Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009396.1 Kokia drynarioides strain JFW-HI SEQ_124103, whole genome shotgun sequence
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: 249870
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 17 characters in sequence are not A, C, G, or T
Found at i:531 original size:10 final size:11
Alignment explanation
Indices: 504--544 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
494 AGGGCAATTC
504 CTTCTTCTTCTT
1 CTTC-TCTTCTT
516 CCTTCTCTTCTT
1 -CTTCTCTTCTT
528 -TTCTC-TCTT
1 CTTCTCTTCTT
537 CTTCTCTT
1 CTTCTCTT
545 GCATCTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.15
10 10 0.38
11 1 0.04
12 7 0.27
13 4 0.15
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (11 bp):
CTTCTCTTCTT
Found at i:6772 original size:18 final size:18
Alignment explanation
Indices: 6701--6762 Score: 124
Period size: 18 Copynumber: 3.4 Consensus size: 18
6691 AACTTGTGGC
6701 TGCATCTGATTATATGAT
1 TGCATCTGATTATATGAT
6719 TGCATCTGATTATATGAT
1 TGCATCTGATTATATGAT
6737 TGCATCTGATTATATGAT
1 TGCATCTGATTATATGAT
6755 TGCATCTG
1 TGCATCTG
6763 GTTCTGTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (18 bp):
TGCATCTGATTATATGAT
Found at i:10751 original size:3 final size:3
Alignment explanation
Indices: 10743--10815 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
10733 AGCTATATAT
* *
10743 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
10791 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10816 TGATGATGAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26233 original size:11 final size:11
Alignment explanation
Indices: 26191--26234 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
26181 AATAATTTAA
26191 TAATAAAATAT
1 TAATAAAATAT
* *
26202 TATTAAAAATTT
1 TAAT-AAAATAT
26214 TAATAAAATAT
1 TAATAAAATAT
*
26225 TAATTAAATA
1 TAATAAAATA
26235 ACTTTTTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:26654 original size:3 final size:3
Alignment explanation
Indices: 26646--26676 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
26636 CCTTATCTAT
26646 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26677 TCACTTTATA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:31867 original size:17 final size:17
Alignment explanation
Indices: 31845--31881 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
31835 CATCATTTGG
31845 TATCAATAATACTTTTC
1 TATCAATAATACTTTTC
31862 TATCAATAATACTTTTC
1 TATCAATAATACTTTTC
31879 TAT
1 TAT
31882 TTATATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (17 bp):
TATCAATAATACTTTTC
Found at i:32490 original size:14 final size:15
Alignment explanation
Indices: 32471--32499 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32461 GGATTATAGC
32471 TTTTTG-TAAAGTTA
1 TTTTTGATAAAGTTA
32485 TTTTTGATAAAGTTA
1 TTTTTGATAAAGTTA
32500 GGGTTTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTTTGATAAAGTTA
Found at i:33990 original size:21 final size:20
Alignment explanation
Indices: 33949--33995 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
33939 CGAGTTTTTA
33949 GTATCAGTAGAAGCATGACTT
1 GTATCAGTAGAAG-ATGACTT
33970 GTATCAGTAGAAG-TGGCACTT
1 GTATCAGTAGAAGAT-G-ACTT
33991 GTATC
1 GTATC
33996 GATCAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 1 0.04
21 22 0.92
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (20 bp):
GTATCAGTAGAAGATGACTT
Found at i:44811 original size:149 final size:149
Alignment explanation
Indices: 44532--44829 Score: 427
Period size: 149 Copynumber: 2.0 Consensus size: 149
44522 TAACAGAAAA
* * * * * *
44532 ATTTGCAATGACATCCTAAGAAAATGTCACTAGGTTAATTGTCTCGTTTCATTCGTTGATTTTTG
1 ATTTGCAATGACATCCTAAGAAAATGTCACCAGGTTAATAGTCTCATTTCATTCGTTGATGTCTA
** * * * * *
44597 GGCTTAGGTAGTGCTTTAATCGTTGGCCATTCACTTTGAATTGGTGCCCATCGTTCAACTCTTTA
66 GGCTTAGGTAGCACATTAATCGTTGGCCATTCACTTTGAATTGGTGCCAATCGCTCAAATATTTA
*
44662 ATTGTCACCACACTATGTG
131 ATTGTCACCACACCATGTG
* *
44681 ATTTGCAATGACATCCTAAGAAAATGTGACCAGGTTAATAGTCTCATTAT-GTTCGTTGATGTCT
1 ATTTGCAATGACATCCTAAGAAAATGTCACCAGGTTAATAGTCTCATT-TCATTCGTTGATGTCT
*
44745 AGGCTTAGGTAGCACATTAATTGTTGGCCATTCACTTTGAATTGGTGCCAATCGCTCAAATATTT
65 AGGCTTAGGTAGCACATTAATCGTTGGCCATTCACTTTGAATTGGTGCCAATCGCTCAAATATTT
44810 AATTGTCACCACACCATGTG
130 AATTGTCACCACACCATGTG
44830 GAAATGCTTC
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
149 130 0.99
150 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (149 bp):
ATTTGCAATGACATCCTAAGAAAATGTCACCAGGTTAATAGTCTCATTTCATTCGTTGATGTCTA
GGCTTAGGTAGCACATTAATCGTTGGCCATTCACTTTGAATTGGTGCCAATCGCTCAAATATTTA
ATTGTCACCACACCATGTG
Found at i:49053 original size:18 final size:18
Alignment explanation
Indices: 49007--49056 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
48997 ACATTCGAAC
* **
49007 ATGTGGTTGCATCTGTTT
1 ATGTGATTGCATCTGGGT
* *
49025 ATATGACTGCATCTGGGT
1 ATGTGATTGCATCTGGGT
49043 ATGTGATTGCATCT
1 ATGTGATTGCATCT
49057 AATCAGGCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (18 bp):
ATGTGATTGCATCTGGGT
Found at i:55141 original size:16 final size:16
Alignment explanation
Indices: 55120--55150 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55110 GCAATAAAAT
55120 TTTTCTTCTTCTTTTC
1 TTTTCTTCTTCTTTTC
*
55136 TTTTCTTTTTCTTTT
1 TTTTCTTCTTCTTTT
55151 TCTCATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTCTTCTTTTC
Found at i:55145 original size:6 final size:6
Alignment explanation
Indices: 55119--55170 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
55109 AGCAATAAAA
* *
55119 TTTTTC TTCTTC -TTTTC -TTTTC TTTTTC TTTTTC TCATTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC
55165 TTTTTC
1 TTTTTC
55171 AGGTGACTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 12 0.31
6 24 0.62
7 3 0.08
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:55168 original size:24 final size:22
Alignment explanation
Indices: 55119--55170 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
55109 AGCAATAAAA
55119 TTTTTCTTCTTCTTTTCTTTTC
1 TTTTTCTTCTTCTTTTCTTTTC
* *
55141 TTTTTCTTTTTCTCATTTTTTTTC
1 TTTTTCTTCTTCT--TTTCTTTTC
55165 TTTTTC
1 TTTTTC
55171 AGGTGACTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 12 0.46
24 14 0.54
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTCTTCTTCTTTTCTTTTC
Found at i:73441 original size:15 final size:15
Alignment explanation
Indices: 73420--73454 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
73410 AGTCACTTGA
73420 AAAAAGAAAAA-AAG
1 AAAAAGAAAAAGAAG
73434 AGAAAAGAAAAAGAAG
1 A-AAAAGAAAAAGAAG
73450 AAAAA
1 AAAAA
73455 ATTATATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 14 0.74
16 4 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGAAG
Found at i:78488 original size:21 final size:21
Alignment explanation
Indices: 78450--78510 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
78440 TTTTTGTTTT
78450 AATTAGA-TTTAAGG-TTTTAA
1 AATTAGAGTTT-AGGTTTTTAA
*
78470 AATTAGGGTTTAGGTTTTTAA
1 AATTAGAGTTTAGGTTTTTAA
* *
78491 AATTAGAGTTTTGGTATTTA
1 AATTAGAGTTTAGGTTTTTA
78511 TTTTATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.26
21 26 0.74
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
AATTAGAGTTTAGGTTTTTAA
Found at i:80205 original size:13 final size:13
