Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 47 of 56
Found at i:7970885 original size:301 final size:301
Alignment explanation
Indices: 7970343--7970948 Score: 1176
Period size: 301 Copynumber: 2.0 Consensus size: 301
7970333 TATAGTTAAA
*
7970343 AAGTTCTGAATAAAAAAGAATGAAAAGAAAAAAATTTGAAAAAAATGGCATATTTATCTTTGTAT
1 AAGTTCTGAATAAAAAAGAATGAAAAGAAAAAAAATTGAAAAAAATGGCATATTTATCTTTGTAT
7970408 TTAAAAATCAACTTATAAATAATACCTTAGTAGGGTTAGTGTATATTTTACCAAATTTTAGGGGT
66 TTAAAAATCAACTTATAAATAATACCTTAGTAGGGTTAGTGTATATTTTACCAAATTTTAGGGGT
*
7970473 AAATAATTGCTTTTCCAATTAAAGAGAGGTAAGATTTTTAACCAAACCCTAAAGGAGTAAATGTA
131 AAATAATTGCTTTTCCAACTAAAGAGAGGTAAGATTTTTAACCAAACCCTAAAGGAGTAAATGTA
7970538 CTTTTTATTTTTTAACATGATATTATCTTAAAAGATTATTTTTTAAATACACAAATTTATATATC
196 CTTTTTATTTTTTAACATGATATTATCTTAAAAGATTATTTTTTAAATACACAAATTTATATATC
7970603 AAACGAGCTCGAGCTCAAACTAAAGCTTGAATATATAAATC
261 AAACGAGCTCGAGCTCAAACTAAAGCTTGAATATATAAATC
7970644 AAGTTCTGAATAAAAAAGAATGAAAAGAAAAAAAATTGAAAAAAATGGCATATTTATCTTTGTAT
1 AAGTTCTGAATAAAAAAGAATGAAAAGAAAAAAAATTGAAAAAAATGGCATATTTATCTTTGTAT
*
7970709 TTAAAAATCAATTTATAAATAATACCTTAGTAGGGTTAGTGTATATTTTACCAAATTTTAGGGGT
66 TTAAAAATCAACTTATAAATAATACCTTAGTAGGGTTAGTGTATATTTTACCAAATTTTAGGGGT
7970774 AAATAATTGCTTTTCCAACTAAAGAGAGGTAAGATTTTTAACCAAACCCTAAAGGAGTAAATGTA
131 AAATAATTGCTTTTCCAACTAAAGAGAGGTAAGATTTTTAACCAAACCCTAAAGGAGTAAATGTA
*
7970839 CTTTTTATTTTTTAACATTATATTATCTTAAAAGATTATTTTTTAAATACACAAATTTATATATC
196 CTTTTTATTTTTTAACATGATATTATCTTAAAAGATTATTTTTTAAATACACAAATTTATATATC
7970904 AAACGAGCTCGAGCTCAAACTAAAGCTTGAATATATAAATC
261 AAACGAGCTCGAGCTCAAACTAAAGCTTGAATATATAAATC
7970945 AAGT
1 AAGT
7970949 AAAAGAGCTT
Statistics
Matches: 301, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
301 301 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (301 bp):
AAGTTCTGAATAAAAAAGAATGAAAAGAAAAAAAATTGAAAAAAATGGCATATTTATCTTTGTAT
TTAAAAATCAACTTATAAATAATACCTTAGTAGGGTTAGTGTATATTTTACCAAATTTTAGGGGT
AAATAATTGCTTTTCCAACTAAAGAGAGGTAAGATTTTTAACCAAACCCTAAAGGAGTAAATGTA
CTTTTTATTTTTTAACATGATATTATCTTAAAAGATTATTTTTTAAATACACAAATTTATATATC
AAACGAGCTCGAGCTCAAACTAAAGCTTGAATATATAAATC
Found at i:7971465 original size:20 final size:19
Alignment explanation
Indices: 7971437--7971479 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
7971427 TTACATAACG
* *
7971437 CTCACAACACTATTAAATAT
1 CTCAAAACACTATCAAAT-T
*
7971457 CTCAAAACATTATCAAATT
1 CTCAAAACACTATCAAATT
7971476 CTCA
1 CTCA
7971480 TTTGTGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (19 bp):
CTCAAAACACTATCAAATT
Found at i:7975781 original size:20 final size:20
Alignment explanation
Indices: 7975756--7975810 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
7975746 ATTTATCTGC
7975756 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
* *
7975776 ATGTATCGATACATTTATTA
1 ATGTATCGATACATTGAATA
7975796 ATGTATCGATACATT
1 ATGTATCGATACATT
7975811 CCCTTGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:7976915 original size:15 final size:16
Alignment explanation
Indices: 7976884--7976922 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7976874 TCTATTTTCC
*
7976884 TTCCTTTTCCTTCCAT
1 TTCCTTTCCCTTCCAT
7976900 TTCCTTTCCCTT-CAT
1 TTCCTTTCCCTTCCAT
*
7976915 TTCTTTTC
1 TTCCTTTC
7976923 TTTTCTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.59
Consensus pattern (16 bp):
TTCCTTTCCCTTCCAT
Found at i:7984791 original size:79 final size:78
Alignment explanation
Indices: 7984596--7984805 Score: 217
Period size: 79 Copynumber: 2.7 Consensus size: 78
7984586 ATATTTTGAA
* * * * * * **
7984596 GAAAA-AACAGGGTCGGAGAATCCCCGATGGTGAAAAGTCGATATTTTGGAAACAAAATTGGGGT
1 GAAAATAACAGGGTAGGAGTAT-CCCGATTGTGAAAAATCAATATTTTGAAAACAAAATCAGGGT
*
7984660 TGGAGTATCCCCTT
65 TGGAGTATCCCCTC
* * * *
7984674 GAAAATAATAGGGTAGGAGTATCCCTAATTGT-AGAAAATCAATGTTTTGAAAATAAAATCAGGG
1 GAAAATAACAGGGTAGGAGTATCCC-GATTGTGA-AAAATCAATATTTTGAAAACAAAATCAGGG
7984738 TTGGAGTATCCCCTC
64 TTGGAGTATCCCCTC
* * *
7984753 GAAAATAACAGGGTTGGAGTATCTTCGATTGTGAAAAATCGATATTTTAGAAA
1 GAAAATAACAGGGTAGGAGTATC-CCGATTGTGAAAAATCAATATTTT-GAAA
7984806 TGAAAACATG
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
78 9 0.08
79 92 0.86
80 6 0.06
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (78 bp):
GAAAATAACAGGGTAGGAGTATCCCGATTGTGAAAAATCAATATTTTGAAAACAAAATCAGGGTT
GGAGTATCCCCTC
Found at i:7991135 original size:13 final size:13
Alignment explanation
Indices: 7991117--7991168 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
7991107 AGCTTCGTAG
7991117 CGATACATTGTAT
1 CGATACATTGTAT
7991130 CGATACAAAGCTTATGTAT
1 CGATAC--A--TT--GTAT
7991149 CGATACATTGTAT
1 CGATACATTGTAT
7991162 CGATACA
1 CGATACA
7991169 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:7991149 original size:19 final size:18
Alignment explanation
Indices: 7991125--7991189 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
7991115 AGCGATACAT
7991125 TGTATCGATACAAAGCTTA
1 TGTATCGATACAAA-CTTA
7991144 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
7991157 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
7991176 TGTATCGATACAAA
1 TGTATCGATACAAA
7991190 TCATTGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 1 0.03
17 1 0.03
18 2 0.05
19 24 0.60
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:7991155 original size:32 final size:32
Alignment explanation
Indices: 7991117--7991187 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
7991107 AGCTTCGTAG
7991117 CGATACATTGTATCGATACAA-AGCTTATGTAT
1 CGATACATTGTATCGATACAACA-CTTATGTAT
7991149 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
7991181 CGATACA
1 CGATACA
7991188 AATCATTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 37 0.97
33 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:7991737 original size:13 final size:13
Alignment explanation
Indices: 7991719--7991745 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7991709 ACATTATGCT
7991719 TTGTATCGATACA
1 TTGTATCGATACA
7991732 TTGTATCGATACA
1 TTGTATCGATACA
7991745 T
1 T
7991746 GCACAATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:7991814 original size:13 final size:13
Alignment explanation
Indices: 7991796--7991820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7991786 TACCACTGTT
7991796 TGTATCGATACAA
1 TGTATCGATACAA
7991809 TGTATCGATACA
1 TGTATCGATACA
7991821 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7995854 original size:73 final size:73
Alignment explanation
Indices: 7995735--7995883 Score: 280
Period size: 73 Copynumber: 2.0 Consensus size: 73
7995725 AAATTTAGAA
* *
7995735 CAAGCATCACACAATGAGCAAGCTAAAAATGTTCAAAATGAAGAAGCTCCAAAAGAAGTTGATGA
1 CAAGCATCACACAAGGAGCAAGATAAAAATGTTCAAAATGAAGAAGCTCCAAAAGAAGTTGATGA
7995800 ACAAGAGC
66 ACAAGAGC
7995808 CAAGCATCACACAAGGAGCAAGATAAAAATGTTCAAAATGAAGAAGCTCCAAAAGAAGTTGATGA
1 CAAGCATCACACAAGGAGCAAGATAAAAATGTTCAAAATGAAGAAGCTCCAAAAGAAGTTGATGA
7995873 ACAAGAGC
66 ACAAGAGC
7995881 CAA
1 CAA
7995884 CTCAAATTGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.14
Consensus pattern (73 bp):
CAAGCATCACACAAGGAGCAAGATAAAAATGTTCAAAATGAAGAAGCTCCAAAAGAAGTTGATGA
ACAAGAGC
Found at i:7997958 original size:13 final size:13
Alignment explanation
Indices: 7997940--7997966 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7997930 ACAATATTCT
7997940 TTGTATCGATACA
1 TTGTATCGATACA
7997953 TTGTATCGATACA
1 TTGTATCGATACA
7997966 T
1 T
7997967 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:7998131 original size:20 final size:20
Alignment explanation
Indices: 7998093--7998132 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
7998083 TTTCAAATTT
7998093 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
7998114 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
7998133 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:8000468 original size:13 final size:13
Alignment explanation
Indices: 8000450--8000475 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8000440 CACACCCAGA
8000450 TGTATCGATACAT
1 TGTATCGATACAT
8000463 TGTATCGATACAT
1 TGTATCGATACAT
8000476 GCATAATTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8001545 original size:61 final size:61
Alignment explanation
Indices: 8001456--8002029 Score: 659
Period size: 61 Copynumber: 9.4 Consensus size: 61
8001446 AAAGGAAAGT
* **
8001456 GTCCTGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAA-GC
1 GTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGC
* * * * * **
8001517 ATCATACACTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGAACTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * * * *
8001578 ATCCTGCTTTTTAAGAACTGAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGCAAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
8001639 GTCCTGCTCTTTAAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * * * * *
