Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 37 of 126
Found at i:10856622 original size:39 final size:40
Alignment explanation
Indices: 10856574--10856737 Score: 162
Period size: 39 Copynumber: 4.0 Consensus size: 40
10856564 TTCCTTCCCT
10856574 CTTC-TTCTTTTTTTTCTCTTCTCCTTTC-TTTTTCTTTC
1 CTTCTTTCTTTTTTTTCTCTTCTCCTTTCTTTTTTCTTTC
*
10856612 CTTGTTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTCTTTC
1 CTTCTTTCTTT-TTTTTCTCTTCTCCTTT-CTTTT-TTCTTTC
* *
10856654 TTTCTTTCTTTCTTTTTTTTCTCTTCCCCTTTC-CTTTTCTTTC
1 ---C-TTCTTTCTTTTTTTTCTCTTCTCCTTTCTTTTTTCTTTC
10856697 CTTCTTT-TTCTTTCTTTC-C-TCTCCTTTCTTTCTTTCTTTC
1 CTTCTTTCTT-TTT-TTTCTCTTCTCCTTTCTTT-TTTCTTTC
10856737 C
1 C
10856738 CTCTCCTTCT
Statistics
Matches: 106, Mismatches: 6, Indels: 26
0.77 0.04 0.19
Matches are distributed among these distances:
38 13 0.12
39 28 0.26
40 20 0.19
41 3 0.03
42 7 0.07
43 7 0.07
44 2 0.02
45 7 0.07
46 19 0.18
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (40 bp):
CTTCTTTCTTTTTTTTCTCTTCTCCTTTCTTTTTTCTTTC
Found at i:10856657 original size:46 final size:46
Alignment explanation
Indices: 10856578--10856714 Score: 162
Period size: 46 Copynumber: 3.1 Consensus size: 46
10856568 TTCCCTCTTC
*
10856578 TTCTTTTTT-TTCT-CTTCTCC-TTTCTT-TTTCTTTCCTTGTTTCT
1 TTCTTTTTTCTTCTCCTT-TCCTTTTCTTCTTTCTTTCCTTCTTTCT
*
10856621 TTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTTCTTTCTTTCTTTCT
1 TTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTTCTTTCCTTCTTTCT
* *
10856667 TT-TTTTTCTCTTCCCCTTTCCTTTTCTTTCCTTCTTT--TTCTTTCT
1 TTCTTTTT-TCTTCTCCTTTCCTTTTC-TTCTTTCTTTCCTTCTTTCT
10856712 TTC
1 TTC
10856715 CTCTCCTTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
43 9 0.11
44 7 0.08
45 24 0.29
46 34 0.41
47 9 0.11
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.71
Consensus pattern (46 bp):
TTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTTCTTTCCTTCTTTCT
Found at i:10856703 original size:18 final size:18
Alignment explanation
Indices: 10856597--10856737 Score: 81
Period size: 18 Copynumber: 8.3 Consensus size: 18
10856587 TTCTCTTCTC
*
10856597 CTTTCTTTTTCTTTCCTT
1 CTTTCCTTTTCTTTCCTT
* *
10856615 GTTT-C-TTTCTTT-TTT
1 CTTTCCTTTTCTTTCCTT
* *
10856630 CTTCTCCTTTCCTTTTCTT
1 CTT-TCCTTTTCTTTCCTT
*
10856649 CTTT-C-TTTCTTTCTTT
1 CTTTCCTTTTCTTTCCTT
* *
10856665 CTTT-TTTTTCTCTTCC-C
1 CTTTCCTTTTCT-TTCCTT
10856682 CTTTCCTTTTCTTTCCTT
1 CTTTCCTTTTCTTTCCTT
*
10856700 CTTT-TTCTTTCTTTCC-T
1 CTTTCCT-TTTCTTTCCTT
*
10856717 C--TCC-TTTCTTTCTTT
1 CTTTCCTTTTCTTTCCTT
10856732 CTTTCC
1 CTTTCC
10856738 CTCTCCTTCT
Statistics
Matches: 93, Mismatches: 17, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
14 8 0.09
15 7 0.08
16 20 0.22
17 21 0.23
18 32 0.34
19 5 0.05
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (18 bp):
CTTTCCTTTTCTTTCCTT
Found at i:10856721 original size:23 final size:24
Alignment explanation
Indices: 10856695--10856747 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
10856685 TCCTTTTCTT
*
10856695 TCCTTCTTTTTCTTTCTTT-CCTC
1 TCCTTCTCTTTCTTTCTTTCCCTC
10856718 TCCTT-TCTTTCTTTCTTTCCCTC
1 TCCTTCTCTTTCTTTCTTTCCCTC
10856741 TCCTTCT
1 TCCTTCT
10856748 GGTCCCCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.44
23 14 0.52
24 1 0.04
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (24 bp):
TCCTTCTCTTTCTTTCTTTCCCTC
Found at i:10856856 original size:27 final size:27
Alignment explanation
Indices: 10856780--10856847 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
10856770 CTAATAAACA
10856780 TTGGTGCCGCCAATGGCTTTGGCACCT
1 TTGGTGCCGCCAATGGCTTTGGCACCT
10856807 TTGGTGCCGCCAATGGCTTTGGCACCT
1 TTGGTGCCGCCAATGGCTTTGGCACCT
10856834 TTGGTGCCGCCAAT
1 TTGGTGCCGCCAAT
10856848 CCCATTGGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.12, C:0.29, G:0.29, T:0.29
Consensus pattern (27 bp):
TTGGTGCCGCCAATGGCTTTGGCACCT
Found at i:10856973 original size:27 final size:27
Alignment explanation
Indices: 10856917--10856985 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
10856907 TATTTTTTTG
*
10856917 ATATATTTTGGTAAATAAAAAATATAT
1 ATATATTTTGGTAAATAAAAAAAATAT
*
10856944 ATATTTTTTGGTAAATAAAAAAAAGT-T
1 ATATATTTTGGTAAATAAAAAAAA-TAT
*
10856971 ATAACATTTTGGTAA
1 AT-ATATTTTGGTAA
10856986 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 25 0.69
28 11 0.31
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAATAT
Found at i:10857813 original size:20 final size:21
Alignment explanation
Indices: 10857773--10857813 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10857763 ATGTGTATCA
*
10857773 GTCACACGGTCGTGTACCCTT
1 GTCACACGGTCGTGGACCCTT
10857794 GTCACACGGTC-TGGACCCTT
1 GTCACACGGTCGTGGACCCTT
10857814 CCGCACGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.15, C:0.34, G:0.24, T:0.27
Consensus pattern (21 bp):
GTCACACGGTCGTGGACCCTT
Found at i:10869616 original size:31 final size:31
Alignment explanation
Indices: 10869574--10869640 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
10869564 AGCAGGTTGG
*
10869574 AGCGGAGAAGGCGACAGAGGAGATCACTAGA
1 AGCGGAAAAGGCGACAGAGGAGATCACTAGA
* * *
10869605 AGCGGAAAAGGCGATAGTGGAGATCACTGGA
1 AGCGGAAAAGGCGACAGAGGAGATCACTAGA
10869636 A-CGGA
1 AGCGGA
10869641 CGCTGATGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.37, C:0.15, G:0.39, T:0.09
Consensus pattern (31 bp):
AGCGGAAAAGGCGACAGAGGAGATCACTAGA
Found at i:10880344 original size:21 final size:21
Alignment explanation
Indices: 10880318--10880360 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10880308 GTGGAGGTGG
10880318 AGCTGACCTCCATGAACGACA
1 AGCTGACCTCCATGAACGACA
10880339 AGCTGACCTCCATGAACGACA
1 AGCTGACCTCCATGAACGACA
10880360 A
1 A
10880361 ACAGCTAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.19, T:0.14
Consensus pattern (21 bp):
AGCTGACCTCCATGAACGACA
Found at i:10880644 original size:14 final size:14
Alignment explanation
Indices: 10880625--10880654 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10880615 TGTTTGGAAA
10880625 GTATTCTTCAGTAC
1 GTATTCTTCAGTAC
10880639 GTATTCTTCAGTAC
1 GTATTCTTCAGTAC
10880653 GT
1 GT
10880655 TGGAAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (14 bp):
GTATTCTTCAGTAC
Found at i:10883543 original size:12 final size:12
Alignment explanation
Indices: 10883513--10883545 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10883503 ATGCAACAAG
10883513 AAACCAGCA-GC
1 AAACCAGCATGC
10883524 AAACCAGCATGC
1 AAACCAGCATGC
*
10883536 AGACCAGCAT
1 AAACCAGCAT
10883546 CCAAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.42, C:0.33, G:0.18, T:0.06
Consensus pattern (12 bp):
AAACCAGCATGC
Found at i:10884250 original size:21 final size:21
Alignment explanation
Indices: 10884203--10884257 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
10884193 ACCGCTGTTT
* *
10884203 CTAATCTCACTGCTACAGTAC
1 CTAATCTCACCGCTACAGTAA
*
10884224 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
*
10884245 CTAATCTTACCGC
1 CTAATCTCACCGC
10884258 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:10892854 original size:22 final size:22
Alignment explanation
Indices: 10892828--10892869 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10892818 AAAGAATAGT
10892828 AACCATTACATGCATAATTGAA
1 AACCATTACATGCATAATTGAA
**
10892850 AACCATTTTATGCATAATTG
1 AACCATTACATGCATAATTG
10892870 TGAAGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (22 bp):
AACCATTACATGCATAATTGAA
Found at i:10894120 original size:16 final size:17
Alignment explanation
Indices: 10894096--10894129 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10894086 TTTCATTTTT
10894096 TAATATATATT-TTAAA
1 TAATATATATTATTAAA
*
10894112 TAATTTATATTATTAAA
1 TAATATATATTATTAAA
10894129 T
1 T
10894130 TACATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATATATTATTAAA
Found at i:10895421 original size:57 final size:58
Alignment explanation
Indices: 10895267--10895444 Score: 175
Period size: 58 Copynumber: 3.1 Consensus size: 58
10895257 GGATTTAAAG
* * * ** *
10895267 TTTTT-TCTAAATTAGTCTTTAAA-TTCAGCAATTGTTCTCATATTGGGGTTTGAAGTTT
1 TTTTTATCTAAATTAGTC-CTAAACTTGA-CAATTGTTCTCATATTAGGACTTGAACTTT
* * *
10895325 TTTTTATCTAAATTAGTCCTAAACTTGATAATTGCTCTCACATTAGGACTTGAACTTT
1 TTTTTATCTAAATTAGTCCTAAACTTGACAATTGTTCTCATATTAGGACTTGAACTTT
* * * * *
10895383 TTTTTATCTAAGTTGGT-CTAATCTTGACAATTGTTCTCATATTTA-GACTTAAATTTT
1 TTTTTATCTAAATTAGTCCTAAACTTGACAATTGTTCTCATA-TTAGGACTTGAACTTT
10895440 TTTTT
1 TTTTT
10895445 GTTTAACTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
57 35 0.35
58 50 0.50
59 15 0.15
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (58 bp):
TTTTTATCTAAATTAGTCCTAAACTTGACAATTGTTCTCATATTAGGACTTGAACTTT
Found at i:10902707 original size:30 final size:28
Alignment explanation
Indices: 10902649--10902707 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
10902639 GGCTTGTATT
*
10902649 AATATATATCATCTATATATATGCATGA
1 AATATATATCATCTATATATATACATGA
* *
10902677 AATATTATCATCATCTATATATGTATATGA
1 AATA-TAT-ATCATCTATATATATACATGA
10902707 A
1 A
10902708 TGATCCACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 3 0.12
30 19 0.73
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (28 bp):
AATATATATCATCTATATATATACATGA
Found at i:10904086 original size:19 final size:19
Alignment explanation
Indices: 10904058--10904097 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
10904048 AGAGGGAAAG
10904058 AAAAAAAAATTAAA-AGAA
1 AAAAAAAAATTAAAGAGAA
10904076 AAAACAAAAATTAAAGAGAA