Alignment explanation
Indices: 80170--80199 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
80160 GTTCCACCTA
80170 TTTAA-ATAAAAT
1 TTTAACATAAAAT
80182 TTTAACATAAAAT
1 TTTAACATAAAAT
80195 TTTAA
1 TTTAA
80200 TTTAAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTAACATAAAAT
Found at i:95134 original size:23 final size:22
Alignment explanation
Indices: 95071--95152 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
95061 ACATTGTTCG
*
95071 TGAACATGTTCAATTATATGTTCA
1 TGAACATGTTCGATTA-AT-TTCA
* * *
95095 TGAACATATTTGTTTAATATTCA
1 TGAACATGTTCGATTAAT-TTCA
**
95118 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATTAA-TTTCA
95141 TGAACATGTTCG
1 TGAACATGTTCG
95153 TGAACATTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
23 34 0.72
24 13 0.28
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TGAACATGTTCGATTAATTTCA
Found at i:95162 original size:23 final size:23
Alignment explanation
Indices: 95117--95164 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
95107 TTTAATATTC
* *
95117 ATGAACATGTTCGATTAAGTTAA
1 ATGAACATGTTCGATGAAATTAA
95140 ATGAACATGTTCG-TGAACATTAA
1 ATGAACATGTTCGATGAA-ATTAA
95163 AT
1 AT
95165 AAACGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (23 bp):
ATGAACATGTTCGATGAAATTAA
Found at i:95680 original size:31 final size:31
Alignment explanation
Indices: 95657--95737 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
95647 AAAAGTACGT
95657 CCACGTAGG-AGCGTTTTTGCCAAAATGACGC
1 CCACGT-GGAAGCGTTTTTGCCAAAATGACGC
*
95688 CCACGTGGAAGCGTTTTTGCCAAAGAAG-CGC
1 CCACGTGGAAGCGTTTTTGCCAAA-ATGACGC
* *
95719 ACACGTGGAAGCGCTTTTG
1 CCACGTGGAAGCGTTTTTG
95738 GCCATGTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 2 0.04
31 41 0.91
32 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (31 bp):
CCACGTGGAAGCGTTTTTGCCAAAATGACGC
Found at i:98521 original size:20 final size:21
Alignment explanation
Indices: 98496--98541 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
98486 CCACGGGCCA
*
98496 AAAAAAAT-TA-AAAATTGTTT
1 AAAAAAATCTATAAAAAT-TTT
98516 AAAAAAATCTATAAAAATTTT
1 AAAAAAATCTATAAAAATTTT
98537 AAAAA
1 AAAAA
98542 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAAAATCTATAAAAATTTT
Found at i:98573 original size:31 final size:31
Alignment explanation
Indices: 98503--98586 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
98493 CCAAAAAAAA
98503 TTAAAAATTGTTTAAAAAAATCTATAAAAATT
1 TTAAAAATT-TTTAAAAAAATCTATAAAAATT
*
98535 TTAAAAATTTTTAAAAAAATGTA-AACAAATAT
1 TTAAAAATTTTTAAAAAAATCTATAA-AAAT-T
* *
98567 TT-AAAATTATAAAAAAAATC
1 TTAAAAATTTTTAAAAAAATC
98587 CAAGATCCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.04
31 32 0.70
32 12 0.26
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (31 bp):
TTAAAAATTTTTAAAAAAATCTATAAAAATT
Found at i:100211 original size:26 final size:26
Alignment explanation
Indices: 100136--100325 Score: 141
Period size: 26 Copynumber: 7.3 Consensus size: 26
100126 TCAGTGATAT
* *
100136 TAAACGTATATTCATGCCGACGAGCG
1 TAAACATATATTCATGCTGACGAGCG
* *
100162 TAAA-A-ATATTCATGTTGACAAGCG
1 TAAACATATATTCATGCTGACGAGCG
* *
100186 TAAACATATACTCATGCTAACGAGCG
1 TAAACATATATTCATGCTGACGAGCG
* * * *
100212 TAAACGTGTATTCAAGCTGATGAGCG
1 TAAACATATATTCATGCTGACGAGCG
* * * *
100238 TAAACGTATATATAATGCTAACAAGCG
1 TAAACATATAT-TCATGCTGACGAGCG
* * * * *
100265 TAAACGTGTATTCAAGCTGATGAGCA
1 TAAACATATATTCATGCTGACGAGCG
* * * *
100291 TAAACGTATATATAATGCTAACAAGCG
1 TAAACATATAT-TCATGCTGACGAGCG
100318 TAAACATA
1 TAAACATA
100326 ATGAAATTGC
Statistics
Matches: 125, Mismatches: 35, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
24 20 0.16
25 1 0.01
26 68 0.54
27 36 0.29
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (26 bp):
TAAACATATATTCATGCTGACGAGCG
Found at i:100267 original size:53 final size:53
Alignment explanation
Indices: 100182--100322 Score: 232
Period size: 53 Copynumber: 2.7 Consensus size: 53
100172 CATGTTGACA
* *
100182 AGCGTAAAC--ATATACTCATGCTAACGAGCGTAAACGTGTATTCAAGCTGATG
1 AGCGTAAACGTATATA-TAATGCTAACAAGCGTAAACGTGTATTCAAGCTGATG
100234 AGCGTAAACGTATATATAATGCTAACAAGCGTAAACGTGTATTCAAGCTGATG
1 AGCGTAAACGTATATATAATGCTAACAAGCGTAAACGTGTATTCAAGCTGATG
*
100287 AGCATAAACGTATATATAATGCTAACAAGCGTAAAC
1 AGCGTAAACGTATATATAATGCTAACAAGCGTAAAC
100323 ATAATGAAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
52 9 0.11
53 70 0.83
54 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (53 bp):
AGCGTAAACGTATATATAATGCTAACAAGCGTAAACGTGTATTCAAGCTGATG
Found at i:102463 original size:27 final size:26
Alignment explanation
Indices: 102412--102489 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
102402 ACTAAATATT
* *
102412 TTGTTTCTGGCTCGTACGAGCGATAC
1 TTGTTTCTGGCTCGTAAGAGTGATAC
*
102438 TCTGTTTCTGGCTGGTAAGAGTGATAC
1 T-TGTTTCTGGCTCGTAAGAGTGATAC
102465 TTCGTATT-TGGCTCGTAAGAGTGAT
1 TT-GT-TTCTGGCTCGTAAGAGTGAT
102490 GTTCTGGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 41 0.91
28 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (26 bp):
TTGTTTCTGGCTCGTAAGAGTGATAC
Found at i:102513 original size:28 final size:28
Alignment explanation
Indices: 102416--102513 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 28
102406 AATATTTTGT
* * * *
102416 TTCTGGCTCGTACGAGCGATAC-TCTGT
1 TTCTGGCTCGTAAGAGTGATACTTCGGA
* *
102443 TTCTGGCTGGTAAGAGTGATACTTCGTA
1 TTCTGGCTCGTAAGAGTGATACTTCGGA
*
102471 TT-TGGCTCGTAAGAGTGAT-GTTCTGGA
1 TTCTGGCTCGTAAGAGTGATACTTC-GGA
*
102498 TTCTGGCTCGTCAGAG
1 TTCTGGCTCGTAAGAG
102514 CATTACTCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.05
27 39 0.67
28 16 0.28
ACGTcount: A:0.17, C:0.18, G:0.30, T:0.35
Consensus pattern (28 bp):
TTCTGGCTCGTAAGAGTGATACTTCGGA
Found at i:102857 original size:49 final size:49
Alignment explanation
Indices: 102785--102879 Score: 190
Period size: 49 Copynumber: 1.9 Consensus size: 49
102775 TAAGCTATGT
102785 AAGCTTACCTATGAATCTGTCTATTGTTTTGTAGATTTCATTTTTGCAA
1 AAGCTTACCTATGAATCTGTCTATTGTTTTGTAGATTTCATTTTTGCAA
102834 AAGCTTACCTATGAATCTGTCTATTGTTTTGTAGATTTCATTTTTG
1 AAGCTTACCTATGAATCTGTCTATTGTTTTGTAGATTTCATTTTTG
102880 TTGTTGGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (49 bp):
AAGCTTACCTATGAATCTGTCTATTGTTTTGTAGATTTCATTTTTGCAA
Found at i:105528 original size:13 final size:13
Alignment explanation
Indices: 105489--105533 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
105479 TTATATATTT
105489 AAAAATTATATAA
1 AAAAATTATATAA
*
105502 AAATATT-T-TCAA
1 AAAAATTATAT-AA
105514 AAAAATTATATAA
1 AAAAATTATATAA
105527 AAAAATT
1 AAAAATT
105534 TAATACACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.33
13 16 0.59
14 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAATTATATAA
Found at i:106061 original size:18 final size:19
Alignment explanation
Indices: 106021--106064 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
106011 AATTACAAAA
*
106021 AAAAATTCAAAATAATTTTT
1 AAAAA-TCAAAATAATTTAT
106041 AAAAATCAAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
106059 AAAAAT
1 AAAAAT
106065 TTCAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:106073 original size:17 final size:18
Alignment explanation
Indices: 106034--106099 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