8001700 GCCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTAGGCTTTAAAAGAAAAAAGT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
8001761 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
8001822 GTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAATGT
1 GTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
8001883 GTCCTACTCTTTGAGAATTGGAAGGTGCCAACAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
8001944 ATCCTGTTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
8002005 GTCATGCTCTATGAGAACTGAAAGG
1 GTCCTGCTCTTTGAGGACTGAAAGG
8002030 ATAAAAGGTT
Statistics
Matches: 428, Mismatches: 81, Indels: 8
0.83 0.16 0.02
Matches are distributed among these distances:
60 4 0.01
61 424 0.99
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:8001664 original size:122 final size:122
Alignment explanation
Indices: 8001388--8002029 Score: 723
Period size: 122 Copynumber: 5.2 Consensus size: 122
8001378 GAAATGAAGT
* * * * * *
8001388 GTGTCCTGCTCTATGAGGACTAAAAGGTGCGACCAACTTGTGTGGGCTTTAAAAGGAGAAAGGAA
1 GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAGG-C
* * **
8001453 AGTGTCCTGCTCTTTGGGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAA-
64 A---TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGA-AAAG
** * * * * * ** *
8001515 GCATCATACACTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGAACTTTAAAAGGAAAAGGCAT
1 GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * * * *
8001580 CCTGCTTTTTAAGAACTGAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGCAAAG
66 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAG
* * **
8001637 GTGTCCTGCTCTTTAAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGGGCGC
1 GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * * * *
8001702 CCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTAGGCTTTAAAAGAAAAAA
66 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAG
* **
8001759 GTGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGT
1 GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
*
8001824 CCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAT
66 CCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAG
* * * * *
8001881 GTGTCCTACTCTTTGAGAATTGGAAGGTGCCAACAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
* * *
8001946 CCTGTTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
66 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAG
** * * * *
8002003 ACGTCATGCTCTATGAGAACTGAAAGG
1 GTGTCCTGCTCTTTGAGGATTGAAAGG
8002030 ATAAAAGGTT
Statistics
Matches: 437, Mismatches: 74, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
121 4 0.01
122 379 0.87
123 2 0.00
125 1 0.00
126 5 0.01
127 46 0.11
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (122 bp):
GTGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCAT
CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAG
Found at i:8001714 original size:183 final size:181
Alignment explanation
Indices: 8001391--8002002 Score: 751
Period size: 183 Copynumber: 3.3 Consensus size: 181
8001381 ATGAAGTGTG
* * * *
8001391 TCCTGCTCTATGAGGACTAAAAGGTGCGACCAACTTGTGTGGGCTTTAAAAGGAGAAAGGAAAGT
1 TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAA-G---GT
* ** * *
8001456 GTCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCATCA
61 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAGAAAGCGTCC
* *
8001521 TACACTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGAACTTTAAAAGGAAAAGGCA
124 TACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCA
* * * * *
8001579 TCCTGCTTTTTAAGAACTGAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGGCAAAGGTGTCCT
1 TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCT
* * *
8001644 GCTCTTTAAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGGGCGCCCTACT
66 GCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA--GCGTCCTACT
* * * * * **
8001708 CTTTGAGGACTGAAAAGTGCCACCAACTTATGT-AGGCTTTAAAAGAAAAAAGTG
128 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGA-GCTTTAAAAGGAAAAGGCA
* * * *
8001762 TCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCT
1 TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCT
* * *
8001827 GCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAATGTGTCCTACTC
66 GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAA-GCGTCCTACTC
* * * *
8001892 TTTGAGAATTGGAAGGTGCCAACAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
129 TTTGAGGACTGGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCA
*
8001945 TCCTGTTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
8002003 ACGTCATGCT
Statistics
Matches: 359, Mismatches: 58, Indels: 19
0.82 0.13 0.04
Matches are distributed among these distances:
181 7 0.02
182 3 0.01
183 295 0.82
184 5 0.01
186 1 0.00
187 3 0.01
188 45 0.13
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (181 bp):
TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCT
GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCGTCCTACTCTT
TGAGGACTGGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCA
Found at i:8002955 original size:1 final size:1
Alignment explanation
Indices: 8002944--8003000 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
8002934 AAGTAGGTTC
* * * * * * *
8002944 TTTTCTTTTTTTTTCTTTATTTTTTTTATTTTTTTGTTTTTATTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8003001 AAGAAAAAGG
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.05, C:0.05, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:8002970 original size:23 final size:20
Alignment explanation
Indices: 8002944--8003000 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 20
8002934 AAGTAGGTTC
8002944 TTTTCTTTTTTTTTCTTTATTTT
1 TTTTCTTTTTTTTT-TTTA--TT
*
8002967 TTTTATTTTTTTGTTTTTATT
1 TTTTCTTTTTTT-TTTTTATT
8002988 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
8003001 AAGAAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 13 0.42
23 15 0.48
24 2 0.06
ACGTcount: A:0.05, C:0.05, G:0.02, T:0.88
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTTTATT
Found at i:8002983 original size:14 final size:13
Alignment explanation
Indices: 8002949--8002998 Score: 64
Period size: 14 Copynumber: 3.7 Consensus size: 13
8002939 GGTTCTTTTC
*
8002949 TTTTTTTTTCTTT
1 TTTTTTTTTATTT
*
8002962 ATTTTTTTTATTT
1 TTTTTTTTTATTT
8002975 TTTTGTTTTTATTT
1 TTTT-TTTTTATTT
8002989 TTTCTTTTTT
1 TTT-TTTTTT
8002999 TTAAGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 14 0.44
14 17 0.53
15 1 0.03
ACGTcount: A:0.06, C:0.04, G:0.02, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTATTT
Found at i:8015420 original size:79 final size:79
Alignment explanation
Indices: 8015331--8015481 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 79
8015321 AAAGTCGATA
*** * * * * *
8015331 TTTTGAAAATAAAATTGGGGTTGGAGTATCCCCTTAAAAATAAT-AGAGTTTGAGTATCCTCGAT
1 TTTTGAAAATAAAATCAAGGTTGGAATATCCCCTCAAAAATAATGAG-GTTGGAGTATCCCCAAT
8015395 TATGAAAAATTAGTG
65 TATGAAAAATTAGTG
* * *
8015410 TTTTGGAAATAAAATCAATGTTGGAATATCCCCTCAGAAATAATGAGGTTGGAGTATCCCCAATT
1 TTTTGAAAATAAAATCAAGGTTGGAATATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCAATT
8015475 ATGAAAA
66 ATGAAAA
8015482 TCGATATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 58 0.97
80 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (79 bp):
TTTTGAAAATAAAATCAAGGTTGGAATATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCAATT
ATGAAAAATTAGTG
Found at i:8022964 original size:2 final size:2
Alignment explanation
Indices: 8022957--8022981 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8022947 TAAAATATGC
8022957 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8022982 CACACATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8024785 original size:89 final size:89
Alignment explanation
Indices: 8024631--8024797 Score: 221
Period size: 89 Copynumber: 1.9 Consensus size: 89
8024621 ATGTTCATGA
* * * * **
8024631 TTAAATTATAATATTATTTGTAATATTAAGTTAAAAATAATTAATAAAAATTGACGTTACACAAT
1 TTAAATTATAATATAATTTATAATATTAAATTAAAAATAATTAATAAAAATTAAAATTACACAAT
*
8024696 TATAAATGTAATTTATATTAAATT
66 TATAAATGCAATTTATATTAAATT
*
8024720 TTAAATTAT-ATCATAATTTATAATATTAAATTAAAAATAATTAATAAAAATTAAAATTGA-TCA
1 TTAAATTATAAT-ATAATTTATAATATTAAATTAAAAATAATTAATAAAAATTAAAATT-ACACA
*
8024783 ATTATAGATGCAATT
64 ATTATAAATGCAATT
8024798 GATGTTTCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 2 0.03
89 64 0.96
90 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (89 bp):
TTAAATTATAATATAATTTATAATATTAAATTAAAAATAATTAATAAAAATTAAAATTACACAAT
TATAAATGCAATTTATATTAAATT
Found at i:8026753 original size:14 final size:15
Alignment explanation
Indices: 8026724--8026757 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8026714 AATTTATATA
8026724 TTATTTTTAAATATTT
1 TTATTTTT-AATATTT
8026740 TTATTTTT-ATATTT
1 TTATTTTTAATATTT
8026754 TTAT
1 TTAT
8026758 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