1 AAAA-AAAAATTAAAGAGAA
10904096 AA
1 AA
10904098 TATGGTGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (19 bp):
AAAAAAAAATTAAAGAGAA
Found at i:10911973 original size:24 final size:24
Alignment explanation
Indices: 10911929--10911975 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10911919 TTAAAAGTAT
*
10911929 AAATGAAAACATAAATCAATAAAC
1 AAATGAAAACATAAAACAATAAAC
*
10911953 AAATGAAAA-ATATAAAGAATAAA
1 AAATGAAAACATA-AAACAATAAA
10911976 AGGTACATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.17
Consensus pattern (24 bp):
AAATGAAAACATAAAACAATAAAC
Found at i:10912343 original size:21 final size:21
Alignment explanation
Indices: 10912319--10912359 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10912309 AAAATAAAAA
*
10912319 CATATGTATAAAATATATAAG
1 CATACGTATAAAATATATAAG
**
10912340 CATACGTATACTATATATAA
1 CATACGTATAAAATATATAA
10912360 AACAATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (21 bp):
CATACGTATAAAATATATAAG
Found at i:10912945 original size:19 final size:19
Alignment explanation
Indices: 10912921--10912975 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
10912911 AAATAATATA
*
10912921 TTCTAAGATTACATATCAT
1 TTCTAAGATTGCATATCAT
10912940 TTCTAAGATTGCATATCAT
1 TTCTAAGATTGCATATCAT
*
10912959 ATCTAAGATTGCATATC
1 TTCTAAGATTGCATATC
10912976 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (19 bp):
TTCTAAGATTGCATATCAT
Found at i:10914823 original size:105 final size:105
Alignment explanation
Indices: 10914688--10914990 Score: 331
Period size: 105 Copynumber: 2.9 Consensus size: 105
10914678 ATTTCATGTG
* * * * * * *
10914688 ATATTGTCACATATAACATATTGATCGATGCACATTGTAAGGAGGGGATGATTTATAAAGCTGTA
1 ATATTGTCACGTATAATATATTTATTGATGCATATTGTAAGGAGGGGATGGTTTCTAAAGCTGTA
* *
10914753 GATATTGTTGATACAATGGTGAAGCAAGGCATTGAACCTA
66 GATATTGTTGACACAATGGTAAAGCAAGGCATTGAACCTA
*
10914793 ATATTGTCACGTATAATATATTTATTGATGCATATTGCAAGGAGGGGATGGTTTCTAAAGCTGTA
1 ATATTGTCACGTATAATATATTTATTGATGCATATTGTAAGGAGGGGATGGTTTCTAAAGCTGTA
* *** * *
10914858 GAAACCATTGACAGAATGAG-AAAGCAAGGCATTGAGCCTA
66 GATATTGTTGACACAATG-GTAAAGCAAGGCATTGAACCTA
* * * * ** ** * *
10914898 ATGTTATCACGTATAATATA-TTAGTTTATGCATATTTTAACAAGGCAATGGTTTCTGAAGCTGA
1 ATATTGTCACGTATAATATATTTA-TTGATGCATATTGTAAGGAGGGGATGGTTTCTAAAGCTGT
*
10914962 AGATATTGTTGACACAATGATAAAGCAAG
65 AGATATTGTTGACACAATGGTAAAGCAAG
10914991 ATATTGAGCC
Statistics
Matches: 162, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
104 3 0.02
105 158 0.98
106 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (105 bp):
ATATTGTCACGTATAATATATTTATTGATGCATATTGTAAGGAGGGGATGGTTTCTAAAGCTGTA
GATATTGTTGACACAATGGTAAAGCAAGGCATTGAACCTA
Found at i:10915018 original size:105 final size:105
Alignment explanation
Indices: 10914743--10915019 Score: 304
Period size: 105 Copynumber: 2.6 Consensus size: 105
10914733 GGATGATTTA
* * * * *
10914743 TAAAGCTGTAGATATTGTTGATACAATGGTGAAGCAAGGCATTGAACCTAATATTGTCACGTATA
1 TAAAGCTGTAGATATTGTTGACACAATGATAAAGCAAGGCATTGAGCCTAATGTTGTCACGTATA
** **
10914808 ATATATTTATTGATGCATATTGCAAGGAGGGGATGGTTTC
66 ATATATTTATTGATGCATATTGCAACAAGGCAATGGTTTC
* *** * * *
10914848 TAAAGCTGTAGAAACCATTGACAGAATGAGAAAGCAAGGCATTGAGCCTAATGTTATCACGTATA
1 TAAAGCTGTAGATATTGTTGACACAATGATAAAGCAAGGCATTGAGCCTAATGTTGTCACGTATA
* **
10914913 ATATA-TTAGTTTATGCATATTTTAACAAGGCAATGGTTTC
66 ATATATTTA-TTGATGCATATTGCAACAAGGCAATGGTTTC
* * ** * * *
10914953 TGAAGCTGAAGATATTGTTGACACAATGATAAAGCAAGATATTGAGCCTGATGTTGTTACCTATA
1 TAAAGCTGTAGATATTGTTGACACAATGATAAAGCAAGGCATTGAGCCTAATGTTGTCACGTATA
10915018 AT
66 AT
10915020 GCAATAATAA
Statistics
Matches: 138, Mismatches: 33, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
104 3 0.02
105 135 0.98
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (105 bp):
TAAAGCTGTAGATATTGTTGACACAATGATAAAGCAAGGCATTGAGCCTAATGTTGTCACGTATA
ATATATTTATTGATGCATATTGCAACAAGGCAATGGTTTC
Found at i:10920122 original size:20 final size:18
Alignment explanation
Indices: 10920073--10920122 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
10920063 TTTCTAAATA
* *
10920073 TTTTATGAAAAATGATTT
1 TTTTTTGAAAAATGATTG
*
10920091 TTTTTTGGAAAATGGACTTG
1 TTTTTTGAAAAAT-GA-TTG
10920111 TTTTTTGAAAAA
1 TTTTTTGAAAAA
10920123 ACTTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
20 13 0.50
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (18 bp):
TTTTTTGAAAAATGATTG
Found at i:10922914 original size:14 final size:14
Alignment explanation
Indices: 10922895--10922923 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10922885 AAAATTTTTG
10922895 TTATGTTATGATGA
1 TTATGTTATGATGA
10922909 TTATGTTATGATGA
1 TTATGTTATGATGA
10922923 T
1 T
10922924 AGTATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (14 bp):
TTATGTTATGATGA
Found at i:10924450 original size:26 final size:26
Alignment explanation
Indices: 10924421--10924497 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
10924411 ACACTCAAAT
* * *
10924421 TTCTCAAAAGTATTTCTCAAAATCAC
1 TTCTGAAAAGTACTTCTCAAAAGCAC
10924447 TTCTGAAAAGTACTTCTCAAAAGCAC
1 TTCTGAAAAGTACTTCTCAAAAGCAC
*
10924473 TTCTGAAAAGCACTTCTCAAAAGCA
1 TTCTGAAAAGTACTTCTCAAAAGCA
10924498 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (26 bp):
TTCTGAAAAGTACTTCTCAAAAGCAC
Found at i:10924496 original size:13 final size:13
Alignment explanation
Indices: 10924421--10924497 Score: 100
Period size: 13 Copynumber: 5.9 Consensus size: 13
10924411 ACACTCAAAT
* *
10924421 TTCTCAAAAGTAT
1 TTCTCAAAAGCAC
*
10924434 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
* *
10924447 TTCTGAAAAGTAC
1 TTCTCAAAAGCAC
10924460 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
10924473 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
10924486 TTCTCAAAAGCA
1 TTCTCAAAAGCA
10924498 ATGAAGAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:10932445 original size:937 final size:937
Alignment explanation
Indices: 10930632--10932504 Score: 3746
Period size: 937 Copynumber: 2.0 Consensus size: 937
10930622 TAGAAATTAT
10930632 ACAAGTTGACCAAAGAAATTAAGGGGGAAAAAAAGAAGAACAATATTTTACCTTGCACTCATTGA
1 ACAAGTTGACCAAAGAAATTAAGGGGGAAAAAAAGAAGAACAATATTTTACCTTGCACTCATTGA
10930697 GGTTGACTTCATTACTTCCGGCCATTCCCCTTTCTTTTAAACACTCAAAAACAAAACCCAACAGC
66 GGTTGACTTCATTACTTCCGGCCATTCCCCTTTCTTTTAAACACTCAAAAACAAAACCCAACAGC
10930762 TAAAAACAGATCTTTTTGAAAAAAAACTCAGAAATCCATAATTCATATCACAAATCAAAATCAAA
131 TAAAAACAGATCTTTTTGAAAAAAAACTCAGAAATCCATAATTCATATCACAAATCAAAATCAAA
10930827 TAAATGAAAAGAAAAAAAAGTCCAACAAAGCTTTTAACCTTTTCTCATTCTTTTCTCCACTCCAA
196 TAAATGAAAAGAAAAAAAAGTCCAACAAAGCTTTTAACCTTTTCTCATTCTTTTCTCCACTCCAA
10930892 TTATCCCTCCTTTTTCCATTTTTCTCTTTTGCTGCTCAACTTCATAAGTATAACTGTATAAGAGC
261 TTATCCCTCCTTTTTCCATTTTTCTCTTTTGCTGCTCAACTTCATAAGTATAACTGTATAAGAGC
10930957 AGTAAACTGGTTTTTTTAGAAAAAAAATCTCCGTAATAATCTCTTAAATAAAAACAGATAAAAAG
326 AGTAAACTGGTTTTTTTAGAAAAAAAATCTCCGTAATAATCTCTTAAATAAAAACAGATAAAAAG
10931022 AGAGAGTAAACTGTAAACATAAAACCATAAATCTCACTGGAATAAAACAGAGAAGGTTGTAACAT
391 AGAGAGTAAACTGTAAACATAAAACCATAAATCTCACTGGAATAAAACAGAGAAGGTTGTAACAT
10931087 GTATTGTATGTGTGTCGTGTAGTGAAGGATAAGAAAGTGCGCGCAGGTTAGAAAATGTCAAGGGC
456 GTATTGTATGTGTGTCGTGTAGTGAAGGATAAGAAAGTGCGCGCAGGTTAGAAAATGTCAAGGGC
10931152 TAATGCTAACATATACATAGTGTGAATGTGGGACATGAGAGACGACGCGACAAAATAAGTAGCCG
521 TAATGCTAACATATACATAGTGTGAATGTGGGACATGAGAGACGACGCGACAAAATAAGTAGCCG
10931217 AAAGATTAACTGTTCTGCGGGTCCCTTGCATGTGGATTTAAAAAAAAAAATCAATTTTATAAATC
586 AAAGATTAACTGTTCTGCGGGTCCCTTGCATGTGGATTTAAAAAAAAAAATCAATTTTATAAATC
10931282 AAGTTTTTGTTTAGTAAAATTTTAAAAATTTACAAAATAGTCATTGAATTATTGAATTATTTTCA
651 AAGTTTTTGTTTAGTAAAATTTTAAAAATTTACAAAATAGTCATTGAATTATTGAATTATTTTCA
10931347 TTTAAGTTATTCAACTGTTAAATTCTTTTCAAAATTTGGTCGACGAGCTTTAAACAAAGATTCGA
716 TTTAAGTTATTCAACTGTTAAATTCTTTTCAAAATTTGGTCGACGAGCTTTAAACAAAGATTCGA
10931412 TGATCAATAGGGTGGAACAGTACCCATCAATGAGTAGAAGAACATATCTCAAATTCAAGTTGATC
781 TGATCAATAGGGTGGAACAGTACCCATCAATGAGTAGAAGAACATATCTCAAATTCAAGTTGATC
10931477 TAATAGTTGATGTCGAAGATGAAAGTTGTTCGGATTTTAATTAGTAGATTAATGACTTCCAAAAT
846 TAATAGTTGATGTCGAAGATGAAAGTTGTTCGGATTTTAATTAGTAGATTAATGACTTCCAAAAT
10931542 TATTTCATAAAAAAAACTAAAATGTAA
911 TATTTCATAAAAAAAACTAAAATGTAA
10931569 ACAAGTTGACCAAAGAAATTAAGGGGGAAAAAAAGAAGAACAATATTTTACCTTGCACTCATTGA
1 ACAAGTTGACCAAAGAAATTAAGGGGGAAAAAAAGAAGAACAATATTTTACCTTGCACTCATTGA
10931634 GGTTGACTTCATTACTTCCGGCCATTCCCCTTTCTTTTAAACACTCAAAAACAAAACCCAACAGC
66 GGTTGACTTCATTACTTCCGGCCATTCCCCTTTCTTTTAAACACTCAAAAACAAAACCCAACAGC
10931699 TAAAAACAGATCTTTTTGAAAAAAAACTCAGAAATCCATAATTCATATCACAAATCAAAATCAAA
131 TAAAAACAGATCTTTTTGAAAAAAAACTCAGAAATCCATAATTCATATCACAAATCAAAATCAAA
10931764 TAAATGAAAAGAAAAAAAAGTCCAACAAAGCTTTTAACCTTTTCTCATTCTTTTCTCCACTCCAA
196 TAAATGAAAAGAAAAAAAAGTCCAACAAAGCTTTTAACCTTTTCTCATTCTTTTCTCCACTCCAA
10931829 TTATCCCTCCTTTTTCCATTTTTCTCTTTTGCTGCTCAACTTCATAAGTATAACTGTATAAGAGC
261 TTATCCCTCCTTTTTCCATTTTTCTCTTTTGCTGCTCAACTTCATAAGTATAACTGTATAAGAGC
10931894 AGTAAACTGGTTTTTTTAGAAAAAAAATCTCCGTAATAATCTCTTAAATAAAAACAGATAAAAAG
326 AGTAAACTGGTTTTTTTAGAAAAAAAATCTCCGTAATAATCTCTTAAATAAAAACAGATAAAAAG
10931959 AGAGAGTAAACTGTAAACATAAAACCATAAATCTCACTGGAATAAAACAGAGAAGGTTGTAACAT
391 AGAGAGTAAACTGTAAACATAAAACCATAAATCTCACTGGAATAAAACAGAGAAGGTTGTAACAT
10932024 GTATTGTATGTGTGTCGTGTAGTGAAGGATAAGAAAGTGCGCGCAGGTTAGAAAATGTCAAGGGC
456 GTATTGTATGTGTGTCGTGTAGTGAAGGATAAGAAAGTGCGCGCAGGTTAGAAAATGTCAAGGGC
10932089 TAATGCTAACATATACATAGTGTGAATGTGGGACATGAGAGACGACGCGACAAAATAAGTAGCCG
521 TAATGCTAACATATACATAGTGTGAATGTGGGACATGAGAGACGACGCGACAAAATAAGTAGCCG