106024 AATTCAAAAT
* *
106034 AATTTTTAAAAA-TCAAA
1 AATTTATAAAAATTCTAA
*
106051 ATATTTATAAAAATT-TCA
1 A-ATTTATAAAAATTCTAA
*
106069 AATTTTTAAAAAATTCTAA
1 AATTTAT-AAAAATTCTAA
*
106088 AATATATAAAAA
1 AATTTATAAAAA
106100 AAAAGTTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
17 6 0.16
18 24 0.63
19 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTTATAAAAATTCTAA
Found at i:106090 original size:19 final size:18
Alignment explanation
Indices: 106020--106100 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 18
106010 AAATTACAAA
106020 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAAT-A-TTT
*
106040 TAAAAA-TCAAAATATTT
1 AAAAAATTCAAAATATTT
*
106057 ATAAAAATTTC-AAATTTTT
1 A-AAAAA-TTCAAAATATTT
*
106076 AAAAAATTCTAAAATATAT
1 AAAAAATTC-AAAATATTT
106095 AAAAAA
1 AAAAAA
106101 AAAGTTAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
17 6 0.12
18 11 0.22
19 27 0.53
20 7 0.14
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAAATTCAAAATATTT
Found at i:106525 original size:27 final size:27
Alignment explanation
Indices: 106422--106519 Score: 178
Period size: 27 Copynumber: 3.6 Consensus size: 27
106412 ACAATGGGTT
*
106422 GTGCTATGTTTAGAGGCAGCACCCTTG
1 GTGCCATGTTTAGAGGCAGCACCCTTG
106449 GTGCCATGTTTAGAGGCAGCACCCTTG
1 GTGCCATGTTTAGAGGCAGCACCCTTG
106476 GTGCCATGTTTAGAGGCAGCACCCTTG
1 GTGCCATGTTTAGAGGCAGCACCCTTG
*
106503 GTGCCATGTTGAGAGGC
1 GTGCCATGTTTAGAGGC
106520 GACACCTACG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (27 bp):
GTGCCATGTTTAGAGGCAGCACCCTTG
Found at i:106558 original size:45 final size:45
Alignment explanation
Indices: 106492--106581 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
106482 TGTTTAGAGG
*
106492 CAGCACCCTTGGTGCCATGTTGAGAGGCGACACCTACGTCCCATC
1 CAGCACCCTTGGTGCCATGTTGAGAGGCGACACCCACGTCCCATC
* * *
106537 CAGCATCCTTGGTGCCTTGTTGAGAGGCGACACCCACTTCCCATC
1 CAGCACCCTTGGTGCCATGTTGAGAGGCGACACCCACGTCCCATC
106582 AACCATCGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.19, C:0.36, G:0.23, T:0.22
Consensus pattern (45 bp):
CAGCACCCTTGGTGCCATGTTGAGAGGCGACACCCACGTCCCATC
Found at i:117529 original size:24 final size:24
Alignment explanation
Indices: 117501--117548 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
117491 ACAATCAATT
117501 CATTTTATATTACATTTGCACTGA
1 CATTTTATATTACATTTGCACTGA
*
117525 CATTTTATATTACTTTTGCACTGA
1 CATTTTATATTACATTTGCACTGA
117549 AAATTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (24 bp):
CATTTTATATTACATTTGCACTGA
Found at i:120059 original size:21 final size:21
Alignment explanation
Indices: 120026--120067 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
120016 TTAGAGATTC
* *
120026 TTGATCAAAATTTTCTATTTT
1 TTGACCAAAATTTGCTATTTT
*
120047 TTGACCAACATTTGCTATTTT
1 TTGACCAAAATTTGCTATTTT
120068 GACCAATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.52
Consensus pattern (21 bp):
TTGACCAAAATTTGCTATTTT
Found at i:122897 original size:20 final size:20
Alignment explanation
Indices: 122872--122921 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
122862 TCATTAAGCT
* * *
122872 TTAATTAACCCTTTTTATCA
1 TTAATTAAACCTATTTATAA
122892 TTAATTAAACCTATTTATAA
1 TTAATTAAACCTATTTATAA
122912 TTAATATAAA
1 TTAAT-TAAA
122922 TCATGCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATTAAACCTATTTATAA
Found at i:123286 original size:51 final size:50
Alignment explanation
Indices: 123207--123340 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 50
123197 TGAAGTTAGG
* * *
123207 AAACCAAATCCTATAT-TCCTGAAGTTGCAGTGGA-TAGGATTGAAGCTACG
1 AAACCAAATCCT-TATCTCCTGAAGTTGCAGTGGAGCAGGA-TGAAACTACA
* * *
123257 AAAGCGAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATGAAACTACA
1 AAACCAAATCCTTATCTC-CTGAAGTTGCAGTGGAGCAGGATGAAACTACA
*
123308 AAACCAAAT-CTTATACCCCTGAAGTTGCAGTGG
1 AAACCAAATCCTTAT-CTCCTGAAGTTGCAGTGG
123341 GTTAGATTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
49 3 0.04
50 31 0.44
51 32 0.46
52 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (50 bp):
AAACCAAATCCTTATCTCCTGAAGTTGCAGTGGAGCAGGATGAAACTACA
Found at i:124873 original size:23 final size:23
Alignment explanation
Indices: 124847--124890 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
124837 GTCCCTATCA
124847 TTTTGATTGT-TTATATTTCTTTG
1 TTTTGATT-TATTATATTTCTTTG
* *
124870 TTTTTATTTATTTTATTTCTT
1 TTTTGATTTATTATATTTCTT
124891 GTTCATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.75
Consensus pattern (23 bp):
TTTTGATTTATTATATTTCTTTG
Found at i:124903 original size:24 final size:23
Alignment explanation
Indices: 124860--124906 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
124850 TGATTGTTTA
124860 TATTTCTTTGTTTTTATTTATTT
1 TATTTCTTTGTTTTTATTTATTT
124883 TATTTC-TTGTTCATTTATTTATTT
1 TATTTCTTTGTT--TTTATTTATTT
124907 GTTAATTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 11 0.50
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.74
Consensus pattern (23 bp):
TATTTCTTTGTTTTTATTTATTT
Found at i:125127 original size:39 final size:39
Alignment explanation
Indices: 125084--125170 Score: 174
Period size: 39 Copynumber: 2.2 Consensus size: 39
125074 GATTATATGT
125084 CTTATTGTACCATTGACTTGATTATTTTAGAATTTTTTC
1 CTTATTGTACCATTGACTTGATTATTTTAGAATTTTTTC
125123 CTTATTGTACCATTGACTTGATTATTTTAGAATTTTTTC
1 CTTATTGTACCATTGACTTGATTATTTTAGAATTTTTTC
125162 CTTATTGTA
1 CTTATTGTA
125171 TTTCCTATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.54
Consensus pattern (39 bp):
CTTATTGTACCATTGACTTGATTATTTTAGAATTTTTTC
Found at i:128644 original size:12 final size:12
Alignment explanation
Indices: 128636--128660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128626 TTAATTTTTA
128636 TTTTTATTTATT
1 TTTTTATTTATT
128648 TTTTTATTTATT
1 TTTTTATTTATT
128660 T
1 T
128661 ATCTAGTTGT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:128650 original size:16 final size:16
Alignment explanation
Indices: 128592--128662 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
128582 CCCAATTACT
*
128592 TTTATTGTTTATATTTA
1 TTTATT-TTTTTATTTA
* **
128609 TTTCTTTATTTTA-GCA
1 TTTATTT-TTTTATTTA
128625 TTTAATTTTTATT-TTTA
1 TTT-ATTTTT-TTATTTA
128642 TTTATTTTTTTATTTA
1 TTTATTTTTTTATTTA
128658 TTTAT
1 TTTAT
128663 CTAGTTGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
15 2 0.05
16 22 0.52
17 18 0.43
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTATTTTTTTATTTA
Found at i:128869 original size:4 final size:4
Alignment explanation
Indices: 128860--128982 Score: 51
Period size: 4 Copynumber: 29.8 Consensus size: 4
128850 GCATTTCATA
* *
128860 TATT TATT TATT TA-T TATT TATT TA-T TAGT TATT CATT T-TT T-TGT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT-T
** *
128905 TATT TACATT CTCGT T-TT TATT TAATTT TATT TATT GT-TT TATG TATTT
1 TATT T--ATT -TATT TATT TATT T-A-TT TATT TATT -TATT TATT TA-TT
* *
128954 TATT TATT TGTT ATTTT TATGT TATT TAT
1 TATT TATT TATT -TATT TAT-T TATT TAT
128983 ATTTTTGCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 30
0.69 0.08 0.22
Matches are distributed among these distances:
3 13 0.14
4 58 0.62
5 15 0.16
6 6 0.06
7 1 0.01
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:128879 original size:11 final size:11