16 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTTAATATTT
Found at i:8028714 original size:2 final size:2
Alignment explanation
Indices: 8028709--8028734 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8028699 TAAAGCTATT
8028709 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8028735 ATTGAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8029290 original size:18 final size:18
Alignment explanation
Indices: 8029266--8029313 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
8029256 TGTGAATGGG
* *
8029266 ATAAAATTAATATATTAT
1 ATAAAATTAATAAATGAT
*
8029284 ATTAAATTTAATAAATGAT
1 A-TAAAATTAATAAATGAT
8029303 ATAAAATTAAT
1 ATAAAATTAAT
8029314 TAGTTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATAAAATTAATAAATGAT
Found at i:8029537 original size:37 final size:37
Alignment explanation
Indices: 8029489--8029625 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 37
8029479 TGTGAACTAT
*
8029489 GAATGAGATAAAATTAAAATATTATATTAAATTCAAA
1 GAATAAGATAAAATTAAAATATTATATTAAATTCAAA
* * **
8029526 GAATAAAATAAAATTAATTGATAATAATTTTTATATTATAAAT-AGT
1 GAATAAGATAAAATT-A---A-AAT-A---TTATATTA-AATTCAAA
*
8029572 GAATTAGATAAAATTAAAATATTATATTAAATTCAAA
1 GAATAAGATAAAATTAAAATATTATATTAAATTCAAA
8029609 GAATAAGATAAAATTAA
1 GAATAAGATAAAATTAA
8029626 TTGGTAATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
36 3 0.04
37 38 0.49
38 1 0.01
40 1 0.01
41 4 0.05
42 4 0.05
43 1 0.01
45 1 0.01
46 22 0.28
47 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.35
Consensus pattern (37 bp):
GAATAAGATAAAATTAAAATATTATATTAAATTCAAA
Found at i:8029537 original size:83 final size:84
Alignment explanation
Indices: 8029450--8029728 Score: 345
Period size: 83 Copynumber: 3.4 Consensus size: 84
8029440 AATAAATGAG
* ** * *
8029450 ATAAAATTAACTGGTGTTAATTTTTATAATGTGAACTA-TGAATGAGATAAAATTAAAATATTAT
1 ATAAAATTAATTGGTAATAATTTTTATATTATGAACTAGTGAATGAGATAAAATTAAAATATTAT
8029514 ATTAAATTCAAAGAATAAA
66 ATTAAATTCAAAGAATAAA
* * *
8029533 ATAAAATTAATTGATAATAATTTTTATATTAT-AAATAGTGAATTAGATAAAATTAAAATATTAT
1 ATAAAATTAATTGGTAATAATTTTTATATTATGAACTAGTGAATGAGATAAAATTAAAATATTAT
*
8029597 ATTAAATTCAAAGAATAAG
66 ATTAAATTCAAAGAATAAA
* **
8029616 ATAAAATTAATTGGTAATAATTTTTATATTATGAAC-AGTAAATGAGAT-AAATTAATTTATT-T
1 ATAAAATTAATTGGTAATAATTTTTATATTATGAACTAGTGAATGAGATAAAATTAAAATATTAT
* **
8029678 ATTAAAATTCAATGAATGGCA
66 ATT-AAATTCAAAGAAT-AAA
**
8029699 A-AAAATTAATTCATAATAATTTTTATATTA
1 ATAAAATTAATTGGTAATAATTTTTATATTA
8029729 GGAAAAAGCC
Statistics
Matches: 171, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
81 4 0.02
82 54 0.32
83 111 0.65
84 2 0.01
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.39
Consensus pattern (84 bp):
ATAAAATTAATTGGTAATAATTTTTATATTATGAACTAGTGAATGAGATAAAATTAAAATATTAT
ATTAAATTCAAAGAATAAA
Found at i:8029583 original size:46 final size:46
Alignment explanation
Indices: 8029526--8029672 Score: 118
Period size: 46 Copynumber: 3.4 Consensus size: 46
8029516 TAAATTCAAA
*
8029526 GAATAAAATAAAATTAATTGATAATAATTTTTATATTATAAATAGT
1 GAATAAGATAAAATTAATTGATAATAATTTTTATATTATAAATAGT
* * **
8029572 GAATTAGATAAAATT-A---A-AAT-A---TTATATTA-AATTCAAA
1 GAATAAGATAAAATTAATTGATAATAATTTTTATATTATAAAT-AGT
* * *
8029609 GAATAAGATAAAATTAATTGGTAATAATTTTTATATTATGAACAGT
1 GAATAAGATAAAATTAATTGATAATAATTTTTATATTATAAATAGT
* *
8029655 AAATGAGAT-AAATTAATT
1 GAATAAGATAAAATTAATT
8029673 TATTTATTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 23
0.67 0.12 0.20
Matches are distributed among these distances:
36 3 0.04
37 23 0.30
38 1 0.01
40 1 0.01
41 3 0.04
42 4 0.05
43 1 0.01
45 10 0.13
46 29 0.38
47 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (46 bp):
GAATAAGATAAAATTAATTGATAATAATTTTTATATTATAAATAGT
Found at i:8029992 original size:20 final size:20
Alignment explanation
Indices: 8029967--8030005 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8029957 ATAATATATT
8029967 AATTTTATT-ATTGCTTTTTG
1 AATTTTATTAATT-CTTTTTG
*
8029987 AATTTTTTTAATTCTTTTT
1 AATTTTATTAATTCTTTTT
8030006 AATAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (20 bp):
AATTTTATTAATTCTTTTTG
Found at i:8030129 original size:56 final size:50
Alignment explanation
Indices: 8030049--8030163 Score: 124
Period size: 56 Copynumber: 2.2 Consensus size: 50
8030039 ATAATAGAAA
** *
8030049 AATTTTATCAATTAATATTTTCTCATTCATTGAATTTAAAATTATTATAATATATT
1 AATTTTATCAAAAAATATTTTCTCATTCATT--ATTT----TTAATATAATATATT
*
8030105 AATTTTATCAAAAAAT-TTTCTCTCATTTATTATTTTTAATATAATATATT
1 AATTTTATCAAAAAATATTT-TCTCATTCATTATTTTTAATATAATATATT
8030155 AATTTTATC
1 AATTTTATC
8030164 TTATTCTCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
50 23 0.43
54 4 0.07
55 3 0.06
56 24 0.44
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (50 bp):
AATTTTATCAAAAAATATTTTCTCATTCATTATTTTTAATATAATATATT
Found at i:8030316 original size:232 final size:237
Alignment explanation
Indices: 8030034--8030539 Score: 747
Period size: 232 Copynumber: 2.2 Consensus size: 237
8030024 AAATTACCCA
*
8030034 AAAATATAATAGAAAAATT-TTATCAATTAATATTTTCTCATTCATTGAATTTAAAATTATTATA
1 AAAATATAATATAAAAATTATTATCAATTAATATTTTCTCATTCATTGAATTTAAAATTATTATA
* ** *
8030098 ATATATTAATTTTATCAAAAAATTTTCTCTCATTTATTATTTTT-A-AT-ATA-A-TATATTAAT
66 ATATATTAATTTTACCAAAAAATTTGATCTCATGTATTATTTTTAATATAATATATTATATTAAT
* * * * **
8030158 TTTATCTTATTCTCATTCACTGAATTTGATATTATATATTAAATTTATTCATTGCCTCTTGAATT
131 TTTATCTAATTATCATTCACTAAATTTAATATTATATATTAAATTTATTCATTAACTCTTGAATT
*
8030223 TTGTTTTAACTCTTTTTAATAAAATTTAAATTATTAAAATATT
196 TTATTTTAACT-TTTTTAATAAAATTTAAATTATTAAAATATT
*
8030266 -AAATATAATATAAAAATTATTATCAATTAATATTTTCTCATTCTTTGAATTTAAAATTATTATA
1 AAAATATAATATAAAAATTATTATCAATTAATATTTTCTCATTCATTGAATTTAAAATTATTATA
* ** *
8030330 ATATATTAATTTTACCGATGAATTTGATCTCATGTATTGTTTTTAATATAATATATTATATTAAT
66 ATATATTAATTTTACCAAAAAATTTGATCTCATGTATTATTTTTAATATAATATATTATATTAAT
* * *
8030395 TTTATCTAATTATCATTCATTAAATTTAATATTATATATTAATTTTATTCATTAATTCTTGAATT
131 TTTATCTAATTATCATTCACTAAATTTAATATTATATATTAAATTTATTCATTAACTCTTGAATT
8030460 TTATTTTAACTTTTTTAATAAAATTTAAATTATTAAAATATT
196 TTATTTTAACTTTTTTAATAAAATTTAAATTATTAAAATATT
* *
8030502 AAAAATATAATATAAAAATTATAACCAATTAATATTTT
1 -AAAATATAATATAAAAATTATTATCAATTAATATTTT
8030540 TTTCATTCGT
Statistics
Matches: 244, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
231 17 0.07
232 80 0.33
233 1 0.00
234 2 0.01
235 3 0.01
236 32 0.13
237 75 0.31
238 34 0.14
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (237 bp):
AAAATATAATATAAAAATTATTATCAATTAATATTTTCTCATTCATTGAATTTAAAATTATTATA
ATATATTAATTTTACCAAAAAATTTGATCTCATGTATTATTTTTAATATAATATATTATATTAAT
TTTATCTAATTATCATTCACTAAATTTAATATTATATATTAAATTTATTCATTAACTCTTGAATT
TTATTTTAACTTTTTTAATAAAATTTAAATTATTAAAATATT
Found at i:8030666 original size:24 final size:23
Alignment explanation
Indices: 8030633--8030692 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
8030623 ATTGTATCAA
* * *
8030633 TTAATTTTATTTTAGTTATTATAT
1 TTAATATTATTTTA-TAATAATAT
8030657 TTAATATTATTTTTATAATAATAT
1 TTAATATTA-TTTTATAATAATAT
8030681 TTATATATTATT
1 TTA-ATATTATT
8030693 ATAATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 20 0.65
25 11 0.35
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTAATATTATTTTATAATAATAT
Found at i:8030694 original size:22 final size:24
Alignment explanation
Indices: 8030653--8030705 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
8030643 TTTAGTTATT
*
8030653 ATATTTAATATTATTTTTATAA-TA
1 ATATTT-ATATTATTATTATAATTA
8030677 ATATTTATA-TATTATTATAATTA
1 ATATTTATATTATTATTATAATTA
8030700 A-ATTTA
1 ATATTTA
8030706 AATAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 15 0.56
23 6 0.22
24 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATATTTATATTATTATTATAATTA
Found at i:8031096 original size:13 final size:13
Alignment explanation
Indices: 8031080--8031104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8031070 AATATAATAT
8031080 ATTAATTTTATCA
1 ATTAATTTTATCA
8031093 ATTAATTTTATC
1 ATTAATTTTATC
8031105 TCACTCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTAATTTTATCA
Found at i:8031114 original size:50 final size:42
Alignment explanation
Indices: 8031103--8031189 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 42
8031093 ATTAATTTTA
* *
8031103 TCTCACTCATTATATTTAATAGAATATATTAATTTTATCTTAT
1 TCTCA-TCATTAAATTTAATATAATATATTAATTTTATCTTAT
* * *
8031146 TCTCATCTATTGAATTTAGTATAATATATTAATTTTATGTTAT
1 TCTCATC-ATTAAATTTAATATAATATATTAATTTTATCTTAT
8031189 T
1 T
8031190 TACAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (42 bp):
TCTCATCATTAAATTTAATATAATATATTAATTTTATCTTAT
Found at i:8031134 original size:37 final size:41
Alignment explanation
Indices: 8031093--8031183 Score: 109
Period size: 43 Copynumber: 2.3 Consensus size: 41
8031083 AATTTTATCA
8031093 ATTAATTTTATCTCA-CTCAT-TA-T-ATTTAATAGAATAT
1 ATTAATTTTATCTCATCTCATCTATTAATTTAATAGAATAT