10932154 AAAGATTAACTGTTCTGCGGGTCCCTTGCATGTGGATTTAAAAAAAAAAATCAATTTTATAAATC
586 AAAGATTAACTGTTCTGCGGGTCCCTTGCATGTGGATTTAAAAAAAAAAATCAATTTTATAAATC
10932219 AAGTTTTTGTTTAGTAAAATTTTAAAAATTTACAAAATAGTCATTGAATTATTGAATTATTTTCA
651 AAGTTTTTGTTTAGTAAAATTTTAAAAATTTACAAAATAGTCATTGAATTATTGAATTATTTTCA
10932284 TTTAAGTTATTCAACTGTTAAATTCTTTTCAAAATTTGGTCGACGAGCTTTAAACAAAGATTCGA
716 TTTAAGTTATTCAACTGTTAAATTCTTTTCAAAATTTGGTCGACGAGCTTTAAACAAAGATTCGA
10932349 TGATCAATAGGGTGGAACAGTACCCATCAATGAGTAGAAGAACATATCTCAAATTCAAGTTGATC
781 TGATCAATAGGGTGGAACAGTACCCATCAATGAGTAGAAGAACATATCTCAAATTCAAGTTGATC
10932414 TAATAGTTGATGTCGAAGATGAAAGTTGTTCGGATTTTAATTAGTAGATTAATGACTTCCAAAAT
846 TAATAGTTGATGTCGAAGATGAAAGTTGTTCGGATTTTAATTAGTAGATTAATGACTTCCAAAAT
10932479 TATTTCATAAAAAAAACTAAAATGTA
911 TATTTCATAAAAAAAACTAAAATGTA
10932505 GAAGACGAGG
Statistics
Matches: 936, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
937 936 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (937 bp):
ACAAGTTGACCAAAGAAATTAAGGGGGAAAAAAAGAAGAACAATATTTTACCTTGCACTCATTGA
GGTTGACTTCATTACTTCCGGCCATTCCCCTTTCTTTTAAACACTCAAAAACAAAACCCAACAGC
TAAAAACAGATCTTTTTGAAAAAAAACTCAGAAATCCATAATTCATATCACAAATCAAAATCAAA
TAAATGAAAAGAAAAAAAAGTCCAACAAAGCTTTTAACCTTTTCTCATTCTTTTCTCCACTCCAA
TTATCCCTCCTTTTTCCATTTTTCTCTTTTGCTGCTCAACTTCATAAGTATAACTGTATAAGAGC
AGTAAACTGGTTTTTTTAGAAAAAAAATCTCCGTAATAATCTCTTAAATAAAAACAGATAAAAAG
AGAGAGTAAACTGTAAACATAAAACCATAAATCTCACTGGAATAAAACAGAGAAGGTTGTAACAT
GTATTGTATGTGTGTCGTGTAGTGAAGGATAAGAAAGTGCGCGCAGGTTAGAAAATGTCAAGGGC
TAATGCTAACATATACATAGTGTGAATGTGGGACATGAGAGACGACGCGACAAAATAAGTAGCCG
AAAGATTAACTGTTCTGCGGGTCCCTTGCATGTGGATTTAAAAAAAAAAATCAATTTTATAAATC
AAGTTTTTGTTTAGTAAAATTTTAAAAATTTACAAAATAGTCATTGAATTATTGAATTATTTTCA
TTTAAGTTATTCAACTGTTAAATTCTTTTCAAAATTTGGTCGACGAGCTTTAAACAAAGATTCGA
TGATCAATAGGGTGGAACAGTACCCATCAATGAGTAGAAGAACATATCTCAAATTCAAGTTGATC
TAATAGTTGATGTCGAAGATGAAAGTTGTTCGGATTTTAATTAGTAGATTAATGACTTCCAAAAT
TATTTCATAAAAAAAACTAAAATGTAA
Found at i:10942265 original size:31 final size:29
Alignment explanation
Indices: 10942230--10942300 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
10942220 ATAATATCAT
*
10942230 ATTTAGTACTTATATTTTCATGAAATATTTA
1 ATTTAATACTTATATTTTCA--AAATATTTA
* * *
10942261 ATTTAATATTTTTATTTTGAAAATATTTA
1 ATTTAATACTTATATTTTCAAAATATTTA
* *
10942290 ATGTGATACTT
1 ATTTAATACTT
10942301 GAATTACCGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 17 0.52
31 16 0.48
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (29 bp):
ATTTAATACTTATATTTTCAAAATATTTA
Found at i:10942514 original size:12 final size:12
Alignment explanation
Indices: 10942497--10942521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10942487 AAGGCACATT
10942497 GTATTCTCAAAG
1 GTATTCTCAAAG
10942509 GTATTCTCAAAG
1 GTATTCTCAAAG
10942521 G
1 G
10942522 GAGATATAGA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GTATTCTCAAAG
Found at i:10952377 original size:15 final size:15
Alignment explanation
Indices: 10952357--10952386 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10952347 ACTAAGCTAT
10952357 TATATTATACTCGTA
1 TATATTATACTCGTA
*
10952372 TATATTATATTCGTA
1 TATATTATACTCGTA
10952387 AGCTATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (15 bp):
TATATTATACTCGTA
Found at i:10957827 original size:21 final size:21
Alignment explanation
Indices: 10957803--10957844 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10957793 CTCCACGACC
*
10957803 GCCTCCTCTACCACCACCTCT
1 GCCTCCTCCACCACCACCTCT
*
10957824 GCCTCCTCCACGACCACCTCT
1 GCCTCCTCCACCACCACCTCT
10957845 TCCACCACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.57, G:0.07, T:0.21
Consensus pattern (21 bp):
GCCTCCTCCACCACCACCTCT
Found at i:10959691 original size:16 final size:15
Alignment explanation
Indices: 10959670--10959705 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
10959660 TTATATTATA
*
10959670 TAATTAAAATTTAATT
1 TAATTAAAA-TTAAAT
10959686 TAATTAAAATTAAAT
1 TAATTAAAATTAAAT
10959701 TAATT
1 TAATT
10959706 TTAAATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTAAAATTAAAT
Found at i:10964948 original size:31 final size:32
Alignment explanation
Indices: 10964910--10964987 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 32
10964900 AATTTAAAAT
*
10964910 ATATATTATATTATACTTACTTAAT-TAATA-A
1 ATATATTATATTATA-TTACATAATATAATATA
10964941 ATATATTAT-TT-TATTACATAATATAATATA
1 ATATATTATATTATATTACATAATATAATATA
*
10964971 ATATAATATTATTATAT
1 ATATATTA-TATTATAT
10964988 ATATATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 8 0.20
29 7 0.17
30 10 0.25
31 10 0.25
32 2 0.05
33 3 0.08
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATATTATATTATATTACATAATATAATATA
Found at i:10965713 original size:13 final size:14
Alignment explanation
Indices: 10965695--10965723 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10965685 GTACTACAAG
10965695 ATTATTTT-TTTAA
1 ATTATTTTATTTAA
10965708 ATTATTTTATTTAA
1 ATTATTTTATTTAA
10965722 AT
1 AT
10965724 GTCTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATTTTATTTAA
Found at i:10966142 original size:22 final size:22
Alignment explanation
Indices: 10966116--10966172 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10966106 TTAGTACTTC
10966116 AGTGCTCTCTGTTTAGCAC-AT
1 AGTGCTCTCTGTTTAGCACTAT
* * *
10966137 ATGTGCTCTTTGTATAGCACTTT
1 A-GTGCTCTCTGTTTAGCACTAT
10966160 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
10966173 CATTAGTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.90
23 2 0.07
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTAT
Found at i:10966519 original size:22 final size:22
Alignment explanation
Indices: 10966493--10966549 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10966483 TTAGTACTTC
10966493 AGTGCTCTCTGTTTAGCAC-AT
1 AGTGCTCTCTGTTTAGCACTAT
* * *
10966514 ATGTGCTCTTTGTATAGCACTTT
1 A-GTGCTCTCTGTTTAGCACTAT
10966537 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
10966550 CATTAGTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.90
23 2 0.07
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTAT
Found at i:10966655 original size:377 final size:377
Alignment explanation
Indices: 10965961--10966690 Score: 1460
Period size: 377 Copynumber: 1.9 Consensus size: 377
10965951 CTTTTTCGAA
10965961 ATTATTCTATAAAGTATTTAAATGTATGAAATTCAGTTTTAATGCCCAAGTAGATGGAATTTAGA
1 ATTATTCTATAAAGTATTTAAATGTATGAAATTCAGTTTTAATGCCCAAGTAGATGGAATTTAGA
10966026 ACTACTAGGATATTAGTGGCATGCCATTAAGGAACTTTAGTGCGCTCTCGGATTATTAGCACGTT
66 ACTACTAGGATATTAGTGGCATGCCATTAAGGAACTTTAGTGCGCTCTCGGATTATTAGCACGTT
10966091 GGTGCTCTCTGATATTTAGTACTTCAGTGCTCTCTGTTTAGCACATATGTGCTCTTTGTATAGCA
131 GGTGCTCTCTGATATTTAGTACTTCAGTGCTCTCTGTTTAGCACATATGTGCTCTTTGTATAGCA
10966156 CTTTAGTGCTCTCTGTTCATTAGTGCATAATAATGCACCTCTGTATTTGTTCCGTATATTCGGTG
196 CTTTAGTGCTCTCTGTTCATTAGTGCATAATAATGCACCTCTGTATTTGTTCCGTATATTCGGTG
10966221 TGCTCTATAAAATCTACTTTGGGCTAAGATTATGATTTGTGGACAAAAGCGAATCATTAATGTGT
261 TGCTCTATAAAATCTACTTTGGGCTAAGATTATGATTTGTGGACAAAAGCGAATCATTAATGTGT
10966286 TAAGGTAAGTTTTATGAAGTTTATATGCATGTAAATATGTAATAACAGAATG
326 TAAGGTAAGTTTTATGAAGTTTATATGCATGTAAATATGTAATAACAGAATG
10966338 ATTATTCTATAAAGTATTTAAATGTATGAAATTCAGTTTTAATGCCCAAGTAGATGGAATTTAGA
1 ATTATTCTATAAAGTATTTAAATGTATGAAATTCAGTTTTAATGCCCAAGTAGATGGAATTTAGA
10966403 ACTACTAGGATATTAGTGGCATGCCATTAAGGAACTTTAGTGCGCTCTCGGATTATTAGCACGTT
66 ACTACTAGGATATTAGTGGCATGCCATTAAGGAACTTTAGTGCGCTCTCGGATTATTAGCACGTT
10966468 GGTGCTCTCTGATATTTAGTACTTCAGTGCTCTCTGTTTAGCACATATGTGCTCTTTGTATAGCA
131 GGTGCTCTCTGATATTTAGTACTTCAGTGCTCTCTGTTTAGCACATATGTGCTCTTTGTATAGCA
10966533 CTTTAGTGCTCTCTGTTCATTAGTGCATAATAATGCACCTCTGTATTTGTTCCGTATATTCGGTG
196 CTTTAGTGCTCTCTGTTCATTAGTGCATAATAATGCACCTCTGTATTTGTTCCGTATATTCGGTG
10966598 TGCTCTATAAAATCTACTTTGGGCTAAGATTATGATTTGTGGACAAAAGCGAATCATTAATGTGT
261 TGCTCTATAAAATCTACTTTGGGCTAAGATTATGATTTGTGGACAAAAGCGAATCATTAATGTGT
10966663 TAAGGTAAGTTTTATGAAGTTTATATGC
326 TAAGGTAAGTTTTATGAAGTTTATATGC
10966691 GTTTAATTTT
Statistics
Matches: 353, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
377 353 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (377 bp):
ATTATTCTATAAAGTATTTAAATGTATGAAATTCAGTTTTAATGCCCAAGTAGATGGAATTTAGA
ACTACTAGGATATTAGTGGCATGCCATTAAGGAACTTTAGTGCGCTCTCGGATTATTAGCACGTT
GGTGCTCTCTGATATTTAGTACTTCAGTGCTCTCTGTTTAGCACATATGTGCTCTTTGTATAGCA
CTTTAGTGCTCTCTGTTCATTAGTGCATAATAATGCACCTCTGTATTTGTTCCGTATATTCGGTG
TGCTCTATAAAATCTACTTTGGGCTAAGATTATGATTTGTGGACAAAAGCGAATCATTAATGTGT
TAAGGTAAGTTTTATGAAGTTTATATGCATGTAAATATGTAATAACAGAATG
Found at i:10972459 original size:15 final size:16
Alignment explanation
Indices: 10972435--10972481 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
10972425 TATGTTATTT
10972435 TATT-ATATAATATAA
1 TATTAATATAATATAA
10972450 TA-TAATATAATATAA
1 TATTAATATAATATAA
*
10972465 TATTATTATATATATAA
1 TATTAATATA-ATATAA
10972482 AACAAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 15 0.54
16 6 0.21
17 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAATATAATATAA
Found at i:10973633 original size:67 final size:67
Alignment explanation
Indices: 10973525--10973653 Score: 222
Period size: 67 Copynumber: 1.9 Consensus size: 67
10973515 TTTTCAATTC
**
10973525 AGAGAGCACGCTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACAATCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
10973590 CT
66 CT
* *
10973592 AGAGAGCACAATCCCGCGAACCTCATTTCTTACAGCGGGATTATCGGTCCAGGCTAAATCCC
