGATTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTCAGG-C-GTT-CA-CCATAAGTGAACTCAGACTCAACTC
59312900 AACGAGTTCGGATG
62 AACGAGTTCGGATG
59312914 CCCAACATCC
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 2 0.03
90 26 0.38
91 2 0.03
92 2 0.03
93 36 0.53
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (90 bp):
CGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCACCATAAGTGAACTCAGACTCAACTCAACG
AGTTCGGATGACTAGTTACATCCCA
Found at i:59320863 original size:28 final size:28
Alignment explanation
Indices: 59320794--59320894 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59320784 GACAAGATTG
* * * *
59320794 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
59320824 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59320852 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
59320881 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59320895 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59324856 original size:49 final size:49
Alignment explanation
Indices: 59324784--59324927 Score: 272
Period size: 49 Copynumber: 3.0 Consensus size: 49
59324774 ACATAATAGC
59324784 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
*
59324833 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
59324882 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATAT
59324928 GTGTGATATG
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
48 4 0.04
49 89 0.96
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
Found at i:59324955 original size:98 final size:99
Alignment explanation
Indices: 59324784--59325167 Score: 307
Period size: 96 Copynumber: 3.9 Consensus size: 99
59324774 ACATAATAGC
* *
59324784 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATA--TAT-ATATGTGATAAG-
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TATATGTGTGATATGT-ATATGT
* * * * *
59324845 GCCTAATGGCCG-ATGTGATGAATGTGAAA-GTGTAT-AT
64 G-GTAA-AGCCGAATG-GAT-AATGTGAAACATATATAAG
59324882 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATATATGTGTGATATGTATATGTGG
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATATATGTGTGATATGTATATGTGG
*
59324947 TAAAGCCGAATGGCTAATGTGAAACATATATAAG
66 TAAAGCCGAATGGATAATGTGAAACATATATAAG
* * * *
59324981 ATATGT-ATATGTG-GTAA-AGCCGAATG-GCT-AATGTGAAATATATGTGTGATATGTATATGT
1 ATATGTGATAAG-GCCTAATGGCCG-ATGTGATGAATGTGAAATATATGTGTGATATGTATATGT
* ** * * **
59325041 GGTAAAGCTGAATGTCTAATGTGAAATATATGTGTG
64 GGTAAAGCCGAATGGATAATGTGAAACATATATAAG
* * * * * * *
59325077 ATATGT-ATATGTG-GTAA-AGCCGAATG-GCT-AATGTGAAATATGTATGAGATATGTATATGT
1 ATATGTGATAAG-GCCTAATGGCCG-ATGTGATGAATGTGAAATATATGTGTGATATGTATATGT
* *
59325137 GGTAAAGCCGAATGGCTAATGTGAAATATAT
64 GGTAAAGCCGAATGGATAATGTGAAACATAT
59325168 GTGTGATATG
Statistics
Matches: 254, Mismatches: 23, Indels: 20
0.86 0.08 0.07
Matches are distributed among these distances:
96 147 0.58
97 19 0.07
98 61 0.24
99 20 0.08
100 7 0.03
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (99 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATATATGTGTGATATGTATATGTGG
TAAAGCCGAATGGATAATGTGAAACATATATAAG
Found at i:59324984 original size:48 final size:48
Alignment explanation
Indices: 59324914--59325209 Score: 511
Period size: 48 Copynumber: 6.2 Consensus size: 48
59324904 CGATGTGATG
59324914 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * **
59324962 AATGTGAAACATATATAAGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59325010 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCTGAATGTCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59325058 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * *
59325106 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59325154 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59325202 AATGTGAA
1 AATGTGAA
59325210 TGTTGTAACA
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 230 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:59325303 original size:37 final size:37
Alignment explanation
Indices: 59325249--59325376 Score: 204
Period size: 37 Copynumber: 3.4 Consensus size: 37
59325239 AACTTGGGAA
*
59325249 TATGTTCCGGGTG-AGACCCGATGACTACGTTTGGAGAT
1 TATG-TCCGGG-GAAGACCCGATGACTACGTGTGGAGAT
59325287 TATGTCCGGGGAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGGAAGACCCGATGACTACGTGTGGAGAT