* * *
8031130 ATTAATTTTATCTTATTCTCATCTATTGAATTTAGTATAATAT
1 ATTAATTTTATCTCA-TCTCATCTATT-AATTTAATAGAATAT
8031173 ATTAATTTTAT
1 ATTAATTTTAT
8031184 GTTATTTACA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 14 0.31
39 5 0.11
40 2 0.04
41 1 0.02
43 23 0.51
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (41 bp):
ATTAATTTTATCTCATCTCATCTATTAATTTAATAGAATAT
Found at i:8034110 original size:18 final size:17
Alignment explanation
Indices: 8034087--8034121 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
8034077 ATATATGGTA
8034087 AATAAAAATATCATATAT
1 AATAAAAAT-TCATATAT
8034105 AATAAAAATTCATATAT
1 AATAAAAATTCATATAT
8034122 GATTACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAAAATTCATATAT
Found at i:8035083 original size:21 final size:20
Alignment explanation
Indices: 8035059--8035100 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8035049 TGTGCAATGC
8035059 ATAATTAATATTTTAATATAT
1 ATAATTAAT-TTTTAATATAT
*
8035080 ATAATTAATTTTTAATTTAT
1 ATAATTAATTTTTAATATAT
8035100 A
1 A
8035101 AAAATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTAATTTTTAATATAT
Found at i:8035491 original size:21 final size:20
Alignment explanation
Indices: 8035467--8035508 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8035457 TGTGTGATGC
8035467 ATAATTAATATTTTAATATAT
1 ATAATTAAT-TTTTAATATAT
*
8035488 ATAATTAATTTTTAATTTAT
1 ATAATTAATTTTTAATATAT
8035508 A
1 A
8035509 AAAATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTAATTTTTAATATAT
Found at i:8035685 original size:73 final size:73
Alignment explanation
Indices: 8035591--8035737 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
8035581 AACCGTTCAA
8035591 ATTCTACTAAAAAGAATTAAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAA
1 ATTCTACTAAAAAGAATTAAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAA
8035656 ATTCAATG
66 ATTCAATG
*
8035664 ATTCTATTAAAAAGAATTAAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAA
1 ATTCTACTAAAAAGAATTAAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAA
*
8035729 ATTTAATG
66 ATTCAATG
8035737 A
1 A
8035738 ATGAGGTTAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (73 bp):
ATTCTACTAAAAAGAATTAAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAA
ATTCAATG
Found at i:8035761 original size:73 final size:72
Alignment explanation
Indices: 8035598--8035763 Score: 226
Period size: 73 Copynumber: 2.2 Consensus size: 72
8035588 CAAATTCTAC
*
8035598 TAAAAAGAATTAAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTCAAT
1 TAAAAAAAATT-AAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTCAAT
* *
8035663 GATTCTAT
65 GAATCGAT
* *
8035671 TAAAAAGAATTAAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTTAAT
1 TAAAAAAAATT-AAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTCAAT
8035736 GAAT-GAGGT
65 GAATCGA--T
8035745 TAAAATAAAATTAATATAT
1 TAAAA-AAAATTAA-ATAT
8035764 TATATTATAC
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
72 1 0.01
73 67 0.79
74 8 0.09
75 9 0.11
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.37
Consensus pattern (72 bp):
TAAAAAAAATTAAATATAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTCAATG
AATCGAT
Found at i:8036198 original size:21 final size:20
Alignment explanation
Indices: 8036174--8036215 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8036164 TGTACGATAC
8036174 ATAATTAATATTTTAATATAT
1 ATAATTAAT-TTTTAATATAT
*
8036195 ATAATTAATTTTTAATTTAT
1 ATAATTAATTTTTAATATAT
8036215 A
1 A
8036216 AACATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTAATTTTTAATATAT
Found at i:8036380 original size:73 final size:73
Alignment explanation
Indices: 8036298--8036434 Score: 247
Period size: 73 Copynumber: 1.9 Consensus size: 73
8036288 GTTTAAATTC
* *
8036298 TACTAAAAAGAATTAAAACGTAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTC
1 TACTAAAAAGAATTAAAACATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTC
8036363 AATGATTT
66 AATGATTT
*
8036371 TACTAAAAAGAATTAAAATATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATT
1 TACTAAAAAGAATTAAAACATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATT
8036435 TAATTAATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (73 bp):
TACTAAAAAGAATTAAAACATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTC
AATGATTT
Found at i:8036417 original size:32 final size:32
Alignment explanation
Indices: 8036381--8036446 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
8036371 TACTAAAAAG
8036381 AATTAAAATATAAT-TTAAAAAATAATTAATGA
1 AATTAAAATATAATATT-AAAAATAATTAATGA
* * **
8036413 AATTAATATATTATATTAAATTTAATTAATGA
1 AATTAAAATATAATATTAAAAATAATTAATGA
8036445 AA
1 AA
8036447 CTGAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (32 bp):
AATTAAAATATAATATTAAAAATAATTAATGA
Found at i:8036464 original size:73 final size:72
Alignment explanation
Indices: 8036299--8036466 Score: 205
Period size: 73 Copynumber: 2.3 Consensus size: 72
8036289 TTTAAATTCT
*
8036299 ACTAAAAAGAATTAAA-ACGTAATTTAAAAAGTAATTAATGAAATTAATATATTATATTAAATTC
1 ACTAAAAAGAATTAAATA--TAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTC
* ***
8036363 AATGATTTT
64 AATAATGAA
*
8036372 ACTAAAAAGAATTAAAATATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTTA
1 ACTAAAAAGAATT-AAATATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTCA
8036437 ATTAATGAA
65 A-TAATGAA
8036446 ACTGAAATAA-AATTAATATAT
1 ACT-AAA-AAGAATTAA-ATAT
8036467 TATATTATAC
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
73 58 0.70
74 11 0.13
75 12 0.14
76 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (72 bp):
ACTAAAAAGAATTAAATATAATTTAAAAAATAATTAATGAAATTAATATATTATATTAAATTCAA
TAATGAA
Found at i:8036881 original size:39 final size:35
Alignment explanation
Indices: 8036838--8036936 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 35
8036828 TAATTTAATG
* *
8036838 AAATTAATATATTATATTAAATTTAATGATTCTACTAAA
1 AAATTAATATATTATATTAAATTAAAT-AAT-TA--AAA
* * *
8036877 AAATTAAAATATAAT-TTAAA--AAATAATTAATA
1 AAATTAATATATTATATTAAATTAAATAATTAAAA
*
8036909 AAATTAATATATTATATTAAATTCAATA
1 AAATTAATATATTATATTAAATTAAATA
8036937 GATGAGGTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
32 15 0.31
33 5 0.10
34 2 0.04
35 6 0.12
36 3 0.06
38 5 0.10
39 13 0.27
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (35 bp):
AAATTAATATATTATATTAAATTAAATAATTAAAA
Found at i:8037351 original size:202 final size:200
Alignment explanation
Indices: 8037126--8037744 Score: 883
Period size: 197 Copynumber: 3.1 Consensus size: 200
8037116 TTATATATTA
* *
8037126 TATATATATATATATTAAATTTAATGAATGAGATAAAATTAATTGATAATAATTTTTATACTATA
1 TATATATATATATATTAAATTTAATGAATGAGATAAAATTAATTGATAATAACTTTTATATTATA
* *
8037191 AATAGTGAATGAGATAAATTAATATTTTTATTAAAATTTAATAAATAAATAAAACTAATTAATAA
66 AATAGTGAATGAGATAAGTTAATATTTTTATTAAAATTTAATAAATAAATAAAACTAATTAGTAA
* *
8037256 TAATTTTTATATCGTGATAAAATTGTTGTGACAAAAACTATAACAGATGTTAACATTTATGTTAG
131 TAATTTTTATATTGTGATAAAA---TTG-GACAAAAACTATAATAGATGTTAACATTTATGTTAG
8037321 AAACTGTAT
192 AAACTGTAT
* **
8037330 TATATATATAT-TA-TAAATTTAATAAATGAGATAAAATTAATTGATAATAACTTCGATATTATA
1 TATATATATATATATTAAATTTAATGAATGAGATAAAATTAATTGATAATAACTTTTATATTATA
* * *
8037393 AATATTGAATGAGATAAGTTAATATTTTTATTAAAATTCAATAAATAGGATAAAACTAATTAGTA
66 AATAGTGAATGAGATAAGTTAATATTTTTATTAAAATTTAATAAATA-AATAAAACTAATTAGTA
* * * * *
8037458 ATAATTTTTATATTGAGATAAAA---CACAAAAA-TCATAATAAATATTAATATTTATGTTAGAA
130 ATAATTTTTATATTGTGATAAAATTGGACAAAAACT-ATAATAGATGTTAACATTTATGTTAGAA
*
8037519 ATTGTAT
194 ACTGTAT
* *
8037526 T-TATATATATATATTAAATTTAATGAATAAGATAAAATTAATTGGTAATAACTTTTATATTATA
1 TATATATATATATATTAAATTTAATGAATGAGATAAAATTAATTGATAATAACTTTTATATTATA
8037590 AATAGTGAATGAGATAAGTTAATATTTTTATTAAAATTTAATAAATAAGATAAAACTAATTAGTA
66 AATAGTGAATGAGATAAGTTAATATTTTTATTAAAATTTAATAAATAA-ATAAAACTAATTAGTA
*
8037655 ATAATTTTTATATTGTGATAAAAGCATTGCGACAAAAACTATAATAGATGTTAACACTTATGTTA
130 ATAATTTTTATATTGTGAT-AAA--ATTG-GACAAAAACTATAATAGATGTTAACATTTATGTTA
*
8037720 TAAACTGTAT
191 GAAACTGTAT
*
8037730 TTTATATATATATAT
1 TATATATATATATAT
8037745 ATATATTATT
Statistics
Matches: 367, Mismatches: 34, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
195 10 0.03
196 40 0.11
197 124 0.34
198 3 0.01
200 1 0.00
202 89 0.24
203 38 0.10
204 48 0.13
205 14 0.04
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (200 bp):
TATATATATATATATTAAATTTAATGAATGAGATAAAATTAATTGATAATAACTTTTATATTATA
AATAGTGAATGAGATAAGTTAATATTTTTATTAAAATTTAATAAATAAATAAAACTAATTAGTAA
TAATTTTTATATTGTGATAAAATTGGACAAAAACTATAATAGATGTTAACATTTATGTTAGAAAC
TGTAT
Found at i:8037838 original size:13 final size:13
Alignment explanation
Indices: 8037820--8037844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8037810 ATATAAATGG
8037820 GTAAATAAAAAAA
1 GTAAATAAAAAAA
8037833 GTAAATAAAAAA
1 GTAAATAAAAAA
8037845 TTAATTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