1 AGAGAGCACAATCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCC
10973654 TTACAACGAC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (67 bp):
AGAGAGCACAATCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
CT
Found at i:10973827 original size:56 final size:58
Alignment explanation
Indices: 10973753--10973863 Score: 156
Period size: 61 Copynumber: 1.9 Consensus size: 58
10973743 ATCCATTTTC
*
10973753 CACATATTCTTCGGGAGGGCTATATC-A-A-GATCACCCGTCCGGGCTAGATCTTCTT
1 CACATATTCTTCGAGAGGGCTATATCGATAGGATCACCCGTCCGGGCTAGATCTTCTT
*
10973808 CACACTATTCTTTGAGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATC
1 CACA-TATTCTTCGAGAGGGCTATATC--GATAGGATCACCCGTCCGGGCTAGATC
10973864 CTTTTTACCG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
55 4 0.08
56 20 0.42
59 1 0.02
60 1 0.02
61 22 0.46
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (58 bp):
CACATATTCTTCGAGAGGGCTATATCGATAGGATCACCCGTCCGGGCTAGATCTTCTT
Found at i:10987123 original size:124 final size:121
Alignment explanation
Indices: 10986919--10987152 Score: 310
Period size: 124 Copynumber: 1.9 Consensus size: 121
10986909 CATGTACAAT
* * * * * * *
10986919 GTATTAATTATGTCATTTTAAGTTTTAGTTTAATGTATTGTAATAACGAGGATATAAGTTTAAGC
1 GTATTAATTATGTCATTTTAAGGTTCAGTTTAATCTATTGTAATAACGAGAACATAAGTTCAAAC
* **
10986984 GTGCTTAATCGTGTATTTCTCTTT-GATTTAAGAGTTTGAGAGGATTATAAGTAAAAC
66 GTGCTTAATCATGTATTT-T-TTTCGATTTAAGAGTTCAAGAGGATTATAAGTAAAAC
*
10987041 GTATTAATTATGTCA-TTTGAGGTTCAGTTTAATCTATTGTAATAACCAGGAGAACATAAGTTCA
1 GTATTAATTATGTCATTTTAAGGTTCAGTTTAATCTATTGTAATAA-C--GAGAACATAAGTTCA
10987105 AACGTGCTTAATCATGTATTTTTTTCGATTTAAGAGTTCAAGAGGATT
63 AACGTGCTTAATCATGTATTTTTTTCGATTTAAGAGTTCAAGAGGATT
10987153 TTAAACAAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
121 26 0.27
122 19 0.20
123 21 0.22
124 31 0.32
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (121 bp):
GTATTAATTATGTCATTTTAAGGTTCAGTTTAATCTATTGTAATAACGAGAACATAAGTTCAAAC
GTGCTTAATCATGTATTTTTTTCGATTTAAGAGTTCAAGAGGATTATAAGTAAAAC
Found at i:10995936 original size:20 final size:19
Alignment explanation
Indices: 10995883--10995940 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
10995873 AAATTATAAA
*
10995883 AAAAAT-TAAATTTTTTTT
1 AAAAATATAAATTTTTATT
*
10995901 AAAATTATAAACTTTTTATT
1 AAAAATATAAA-TTTTTATT
10995921 AAAAATA-ACAATTTTTATT
1 AAAAATATA-AATTTTTATT
10995940 A
1 A
10995941 GATTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 5 0.15
19 14 0.41
20 15 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAAATATAAATTTTTATT
Found at i:10998808 original size:22 final size:22
Alignment explanation
Indices: 10998770--10998832 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
10998760 TCTCTGATTA
*
10998770 TTAGCACATTAAG-GCTCTCCGT
1 TTAGCACATT-TGTGCTCTCCGT
*
10998792 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTTGTGCTCTCCGT
*
10998814 ATAGCAC-TTTAGTGCTCTC
1 TTAGCACATTT-GTGCTCTC
10998833 TGTTCAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 4 0.11
22 32 0.89
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (22 bp):
TTAGCACATTTGTGCTCTCCGT
Found at i:10998833 original size:22 final size:22
Alignment explanation
Indices: 10998783--10998835 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
10998773 GCACATTAAG
* *
10998783 GCTCTCCGTTTAGCACATTTGT
1 GCTCTCTGTATAGCACATTTGT
10998805 GCTCTCTGTATAGCAC-TTTAGT
1 GCTCTCTGTATAGCACATTT-GT
10998827 GCTCTCTGT
1 GCTCTCTGT
10998836 TCAATAGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.42
Consensus pattern (22 bp):
GCTCTCTGTATAGCACATTTGT
Found at i:11003859 original size:11 final size:11
Alignment explanation
Indices: 11003837--11003888 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
11003827 AACTAATACT
11003837 CTCTCAAATTTC
1 CTCTC-AATTTC
11003849 CTCTCAATTTC
1 CTCTCAATTTC
* *
11003860 CTCTAAAATTC
1 CTCTCAATTTC
*
11003871 CTCTCAATTTG
1 CTCTCAATTTC
11003882 CTCTCAA
1 CTCTCAA
11003889 ATTACTTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
11 30 0.86
12 5 0.14
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.40
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:11003874 original size:22 final size:21
Alignment explanation
Indices: 11003836--11003912 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
11003826 AAACTAATAC
*
11003836 TCTCTCAAATTTCCTCTCAATT
1 TCTCT-AAAATTCCTCTCAATT
11003858 TCCTCTAAAATTCCTCTCAATT
1 T-CTCTAAAATTCCTCTCAATT
* *
11003880 TGCTCTCAAATTACT-TCCAAATT
1 T-CTCTAAAATTCCTCT-C-AATT
11003903 TCTCTAAAAT
1 TCTCTAAAAT
11003913 CCATATTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.02
22 37 0.79
23 9 0.19
ACGTcount: A:0.29, C:0.29, G:0.01, T:0.42
Consensus pattern (21 bp):
TCTCTAAAATTCCTCTCAATT
Found at i:11003912 original size:11 final size:11
Alignment explanation
Indices: 11003836--11003912 Score: 61
Period size: 11 Copynumber: 6.9 Consensus size: 11
11003826 AAACTAATAC
11003836 TCTCTCAAATT
1 TCTCTCAAATT
11003847 TCCTCTC-AATT
1 T-CTCTCAAATT
*
11003858 TCCTCTAAAATT
1 T-CTCTCAAATT
*
11003870 CCTCTC-AATT
1 TCTCTCAAATT
11003880 TGCTCTCAAATT
1 T-CTCTCAAATT
*
11003892 ACT-TCCAAATT
1 TCTCT-CAAATT
*
11003903 TCTCTAAAAT
1 TCTCTCAAAT
11003913 CCATATTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
10 5 0.09
11 34 0.64
12 14 0.26
ACGTcount: A:0.29, C:0.29, G:0.01, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:11003936 original size:50 final size:50
Alignment explanation
Indices: 11003873--11003970 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
11003863 TAAAATTCCT
*
11003873 CTCAATTTGCTCTCAAATTACTTC-CAAATTTCTCTAAAATCCATATTTAA
1 CTCAATTTGCTCTC-AATTACCTCTCAAATTTCTCTAAAATCCATATTTAA
* * * *
11003923 CTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 CTCAATTTGCTCTCAATTACCTCTCAAATTTCTCTAAAATCCATATTT
11003971 TTAAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 7 0.17
50 35 0.83
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.44
Consensus pattern (50 bp):
CTCAATTTGCTCTCAATTACCTCTCAAATTTCTCTAAAATCCATATTTAA
Found at i:11003995 original size:14 final size:15
Alignment explanation
Indices: 11003973--11004002 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11003963 CCCTATTTTT
11003973 AAATAATTTTTTAAA
1 AAATAATTTTTTAAA
11003988 AAAT-ATTTTTTAAA
1 AAATAATTTTTTAAA
11004002 A
1 A
11004003 TTTTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATAATTTTTTAAA
Found at i:11008711 original size:127 final size:127
Alignment explanation
Indices: 11008436--11009003 Score: 878
Period size: 127 Copynumber: 4.5 Consensus size: 127
11008426 CCCAAACATG
* *
11008436 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGACTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * *
11008500 CTAGAAGCG--TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
65 CTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGTAC
* *
11008561 ATACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
11008626 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGTAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGTAC
* *
11008688 CTACTGTAGCAAAAGCGCGTCCACGAAGGGGCGATTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
11008753 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGTAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGTAC
* *
11008815 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
11008880 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAG-AC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCC-AGTAC
* * * * * * *
11008941 CTACTGTAGCAAAAGTGCGTACAAGTAGGCGCGACTTCAGAAA-TCTTTCTGATAAAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTC-TTCTCATAAAGCATCCT
11009004 ACTTTGATTT
Statistics
Matches: 413, Mismatches: 25, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
125 67 0.16
126 59 0.14
127 287 0.69
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (127 bp):
CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGTAC
Found at i:11014146 original size:11 final size:11
Alignment explanation
Indices: 11014126--11014155 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11014116 TAAAAAATAA
11014126 AAAAAGTATTTT
1 AAAAA-TATTTT
11014138 AAAAATATTTT
1 AAAAATATTTT
11014149 AAAAATA
1 AAAAATA
11014156 ATAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11015326 original size:23 final size:22
Alignment explanation
Indices: 11015287--11015331 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
11015277 TTACGATAGC
*
11015287 AAAAGTTAAATTTAATTATTTTT
1 AAAAGTTAAATTCAATT-TTTTT
11015310 AAAAGATTAAA-TCAATTTTTTT
1 AAAAG-TTAAATTCAATTTTTTT
11015332 CTTATTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AAAAGTTAAATTCAATTTTTTT
Found at i:11018231 original size:93 final size:93
Alignment explanation
Indices: 11018072--11018243 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
11018062 CAGGGGCAGA
* *
11018072 AAATATCAACCTGCATAGTCTCAAATGAAGACAAATCGAAGAAATGATGCAACTTAAACAGTTTT
1 AAATATCAACCTGCAGAGTCTCAAATGAAGACAAATCGAAGAAATGATGCAACTTAAACAGGTTT
11018137 CTCATAAATATATATGTGTGTGAGAGAG
66 CTCATAAATATATATGTGTGTGAGAGAG
* * * ** *
11018165 AAATATCAGCCTGCAGAGTCTCAAATGAGGAGAAATCGGTGAAATGATGCAACTTCAACAGGTTT
1 AAATATCAACCTGCAGAGTCTCAAATGAAGACAAATCGAAGAAATGATGCAACTTAAACAGGTTT
*
11018230 CTCATATATATATA
66 CTCATAAATATATA
11018244 CATGTGTATA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (93 bp):
AAATATCAACCTGCAGAGTCTCAAATGAAGACAAATCGAAGAAATGATGCAACTTAAACAGGTTT
CTCATAAATATATATGTGTGTGAGAGAG
Found at i:11024217 original size:15 final size:15