*
59325324 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGGAAGACCCGATGACTACGTGTGGAGAT
*
59325361 TATGTCCGGGTAAGAC
1 TATGTCCGGGGAAGAC
59325377 TTCGTAATAA
Statistics
Matches: 87, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
36 1 0.01
37 82 0.94
38 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGGAAGACCCGATGACTACGTGTGGAGAT
Found at i:59326713 original size:38 final size:38
Alignment explanation
Indices: 59326662--59326738 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
59326652 ATTGATTCAT
59326662 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
* * *
59326700 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
59326738 T
1 T
59326739 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
Found at i:59328041 original size:12 final size:13
Alignment explanation
Indices: 59328019--59328047 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59328009 ATAATTACTC
59328019 AAATATGCTATGA
1 AAATATGCTATGA
59328032 AAAT-TGCTATGA
1 AAATATGCTATGA
59328044 AAAT
1 AAAT
59328048 GTATAAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (13 bp):
AAATATGCTATGA
Found at i:59329984 original size:15 final size:15
Alignment explanation
Indices: 59329964--59330005 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
59329954 ACTGTAAATG
59329964 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
59329979 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
*
59329994 AGATTTCCTTAT
1 GGATTTCCTTAT
59330006 TCTGGGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:59332786 original size:48 final size:48
Alignment explanation
Indices: 59332710--59332929 Score: 182
Period size: 48 Copynumber: 4.9 Consensus size: 48
59332700 TACCATGGTT
*
59332710 ATACGTGTAACGTGGTGCTAAGTGGATATAG-CAC-GATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATAT-GCCACAG-TTACACATATTG
*
59332758 ATACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACACATATTG
* * *
59332806 ATTCAT-TAACGTGGTGCTAAGTGGACAT---AC-----CAC-TGTT-
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACACATATTG
* * * *
59332843 AAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTATACATGTT-
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACACATATTG
** * * * *
59332890 A-ATTTGAAAAGTGGTGCTAAGTGCATATGCCACAATTACA
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACA
59332930 TGTTAGACCA
Statistics
Matches: 142, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
37 4 0.03
38 24 0.17
39 2 0.01
41 2 0.01
44 2 0.01
46 33 0.23
47 27 0.19
48 47 0.33
49 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACACATATTG
Found at i:59332854 original size:38 final size:38
Alignment explanation
Indices: 59332812--59332888 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
59332802 ATTGATTCAT
*
59332812 TAACGTGGTGCTAAGTGGACATACCACTGTTAAACATG
1 TAACGTGGTGCTAAGTGGACATACCACGGTTAAACATG
* * *
59332850 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGACATACCACGGTTAAACATG
59332888 T
1 T
59332889 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGACATACCACGGTTAAACATG
Found at i:59337297 original size:95 final size:92
Alignment explanation
Indices: 59337072--59337303 Score: 222
Period size: 95 Copynumber: 2.5 Consensus size: 92
59337062 GAATTGACGG
* * * *
59337072 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGAC
1 TTAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGACAAGGATACCATGTAAGAC
*
59337137 CATGTCAAGACATGGCATCGGCATTGA
66 CATGTCAAGACATGGCATCGGCATAGA
**
59337164 TTAAGGACT-CCATGTAAGACCACATCAA-G-ATGTTGCATTGGCACTAAGACAAGGATACCATG
1 TTAAGGA-TACCATGTAAGACCATGTCAAGGCATG--GCATTGG---TAAGACAAGGATACCATG
*** * *
59337226 TAAGACCATGTTTGGAACATGGCATTTGGTA-AGA
60 TAAGACCATGTCAAG-ACATGGCA-TCGGCATAGA
* * *
59337260 -TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TTAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAG
59337304 TTCTATAAGG
Statistics
Matches: 112, Mismatches: 17, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
90 3 0.03
92 35 0.31
93 1 0.01
94 1 0.01
95 54 0.48
96 11 0.10
97 7 0.06
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (92 bp):
TTAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGACAAGGATACCATGTAAGAC
CATGTCAAGACATGGCATCGGCATAGA
Done.