Alignment explanation
Indices: 128863--128893 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
128853 TTTCATATAT
128863 TTATTTATTTA
1 TTATTTATTTA
128874 TTATTTATTTA
1 TTATTTATTTA
*
128885 TTAGTTATT
1 TTATTTATT
128894 CATTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:128880 original size:15 final size:15
Alignment explanation
Indices: 128860--128969 Score: 61
Period size: 15 Copynumber: 7.3 Consensus size: 15
128850 GCATTTCATA
128860 TATTTATTTATTTAT
1 TATTTATTTATTTAT
128875 TATTTATTTA-TTAGT
1 TATTTATTTATTTA-T
* * *
128890 TATTCATTTTTTTGT
1 TATTTATTTATTTAT
* *
128905 TATTTA--CATTCTCGT
1 TATTTATTTATT-T-AT
*
128920 T-TTTATTTAATT-T
1 TATTTATTTATTTAT
128933 TATTTATTGT-TTTAT
1 TATTTATT-TATTTAT
*
128948 GTATTTTATTTATTTGT
1 -TA-TTTATTTATTTAT
128965 TATTT
1 TATTT
128970 TTATGTTATT
Statistics
Matches: 73, Mismatches: 10, Indels: 24
0.68 0.09 0.22
Matches are distributed among these distances:
13 4 0.05
14 16 0.22
15 34 0.47
16 9 0.12
17 10 0.14
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (15 bp):
TATTTATTTATTTAT
Found at i:128955 original size:21 final size:22
Alignment explanation
Indices: 128920--128961 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
128910 ACATTCTCGT
*
128920 TTTTATTTAATTTTATTTATTG
1 TTTTATGTAATTTTATTTATTG
128942 TTTTATGT-ATTTTATTTATT
1 TTTTATGTAATTTTATTTATT
128962 TGTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTATGTAATTTTATTTATTG
Found at i:128958 original size:26 final size:28
Alignment explanation
Indices: 128922--128987 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
128912 ATTCTCGTTT
*
128922 TTATTTAATTTTATTTATT-GTTTTATG
1 TTATTTTATTTTATTTATTAGTTTTATG
* *
128949 -TATTTTA-TTTATTTGTTATTTTTATG
1 TTATTTTATTTTATTTATTAGTTTTATG
128975 TTATTTATATTTT
1 TTATTT-TATTTT
128988 TGCCTTCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 9 0.28
26 13 0.41
27 5 0.16
28 2 0.06
29 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (28 bp):
TTATTTTATTTTATTTATTAGTTTTATG
Found at i:128964 original size:22 final size:22
Alignment explanation
Indices: 128920--128982 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
128910 ACATTCTCGT
128920 TTTTATTTAATTTTATTTA-TTG
1 TTTTATTT-ATTTTATTTATTTG
*
128942 TTTTATGTATTTTATTTATTTG
1 TTTTATTTATTTTATTTATTTG
*
128964 TTATT-TTTATGTTATTTAT
1 TT-TTATTTATTTTATTTAT
128983 ATTTTTGCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 10 0.28
22 24 0.67
23 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (22 bp):
TTTTATTTATTTTATTTATTTG
Found at i:128977 original size:71 final size:69
Alignment explanation
Indices: 128862--129009 Score: 163
Period size: 71 Copynumber: 2.1 Consensus size: 69
128852 ATTTCATATA
* * ** *
128862 TTTATTTATTTATTATTTATTTATTAGTTATTCATTTTTTTGTTATTTACATTCTCGTTTTTATT
1 TTTATTTATTTATTATGTATTTATTAGTTATTCATTTTTATGTTATTTACATTCTCGCCTTCATT
128927 TAAT
66 TAAT
* * * * * *
128931 TTTATTTATTGTTTTATGTATTTTATTTATTTGTT-ATTTTTATGTTATTTATATTTTTGCCTTC
1 TTTATTTATT-TATTATGTA-TTTA-TTAGTTATTCATTTTTATGTTATTTACATTCTCGCCTTC
128995 ATTTAAT
63 ATTTAAT
129002 TTTATTTA
1 TTTATTTA
129010 AGCATTGATA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
69 10 0.15
70 7 0.11
71 41 0.63
72 7 0.11
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (69 bp):
TTTATTTATTTATTATGTATTTATTAGTTATTCATTTTTATGTTATTTACATTCTCGCCTTCATT
TAAT
Found at i:128985 original size:17 final size:17
Alignment explanation
Indices: 128951--128988 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
128941 GTTTTATGTA
*
128951 TTTTATTTATTTGTTAT
1 TTTTATTTATTTGATAT
128968 TTTTATGTTATTT-ATAT
1 TTTTAT-TTATTTGATAT
128985 TTTT
1 TTTT
128989 GCCTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTTGATAT
Found at i:133058 original size:15 final size:15
Alignment explanation
Indices: 133035--133064 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
133025 CACAAAAAAA
133035 AAAGAAAAAGAAAGG
1 AAAGAAAAAGAAAGG
*
133050 AAAGGAAAAGAAAGG
1 AAAGAAAAAGAAAGG
133065 GAGGGGCCGA
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:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAAGG
Found at i:134282 original size:100 final size:99
Alignment explanation
Indices: 134108--134672 Score: 520
Period size: 100 Copynumber: 5.7 Consensus size: 99
134098 TAAATCTTAT
* * * * * * * * * *
134108 AGCTATAGAGGGACATATTAAAGCCACGAAGGTGAATCTTATACCCTTAAAGTTGTAGAGAGGCA
1 AGCTATAGAAGGACAGATTGAAGCTACGAAGGCGAATCTTATACCCCTAAAATTATAAAGGGGCA
*
134173 GATTAAAGTTACGAAAGTGAATCTTATACCCCTAA
66 GATTGAAGTTAC-AAAGTGAATCTTATACCCCTAA
* * * *
134208 AGCTATACAAGGACAGATTGAAGCTACGAAGGTGAATTTTATACCCCTAAAGTTATAAAGGGGCA
1 AGCTATAGAAGGACAGATTGAAGCTACGAAGGCGAATCTTATACCCCTAAAATTATAAAGGGGCA
*
134273 GATTGAAGTTATAAAAGTGAATCTTATA-CCCTAA
66 GATTGAAGTTA-CAAAGTGAATCTTATACCCCTAA
* * * *
134307 AGCTATAGAGGGGA-AAATTGAAGCCACGAAGGCGAATCTTATACCCCTAAAATTATAAAAGGGC
1 AGCTATAGA-AGGACAGATTGAAGCTACGAAGGCGAATCTTATACCCCTAAAATTATAAAGGGGC
*
134371 AGATTGAAGCTGTA-AAAGAGAATCTTATACCCCT-A
65 AGATTGAAG-T-TACAAAGTGAATCTTATACCCCTAA
* * * * * **
134406 AGCTGTAGAAGGATAG-TTGAAGCTACAGAA-GCAAATCCTACA-CCCTAAAGCTATACAA-GGG
1 AGCTATAGAAGGACAGATTGAAGCTAC-GAAGGCGAATCTTATACCCCTAAAATTATA-AAGGGG
* ** * *
134467 CAAATTGAAACTGCAAAGGTAAATCTTATACCCCTAA
64 CAGATTGAAGTTACAAA-GTGAATCTTATACCCCTAA
* * * * * *
134504 AGCTGTAGAGGGGCAGATTGAAG-TAGCGAAGGCAAATCTTATACCCCTAAAATTGTAAAGGGGT
1 AGCTATAGAAGGACAGATTGAAGCTA-CGAAGGCGAATCTTATACCCCTAAAATTATAAAGGGGC
* * * *
134568 AGATTGAAGCTGCAAAAGCGAATCTTATACCCATAA
65 AGATTGAAGTTAC-AAAGTGAATCTTATACCCCTAA
** * * * *
134604 AGCTATAGAAGGGGAGATTGAAGCTGC-ATAAGCGAATCTTATACCCCTAAAATTGTAAAGGGAC
1 AGCTATAGAAGGACAGATTGAAGCTACGA-AGGCGAATCTTATACCCCTAAAATTATAAAGGGGC
134668 AGATT
65 AGATT
134673 AAAACTCACA
Statistics
Matches: 388, Mismatches: 58, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
95 1 0.00
96 3 0.01
97 37 0.10
98 42 0.11
99 114 0.29
100 185 0.48
101 6 0.02
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (99 bp):
AGCTATAGAAGGACAGATTGAAGCTACGAAGGCGAATCTTATACCCCTAAAATTATAAAGGGGCA
GATTGAAGTTACAAAGTGAATCTTATACCCCTAA
Found at i:134544 original size:197 final size:199
Alignment explanation
Indices: 134108--134628 Score: 554
Period size: 197 Copynumber: 2.6 Consensus size: 199
134098 TAAATCTTAT
* * ** * * * *
134108 AGCTATAGA-GGGACATATTAAAGCCACGAAGGTGAATCTTATACCCTTAAAGTTGT-AGAGAGG
1 AGCTATAGAGGGGA-AAATTGAAGCCACGAAGGCAAATCTTATACCCCTAAAATTATAAAAG-GG
* * * * * *
134171 CAGATTAAAGTTACGAAAGTGAATCTTATACCCCTAAAGCTATACAAGGACAGATTGAAGCTACG
64 CAGATTGAAGCTGCAAAAGAGAATCTTATACCCCTAAAGCTATAGAAGGACAGATTGAAGCTACG
** ** * * * ** * *
134236 AAGGTGAATTTTATACCCCTAAAGTTATAAAGGGGCAGATTGAAGTTATAAAAGTGAATCTTATA
129 AAGGCAAATCCTACACCCCTAAAGCTATAAAGGGGCAAATTGAAACTACAAAAGTAAATCTTATA
134301 CCCTAA
194 CCCTAA
*
134307 AGCTATAGAGGGGAAAATTGAAGCCACGAAGGCGAATCTTATACCCCTAAAATTATAAAAGGGCA
1 AGCTATAGAGGGGAAAATTGAAGCCACGAAGGCAAATCTTATACCCCTAAAATTATAAAAGGGCA
* * *
134372 GATTGAAGCTGTAAAAGAGAATCTTATACCCCT-AAGCTGTAGAAGGATAG-TTGAAGCTACAGA
66 GATTGAAGCTGCAAAAGAGAATCTTATACCCCTAAAGCTATAGAAGGACAGATTGAAGCTAC-GA
* *
134435 A-GCAAATCCTACA-CCCTAAAGCTATACAA-GGGCAAATTGAAACTGCAAAGGTAAATCTTATA