Alignment explanation
Indices: 11024194--11024231 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
11024184 AGCACCTCTA
*
11024194 ATATCATACACGCAT
1 ATATTATACACGCAT
*
11024209 ATATTATACATGCAT
1 ATATTATACACGCAT
11024224 AT-TTATAC
1 ATATTATAC
11024232 TAGATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (15 bp):
ATATTATACACGCAT
Found at i:11038456 original size:19 final size:19
Alignment explanation
Indices: 11038432--11038473 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11038422 AAATTTAATA
11038432 AAAAAATATTA-AAAATTAG
1 AAAAAA-ATTATAAAATTAG
*
11038451 AAAAAAATTATAAAATTAT
1 AAAAAAATTATAAAATTAG
11038470 AAAA
1 AAAA
11038474 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAAAATTATAAAATTAG
Found at i:11038465 original size:10 final size:10
Alignment explanation
Indices: 11038429--11038514 Score: 65
Period size: 10 Copynumber: 9.0 Consensus size: 10
11038419 TCAAAATTTA
*
11038429 ATAAAAAAAT
1 ATAAAAAATT
*
11038439 ATTAAAAATT
1 ATAAAAAATT
*
11038449 AGAAAAAAATT
1 A-TAAAAAATT
11038460 AT--AAAATT
1 ATAAAAAATT
11038468 AT--AAAATT
1 ATAAAAAATT
11038476 ATAAAAAATT
1 ATAAAAAATT
* **
11038486 GTAAAATTTT
1 ATAAAAAATT
*
11038496 AT-AAAAATC
1 ATAAAAAATT
11038505 ATAAAAAATT
1 ATAAAAAATT
11038515 CAAGGGTCTT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
8 16 0.27
9 6 0.10
10 29 0.49
11 8 0.14
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:11038483 original size:18 final size:18
Alignment explanation
Indices: 11038454--11038510 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
11038444 AAATTAGAAA
11038454 AAAATTAT--AAAATTAT
1 AAAATTATAAAAAATTAT
*
11038470 AAAATTATAAAAAATTGT
1 AAAATTATAAAAAATTAT
* *
11038488 AAAATTTTATAAAAATCAT
1 AAAATTATA-AAAAATTAT
11038507 AAAA
1 AAAA
11038511 AATTCAAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 8 0.24
18 15 0.44
19 11 0.32
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAAATTAT
Found at i:11038493 original size:8 final size:8
Alignment explanation
Indices: 11038454--11038481 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11038444 AAATTAGAAA
11038454 AAAATTAT
1 AAAATTAT
11038462 AAAATTAT
1 AAAATTAT
11038470 AAAATTAT
1 AAAATTAT
11038478 AAAA
1 AAAA
11038482 AATTGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:11039226 original size:32 final size:33
Alignment explanation
Indices: 11039167--11039233 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
11039157 AAAAATTGCA
*
11039167 ACATAAGCCCCTCTACTTTTTTTTATATAAATTT
1 ACATAAACCCCTCTAC-TTTTTTTATATAAATTT
11039201 ACATAAACCCCTCTAC-TTTTTTATATAAATTT
1 ACATAAACCCCTCTACTTTTTTTATATAAATTT
11039233 A
1 A
11039234 ATTGGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 17 0.53
34 15 0.47
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.45
Consensus pattern (33 bp):
ACATAAACCCCTCTACTTTTTTTATATAAATTT
Found at i:11040598 original size:24 final size:24
Alignment explanation
Indices: 11040571--11040619 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11040561 AAATGTTCAT
* *
11040571 GGATTGATCAATCCTAGAATGAAG
1 GGATTGAGCAATCCTAGAACGAAG
11040595 GGATTGAGCAATCCTAGAACGAAG
1 GGATTGAGCAATCCTAGAACGAAG
11040619 G
1 G
11040620 AGGATCGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (24 bp):
GGATTGAGCAATCCTAGAACGAAG
Found at i:11043350 original size:87 final size:87
Alignment explanation
Indices: 11043220--11043395 Score: 262
Period size: 87 Copynumber: 2.0 Consensus size: 87
11043210 CCAACTGATT
* * *
11043220 AGGGGTCACTCTATTAGATAATCCAGAGGAACTAACACCAGAATCAGCACTTGGACCTGATAATG
1 AGGGATCACTCTATTAGATAATCCAGAAGAACTAACACCAGAATCACCACTTGGACCTGATAATG
* *
11043285 AAGGTAATACTTCTGCAGTTCC
66 AAGGCAACACTTCTGCAGTTCC
* * ** *
11043307 AGGGATCACTCTATTAGATGATCCGGAAGAACTAACAGTAGAATCACCAGTTGGACCTGATAATG
1 AGGGATCACTCTATTAGATAATCCAGAAGAACTAACACCAGAATCACCACTTGGACCTGATAATG
11043372 AAGGCAACACTTCTGCAGTTCC
66 AAGGCAACACTTCTGCAGTTCC
11043394 AG
1 AG
11043396 TACTTGACCC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (87 bp):
AGGGATCACTCTATTAGATAATCCAGAAGAACTAACACCAGAATCACCACTTGGACCTGATAATG
AAGGCAACACTTCTGCAGTTCC
Found at i:11046204 original size:9 final size:9
Alignment explanation
Indices: 11046190--11046221 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
11046180 GTTTCTTTTA
11046190 TTTTAATTT
1 TTTTAATTT
11046199 TTTTAATTT
1 TTTTAATTT
11046208 TTTT-ATTT
1 TTTTAATTT
11046216 TTTTAA
1 TTTTAA
11046222 AGGGTCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTAATTT
Found at i:11056100 original size:18 final size:18
Alignment explanation
Indices: 11056077--11056116 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11056067 AAATAAATAT
*
11056077 TTTTTTTAAT-TTTTATA
1 TTTTTTGAATGTTTTATA
11056094 CTTTTTTGAATGTTTTATA
1 -TTTTTTGAATGTTTTATA
11056113 TTTT
1 TTTT
11056117 AAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTTTGAATGTTTTATA
Found at i:11056242 original size:3 final size:3
Alignment explanation
Indices: 11056234--11056285 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
11056224 TCATTATGCC
11056234 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11056282 TTA T
1 TTA T
11056286 CCAAAGAGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11064665 original size:22 final size:21
Alignment explanation
Indices: 11064613--11064676 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
11064603 TAAATATCCC
11064613 ATAAAAATATTTTAAAATATAT
1 ATAAAAA-ATTTTAAAATATAT
** *
11064635 ATGTCAAAATTTTAAAATTATTT
1 AT-AAAAAATTTTAAAA-TATAT
*
11064658 ATAAAAAATTAGTAAAATA
1 ATAAAAAATT-TTAAAATA
11064677 GTTAATTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (21 bp):
ATAAAAAATTTTAAAATATAT
Found at i:11065022 original size:22 final size:22
Alignment explanation
Indices: 11064971--11065028 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
11064961 AAGGGAGGAA
11064971 AATAAAAGAAAAAGCAAAAGAG
1 AATAAAAGAAAAAGCAAAAGAG
*
11064993 AATGAAAA-AAAAAGTTAAAAGA-
1 AAT-AAAAGAAAAAG-CAAAAGAG
11065015 ACATAAAAGAAAAA
1 A-ATAAAAGAAAAA
11065029 AATTAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.74, C:0.03, G:0.14, T:0.09
Consensus pattern (22 bp):
AATAAAAGAAAAAGCAAAAGAG
Found at i:11065034 original size:24 final size:25
Alignment explanation
Indices: 11064999--11065054 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
11064989 AGAGAATGAA
11064999 AAAAAAAGTTAAAAGAA-CATAAAAG
1 AAAAAAAGTTAAAAGAATCA-AAAAG
* *
11065024 AAAAAAA-TTAAAATAATCAAAATG
1 AAAAAAAGTTAAAAGAATCAAAAAG
11065048 AAAAAAA
1 AAAAAAA
11065055 ATATAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (25 bp):
AAAAAAAGTTAAAAGAATCAAAAAG
Found at i:11065062 original size:24 final size:23
Alignment explanation
Indices: 11065019--11065063 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
11065009 AAAAGAACAT
*
11065019 AAAAGAAAAAAATTAAAATAATC
1 AAAAGAAAAAAAATAAAATAATC
*
11065042 AAAATGAAAAAAAATATAATAA
1 AAAA-GAAAAAAAATAAAATAA
11065064 CTAATTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAAGAAAAAAAATAAAATAATC
Found at i:11065321 original size:19 final size:19
Alignment explanation
Indices: 11065297--11065336 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
11065287 TTTCGAAATT
*
11065297 ATTAAAATAAAATAGTTTA
1 ATTAAAATAAAATAGTGTA
11065316 ATTAAAATAAAATAGTGTA
1 ATTAAAATAAAATAGTGTA
11065335 AT
1 AT
11065337 GGAATAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
ATTAAAATAAAATAGTGTA
Found at i:11065616 original size:14 final size:15
Alignment explanation
Indices: 11065577--11065618 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11065567 TTTTAACATA
*
11065577 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11065592 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11065606 A-TATAATTTAATA
1 ATTATAATTAAATA
11065619 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11065754 original size:54 final size:53
Alignment explanation
Indices: 11065681--11065844 Score: 137
Period size: 54 Copynumber: 3.2 Consensus size: 53
11065671 GATACTATAA
* *
11065681 AATATAATTTAACATAATTATTATTAAATATATTATATTTAAAATATATAATTT
1 AATAAAATTTAAAATAATTATTATTAAATATATT-TATTTAAAATATATAATTT
* * * *
11065735 AATAAAATTTAAAATAATTATAACT-AATAAATTT-TCTT---ATAT-GAATTT
1 AATAAAATTTAAAATAATTATTATTAAATATATTTAT-TTAAAATATATAATTT
* * * *
11065783 -GTATAATTTAAAATAATTATTATTACATATAATTTA-ATAATAATATATAATTT
1 AATAAAATTTAAAATAATTATTATTAAATAT-ATTTATTTAA-AATATATAATTT
*
11065836 CATAAAATT
1 AATAAAATT
11065845 ATTGATAATA
Statistics
Matches: 84, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
47 20 0.24
48 9 0.11
49 8 0.10
51 1 0.01
52 7 0.08
53 12 0.14
54 27 0.32
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (53 bp):
AATAAAATTTAAAATAATTATTATTAAATATATTTATTTAAAATATATAATTT
Found at i:11065768 original size:24 final size:24
Alignment explanation
Indices: 11065717--11065765 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
11065707 AATATATTAT
*
11065717 ATTTAAAATATATAATTTAATAAA
1 ATTTAAAATATATAATCTAATAAA
11065741 ATTTAAAATAATTATAA-CTAATAAA
1 ATTTAAAAT-A-TATAATCTAATAAA
11065766 TTTTCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 8 0.36
26 5 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTAAAATATATAATCTAATAAA
Found at i:11065791 original size:47 final size:46
Alignment explanation
Indices: 11065725--11065892 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
11065715 ATATTTAAAA
*
11065725 TATAT-AATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * **
11065772 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA-TTTAA
1 TATATGAATTTATATAATTTAAAATAATTA-TAATA-ATA-AATTTTCT
* * *
11065820 TA-AT-AA--TATATAATTTCATAA-AATTATTGATAATAATTTTTCT
1 TATATGAATTTATATAATTT-AAAATAATTA-TAATAATAAATTTTCT
*
11065863 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
11065893 ATATTAAATA
Statistics
Matches: 96, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 20 0.21
45 5 0.05
46 5 0.05
47 40 0.42
48 15 0.16
49 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:11065814 original size:26 final size:28
Alignment explanation
Indices: 11065784--11065844 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
11065774 TATGAATTTG
*
11065784 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
11065810 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
11065838 TAAAATT
1 TATAATT
11065845 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:11065845 original size:91 final size:90
Alignment explanation
Indices: 11065750--11065966 Score: 317
Period size: 91 Copynumber: 2.4 Consensus size: 90
11065740 AATTTAAAAT
* * * *
11065750 AATTATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
11065815 TTTAATAATAATATATAATTTCATAA
65 TTTAATAATAATATATAATTTCATAA
* *
11065841 AATTATTGATAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
11065906 TTTAATAATGATATATAATTTCATAA
65 TTTAATAATAATATATAATTTCATAA
* *
11065932 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAATTTTCTTATATGAATTTA
11065967 CTAAAATCAA
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
91 91 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
AATTATAATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAAT
TTAATAATAATATATAATTTCATAA
Found at i:11065847 original size:44 final size:42
Alignment explanation
Indices: 11065784--11065926 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 42
11065774 TATGAATTTG
11065784 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAAT-ATA
* ** *
11065828 TATAATTTCATAA-AATTATTGA-TAATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAAT-A-TAAT-TTA-AT-AATATA
* *
11065875 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAAT-ATA
11065919 TATAATTT
1 TATAATTT
11065927 CATAAAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 5 0.06
44 29 0.38
45 9 0.12
46 9 0.12
47 19 0.25
48 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (42 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATATA
Found at i:11065933 original size:47 final size:47
Alignment explanation
Indices: 11065791--11065934 Score: 129
Period size: 47 Copynumber: 3.1 Consensus size: 47
11065781 TTGTATAATT
* * *
11065791 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
* * * ** * *
11065838 TAAAATTATTGATAAT-AAT-T--TTTCTTATATGAATTTATACAATT--
1 TAAAATAATTAATATTAAATATAATTTAATA-ATG-ATATATA-ATTTCA
11065882 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
11065929 TAAAAT
1 TAAAAT
11065935 TCTTAATAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
43 5 0.07
44 15 0.21
45 13 0.18
46 12 0.17
47 21 0.30
48 5 0.07
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (47 bp):
TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
Found at i:11069114 original size:36 final size:37
Alignment explanation
Indices: 11069070--11069155 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 37
11069060 AAGAAACGGG
* *
11069070 GGGAGCAAATCGGCAGAAAAGAAAAGAAAATAAAC-T
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
*
11069106 GGGAGCAAATCGGCAGAAAAGAAAAGCAAAGAAACAA
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
*
11069143 GGAAGCAAATCGG
1 GGGAGCAAATCGG
11069156 ATGAAGGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 33 0.73
37 12 0.27
ACGTcount: A:0.53, C:0.13, G:0.28, T:0.06
Consensus pattern (37 bp):
GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
Found at i:11071833 original size:51 final size:51
Alignment explanation
Indices: 11071757--11071858 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
11071747 TATTCAACAC
*
11071757 TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTACAAAGGG
1 TAGTTCGAGTCTGGATAATAATTCAAGATAGAAGAAGAAACCTACAAAGGG
*
11071808 TAGTTCGAGTCTGGATAATAATTCAAGATAGAAGAAGAAACCTGCAAAGGG
1 TAGTTCGAGTCTGGATAATAATTCAAGATAGAAGAAGAAACCTACAAAGGG
11071859 GAACTACTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (51 bp):
TAGTTCGAGTCTGGATAATAATTCAAGATAGAAGAAGAAACCTACAAAGGG
Found at i:11074295 original size:150 final size:150
Alignment explanation
Indices: 11073899--11074681 Score: 548
Period size: 150 Copynumber: 5.1 Consensus size: 150
11073889 TACTAATGGA
* * * * * *
11073899 AATGGAAAAGCAGG-TCTACCAACAAATCTTAGGCATGATGCTAACAGATTCATTTTGAAAATGT
1 AATGGAAAAGCAGGCACAACCAACAAATCTCAAGCATGATGCTAACAGATTAACTTTGAAAA---
* * * * **
11073963 CCTGTTATGTTATATGCTAT-TGGGTTCATATGGCTACTTTTAAATTCAATGTTTCATCGCTTCT
63 --TGTT-TGTTATATGCTATAT-GGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCT
* * ** *
11074027 ATTTCAGTTATACAATGTTTGACGACT
124 ATTTCAGTTCTACAATGCTCAATGACT
* * * ** * * * *
11074054 AATGAAAGCAGAAAGACAAGCACAACCAA-ATAATCTTAGGCATGATGCTAATGGACTCAGTCTG
1 AATG---G-A-AAAG-CAGGCACAACCAACA-AATCTCAAGCATGATGCTAACAGATTAACTTTG
* * * *
11074118 AAAATGTTATGTTATACGCTATTTGGTTCATATGGCTGCCTTCTGAGTTCAACGTTTCATTACTT
59 AAAATGTT-TGTTATATGCTATATGGTTCATATGGCTGCTTTC-AAGTTCAACGTTTCATTACTT
* *
11074183 GTATTTCAGTTCTAGAAT-CTCAATGACT
122 CTATTTCAGTTCTACAATGCTCAATGACT
* *
11074211 AATGGAAAAGCAGGC-CAAACGAAGAAATCTCAAGCATGATGCTAACAGATTAACTTT-AAAATG
1 AATGGAAAAGCAGGCAC-AACCAACAAATCTCAAGCATGATGCTAACAGATTAACTTTGAAAATG
* * * *
11074274 TATTGTTATATGCTATATGGTTCATGTAGCTGCTTTCAAGTTC-ACTCTTTCATTTCTTCTATTT
65 T-TTGTTATATGCTATATGGTTCATATGGCTGCTTTCAAGTTCAAC-GTTTCATTACTTCTATTT
*
11074338 CAGTTCTACAATGCTCAATGGCT
128 CAGTTCTACAATGCTCAATGACT
* * * * *
11074361 AATGGAAAGGCAGGCACTACCAACAAATCTCAGGCTTGATGCTAACAGATTCACTTTGAAAATGT
1 AATGGAAAAGCAGGCACAACCAACAAATCTCAAGCATGATGCTAACAGATTAACTTTGAAAATGT
* * * * *
11074426 CTTGTTATAATGCTA-ATGGCTTCATATGGATGCTTTCAAGCTCAATGCTTCATTGCTTCTATTT
66 -TTGTTAT-ATGCTATATGG-TTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCTATTT
* * *
11074490 CAGCTCTACAATGTTCGATGACT
128 CAGTTCTACAATGCTCAATGACT
* * * * * * * *
11074513 AATGGAAACCAAAAAGGCAGGCACTA-CAAAATAATCTTAGGCACGATGTTAA-GGATTTAA-TC
1 AATGG------AAAA-GCAGGCACAACCAACA-AATCTCAAGCATGATGCTAACAGA-TTAACTT
* * * * * * *
11074575 TGAACATG-TCGTTTATAAGCTA-ATTGGTTCACATGGCTGGTTTCAAGTTCAATGTTTCTTTAC
57 TGAAAATGTTTG-TTATATGCTATA-TGGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTAC
* *
11074638 TTCTATTCCAGTTCTACAATGTTCAATGACT
120 TTCTATTTCAGTTCTACAATGCTCAATGACT
*
11074669 AATGGAAAGGCAG
1 AATGGAAAAGCAG
11074682 ACAATACCAA
Statistics
Matches: 509, Mismatches: 88, Indels: 68
0.77 0.13 0.10
Matches are distributed among these distances:
148 2 0.00
149 35 0.07
150 97 0.19
151 53 0.10
152 69 0.14
153 2 0.00
154 1 0.00
155 4 0.01
156 70 0.14
157 50 0.10
158 50 0.10
159 30 0.06
160 4 0.01
161 4 0.01
162 38 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (150 bp):
AATGGAAAAGCAGGCACAACCAACAAATCTCAAGCATGATGCTAACAGATTAACTTTGAAAATGT
TTGTTATATGCTATATGGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCTATTTCAG
TTCTACAATGCTCAATGACT
Found at i:11079685 original size:3 final size:3
Alignment explanation
Indices: 11079679--11079713 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
11079669 TTCCCTTTTT
11079679 TTC TTC TTC TTC TTC TTC TTC TTC TTC TGTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC T
11079714 ACAAACAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:11081784 original size:10 final size:9
Alignment explanation
Indices: 11081757--11081783 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11081747 CCATTTTTAT
11081757 TTTAAAAAA
1 TTTAAAAAA
11081766 TTTAAAAAA
1 TTTAAAAAA
11081775 TTTAAAAAA
1 TTTAAAAAA
11081784 AAAAGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:11081793 original size:16 final size:15
Alignment explanation
Indices: 11081769--11081842 Score: 50
Period size: 16 Copynumber: 5.0 Consensus size: 15
11081759 TAAAAAATTT
11081769 AAAAA-ATTTAAAAA
1 AAAAATATTTAAAAA
*
11081783 AAAAAGTATTT--TAA
1 AAAAA-TATTTAAAAA
*
11081797 AAATAT-TTTAAAATTA
1 AAAAATATTTAAAA--A
11081813 AAAAAT-TTTAAAAA
1 AAAAATATTTAAAAA
*
11081827 AAAAGTATTTTAAAAA
1 AAAAATA-TTTAAAAA
11081843 TATTTTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
12 3 0.06
13 1 0.02
14 18 0.38
16 25 0.53
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAAATATTTAAAAA
Found at i:11081809 original size:27 final size:25
Alignment explanation
Indices: 11081759--11081827 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 25
11081749 ATTTTTATTT
11081759 TAAAAAA-TTTAAAAAATTTAAAAA
1 TAAAAAATTTTAAAAAATTTAAAAA
*
11081783 -AAAAAGTATTTTAAAAATATTTTAAAAT
1 TAAAAA--ATTTTAAAAA-A-TTTAAAAA
11081811 TAAAAAATTTTAAAAAA
1 TAAAAAATTTTAAAAAA
11081828 AAAGTATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
23 5 0.13
25 1 0.03
26 9 0.24
27 11 0.29
28 7 0.18
29 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (25 bp):
TAAAAAATTTTAAAAAATTTAAAAA
Found at i:11081820 original size:43 final size:43
Alignment explanation
Indices: 11081762--11081861 Score: 173
Period size: 43 Copynumber: 2.3 Consensus size: 43
11081752 TTTATTTTAA
11081762 AAAATTTAAAAAATTTAAAAAAAAAAGTATTTTAAAAATATTTT
1 AAAA-TTAAAAAATTTAAAAAAAAAAGTATTTTAAAAATATTTT
*
11081806 AAAATTAAAAAATTTTAAAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAATTTAAAAAAAAAAGTATTTTAAAAATATTTT