GTAAATAAAAAAA
Found at i:8038889 original size:3 final size:3
Alignment explanation
Indices: 8038881--8038909 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8038871 TTTGTGGGGT
8038881 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8038910 GGACATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8040389 original size:18 final size:18
Alignment explanation
Indices: 8040366--8040400 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8040356 GGGGCAAATA
*
8040366 TGAACAATCATATGACTC
1 TGAACAATCATACGACTC
8040384 TGAACAATCATACGACT
1 TGAACAATCATACGACT
8040401 GGATCCTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (18 bp):
TGAACAATCATACGACTC
Found at i:8050347 original size:12 final size:12
Alignment explanation
Indices: 8050330--8050394 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
8050320 TCCGAAACAA
*
8050330 ATATATATATAT
1 ATATATACATAT
* *
8050342 ATATATACACAC
1 ATATATACATAT
*
8050354 ATATATACACAT
1 ATATATACATAT
*
8050366 ATATATACATGT
1 ATATATACATAT
*
8050378 ATACATACATAT
1 ATATATACATAT
8050390 ATATA
1 ATATA
8050395 GAATAAAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (12 bp):
ATATATACATAT
Found at i:8054745 original size:19 final size:19
Alignment explanation
Indices: 8054721--8054761 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8054711 AAATATATGT
8054721 TTATTTATAGTCAAATTAC
1 TTATTTATAGTCAAATTAC
8054740 TTATTTATAGTCAAATTAC
1 TTATTTATAGTCAAATTAC
8054759 TTA
1 TTA
8054762 GTAAACAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
TTATTTATAGTCAAATTAC
Found at i:8061450 original size:60 final size:60
Alignment explanation
Indices: 8061316--8061450 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
8061306 GCCTAGATAT
*
8061316 AACCAAAAACCTAAACAATGATCTAAGTGAAACCAAGACTCAACAATATGGTCTGGATGA
1 AACCAAAAACCTAAACAATGATCTAAGTGAAACAAAGACTCAACAATATGGTCTGGATGA
* * * **
8061376 AACTAGAAATCTAAACAATGA-CTTAAGTGAATTAAAGACTCAAC-ATAATGG-CTTGGATGA
1 AACCAAAAACCTAAACAATGATC-TAAGTGAAACAAAGACTCAACAAT-ATGGTC-TGGATGA
8061436 AACCAAAAACCTAAA
1 AACCAAAAACCTAAA
8061451 TAAATATTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
59 4 0.06
60 59 0.94
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (60 bp):
AACCAAAAACCTAAACAATGATCTAAGTGAAACAAAGACTCAACAATATGGTCTGGATGA
Found at i:8062258 original size:20 final size:20
Alignment explanation
Indices: 8062227--8062283 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
8062217 GTCAAAACCC
*
8062227 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
8062247 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
8062267 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
8062284 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:8062287 original size:13 final size:13
Alignment explanation
Indices: 8062269--8062297 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8062259 ATACAGATTG
8062269 CATTGTATCGATA
1 CATTGTATCGATA
8062282 CATTGTATCGATA
1 CATTGTATCGATA
8062295 CAT
1 CAT
8062298 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:8062310 original size:20 final size:21
Alignment explanation
Indices: 8062285--8062337 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
8062275 ATCGATACAT
**
8062285 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
8062305 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
8062326 TGTATCGATACA
1 TGTATCGATACA
8062338 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:8062413 original size:20 final size:20
Alignment explanation
Indices: 8062370--8062421 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
8062360 TAGCCAAACT
**
8062370 TGTATCGATACA-CACAGTA
1 TGTATCGATACATCACAAAA
*
8062389 TGTATCGATACATCATAAAA
1 TGTATCGATACATCACAAAA
*
8062409 TGTATCAATACAT
1 TGTATCGATACAT
8062422 TGGCTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:8068574 original size:13 final size:13
Alignment explanation
Indices: 8068556--8068580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8068546 TAGCATTCTC
8068556 TGTATCGATACAT
1 TGTATCGATACAT
8068569 TGTATCGATACA
1 TGTATCGATACA
8068581 AAGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8071058 original size:20 final size:20
Alignment explanation
Indices: 8071033--8071083 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8071023 ACCCTAAAAA
*
8071033 GTATCGATACACATTTAAAT
1 GTATCGATACACATTGAAAT
* * *
8071053 GTATCGATACAGATTGCATT
1 GTATCGATACACATTGAAAT
8071073 GTATCGATACA
1 GTATCGATACA
8071084 TTGTATCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACACATTGAAAT
Found at i:8071087 original size:13 final size:13
Alignment explanation
Indices: 8071069--8071097 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8071059 ATACAGATTG
8071069 CATTGTATCGATA
1 CATTGTATCGATA
8071082 CATTGTATCGATA
1 CATTGTATCGATA
8071095 CAT
1 CAT
8071098 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:8071232 original size:33 final size:32
Alignment explanation
Indices: 8071169--8071236 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
8071159 GTAGCCAAAC
** *
8071169 TTGTATCGATACACACAGTATGTATTGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
8071201 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
8071234 TTG
1 TTG
8071237 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:8072935 original size:8 final size:8
Alignment explanation
Indices: 8072914--8072954 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
8072904 GACGTAATTG
8072914 AAAAATAA
1 AAAAATAA
**
8072922 TCAAATAA
1 AAAAATAA
8072930 AAAAATAA
1 AAAAATAA
*
8072938 AAGAATAA
1 AAAAATAA
8072946 AAAAATAA
1 AAAAATAA
8072954 A
1 A
8072955 GATGACTGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:8073312 original size:55 final size:55
Alignment explanation
Indices: 8073211--8073354 Score: 173
Period size: 55 Copynumber: 2.6 Consensus size: 55
8073201 TTTGCATGGA
* *
8073211 AAAACCAATGGAAAT-GAGAGCAACTAAGCATAGTGCCACCCCTATTCTACATAGT
1 AAAACCAATGGAAATAG-GAGCAACTAAGCATAGTGCCACCACTATTCTACATAGC
** * * *
8073266 GGAACCAATGGAAATAGGAGCAACTAAGCATAGTGCCACCATTATTCTGCATGGC
1 AAAACCAATGGAAATAGGAGCAACTAAGCATAGTGCCACCACTATTCTACATAGC
* * * *
8073321 AAAACCAATGGAAATAAGAGTAATTGAGCATAGT
1 AAAACCAATGGAAATAGGAGCAACTAAGCATAGT
8073355 ACTTAAAGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
55 74 0.99
56 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (55 bp):
AAAACCAATGGAAATAGGAGCAACTAAGCATAGTGCCACCACTATTCTACATAGC
Found at i:8075444 original size:3 final size:3
Alignment explanation
Indices: 8075436--8075466 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8075426 TATTTTTTAA
8075436 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8075467 ATAAAATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:8075469 original size:9 final size:8
Alignment explanation
Indices: 8075433--8075474 Score: 57
Period size: 9 Copynumber: 4.9 Consensus size: 8
8075423 ATTTATTTTT
8075433 TAAAATAA
1 TAAAATAA
8075441 TAATAATAA
1 TAA-AATAA
8075450 TAATAATAA
1 TAA-AATAA
8075459 TAAAATAAA
1 TAAAAT-AA
8075468 TAAAATA
1 TAAAATA
8075475 TCTCTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.22
9 25 0.78
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
TAAAATAA
Found at i:8077261 original size:17 final size:17
Alignment explanation
Indices: 8077230--8077273 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
8077220 TACTCTAACA
*
8077230 TTTTTCCATTT-TTTTTG
1 TTTTTCC-TTTCTTTTTC
*
8077247 TTTTTTCTTTCTTTTTC
1 TTTTTCCTTTCTTTTTC
8077264 TTTTTCCTTT
1 TTTTTCCTTT
8077274 TTTAATTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTCCTTTCTTTTTC
Found at i:8080472 original size:20 final size:20
Alignment explanation
Indices: 8080447--8080512 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
8080437 GTTTGGGACA
8080447 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
8080467 ATGTATCGATAC-A----T-
1 ATGTATCGATACAATTCTTC
*
8080481 -TGTATCAATACAATTCTTC
1 ATGTATCGATACAATTCTTC
8080500 ATGTATCGATACA
1 ATGTATCGATACA
8080513 TTGTATCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 23 0.62
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:8080492 original size:33 final size:33
Alignment explanation
Indices: 8080448--8080527 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
8080438 TTTGGGACAA
8080448 TGTATCGATACAATTCTTCATGTATCGATACAT
1 TGTATCGATACAATTCTTCATGTATCGATACAT
*
8080481 TGTATCAATACAATTCTTCATGTATCGATACAT
1 TGTATCGATACAATTCTTCATGTATCGATACAT
8080514 TGTATCGATACAAT
1 TGTATCGATACAAT
8080528 ATGCCATGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATTCTTCATGTATCGATACAT
Found at i:8080519 original size:13 final size:13
Alignment explanation
Indices: 8080501--8080525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8080491 CAATTCTTCA
8080501 TGTATCGATACAT
1 TGTATCGATACAT
8080514 TGTATCGATACA
1 TGTATCGATACA