130 AGGCAAATCCTACACCCCTAAAGCTATA-AAGGGGCAAATTGAAACTACAAAAGTAAATCTTATA
134497 CCCCTAA
194 -CCCTAA
* * * * * * *
134504 AGCTGTAGAGGGGCAGATTGAAG-TAGCGAAGGCAAATCTTATACCCCTAAAATTGTAAAGGGGT
1 AGCTATAGAGGGGAAAATTGAAGCCA-CGAAGGCAAATCTTATACCCCTAAAATTATAAAAGGGC
* * **
134568 AGATTGAAGCTGCAAAAGCGAATCTTATACCCATAAAGCTATAGAAGGGGAGATTGAAGCT
65 AGATTGAAGCTGCAAAAGAGAATCTTATACCCCTAAAGCTATAGAAGGACAGATTGAAGCT
134629 GCATAAGCGA
Statistics
Matches: 271, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
196 39 0.14
197 110 0.41
198 31 0.11
199 84 0.31
200 7 0.03
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (199 bp):
AGCTATAGAGGGGAAAATTGAAGCCACGAAGGCAAATCTTATACCCCTAAAATTATAAAAGGGCA
GATTGAAGCTGCAAAAGAGAATCTTATACCCCTAAAGCTATAGAAGGACAGATTGAAGCTACGAA
GGCAAATCCTACACCCCTAAAGCTATAAAGGGGCAAATTGAAACTACAAAAGTAAATCTTATACC
CTAA
Found at i:134672 original size:50 final size:48
Alignment explanation
Indices: 134141--134672 Score: 365
Period size: 50 Copynumber: 10.7 Consensus size: 48
134131 CCACGAAGGT
* * * * * * * *
134141 GAATCTTATACCCTTAAAGTTGTAGAGAGGCAGATTAAAGTTACGAAAGT
1 GAATCTTATACCCCTAAAGCTATAAAG-GGCAGATTGAAGCTGC-AAAGC
* * * *
134191 GAATCTTATACCCCTAAAGCTATACAAGGACAGATTGAAGCTACGAAGGT
1 GAATCTTATACCCCTAAAGCTATA-AAGGGCAGATTGAAGCTGC-AAAGC
* * * ** *
134241 GAATTTTATACCCCTAAAGTTATAAAGGGGCAGATTGAAGTTATAAAAGT
1 GAATCTTATACCCCTAAAGCTATAAA-GGGCAGATTGAAGCT-GCAAAGC
* * * ** *
134291 GAATCTTATA-CCCTAAAGCTATAGAGGGGAAAATTGAAGCCACGAAGGC
1 GAATCTTATACCCCTAAAGCTATA-AAGGGCAGATTGAAGCTGC-AAAGC
** * *
134340 GAATCTTATACCCCTAAAATTATAAAAGGGCAGATTGAAGCTGTAAAAGA
1 GAATCTTATACCCCTAAAGCTAT-AAAGGGCAGATTGAAGCTG-CAAAGC
* ** *
134390 GAATCTTATACCCCT-AAGCTGTAGAAGGATAG-TTGAAGCTACAGAAGC
1 GAATCTTATACCCCTAAAGCTATA-AAGGGCAGATTGAAGCTGCA-AAGC
* * * * *
134438 AAATCCTACA-CCCTAAAGCTATACAAGGGCAAATTGAAACTGCAAAG-
1 GAATCTTATACCCCTAAAGCTATA-AAGGGCAGATTGAAGCTGCAAAGC
* * *
134485 GTAAATCTTATACCCCTAAAGCTGTAGAGGGGCAGATTGAAG-TAGCGAAGGC
1 G--AATCTTATACCCCTAAAGCTATA-AAGGGCAGATTGAAGCT-GC-AAAGC
* ** * *
134537 AAATCTTATACCCCTAAAATTGTAAAGGGGTAGATTGAAGCTGCAAAAGC
1 GAATCTTATACCCCTAAAGCTATAAA-GGGCAGATTGAAGCTGC-AAAGC
* *
134587 GAATCTTATACCCATAAAGCTATAGAAGGGGAGATTGAAGCTGCATAAGC
1 GAATCTTATACCCCTAAAGCTATA-AAGGGCAGATTGAAGCTGCA-AAGC
** *
134637 GAATCTTATACCCCTAAAATTGTAAAGGGACAGATT
1 GAATCTTATACCCCTAAAGCTATAAAGGG-CAGATT
134673 AAAACTCACA
Statistics
Matches: 378, Mismatches: 81, Indels: 46
0.75 0.16 0.09
Matches are distributed among these distances:
47 5 0.01
48 34 0.09
49 72 0.19
50 258 0.68
51 9 0.02
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (48 bp):
GAATCTTATACCCCTAAAGCTATAAAGGGCAGATTGAAGCTGCAAAGC
Found at i:135874 original size:16 final size:16
Alignment explanation
Indices: 135853--135883 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
135843 TTTAATTTTA
135853 TTTATTTATTGATATT
1 TTTATTTATTGATATT
*
135869 TTTATTTATTTATAT
1 TTTATTTATTGATAT
135884 AACATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTATTTATTGATATT
Found at i:140368 original size:25 final size:24
Alignment explanation
Indices: 140334--140380 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
140324 TGCCTGTATT
*
140334 AAAATTTTTTTATATAAATTTTTTG
1 AAAATATTTTTATAT-AATTTTTTG
140359 AAAATATTTTTATATAATTTTT
1 AAAATATTTTTATATAATTTTT
140381 AAATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
AAAATATTTTTATATAATTTTTTG
Found at i:140390 original size:25 final size:25
Alignment explanation
Indices: 140334--140388 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
140324 TGCCTGTATT
* *
140334 AAAATTTTTTTATATAAATTTTTTG
1 AAAATATTTTTATATAAATTTTTTA
140359 AAAATATTTTTATAT-AA-TTTTTA
1 AAAATATTTTTATATAAATTTTTTA
*
140382 AATATAT
1 AAAATAT
140389 ATATAATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 11 0.41
24 2 0.07
25 14 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
AAAATATTTTTATATAAATTTTTTA
Found at i:140585 original size:14 final size:14
Alignment explanation
Indices: 140562--140596 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
140552 TACAATATTC
*
140562 AAATAATAACAACA
1 AAATAGTAACAACA
140576 AAATAGTAACAACA
1 AAATAGTAACAACA
*
140590 TAATAGT
1 AAATAGT
140597 TAAATGGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:147280 original size:16 final size:16
Alignment explanation
Indices: 147259--147300 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
147249 TGAGGGTTAA
* *
147259 ATTAAAATAATACTTC
1 ATTAAAATAAAACCTC
147275 ATTAAAATAAAACCTC
1 ATTAAAATAAAACCTC
*
147291 TTTAAAATAA
1 ATTAAAATAA
147301 GCAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAAATAAAACCTC
Found at i:149310 original size:36 final size:36
Alignment explanation
Indices: 149270--149338 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
149260 CATGCCACCA
*
149270 AATATTGATAGATTTACTGCCAGATACTTCCTCTTT
1 AATATTGACAGATTTACTGCCAGATACTTCCTCTTT
149306 AATATTGACAGATTTACTGCCAGATACTTCCTC
1 AATATTGACAGATTTACTGCCAGATACTTCCTC
149339 CTTACACGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (36 bp):
AATATTGACAGATTTACTGCCAGATACTTCCTCTTT
Found at i:155528 original size:128 final size:128
Alignment explanation
Indices: 155298--155555 Score: 453
Period size: 128 Copynumber: 2.0 Consensus size: 128
155288 TTTTCAGGAT
* * *
155298 CTCATGAAAACATGGTTGGATATTACTCTTCTTGGTTTGAAAATTAGCAACTTTATATTCAAATG
1 CTCATGAAAACATGGTTGGATATTACTCTTCTTGGTTTGAAAATGAGCAAATTTATATTAAAATG
* * *
155363 GAGCTATGTGATTATAGCTTGTCTAGAAAATCGTCTACTCAACTGTTCACAGAAGGAGAACTC
66 GAGCCATGTGATTACAGCTTGTCTAGAAAATCATCTACTCAACTGTTCACAGAAGGAGAACTC
155426 CTCATGAAAACATGGTTGGATATTACTCTTCTTGGTTTGAAAATGAGCAAATTTATATTAAAATG
1 CTCATGAAAACATGGTTGGATATTACTCTTCTTGGTTTGAAAATGAGCAAATTTATATTAAAATG
*
155491 GAGCCATGTGGTTACAGCTTGTCTAGAAAATCATCTACTCAACTGTTCACAGAAGGAGAACTC
66 GAGCCATGTGATTACAGCTTGTCTAGAAAATCATCTACTCAACTGTTCACAGAAGGAGAACTC
155554 CT
1 CT
155556 GAGAGCCATG
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (128 bp):
CTCATGAAAACATGGTTGGATATTACTCTTCTTGGTTTGAAAATGAGCAAATTTATATTAAAATG
GAGCCATGTGATTACAGCTTGTCTAGAAAATCATCTACTCAACTGTTCACAGAAGGAGAACTC
Found at i:166498 original size:141 final size:137
Alignment explanation
Indices: 166184--166582 Score: 357
Period size: 140 Copynumber: 2.9 Consensus size: 137
166174 GACACTTTTT
* * * *
166184 TAAGTGTTGGGATAGACTTGTCAACA-ATATTTTGGCTAACT-TTTTGAATAAAGGTTGGGATAT
1 TAAGTGTTGGGATAGACTTGTCGACATACATTTTGGCCAACTCTTTT-AATAAGGGTTGGGATAT
** * * * *
166247 GCATGATTAAGACAATGCTTAAATAAGAATTG---GTACAACACTATGCCGACAAT--TTTTGGG
65 GCATGCCTAAGACAACGCTTAAATAAGAGTTGCTTTTTCAACACTAT---GACAATACTTTTGGG
* * *
166307 CGGCACTTTTC
127 CGACAATTTCC
* * * *
166318 TAAATGTTGGAATAGACTTGTCGACATACGTTTTTGCCAACTCTTTTAAGTAAGGGTTGGGATAT
1 TAAGTGTTGGGATAGACTTGTCGACATACATTTTGGCCAACTCTTTTAA-TAAGGGTTGGGATAT
* *
166383 ACATGCCTAAGATAACGCTTAAATAAGAGTTGACTTTTTCGAACACTATGACAATACTTTTGGGT
65 GCATGCCTAAGACAACGCTTAAATAAGAGTTG-CTTTTTC-AACACTATGACAATACTTTTGGG-
166448 CGACAATTTCC
127 CGACAATTTCC
* * * * **
166459 TAAGTGTTGGGATAGACTTGTTGACATACACTTTGGCCAACTCATTGT-ATAAGAGTTGAAATAT
1 TAAGTGTTGGGATAGACTTGTCGACATACATTTTGGCCAACTC-TTTTAATAAGGGTTGGGATAT
* * * * *
166523 GCATGCAC-AAGGCAACGCTTAAATAAGAGTAGGCTTTGTCCAACACTATGTCAACACTTT