*
11081849 AAAATAAAAAAAT
1 AAAATTAAAAAAT
11081862 AAATATATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
43 50 0.93
44 4 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (43 bp):
AAAATTAAAAAATTTAAAAAAAAAAGTATTTTAAAAATATTTT
Found at i:11081858 original size:16 final size:17
Alignment explanation
Indices: 11081793--11081841 Score: 68
Period size: 16 Copynumber: 3.0 Consensus size: 17
11081783 AAAAAGTATT
11081793 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
11081810 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
11081826 --AAAAAGTATTTTAAAA
1 TTAAAAA-TATTTTAAAA
11081842 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.17
16 18 0.60
17 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:11083392 original size:44 final size:43
Alignment explanation
Indices: 11083331--11083471 Score: 151
Period size: 44 Copynumber: 3.3 Consensus size: 43
11083321 TATTTAGGTC
* * * *
11083331 TTAGGATTTAAACAGGTTAACGTTTTATTTTTCTCATTTATATT
1 TTAGGATTCAAATAGGTTAACGTTTT-TTTTTCTAATTTAAATT
* *
11083375 TTAGGATTCAAATAGGTT-ACATTTTTTTTTCTAATTTAGATCT
1 TTAGGATTCAAATAGGTTAACGTTTTTTTTTCTAATTTAAAT-T
* * * *
11083418 TAAGG-TTCAAATAGGTTAGAAGTTTGTTTTTCTAATTTAAATC
1 TTAGGATTCAAATAGGTTA-ACGTTTTTTTTTCTAATTTAAATT
11083461 TTAGGATTCAA
1 TTAGGATTCAA
11083472 TTTTTTTTTC
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.32
43 15 0.19
44 40 0.49
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (43 bp):
TTAGGATTCAAATAGGTTAACGTTTTTTTTTCTAATTTAAATT
Found at i:11085340 original size:20 final size:19
Alignment explanation
Indices: 11085311--11085348 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
11085301 CGTAAAATGA
11085311 TTTTTGAAAAATGATTTAC
1 TTTTTGAAAAATGATTTAC
11085330 TTTTCTGAAAAATGATTTA
1 TTTT-TGAAAAATGATTTA
11085349 TTGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTTTGAAAAATGATTTAC
Found at i:11089597 original size:23 final size:23
Alignment explanation
Indices: 11089571--11089616 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11089561 AGCAGGCTAA
11089571 GTGCCGGTGATCTGAATCAGGTT
1 GTGCCGGTGATCTGAATCAGGTT
11089594 GTGCCGGTGATCTGAATCAGGTT
1 GTGCCGGTGATCTGAATCAGGTT
11089617 ATAAACCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.30
Consensus pattern (23 bp):
GTGCCGGTGATCTGAATCAGGTT
Found at i:11089612 original size:64 final size:64
Alignment explanation
Indices: 11089534--11089655 Score: 208
Period size: 64 Copynumber: 1.9 Consensus size: 64
11089524 GGCTAAGTGT
* * *
11089534 CGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTGTGC
1 CGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCAGTGATCTAAATCAGGTTGTGC
*
11089598 CGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCAGTGGTCTAAATCAGG
1 CGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCAGTGATCTAAATCAGG
11089656 CTATAAGCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (64 bp):
CGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAAGTGCCAGTGATCTAAATCAGGTTGTGC
Found at i:11089653 original size:41 final size:41
Alignment explanation
Indices: 11089594--11089685 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
11089584 GAATCAGGTT
* * *
11089594 GTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAAGCTAA
1 GTGCCAGTGATCTAAATCAGGCTATAAACCTAGCAAGCTAA
* * *
11089635 GTGCCAGTGGTCTAAATCAGGCTATAAGCCTAGCAGGCTAA
1 GTGCCAGTGATCTAAATCAGGCTATAAACCTAGCAAGCTAA
*
11089676 GTGCCGGTGA
1 GTGCCAGTGA
11089686 ATCTGTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
GTGCCAGTGATCTAAATCAGGCTATAAACCTAGCAAGCTAA
Found at i:11094877 original size:16 final size:18
Alignment explanation
Indices: 11094845--11094877 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11094835 CTTAATAGAA
11094845 TAAATTTAGTGTTATTTG
1 TAAATTTAGTGTTATTTG
11094863 TAAATTT-GT-TTATTT
1 TAAATTTAGTGTTATTT
11094878 TTGCATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (18 bp):
TAAATTTAGTGTTATTTG
Found at i:11096759 original size:30 final size:30
Alignment explanation
Indices: 11096723--11096791 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
11096713 TTGATTGGTG
*
11096723 AAAATTACATCA-AATTGAAAATTTATATAT
1 AAAATTACATCATAA-TCAAAATTTATATAT
*
11096753 AAAATTACA-CATAATCAAAATTTATTTAT
1 AAAATTACATCATAATCAAAATTTATATAT
* *
11096782 CATATTACAT
1 AAAATTACAT
11096792 ATTAGATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAATTACATCATAATCAAAATTTATATAT
Found at i:11097634 original size:11 final size:9
Alignment explanation
Indices: 11097612--11097643 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
11097602 TAATAACTAT
11097612 TTTTTATAA
1 TTTTTATAA
11097621 TTTTTATAA
1 TTTTTATAA
*
11097630 TATTTATAA
1 TTTTTATAA
11097639 TTTTT
1 TTTTT
11097644 TTCGAACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11097797 original size:9 final size:9
Alignment explanation
Indices: 11097729--11097816 Score: 50
Period size: 9 Copynumber: 9.1 Consensus size: 9
11097719 ATATTTATAC
11097729 TTATAATTT
1 TTATAATTT
*
11097738 ATTATAATAT
1 -TTATAATTT
*
11097748 TTATAATAT
1 TTATAATTT
*
11097757 TTATGATTTTT
1 TTAT-A-ATTT
*
11097768 TTTTATATTT
1 TTATA-ATTT
** *
11097778 TTACGAGTT
1 TTATAATTT
11097787 TTATAATTT
1 TTATAATTT
*
11097796 TTATTATTTTT
1 TTA-TA-ATTT
11097807 TTATAATTT
1 TTATAATTT
11097816 T
1 T
11097817 AAGGAAAAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
9 29 0.48
10 20 0.33
11 11 0.18
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (9 bp):
TTATAATTT
Found at i:11099227 original size:12 final size:12
Alignment explanation
Indices: 11099210--11099234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11099200 ACAAGAGATT
11099210 GTTAATATAGAA
1 GTTAATATAGAA
11099222 GTTAATATAGAA
1 GTTAATATAGAA
11099234 G
1 G
11099235 AGCGTGGGTT
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (12 bp):
GTTAATATAGAA
Found at i:11104525 original size:21 final size:22
Alignment explanation
Indices: 11104496--11104542 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
11104486 CAGAAGGAGT
*
11104496 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
11104518 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
11104539 GAGT
1 GAGT
11104543 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:11107821 original size:29 final size:29
Alignment explanation
Indices: 11107774--11107944 Score: 75
Period size: 29 Copynumber: 5.7 Consensus size: 29
11107764 ATATTATGAT
* **
11107774 TATTTAATACTAAGAATTTTATTAAATTA
1 TATTTAATAATAATTATTTTATTAAATTA
11107803 TATTTAATAATAATTA--TT-TTAAATTA
1 TATTTAATAATAATTATTTTATTAAATTA
* * * **
11107829 TATTTTATAGT-ATTATATATTATGATTTTA
1 TATTTAATAATAATTAT-T-TTATTAAATTA
* * **
11107859 GTAAATTCATATAATAA-TATTTAATACTAAAGAA
1 -T--ATTTA-ATAATAATTATTT--TATTAAATTA
* *
11107893 T-TTTATTAAATTATATATTTTTATTAAATTA
1 TATTTAAT-AATAAT-TA-TTTTATTAAATTA
11107924 TATTTAATAATAATTATTTTA
1 TATTTAATAATAATTATTTTA
11107945 AATTATATTT
Statistics
Matches: 100, Mismatches: 25, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
25 4 0.04
26 17 0.17
27 2 0.02
29 21 0.21
30 14 0.14
31 14 0.14
32 8 0.08
33 8 0.08
34 11 0.11
35 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (29 bp):
TATTTAATAATAATTATTTTATTAAATTA
Found at i:11108062 original size:61 final size:60
Alignment explanation
Indices: 11107869--11108062 Score: 173
Period size: 61 Copynumber: 3.2 Consensus size: 60
11107859 GTAAATTCAT
*
11107869 ATAATAATATTTAATACTAAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTA
1 ATAATAATATTTAATACT-AAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTA
* * * * * ** * * *
11107930 ATAATAATTATTTTAA-A-TTA-TATTTTA-TAGTATTATATA-GTATGATTTTAGTAAATTCA
1 ATAATAA-TA-TTTAATACTAAGAATTTTATTA-AATTATATATTTTTG-TTAAATTATATTTA
* *
11107989 TATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTACATTATATTTA
1 -ATAATAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTA
11108050 ATAATAATTATTT
1 ATAATAA-TATTT
11108063 TAAATTATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
58 9 0.09
59 26 0.26
60 15 0.15
61 36 0.36
62 8 0.08
63 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (60 bp):
ATAATAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTA
Found at i:11108094 original size:120 final size:121
Alignment explanation
Indices: 11107790--11108112 Score: 585
Period size: 120 Copynumber: 2.7 Consensus size: 121
11107780 ATACTAAGAA
11107790 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
*
11107855 TTTAGTAAATTCATATAATAATATTTAATACTAAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATACTAAAGAATTTTATTAAATTATATAT
*
11107911 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAGTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
11107976 TTTAGTAAATTCATATAAGAATATTTAATACT-AAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATACTAAAGAATTTTATTAAATTATATAT
* * *
11108031 TTTTGTTACATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATACATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
*
11108096 TTTAGTATATTCATATA
66 TTTAGTAAATTCATATA
11108113 TTTTATTAAA
Statistics
Matches: 195, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
120 100 0.51
121 95 0.49
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (121 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATACTAAAGAATTTTATTAAATTATATAT
Found at i:11108130 original size:17 final size:18
Alignment explanation
Indices: 11108108--11108146 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11108098 TAGTATATTC