8080526 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8080536 original size:33 final size:32
Alignment explanation
Indices: 8080448--8080545 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 32
8080438 TTTGGGACAA
8080448 TGTATCGATACAATTCTTCATGTATCGATACAT
1 TGTATCGATACAATTC-TCATGTATCGATACAT
*
8080481 TGTATCAATACAATTCTTCATGTATCGATACAT
1 TGTATCGATACAATTC-TCATGTATCGATACAT
*
8080514 TGTATCGATACAATATGC-CATGTATTGATACA
1 TGTATCGATACAAT-T-CTCATGTATCGATACA
8080546 AAAGTGGTAG
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
33 58 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAATTCTCATGTATCGATACAT
Found at i:8080618 original size:19 final size:19
Alignment explanation
Indices: 8080573--8080646 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
8080563 ACTGTCAGTT
8080573 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
8080592 TGCATGTATCGATATAATGA
1 T-CATGTATCGATACAATGA
*
8080612 TCATGTATCGATACAAAGAA
1 TCATGTATCGATACAATG-A
*
8080632 TTATGTATCGATACA
1 TCATGTATCGATACA
8080647 TCTGGATATG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:8089624 original size:20 final size:20
Alignment explanation
Indices: 8089599--8089653 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
8089589 AAAATGCCTG
8089599 AATGTATCGATACATTGTA-A
1 AATGTATCGATACATTG-AGA
* *
8089619 AATGTATCGATACAATGAGC
1 AATGTATCGATACATTGAGA
8089639 AATGTATCGATACAT
1 AATGTATCGATACAT
8089654 CTGGGTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAGA
Found at i:8089689 original size:13 final size:13
Alignment explanation
Indices: 8089671--8089695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8089661 AACCCAGAAT
8089671 GTATCGATACAAA
1 GTATCGATACAAA
8089684 GTATCGATACAA
1 GTATCGATACAA
8089696 TGAACAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAA
Found at i:8091788 original size:15 final size:15
Alignment explanation
Indices: 8091770--8091806 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8091760 CGAGTCAACT
8091770 TCATCATTATCATCA
1 TCATCATTATCATCA
* *
8091785 TCATCATTATTATCT
1 TCATCATTATCATCA
8091800 TCATCAT
1 TCATCAT
8091807 CTTTGATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:8091796 original size:18 final size:18
Alignment explanation
Indices: 8091770--8091807 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8091760 CGAGTCAACT
8091770 TCATCATTATCATCATCA
1 TCATCATTATCATCATCA
* *
8091788 TCATTATTATCTTCATCA
1 TCATCATTATCATCATCA
8091806 TC
1 TC
8091808 TTTGATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (18 bp):
TCATCATTATCATCATCA
Found at i:8093460 original size:33 final size:33
Alignment explanation
Indices: 8093406--8093468 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
8093396 TTTGGAACAA
* *
8093406 TGTATCGATACAATTCTTCATGTATTGATATAT
1 TGTATCGATACAATTCGTCATGTATCGATATAT
8093439 TGTATCGATACAATGT-GTCATGTATCGATA
1 TGTATCGATACAAT-TCGTCATGTATCGATA
8093469 CAAACAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATTCGTCATGTATCGATATAT
Found at i:8093544 original size:19 final size:18
Alignment explanation
Indices: 8093499--8093556 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
8093489 ACTGTCAGTT
8093499 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
8093518 TGCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
8093537 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
8093556 T
1 T
8093557 ATGGATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:8098664 original size:24 final size:25
Alignment explanation
Indices: 8098629--8098677 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
8098619 GTTGACTTAT
*
8098629 AAAATTTCACAAA-AAATATTTTGA
1 AAAATTTCACAAATAAAAATTTTGA
*
8098653 AAAATTTTACAAATAAAAATTTTGA
1 AAAATTTCACAAATAAAAATTTTGA
8098678 CTATCATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAATTTCACAAATAAAAATTTTGA
Found at i:8099298 original size:20 final size:20
Alignment explanation
Indices: 8099256--8099299 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
8099246 TGAAAACTTA
* *
8099256 TTTAAATTTTTGCTTAACAT
1 TTTAAATTATTGATTAACAT
8099276 TTTAAATTATTGATTGAAC-T
1 TTTAAATTATTGATT-AACAT
8099296 TTTA
1 TTTA
8099300 TAATGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTAAATTATTGATTAACAT
Found at i:8103130 original size:19 final size:18
Alignment explanation
Indices: 8103083--8103131 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
8103073 TTTTTAGCTT
8103083 AATATATTTTAAAAATAA
1 AATATATTTTAAAAATAA
* *
8103101 AATTATTTTTTAAATATATA
1 AA-TATATTTTAAAAATA-A
*
8103121 TATATATTTTA
1 AATATATTTTA
8103132 CCTACTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATATTTTAAAAATAA
Found at i:8103497 original size:14 final size:14
Alignment explanation
Indices: 8103477--8103515 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
8103467 AATTATTAAA
*
8103477 ATTAAAAAT-TATT
1 ATTAAAAATATTTT
8103490 ATTAAAAATATTTT
1 ATTAAAAATATTTT
8103504 ATTAAAATATAT
1 ATTAAAA-ATAT
8103516 ATAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 10 0.43
15 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTAAAAATATTTT
Found at i:8103510 original size:13 final size:14
Alignment explanation
Indices: 8103477--8103513 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
8103467 AATTATTAAA
8103477 ATTAAAA-ATTATT
1 ATTAAAATATTATT
8103490 ATTAAAAATATT-TT
1 ATT-AAAATATTATT
8103504 ATTAAAATAT
1 ATTAAAATAT
8103514 ATATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTAAAATATTATT
Found at i:8103543 original size:27 final size:28
Alignment explanation
Indices: 8103476--8103544 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
8103466 AAATTATTAA
* *
8103476 AATTAAAAATTAT-TATTAAAAATATTT
1 AATTAAAAATTATATAATAAAAATATAT
* *
8103503 TATT-AAAATATATATAATAATAATA-AT
1 AATTAAAAAT-TATATAATAAAAATATAT
8103530 AATTAAAAATTATAT
1 AATTAAAAATTATAT
8103545 TTATGTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.15
27 15 0.44
28 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AATTAAAAATTATATAATAAAAATATAT
Found at i:8103560 original size:16 final size:15
Alignment explanation
Indices: 8103488--8103579 Score: 66
Period size: 14 Copynumber: 6.3 Consensus size: 15
8103478 TTAAAAATTA
*
8103488 TTATTAAAAATAT-T
1 TTATTAAAATTATAT
8103502 TTATTAAAA-TATAT
1 TTATTAAAATTATAT
* * * *
8103516 ATAATAATAATAATAA
1 TTATTAA-AATTATAT
8103532 TTA--AAAATTATAT
1 TTATTAAAATTATAT
* *
8103545 TTATGTTAAATAATAT
1 TTAT-TAAAATTATAT
*
8103561 ATATTAAAATTATAT
1 TTATTAAAATTATAT
8103576 TTAT
1 TTAT
8103580 ATTGAATAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
13 12 0.20
14 17 0.29
15 14 0.24
16 16 0.27
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
TTATTAAAATTATAT
Found at i:8103573 original size:31 final size:32
Alignment explanation
Indices: 8103471--8103599 Score: 112
Period size: 31 Copynumber: 4.2 Consensus size: 32
8103461 AGGATAAATT
* * * *
8103471 ATTAAAATTAAAAATTATTATTAAA-AATATTTT
1 ATTAAAATT-ATATTTA-TATTAAATAATATATA
*
8103504 ATTAAAA-TATA--TATAAT-AATAATA-ATA
1 ATTAAAATTATATTTATATTAAATAATATATA
*
8103531 ATTAAAAATTATATTTATGTTAAATAATATAT-
1 ATT-AAAATTATATTTATATTAAATAATATATA
*
8103563 ATTAAAATTATATTTATATTGAATAA-ATATA
1 ATTAAAATTATATTTATATTAAATAATATATA
8103594 ATTAAA
1 ATTAAA
8103600 CTATTGAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
27 6 0.08
28 11 0.14
29 6 0.08
30 4 0.05
31 33 0.41
32 11 0.14
33 9 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (32 bp):
ATTAAAATTATATTTATATTAAATAATATATA
Found at i:8103668 original size:16 final size:16
Alignment explanation
Indices: 8103618--8103670 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
8103608 ATTATATTTG
*
8103618 TTTAAGAAATAA-ATT
1 TTTAAAAAATAATATT
**
8103633 TAAAAATAAATAATTATT
1 TTTAAA-AAATAA-TATT
8103651 TTTAAAAAATAATATT
1 TTTAAAAAATAATATT
8103667 TTTA
1 TTTA
8103671 TTATGTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 14 0.47
17 6 0.20
18 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAAAAAATAATATT
Found at i:8105865 original size:2 final size:2
Alignment explanation
Indices: 8105858--8105887 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8105848 CTTGTGCATT
8105858 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8105888 CATAGATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8107238 original size:15 final size:16
Alignment explanation
Indices: 8107218--8107253 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
8107208 CAAAGACACA
8107218 ATAAAAT-TATATAAT
1 ATAAAATATATATAAT
8107233 ATAAAATAATATATAAT
1 ATAAAAT-ATATATAAT
8107250 ATAA
1 ATAA
8107254 TATAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
17 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAAATATATATAAT
Found at i:8107247 original size:17 final size:17
Alignment explanation
Indices: 8107225--8107258 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8107215 ACAATAAAAT
8107225 TATATAATATAAAATAA