65 GCATGC-CTAAGACAACGCTTAAATAAGAGT-TGCTTT-TTCAACACTATGACAATACTTT
166583 CCTAAGTGTT
Statistics
Matches: 214, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
134 23 0.11
135 13 0.06
136 44 0.21
138 6 0.03
140 67 0.31
141 58 0.27
142 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (137 bp):
TAAGTGTTGGGATAGACTTGTCGACATACATTTTGGCCAACTCTTTTAATAAGGGTTGGGATATG
CATGCCTAAGACAACGCTTAAATAAGAGTTGCTTTTTCAACACTATGACAATACTTTTGGGCGAC
AATTTCC
Found at i:166922 original size:22 final size:21
Alignment explanation
Indices: 166897--166957 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
166887 AATGAACCTC
166897 AAACCCATAACCCCAAACTCTA
1 AAACCCATAACCCCAAACTC-A
* * *
166919 AAA-CCATAAACACTAAACTCC
1 AAACCCAT-AACCCCAAACTCA
*
166940 AAACTCATAACCCCAAAC
1 AAACCCATAACCCCAAAC
166958 CCTTAAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (21 bp):
AAACCCATAACCCCAAACTCA
Found at i:167619 original size:36 final size:36
Alignment explanation
Indices: 167577--168059 Score: 512
Period size: 36 Copynumber: 13.5 Consensus size: 36
167567 TTTAGAGGGA
* *
167577 TCTATCCCAACCTTTTTAAGATTGTTTTAGACAAGG
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
* *
167613 TCTATCCCAACCTTTTTAAGGTTGTCTCAAACAAGG
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
*
167649 TCTATCTCAACCTTTTTAAGGTT-TCCTTAGACAA-G
1 TCTATCCCAACCTTTTTAAGGTTGT-CTTAGACAAGG
* **
167684 TCTATCCCAATCTTTTTTAAAGGTTGTCTTAGACAAAC
1 TCTATCCCAA-CCTTTTT-AAGGTTGTCTTAGACAAGG
* ** ** *
167722 CCTATCCCAACCTTTTTAAAATTACCTTAGACAAGA
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
*
167758 TCTATCCCAACCTTTTTAAGGTTGTCTTAAAC-AGG
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
* * *
167793 TCTATCTCAACTTTTTTAAAGGTTGTCTTAGACAATG
1 TCTATCCCAACCTTTTT-AAGGTTGTCTTAGACAAGG
* * *
167830 TCTACCCCAACCTTTTTAAAGTTGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
* * * *
167866 TCTATCTCAACCTTTTTAAGGTTGCCTTTGA-TAGG
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
* *
167901 TCTATCCCAACCTTTTTAAGATTGTCTTAGACAAAG
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
* * * *
167937 TCTA-CTCCAACCTTTTTAAAGTTGCCTTATACGA-G
1 TCTATC-CCAACCTTTTTAAGGTTGTCTTAGACAAGG
* *
167972 TTTAGCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
* * * ** * *
168008 TTTATCTCAATCTTTTTAAGGTTACCTTAAACAA-A
1 TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
168043 TCTATCCCAACCTTTTT
1 TCTATCCCAACCTTTTT
168060 TAAACGTTAC
Statistics
Matches: 370, Mismatches: 66, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
35 101 0.27
36 222 0.60
37 37 0.10
38 10 0.03
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
Found at i:167653 original size:72 final size:71
Alignment explanation
Indices: 167577--168059 Score: 565
Period size: 71 Copynumber: 6.7 Consensus size: 71
167567 TTTAGAGGGA
* * ** *
167577 TCTATCCCAACCTTTTTAAGATTGTTTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGTCTCA
1 TCTATCTCAACCTTTTTAAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTTAAGGTTGTCTTA
*
167642 AACAAGG
65 GACAAGG
* *
167649 TCTATCTCAACCTTTTTAAGGTTTCCTTAGACAAGTCTATCCCAATCTTTTTTAAAGGTTGTCTT
1 TCTATCTCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAA-CCTTTTT-AAGGTTGTCTT
**
167714 AGACAAAC
64 AGACAAGG
* * ** *
167722 CCTATCCCAACCTTTTTAAAATTACCTTAGACAAGATCTATCCCAACCTTTTTAAGGTTGTCTTA
1 TCTATCTCAACCTTTTTAAGGTTGCCTTAGACAAG-TCTATCCCAACCTTTTTAAGGTTGTCTTA
*
167787 AAC-AGG
65 GACAAGG
* * * * *
167793 TCTATCTCAACTTTTTTAAAGGTTGTCTTAGACAATGTCTACCCCAACCTTTTTAAAGTTGCCTT
1 TCTATCTCAACCTTTTT-AAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTTAAGGTTGTCTT
167858 AGACAAGG
64 AGACAAGG
* * * *
167866 TCTATCTCAACCTTTTTAAGGTTGCCTTTGATAGGTCTATCCCAACCTTTTTAAGATTGTCTTAG
1 TCTATCTCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTAAGGTTGTCTTAG
*
167931 ACAAAG
66 ACAAGG
* * * * *
167937 TCTA-CTCCAACCTTTTTAAAGTTGCCTTATACGAGTTTAGCCCAACCTTTTTAAGGTTGTCTTA
1 TCTATCT-CAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTAAGGTTGTCTTA
168001 GACAAGG
65 GACAAGG
* * * * *
168008 TTTATCTCAATCTTTTTAAGGTTACCTTAAACAAATCTATCCCAACCTTTTT
1 TCTATCTCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTT
168060 TAAACGTTAC
Statistics
Matches: 344, Mismatches: 59, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
70 2 0.01
71 156 0.45
72 105 0.31
73 71 0.21
74 10 0.03
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (71 bp):
TCTATCTCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTAAGGTTGTCTTAG
ACAAGG
Found at i:167849 original size:108 final size:107
Alignment explanation
Indices: 167577--168080 Score: 568
Period size: 108 Copynumber: 4.7 Consensus size: 107
167567 TTTAGAGGGA
* * * * * * *
167577 TCTATCCCAACCTTTTTAAGATTGTTTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGTCTCA
1 TCTATCCCAACTTTTTTAAGGTTGTCTTAGACAAAGTCTATCCCAACCTTTTTAAAGTTGCCTTA
* * *
167642 AACAAGGTCTATCTCAACCTTTTTAAGGTT-TCCTTAGACAAG
66 GACAAGGTCTATCCCAACCTTTTTAAGGTTGT-CTTAGACAGG
** * *
167684 TCTATCCCAATCTTTTTTAAAGGTTGTCTTAGACAAACCCTATCCCAACCTTTTTAAAATTACCT
1 TCTATCCCAA-CTTTTTT-AAGGTTGTCTTAGACAAAGTCTATCCCAACCTTTTTAAAGTTGCCT
* *
167749 TAGACAAGATCTATCCCAACCTTTTTAAGGTTGTCTTAAACAGG
64 TAGACAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAGG
* * *
167793 TCTATCTCAACTTTTTTAAAGGTTGTCTTAGACAATGTCTACCCCAACCTTTTTAAAGTTGCCTT
1 TCTATCCCAACTTTTTT-AAGGTTGTCTTAGACAAAGTCTATCCCAACCTTTTTAAAGTTGCCTT
* * * *
167858 AGACAAGGTCTATCTCAACCTTTTTAAGGTTGCCTTTGATAGG
65 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAGG
* *
167901 TCTATCCCAACCTTTTTAAGATTGTCTTAGACAAAGTCTA-CTCCAACCTTTTTAAAGTTGCCTT
1 TCTATCCCAACTTTTTTAAGGTTGTCTTAGACAAAGTCTATC-CCAACCTTTTTAAAGTTGCCTT
* * * *
167965 ATACGA-GTTTAGCCCAACCTTTTTAAGGTTGTCTTAGACAAGG
65 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAC-AGG
* * ** * *
168008 TTTATCTCAA-TCTTTTTAAGGTTACCTTAAACAAA-TCTATCCCAACCTTTTTTAAACGTTACC
1 TCTATCCCAACT-TTTTTAAGGTTGTCTTAGACAAAGTCTATCCCAACC-TTTTTAAA-GTTGCC
*
168071 TTAGATAAGG
63 TTAGACAAGG
168081 CATAATTCAA
Statistics
Matches: 335, Mismatches: 52, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
106 38 0.11
107 96 0.29
108 117 0.35
109 83 0.25
110 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (107 bp):
TCTATCCCAACTTTTTTAAGGTTGTCTTAGACAAAGTCTATCCCAACCTTTTTAAAGTTGCCTTA
GACAAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAGG
Found at i:169271 original size:16 final size:16
Alignment explanation
Indices: 169252--169287 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
169242 CTAAATGATT
169252 AAAATTTGTAAAAGAA
1 AAAATTTGTAAAAGAA
169268 AAAA-TTGTAAAAGAA
1 AAAATTTGTAAAAGAA
169283 AAAAT
1 AAAAT
169288 AATGTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (16 bp):
AAAATTTGTAAAAGAA
Found at i:170929 original size:26 final size:26
Alignment explanation
Indices: 170892--170986 Score: 181
Period size: 26 Copynumber: 3.7 Consensus size: 26
170882 GCGGATTCTC
*
170892 CACAGCTTGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
170918 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
170944 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
170970 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
170987 TTACATGTTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGGCCCATTT
Found at i:171775 original size:21 final size:21
Alignment explanation
Indices: 171751--171802 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
171741 ACCGGTAGAC
171751 GTATCGGTAGTACCTATACTT
1 GTATCGGTAGTACCTATACTT
171772 GTATCGGTAGTACCTATACTT
1 GTATCGGTAGTACCTATACTT
171793 GTATCGGTAG
1 GTATCGGTAG
171803 AACTCCCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (21 bp):
GTATCGGTAGTACCTATACTT
Found at i:174722 original size:18 final size:19
Alignment explanation
Indices: 174701--174737 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
174691 ATCAAAAAGT
*
174701 CGAGAAAAA-AGAAAAATA
1 CGAGAAAAATAAAAAAATA
174719 CGAGAAAAATAAAAAAATA
1 CGAGAAAAATAAAAAAATA
174738 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.08
Consensus pattern (19 bp):
CGAGAAAAATAAAAAAATA
Found at i:178990 original size:73 final size:73
Alignment explanation
Indices: 178871--179018 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
178861 GATGTTCTAC
178871 AAGAACACATTTGTTAGCCACACATGAAGAAGGATGTTGACAAGGTATGTTTTAAATACATTGCT
1 AAGAACACATTTGTTAGCCACACATGAAGAAGGATGTTGACAAGGTATGTTTTAAATACATTGCT
178936 TGTAAACA
66 TGTAAACA
*
178944 AAGAACACATTTGTTAGCCACACATGAAGAAGGATGTTGACAAGGTATGTTTTAAATGCATTGCT
1 AAGAACACATTTGTTAGCCACACATGAAGAAGGATGTTGACAAGGTATGTTTTAAATACATTGCT
179009 TGTAAACA
66 TGTAAACA
179017 AA
1 AA
179019 CAAAATCTAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (73 bp):
AAGAACACATTTGTTAGCCACACATGAAGAAGGATGTTGACAAGGTATGTTTTAAATACATTGCT
TGTAAACA
Found at i:183161 original size:24 final size:23
Alignment explanation
Indices: 183134--183184 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
183124 CAAAAATATA
* *
183134 ATTTATAAATAATTAATATTAATT
1 ATTTAAAAATAATTAAAATTAA-T
*
183158 ATTTAAAAATATTTAAAATTAAT
1 ATTTAAAAATAATTAAAATTAAT
183181 ATTT
1 ATTT
183185 TATATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAAAAATAATTAAAATTAAT
Found at i:183161 original size:38 final size:38
Alignment explanation
Indices: 183089--183169 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
183079 TTTTTAAAAT
* *
183089 AATATAATTGTATTAATATTTAATTATAAATATTTCAAA
1 AATATAATTGTATAAATAATTAATTATAAATATTT-AAA
*
183128 AATATAATT-TATAAATAATTAA-TATTAATTATTTAAA
1 AATATAATTGTATAAATAATTAATTA-TAAATATTTAAA
183165 AATAT
1 AATAT
183170 TTAAAATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 10 0.26
38 19 0.50
39 9 0.24
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (38 bp):
AATATAATTGTATAAATAATTAATTATAAATATTTAAA
Found at i:183186 original size:24 final size:24
Alignment explanation
Indices: 183116--183186 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
183106 ATTTAATTAT
* * *
183116 AAATATTTCAAAAAT-ATAATTTAT
1 AAATATTT-AAAATTAATATTTTAA
* *
183140 AAATAATTAATATTAAT-TATTTAA
1 AAATATTTAAAATTAATAT-TTTAA
183164 AAATATTTAAAATTAATATTTTA
1 AAATATTTAAAATTAATATTTTA
183187 TATATTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
23 4 0.11
24 32 0.86
25 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATATTTAAAATTAATATTTTAA
Found at i:183277 original size:11 final size:12
Alignment explanation
Indices: 183261--183312 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 12
183251 ATATTAATTA
183261 ATTTAAATAT-T
1 ATTTAAATATAT
183272 ATTTAAATATAT
1 ATTTAAATATAT
183284 ATTT--AT-TAT
1 ATTTAAATATAT
183293 -TTTATAATATCAT
1 ATTTA-AATAT-AT
183306 ATTTAAA
1 ATTTAAA
183313 ATAAACATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 2 0.06
11 12 0.35
12 6 0.18
13 4 0.12
14 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTAAATATAT
Found at i:183290 original size:19 final size:22
Alignment explanation
Indices: 183268--183310 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
183258 TTAATTTAAA
183268 TATTA-TTTA-AATAT-ATATT
1 TATTATTTTATAATATCATATT
183287 TATTATTTTATAATATCATATT
1 TATTATTTTATAATATCATATT
183309 TA
1 TA
183311 AAATAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 5 0.24
22 7 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTATTTTATAATATCATATT
Found at i:183315 original size:35 final size:31
Alignment explanation
Indices: 183251--183312 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
183241 AAATATTATA
183251 ATATTAATTAATTTAAATATTATTTAAATAT
1 ATATTAATTAATTTAAATATTATTTAAATAT
* *
183282 ATATTTATTATTTTATAATATCATATTTAAA
1 ATATTAATTAATTTA-AATAT--TATTTAAA
183313 ATAAACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 13 0.50
32 5 0.19
34 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
ATATTAATTAATTTAAATATTATTTAAATAT
Found at i:199871 original size:18 final size:18
Alignment explanation
Indices: 199850--199890 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
199840 CAAAACATTT
*
199850 AAAAGCAAAAAAAGCAAG
1 AAAAGCAAAAAAAGAAAG
* *
199868 AAAAGTAAATAAAGAAAG
1 AAAAGCAAAAAAAGAAAG
199886 AAAAG
1 AAAAG
199891 GAGCTTGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAAGCAAAAAAAGAAAG
Found at i:206007 original size:4 final size:4
Alignment explanation
Indices: 205998--206037 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
205988 GCATAAAAGA
* *
205998 AAAT AAAT AAAC AAAC AAAT AAAT AAAT AAAT AAAGT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
206038 GGATGAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:207134 original size:25 final size:25
Alignment explanation
Indices: 207081--207136 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
207071 GTGCTCAGAT
* * *
207081 AGAGTTAGCTCAAATGAGCTTGGAT
1 AGAGTTAGCTCAAATGAGCCTAGAC
*
207106 AGAGTTAGCTCATATGAGCCTAGAC
1 AGAGTTAGCTCAAATGAGCCTAGAC
207131 AGAGTT
1 AGAGTT
207137 TAACCAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (25 bp):
AGAGTTAGCTCAAATGAGCCTAGAC
Found at i:208912 original size:15 final size:15
Alignment explanation
Indices: 208892--208924 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
208882 AAAAAAATCA
*
208892 AGTCAAATTTAGTCG
1 AGTCAAATTGAGTCG
208907 AGTCAAATTGAGTCG
1 AGTCAAATTGAGTCG
208922 AGT
1 AGT
208925 TAACGAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (15 bp):
AGTCAAATTGAGTCG
Found at i:209141 original size:66 final size:67
Alignment explanation
Indices: 209022--209150 Score: 161
Period size: 66 Copynumber: 1.9 Consensus size: 67
209012 ATAAACAATA
* *** * * * **
209022 TAATGGTTTTGTCTTTTAACTTAATGAGTAAACATTTATTAAAACGAGGTAGTTTTACCTTTTAA
1 TAATGGTTTTGACTTTTAAAGAAAAGAGTAAACATTTATCAAAACAACATAGTTTTACCTTTTAA
209087 CT
66 CT
*
209089 TAATGGTTTTGACTTTTAAAGAAAAG-GTAAACATTTATCAAAACAACATAGTTTTGCCTTTT
1 TAATGGTTTTGACTTTTAAAGAAAAGAGTAAACATTTATCAAAACAACATAGTTTTACCTTTT
209151 CTTATTCGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
66 31 0.60
67 21 0.40
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAAAGAAAAGAGTAAACATTTATCAAAACAACATAGTTTTACCTTTTAA
CT
Found at i:213802 original size:21 final size:21
Alignment explanation
Indices: 213776--213822 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
213766 CACTTAGACA
213776 CTTCTCATTAGAAGTAGTTGC
1 CTTCTCATTAGAAGTAGTTGC
213797 CTTCTCATTAGAAGTAGTTGC
1 CTTCTCATTAGAAGTAGTTGC
213818 CTTCT
1 CTTCT
213823 TGTCGCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
CTTCTCATTAGAAGTAGTTGC