11108108 ATATA-TTTTATTAAATG
1 ATATATTTTTATTAAATG
*
11108125 ATATATTTTTATTAAATT
1 ATATATTTTTATTAAATG
11108143 ATAT
1 ATAT
11108147 TTCATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATATATTTTTATTAAATG
Found at i:11108401 original size:46 final size:45
Alignment explanation
Indices: 11108306--11108403 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 45
11108296 CATTCCATTC
* * * *
11108306 AACCAAACACAAGAATACTATTATGCCTCTATTCCATTCCATTCG
1 AACCAAACAAAAGAATACTATTACGCCTCTATTCCATTACATGCG
* *
11108351 -ACCAAACAAAATAATTACCTATTACGCCTCTATTTCATTACA-GCG
1 AACCAAACAAAAGAA-TA-CTATTACGCCTCTATTCCATTACATGCG
11108396 AACCAAAC
1 AACCAAAC
11108404 GTGCTGTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
44 12 0.27
45 4 0.09
46 28 0.64
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.27
Consensus pattern (45 bp):
AACCAAACAAAAGAATACTATTACGCCTCTATTCCATTACATGCG
Found at i:11110287 original size:41 final size:39
Alignment explanation
Indices: 11110231--11110349 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 39
11110221 TTCGACTTCG
*
11110231 AGCCAATGAGACACTGGGTGTCAATTTACTACTTCGAATTA
1 AGCCGATGAGACACTGGGTGTCAA-TTA-TACTTCGAATTA
** * * *
11110272 ATTCGATGAGGCACTGGGTGTCAATT-TACTTCG-GTTT
1 AGCCGATGAGACACTGGGTGTCAATTATACTTCGAATTA
11110309 AGCCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 AGCCGATGAGACACTGGGTGTC-AATTA-TACTTCGAATTA
11110350 TCTGATGAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
37 21 0.33
38 11 0.17
40 9 0.14
41 22 0.35
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (39 bp):
AGCCGATGAGACACTGGGTGTCAATTATACTTCGAATTA
Found at i:11110325 original size:37 final size:40
Alignment explanation
Indices: 11110231--11110349 Score: 136
Period size: 37 Copynumber: 3.0 Consensus size: 40
11110221 TTCGACTTCG
*
11110231 AGCCAATGAGACACTGGGTGTCAATTTACTACTTCGAATTA
1 AGCCGATGAGACACTGGGTGTCAATTTA-TACTTCGAATTA
** * * *
11110272 ATTCGATGAGGCACTGGGTGTCAA-TT-TACTTCG-GTTT
1 AGCCGATGAGACACTGGGTGTCAATTTATACTTCGAATTA
*
11110309 AGCCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 AGCCGATGAGACACTGGGTGTCAATTTA-TACTTCGAATTA
11110350 TCTGATGAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
37 23 0.37
38 9 0.14
40 9 0.14
41 22 0.35
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (40 bp):
AGCCGATGAGACACTGGGTGTCAATTTATACTTCGAATTA
Found at i:11126107 original size:14 final size:14
Alignment explanation
Indices: 11126070--11126109 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
11126060 TAAAAAATAT
11126070 AATAATAATTTT-A
1 AATAATAATTTTAA
11126083 AA-AAT-ATTTTAA
1 AATAATAATTTTAA
11126095 AATAATAATTTTAA
1 AATAATAATTTTAA
11126109 A
1 A
11126110 TTTACAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.21
12 6 0.25
13 5 0.21
14 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATAATAATTTTAA
Found at i:11126110 original size:13 final size:13
Alignment explanation
Indices: 11126070--11126110 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
11126060 TAAAAAATAT
11126070 AATAATAATTTTA
1 AATAATAATTTTA
11126083 AA-AAT-ATTTTAA
1 AATAATAATTTT-A
11126095 AATAATAATTTTA
1 AATAATAATTTTA
11126108 AAT
1 AAT
11126111 TTACAAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.20
12 6 0.24
13 9 0.36
14 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATAATTTTA
Found at i:11126590 original size:22 final size:22
Alignment explanation
Indices: 11126564--11126619 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 22
11126554 GTCTTTATAT
11126564 ATTATTTAGAATTTTTTTTAAA
1 ATTATTTAGAATTTTTTTTAAA
* *
11126586 ATTA-TTA-TACTTTTTTTAAA
1 ATTATTTAGAATTTTTTTTAAA
*
11126606 A-AATTT-GAATTTTT
1 ATTATTTAGAATTTTT
11126620 AGAAATTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 3 0.11
22 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
ATTATTTAGAATTTTTTTTAAA
Found at i:11151869 original size:20 final size:19
Alignment explanation
Indices: 11151815--11151883 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
11151805 TATCATTTCA
* **
11151815 AAAATCAATATTTTAATAAC
1 AAAAT-AATATTTAAATATT
*
11151835 AAAATATTATATTAAATATT
1 AAAATAATAT-TTAAATATT
*
11151855 AAGAATAATATTTAAATTTT
1 AA-AATAATATTTAAATATT
11151875 AAAATAATA
1 AAAATAATA
11151884 ATTATTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 11 0.27
20 23 0.56
21 7 0.17
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAATAATATTTAAATATT
Found at i:11153607 original size:18 final size:18
Alignment explanation
Indices: 11153584--11153618 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11153574 TAAAGCGTGC
11153584 ATAAAAAAATAAAAATAT
1 ATAAAAAAATAAAAATAT
* *
11153602 ATAAAAATATTAAAATA
1 ATAAAAAAATAAAAATA
11153619 ATGCTTTGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAAATAAAAATAT
Found at i:11154114 original size:14 final size:14
Alignment explanation
Indices: 11154095--11154121 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11154085 ACTAGCTTAT
11154095 AAATTAAATTATAA
1 AAATTAAATTATAA
11154109 AAATTAAATTATA
1 AAATTAAATTATA
11154122 TATTTGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTAAATTATAA
Found at i:11161342 original size:7 final size:7
Alignment explanation
Indices: 11161330--11161355 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11161320 AAAGTATTTT
11161330 AAAATTA
1 AAAATTA
11161337 AAAATTA
1 AAAATTA
11161344 AAAATTA
1 AAAATTA
11161351 AAAAT
1 AAAAT
11161356 ATATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:11163085 original size:21 final size:18
Alignment explanation
Indices: 11163053--11163098 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
11163043 AAGCCCACAA
11163053 TCTTCT-TT-TCCTCCCTT
1 TCTTCTCTTCTCCT-CCTT
11163070 TGCTCTCTCTTCTCCTCCTT
1 T-CT-TCTCTTCTCCTCCTT
11163090 TCTTCTCTT
1 TCTTCTCTT
11163099 TATTTACTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 5 0.20
20 7 0.28
21 4 0.16
ACGTcount: A:0.00, C:0.41, G:0.02, T:0.57
Consensus pattern (18 bp):
TCTTCTCTTCTCCTCCTT
Found at i:11165935 original size:21 final size:20
Alignment explanation
Indices: 11165893--11165936 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
11165883 TAATTTCTAA
11165893 TTAATATATTTTTAATTATT
1 TTAATATATTTTTAATTATT
* * *
11165913 TTAATTATCTTTTTTATTTTT
1 TTAA-TATATTTTTAATTATT
11165934 TTA
1 TTA
11165937 TTTGAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTAATATATTTTTAATTATT
Found at i:11184118 original size:21 final size:22
Alignment explanation
Indices: 11184092--11184138 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
11184082 CTCTGCTCAA
*
11184092 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
11184113 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
11184135 ACTC
1 ACTC
11184139 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:11187932 original size:3 final size:3
Alignment explanation
Indices: 11187893--11187917 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11187883 TTTCCCCTTC
11187893 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
11187918 TGATTCTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11193420 original size:5 final size:5
Alignment explanation
Indices: 11193410--11193448 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
11193400 TTTTTTATGA
11193410 TTGGG TTGGG TAATTGGG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG T---TGGG TTGGG TTGGG TTGGG TTGGG T
11193449 ACTTGGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 26 0.84
8 5 0.16
ACGTcount: A:0.05, C:0.00, G:0.54, T:0.41
Consensus pattern (5 bp):
TTGGG
Found at i:11194221 original size:9 final size:10
Alignment explanation
Indices: 11194197--11194221 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11194187 TTTTAAAATT
11194197 ATTTTTTAAA
1 ATTTTTTAAA
11194207 ATTTTTTAAA
1 ATTTTTTAAA
11194217 ATTTT
1 ATTTT
11194222 AAATTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:11194305 original size:88 final size:88
Alignment explanation
Indices: 11194156--11194332 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
11194146 CTTGTACGAC
11194156 ATTGAAATTGGCGTGAACTGGAGCTTTAATATTTTAAAATTATTTTTTAAAATTTTTTAAAATTT
1 ATTGAAATTGGCGTGAACTGGAGCTTTAATATTTTAAAATTATTTTTTAAAATTTTTTAAAATTT
*
11194221 TAAATTAGTAAAAATAAAATTAT
66 CAAATTAGTAAAAATAAAATTAT
11194244 ATTGAAATTGGCGTGAACTGGAGCTTTAATATTTTAAAATTATTTTTTAAAATTTTTTAAAATTT
1 ATTGAAATTGGCGTGAACTGGAGCTTTAATATTTTAAAATTATTTTTTAAAATTTTTTAAAATTT
11194309 CAAATTAGTAAAAATAAAATTAT
66 CAAATTAGTAAAAATAAAATTAT
11194332 A
1 A
11194333 CTTTGACCCC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (88 bp):
ATTGAAATTGGCGTGAACTGGAGCTTTAATATTTTAAAATTATTTTTTAAAATTTTTTAAAATTT
CAAATTAGTAAAAATAAAATTAT
Found at i:11199253 original size:19 final size:19
Alignment explanation
Indices: 11199226--11199262 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11199216 AATTATAAAA
11199226 TATGAAATATATATATAAG
1 TATGAAATATATATATAAG
*
11199245 TATGTAATATATATATAA
1 TATGAAATATATATATAA
11199263 ATAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
TATGAAATATATATATAAG
Found at i:11205983 original size:30 final size:30
Alignment explanation
Indices: 11205949--11206011 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11205939 ACTTATTTTA
11205949 TTGTTAATTTTGTTAATATTTTAAAGGCAT
1 TTGTTAATTTTGTTAATATTTTAAAGGCAT
* * *
11205979 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTAATATTTTAAAGGCAT
11206009 TTG
1 TTG
11206012 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTAATATTTTAAAGGCAT
Done.