1 TATATAATATAAAATAA
*
8107242 TATATAATATAATATAA
1 TATATAATATAAAATAA
8107259 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATATAATATAAAATAA
Found at i:8107252 original size:22 final size:19
Alignment explanation
Indices: 8107226--8107270 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
8107216 CAATAAAATT
8107226 ATATAATATAAAATAATATATA
1 ATATAATAT-AAATAA-ATA-A
8107248 ATATAATATAAATAAATAA
1 ATATAATATAAATAAATAA
8107267 ATAT
1 ATAT
8107271 TGATGTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 3 0.13
21 6 0.26
22 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATATAATATAAATAAATAA
Found at i:8107336 original size:26 final size:24
Alignment explanation
Indices: 8107277--8107336 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
8107267 ATATTGATGT
8107277 AAATTTTATATAGATATAAAATAA
1 AAATTTTATATAGATATAAAATAA
8107301 AAATTTTATATAGATATAAAATAA
1 AAATTTTATATAGATATAAAATAA
8107325 AAATTTTATATA
1 AAATTTTATATA
8107337 ATAAAATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
AAATTTTATATAGATATAAAATAA
Found at i:8108373 original size:2 final size:2
Alignment explanation
Indices: 8108366--8108396 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8108356 ATTCTTTACT
8108366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8108397 GCATGGACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8109436 original size:14 final size:15
Alignment explanation
Indices: 8109412--8109446 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
8109402 CCTGAATTTT
8109412 AATAGAAAAATAAAA
1 AATAGAAAAATAAAA
8109427 AATA-AAAAATAAAA
1 AATAGAAAAATAAAA
*
8109441 GATAGA
1 AATAGA
8109447 GTCCCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (15 bp):
AATAGAAAAATAAAA
Found at i:8109773 original size:2 final size:2
Alignment explanation
Indices: 8109768--8109833 Score: 56
Period size: 2 Copynumber: 36.5 Consensus size: 2
8109758 ATTATTAAAT
*
8109768 TA TA TA TA TA TA TA TA TG T- TA TA TA -A TA TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
8109806 TA TA TA -A AA TA TA T- TA -A TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8109834 GTTTTCTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
1 7 0.13
2 46 0.87
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:8109791 original size:19 final size:18
Alignment explanation
Indices: 8109767--8109833 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
8109757 AATTATTAAA
8109767 TTATATATATATATATAT
1 TTATATATATATATATAT
8109785 GTTATATA-ATATATA-A-
1 -TTATATATATATATATAT
* *
8109801 TAATATATATAAAATATAT
1 TTATATATAT-ATATATAT
* *
8109820 TAATATAAATATAT
1 TTATATATATATAT
8109834 GTTTTCTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 6 0.15
16 2 0.05
17 5 0.12
18 11 0.28
19 16 0.40
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (18 bp):
TTATATATATATATATAT
Found at i:8111902 original size:89 final size:90
Alignment explanation
Indices: 8111791--8112101 Score: 371
Period size: 89 Copynumber: 3.5 Consensus size: 90
8111781 GAATTTGATA
*
8111791 CATATATGCATCTATCACATCTTTCGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTT
1 CATATA-GCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTT
*
8111856 CGTCGTGTCAGAAGAAATCTGATACC
65 CGTCGTGTCAGAAGGAATCTGATACC
* * * *
8111882 C-TCA-AGCATCTGTCATATCTTTCGGGTTCCAAGAAATTTATTAGACATTAATCAAATATTTTT
1 CAT-ATAGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTT
* *
8111945 CGTCATGTCAAAAGGAATCTGATACC
65 CGTCGTGTCAGAAGGAATCTGATACC
* * * * * * * *
8111971 CATATA-CATTTGTCACATCATTCGAGTTTCAAGAATTTTATTAAGCAGTAGCCAACTATTTTTC
1 CATATAGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTTC
* *
8112035 GTCGTGTCAGAAGGAATCTAATACT
66 GTCGTGTCAGAAGGAATCTGATACC
* * * *
8112060 TATATA-CATATGTCACATCTTTCGAGTTCCAA-AAATTTATTA
1 CATATAGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTA
8112102 CGAAAAAAAT
Statistics
Matches: 188, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
88 9 0.05
89 173 0.92
90 4 0.02
91 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (90 bp):
CATATAGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTTC
GTCGTGTCAGAAGGAATCTGATACC
Found at i:8112082 original size:178 final size:176
Alignment explanation
Indices: 8111772--8112101 Score: 428
Period size: 178 Copynumber: 1.9 Consensus size: 176
8111762 AAATATTTTG
* * * * * *
8111772 TGTCAAAAAGAATTTGATACATATATGCATCTATCACATCTTTCGGGTTTCAAGAAATTTATTAG
1 TGTCAAAAAGAATCTGATACACATATACATCTATCACATCATTCGAGTTTCAAGAAATTTATTAA
* * * * * *
8111837 GCATTAGTCAAATATTTTTCGTCGTGTCAGAAGAAATCTGATACCCTCAAGCATCTGTCATATCT
66 GCAGTAGCCAAATATTTTTCGTCGTGTCAGAAGAAATCTAATA-CCTCAAACATATGTCACATCT
*
8111902 TTCGGGTTCCAAGAAATTTATTAGACATTAATCAAATATTTTTCGTCA
130 TTCGAGTTCCAA-AAATTTATTAGACATTAATCAAATATTTTTCGTCA
* * * * *
8111950 TGTCAAAAGGAATCTGATACCCATATACATTTGTCACATCATTCGAGTTTCAAGAATTTTATTAA
1 TGTCAAAAAGAATCTGATACACATATACATCTATCACATCATTCGAGTTTCAAGAAATTTATTAA
* * *
8112015 GCAGTAGCCAACTATTTTTCGTCGTGTCAGAAGGAATCTAATA-CTTATATACATATGTCACATC
66 GCAGTAGCCAAATATTTTTCGTCGTGTCAGAAGAAATCTAATACCTCA-A-ACATATGTCACATC
8112079 TTTCGAGTTCCAAAAATTTATTA
129 TTTCGAGTTCCAAAAATTTATTA
8112102 CGAAAAAAAT
Statistics
Matches: 129, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
176 3 0.02
177 11 0.09
178 115 0.89
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (176 bp):
TGTCAAAAAGAATCTGATACACATATACATCTATCACATCATTCGAGTTTCAAGAAATTTATTAA
GCAGTAGCCAAATATTTTTCGTCGTGTCAGAAGAAATCTAATACCTCAAACATATGTCACATCTT
TCGAGTTCCAAAAATTTATTAGACATTAATCAAATATTTTTCGTCA
Found at i:8112129 original size:20 final size:20
Alignment explanation
Indices: 8112102--8112150 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
8112092 AAATTTATTA
*
8112102 CGAAAAAAATAATGTAAAA-
1 CGAAAAAAATAAAGTAAAAT
*
8112121 CTAAAAAAATAAAGTAAAAT
1 CGAAAAAAATAAAGTAAAAT
8112141 CGAAAAAAAT
1 CGAAAAAAAT
8112151 TACAAGATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.16
Consensus pattern (20 bp):
CGAAAAAAATAAAGTAAAAT
Found at i:8112201 original size:18 final size:20
Alignment explanation
Indices: 8112180--8112226 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
8112170 ATAATTTTAT
*
8112180 ATAAATAATA-TT-TAAAAA
1 ATAAATAAAACTTCTAAAAA
*
8112198 ATAAA-AAAACTTCTCAAAA
1 ATAAATAAAACTTCTAAAAA
8112217 ATAAATAAAA
1 ATAAATAAAA
8112227 TATTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 7 0.29
19 10 0.42
20 4 0.17
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAATAAAACTTCTAAAAA
Found at i:8112242 original size:2 final size:2
Alignment explanation
Indices: 8112226--8112493 Score: 109
Period size: 2 Copynumber: 154.5 Consensus size: 2
8112216 AATAAATAAA
8112226 AT AT -T AT AT AT -T AT AT AT A- AT A- AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8112262 -T AT -T AT AT A- AT AT AT AT A- AC AT AT A- AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
8112298 TT A- AT -T AT A- AT AT AT AT A- AT AT AT A- AT A- AT TT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
8112333 AA AT GAA AG AA AA AC AT A- AT AT AT -T AT -T AT AT AT -T AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8112372 AT -T AT AT AT -T AT -T AT AT AT AT TT AT AT -T A- AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8112408 AT AT AT A- AT AT AT A- AC AT AT A- AT AT AT A- AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8112444 AT AT AT A- AT AT AT A- ACT -T AT A- AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
8112482 A- AT A- AT -T AT AT A
1 AT AT AT AT AT AT AT A
8112494 GGAAAATATT
Statistics
Matches: 207, Mismatches: 14, Indels: 90
0.67 0.05 0.29
Matches are distributed among these distances:
1 43 0.21
2 163 0.79
3 1 0.00
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8112322 original size:7 final size:7
Alignment explanation
Indices: 8112216--8112493 Score: 173
Period size: 7 Copynumber: 39.1 Consensus size: 7
8112206 ACTTCTCAAA
*
8112216 AATAAAT
1 AATATAT
*
8112223 AAAATAT
1 AATATAT
*
8112230 TATATAT
1 AATATAT
*
8112237 TATATAT
1 AATATAT
8112244 AATA-AT
1 AATATAT
8112250 -ATAT-T
1 AATATAT
8112255 AATATATT
1 AATATA-T
*
8112263 ATTATAT
1 AATATAT
8112270 AATATATAT
1 -A-ATATAT
*
8112279 AACATAT
1 AATATAT
8112286 AATATAT
1 AATATAT
*
8112293 -ATAATTT
1 AAT-ATAT
8112300 AAT-TAT
1 AATATAT
8112306 AATATATAT
1 -A-ATATAT
8112315 AATATAT
1 AATATAT
*
8112322 AATAATTT
1 AAT-ATAT
* *
8112330 AAAAAAT
1 AATATAT
*
8112337 GAA-AGA-
1 -AATATAT
* *
8112343 AAAACAT
1 AATATAT
8112350 AATATATT
1 AATATA-T
*
8112358 ATTATAT
1 AATATAT
*
8112365 ATTATAT
1 AATATAT
*
8112372 ATTATAT
1 AATATAT
8112379 -AT-TAT
1 AATATAT
*
8112384 TATATAT
1 AATATAT
*
8112391 ATTTATATT
1 A-ATATA-T
8112400 AATATAT
1 AATATAT
8112407 AATATAT
1 AATATAT
8112414 AATATAT
1 AATATAT
*
8112421 AACATAT
1 AATATAT
8112428 AATATAT
1 AATATAT
8112435 AATATAAT
1 AATAT-AT
8112443 AATATAT
1 AATATAT
8112450 AATATAT
1 AATATAT
8112457 AACT-TAT
1 AA-TATAT
8112464 AATATAT
1 AATATAT
8112471 -ATATAT
1 AATATAT
8112477 AATATAAT
1 AATAT-AT
8112485 AATTATAT
1 AA-TATAT
8112493 A
1 A
8112494 GGAAAATATT
Statistics
Matches: 219, Mismatches: 26, Indels: 51
0.74 0.09 0.17
Matches are distributed among these distances:
5 9 0.04
6 22 0.10
7 126 0.58
8 49 0.22
9 13 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (7 bp):
AATATAT
Found at i:8112332 original size:137 final size:128
Alignment explanation
Indices: 8112213--8112453 Score: 310
Period size: 128 Copynumber: 1.9 Consensus size: 128
8112203 AAAACTTCTC
8112213 AAAAATAAATAAAATATTATATATTATATATAATAATATATTAATATAT-TATTATATAAT-ATA
1 AAAAAT-AATAAAATATTATATATTATATAT--T-ATATATTAATATATATATT-TATAATAATA
* *
8112276 TATAACATATAATATATATA-ATTTAAT-TATAATATATATAATATATAATAATTTAAAAAATGA
61 TATAACATATAATATATA-ACATATAATATATAATATA-ATAATATATAATAATTTAAAAAATAA
*
8112339 AAGAA
124 AAAAA
* * * * *
8112344 AAACATAATATATTATTATATATTATATATTATATATTATTATATATATTTATATTAATATATAA
1 AAAAATAATAAAATATTATATATTATATATTATATATTAATATATATATTTATAATAATATATAA
*
8112409 TATATAATATATAACATATAATATATAATATAATAATATATAATA
66 CATATAATATATAACATATAATATATAATATAATAATATATAATA
8112454 TATAACTTAT
Statistics
Matches: 99, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
127 19 0.19
128 44 0.44
129 9 0.09
130 22 0.22
131 5 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (128 bp):
AAAAATAATAAAATATTATATATTATATATTATATATTAATATATATATTTATAATAATATATAA
CATATAATATATAACATATAATATATAATATAATAATATATAATAATTTAAAAAATAAAAAAA
Found at i:8114720 original size:17 final size:18
Alignment explanation
Indices: 8114698--8114731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8114688 ATTATCTTTT
8114698 ATGAAA-AATATATTTGA
1 ATGAAATAATATATTTGA
*
8114715 ATGAAATGATATATTTG
1 ATGAAATAATATATTTG
8114732 TTGAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (18 bp):
ATGAAATAATATATTTGA
Found at i:8115568 original size:22 final size:21
Alignment explanation
Indices: 8115513--8115568 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
8115503 CTTTCAATAT
8115513 TTTTTATATGTA-AAATGATTA
1 TTTTTATAT-TATAAATGATTA
*
8115534 TTTTTAATTTTATAAAT-ATTTAA
1 TTTTT-ATATTATAAATGA-TT-A
8115557 TTTTTATATTAT
1 TTTTTATATTAT
8115569 TATATATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 8 0.28
22 15 0.52
23 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTTATATTATAAATGATTA
Found at i:8120783 original size:2 final size:2
Alignment explanation
Indices: 8120776--8120804 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8120766 CCCACTTAAT
8120776 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8120805 TTAAGATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8121013 original size:22 final size:21
Alignment explanation
Indices: 8120961--8121013 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
8120951 CGTATTATTT
8120961 TTATTTTAATATTAATATATA
1 TTATTTTAATATTAATATATA
* **
8120982 TTGATATTAATATTTTTAATATA
1 TT-ATTTTAATATTAAT-ATATA
8121005 TTATTTTAA
1 TTATTTTAA
8121014 GTTTATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 17 0.65
23 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTTTAATATTAATATATA
Found at i:8121226 original size:32 final size:32
Alignment explanation
Indices: 8121203--8121279 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
8121193 AAGAATTTTT
* *
8121203 AAATTTATAATTAATTTTATTTAATATTCATC
1 AAATTTATAAATAATTTTATTTAAAATTCATC
* *
8121235 AAATTTATAAATAATTTTATTTAATATTTATC
1 AAATTTATAAATAATTTTATTTAAAATTCATC
*
8121267 AAATTTACAAATA
1 AAATTTATAAATA
8121280 GTGATGTGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
AAATTTATAAATAATTTTATTTAAAATTCATC
Found at i:8122157 original size:2 final size:2
Alignment explanation
Indices: 8122150--8122185 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8122140 TACGCCACAA
*
8122150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8122186 TTCAGACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8124877 original size:2 final size:2
Alignment explanation
Indices: 8124870--8124926 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
8124860 ATACACATCC
* *
8124870 AT AT AT AT AT AT AT GT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8124912 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
8124927 GTTAGAAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8126734 original size:22 final size:22
Alignment explanation
Indices: 8126706--8126754 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
8126696 GTTAAGAGTC
* *
8126706 AGTTTCCTAGTTTAGTTGGATT
1 AGTTTCCTAGTTCAGTGGGATT
8126728 AGTTTCCTAGTTCAGTGGGATT
1 AGTTTCCTAGTTCAGTGGGATT
8126750 AGTTT
1 AGTTT
8126755 TCTGATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.47
Consensus pattern (22 bp):
AGTTTCCTAGTTCAGTGGGATT
Found at i:8129616 original size:18 final size:18
Alignment explanation
Indices: 8129593--8129629 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8129583 ACAACACCAA
*
8129593 ACCATGTGTCCGAACCTG
1 ACCATGTGTACGAACCTG
8129611 ACCATGTGTACGAACCTG
1 ACCATGTGTACGAACCTG
8129629 A
1 A
8129630 ATCTCCAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (18 bp):
ACCATGTGTACGAACCTG
Found at i:8131652 original size:21 final size:22
Alignment explanation
Indices: 8131613--8131664 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
8131603 GTTAAGAGTC
*
8131613 AGTTTCCTAGTTTAGTGGGATT
1 AGTTTCCTAGTTCAGTGGGATT
8131635 AGTTTCCTAG-TCAGTGGGATT
1 AGTTTCCTAGTTCAGTGGGATT
8131656 AGTTTCCTA
1 AGTTTCCTA
8131665 ATTTGTGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.42
Consensus pattern (22 bp):
AGTTTCCTAGTTCAGTGGGATT
Found at i:8137199 original size:6 final size:6
Alignment explanation
Indices: 8137188--8137220 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
8137178 CATTATTTAA
*
8137188 TTTTTC TTTTTC TTTTTC TTATTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
8137221 CCAACGTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:8137782 original size:24 final size:24
Alignment explanation
Indices: 8137754--8137832 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
8137744 TTTAGATGCA
8137754 AAATAAAAATATAATATATTAAAT
1 AAATAAAAATATAATATATTAAAT
*
8137778 AAATATAAAA-ATAATATTTTTTAAAATT
1 AAATA-AAAATATAATA--TATT-AAA-T
*
8137806 AAAAAAATAATATAATATATTTAAAT
1 AAATAAA-AATATAATATA-TTAAAT
8137832 A
1 A
8137833 TAATTAATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
24 11 0.25
25 4 0.09
26 5 0.11
27 9 0.20
28 9 0.20
29 6 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATAAAAATATAATATATTAAAT
Found at i:8138818 original size:2 final size:2
Alignment explanation
Indices: 8138811--8138859 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
8138801 TGTTTTAAAA
8138811 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8138853 AG AG AG A
1 AG AG AG A
8138860 AGGAAAATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8139025 original size:15 final size:15
Alignment explanation
Indices: 8139005--8139054 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
8138995 GGGAAAGAAG
8139005 AATAAAAGAAGGAAA
1 AATAAAAGAAGGAAA
8139020 AATAAAAGAAGGAAAA
1 AATAAAAGAAGG-AAA
*
8139036 AAGAAAAGAA--AAA
1 AATAAAAGAAGGAAA
8139049 AATAAA
1 AATAAA
8139055 GATAAATGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
15 12 0.38
16 12 0.38
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (15 bp):
AATAAAAGAAGGAAA
Found at i:8139042 original size:16 final size:15
Alignment explanation
Indices: 8139008--8139045 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
8138998 AAAGAAGAAT
*
8139008 AAAAGAAGGAAAAAT
1 AAAAGAAGGAAAAAG
8139023 AAAAGAAGGAAAAAAG
1 AAAAGAAGG-AAAAAG
8139039 AAAAGAA
1 AAAAGAA
8139046 AAAAATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAAGAAGGAAAAAG
Found at i:8139141 original size:7 final size:7
Alignment explanation
Indices: 8139129--8139177 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
8139119 ATTTCATAAT
8139129 AGAAAAA
1 AGAAAAA
8139136 AGAAAAA
1 AGAAAAA
*
8139143 GAGAAGAA
1 -AGAAAAA
*
8139151 GGAAAAA
1 AGAAAAA
*
8139158 AG-AAAT
1 AGAAAAA
8139164 AGAAAAA
1 AGAAAAA
8139171 AGAAAAA
1 AGAAAAA
8139178 TAATAGAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 5 0.15
7 23 0.68
8 6 0.18
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (7 bp):
AGAAAAA
Found at i:8139196 original size:18 final size:18
Alignment explanation
Indices: 8139124--8139189 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
8139114 CATAAATTTC
8139124 ATAATAGAAAAAAGAAAA
1 ATAATAGAAAAAAGAAAA
* * *
8139142 AGAGA-AGAAGGAAA-AAAG
1 ATA-ATAGAA-AAAAGAAAA
8139160 A-AATAGAAAAAAGAAAA
1 ATAATAGAAAAAAGAAAA
8139177 ATAATAGAAAAAA
1 ATAATAGAAAAAA
8139190 TTTAAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 21 0.55
19 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.08
Consensus pattern (18 bp):
ATAATAGAAAAAAGAAAA
Done.