Found at i:218620 original size:24 final size:21
Alignment explanation
Indices: 218579--218637 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
218569 TAGCAATCTT
* *
218579 AGATTTGATATGTAATCTTTAG
1 AGATATGATTTGTAATC-TTAG
218601 AAGATATGATTCTGTAATCTTAG
1 -AGATATGATT-TGTAATCTTAG
*
218624 AGATTTGATTTGTA
1 AGATATGATTTGTA
218638 GATAACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 9 0.28
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:220581 original size:29 final size:29
Alignment explanation
Indices: 220539--220596 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
220529 TGGAGCCGAC
220539 AACGTGAACACTGTCACCTATTAAATTAT
1 AACGTGAACACTGTCACCTATTAAATTAT
220568 AACGTGAACACTGTCACCTATTAAATTAT
1 AACGTGAACACTGTCACCTATTAAATTAT
220597 CATTTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (29 bp):
AACGTGAACACTGTCACCTATTAAATTAT
Found at i:225036 original size:14 final size:17
Alignment explanation
Indices: 225002--225042 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
224992 TTAAATATGT
225002 AAATTTAATAATTATTA
1 AAATTTAATAATTATTA
225019 AAATTTAA-AA-TA-TA
1 AAATTTAATAATTATTA
225033 AAATTTAATA
1 AAATTTAATA
225043 CCTAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 3 0.13
16 2 0.09
17 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTTAATAATTATTA
Found at i:225304 original size:13 final size:13
Alignment explanation
Indices: 225272--225310 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
225262 TTGCTTAACA
*
225272 ATTAAACTAAAAT
1 ATTAAAATAAAAT
*
225285 A-TAAAATACAAT
1 ATTAAAATAAAAT
225297 ATTAAAATAAAAT
1 ATTAAAATAAAAT
225310 A
1 A
225311 CTTTAAAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (13 bp):
ATTAAAATAAAAT
Found at i:228135 original size:31 final size:32
Alignment explanation
Indices: 228090--228168 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
228080 ACCTTTGAGC
* *
228090 TTTCCAACAATTACATTTCAAC-CTTTAATTTT
1 TTTCCAA-AATTACATTTCAACGCTTAAACTTT
*
228122 TTTCCAAAATTACATTTTAACGCTTAAACTTT
1 TTTCCAAAATTACATTTCAACGCTTAAACTTT
228154 TTT--AAAATTACATTT
1 TTTCCAAAATTACATTT
228169 TGACCCCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 12 0.28
31 13 0.30
32 18 0.42
ACGTcount: A:0.34, C:0.18, G:0.01, T:0.47
Consensus pattern (32 bp):
TTTCCAAAATTACATTTCAACGCTTAAACTTT
Found at i:228163 original size:30 final size:30
Alignment explanation
Indices: 228098--228169 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
228088 GCTTTCCAAC
* * *
228098 AATTACATTTCAACCTTTAATTTTTTTCCAA
1 AATTACATTTTAACCTTAAACTTTTTT-CAA
228129 AATTACATTTTAACGCTTAAACTTTTTT-AA
1 AATTACATTTTAAC-CTTAAACTTTTTTCAA
228159 AATTACATTTT
1 AATTACATTTT
228170 GACCCCTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 13 0.35
31 13 0.35
32 11 0.30
ACGTcount: A:0.35, C:0.15, G:0.01, T:0.49
Consensus pattern (30 bp):
AATTACATTTTAACCTTAAACTTTTTTCAA
Found at i:229472 original size:18 final size:18
Alignment explanation
Indices: 229420--229475 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
229410 ACAAAATTAA
229420 TTAAATAAATATTTAT-T
1 TTAAATAAATATTTATAT
* * *
229437 TTATATATAACA-TCATAT
1 TTAAATA-AATATTTATAT
229455 TTAAATAAATATTTATAT
1 TTAAATAAATATTTATAT
229473 TTA
1 TTA
229476 TTTAAAACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATAAATATTTATAT
Found at i:229481 original size:18 final size:18
Alignment explanation
Indices: 229424--229481 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
229414 AATTAATTAA
229424 ATAAATATTTAT-TTTAT
1 ATAAATATTTATATTTAT
* * *
229441 ATATAACA-TCATATTTAA
1 ATA-AATATTTATATTTAT
229459 ATAAATATTTATATTTAT
1 ATAAATATTTATATTTAT
*
229477 TTAAA
1 ATAAA
229482 ACATTAGATC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAATATTTATATTTAT
Found at i:229944 original size:17 final size:15
Alignment explanation
Indices: 229903--229936 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
229893 GATAGAATTA
229903 AATTAAATTTGGAAAC
1 AATTAAA-TTGGAAAC
*
229919 AATTTAATTGGAAAC
1 AATTAAATTGGAAAC
229934 AAT
1 AAT
229937 ATCAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (15 bp):
AATTAAATTGGAAAC
Found at i:232673 original size:58 final size:56
Alignment explanation
Indices: 232554--232680 Score: 132
Period size: 58 Copynumber: 2.2 Consensus size: 56
232544 CAATACTTTG
* * * *
232554 AAAAATATTTTTCCGAGTGTCGCCCATGTCATGGCCAACACCCATTTTTTTATATTTA
1 AAAAATATTTTTCCGAGTGTCGCCCATGCCATGACCAACACCCA-TTTTTT-GATTAA
* **
232612 AAAAATATTTTTCCGAGTGTCGCTCATGCCATGACTGACACCTC-TTTTATCTGA-TAA
1 AAAAATATTTTTCCGAGTGTCGCCCATGCCATGACCAACACC-CATTTT-T-TGATTAA
232669 AAAAATATTTTT
1 AAAAATATTTTT
232681 TTAGTGTCGT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
57 18 0.31
58 39 0.66
59 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (56 bp):
AAAAATATTTTTCCGAGTGTCGCCCATGCCATGACCAACACCCATTTTTTGATTAA
Found at i:232818 original size:55 final size:55
Alignment explanation
Indices: 232759--232896 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 55
232749 AAGTTATGGT
*
232759 CATCACTTTCTTTTCAAATAAAAAAATATTTTTTAAGTGATTATCAAGCCATAAC
1 CATCACTTTCTTTTCAAATAAAAAAATATTTTTTAAGTGATGATCAAGCCATAAC
* * ** * * * * *
232814 CATCATCCTT-TTTTCAGATAAAAATTTTTTTTTTAGGTGATGGTCAATCCATGAC
1 CATCA-CTTTCTTTTCAAATAAAAAAATATTTTTTAAGTGATGATCAAGCCATAAC
*
232869 CATCACTTCCTTTATCAAATAAAAAAAT
1 CATCACTTTCTTT-TCAAATAAAAAAAT
232897 TTGGGGTGAT
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
54 2 0.03
55 49 0.75
56 14 0.22
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.39
Consensus pattern (55 bp):
CATCACTTTCTTTTCAAATAAAAAAATATTTTTTAAGTGATGATCAAGCCATAAC
Found at i:235325 original size:27 final size:27
Alignment explanation
Indices: 235274--235325 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
235264 AACTTCAAAA
*
235274 TTTAATTTTATTTATTATAATATATAT
1 TTTAATTTTATTTATTATAAGATATAT
235301 TTTAATTTTATGTTATTA-AAGATAT
1 TTTAATTTTAT-TTATTATAAGATAT
235326 TTATGATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTAATTTTATTTATTATAAGATATAT
Found at i:235530 original size:18 final size:16
Alignment explanation
Indices: 235477--235539 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
235467 AATTAAAATT
* *
235477 TTTTAAAATACTAACA
1 TTTTAAAATTCTAAAA
235493 TTTTAAAATATCTAAAA
1 TTTTAAAAT-TCTAAAA
235510 TTTTAAAATTCATATAAA
1 TTTTAAAATTC-TA-AAA
*
235528 TTTTGAAATTCT
1 TTTTAAAATTCT
235540 TTATTATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 11 0.27
17 17 0.41
18 13 0.32
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTTAAAATTCTAAAA
Found at i:236268 original size:23 final size:24
Alignment explanation
Indices: 236242--236286 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
236232 TTTTTTTATT
236242 TTTC-CCCCAAAACTTTTACTCAC
1 TTTCTCCCCAAAACTTTTACTCAC
*
236265 TTTCTCCCCAAAAGTTTTACTC
1 TTTCTCCCCAAAACTTTTACTC
236287 TCCTCCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (24 bp):
TTTCTCCCCAAAACTTTTACTCAC
Found at i:236432 original size:29 final size:30
Alignment explanation
Indices: 236400--236456 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
236390 AAAATTTTTT
*
236400 ATTTTCTCCTAAAACTTTTACTC-CCTCTG
1 ATTTTCTCCCAAAACTTTTACTCTCCTCTG
*
236429 ATTTTCTCCCAAAAGTTTTACTCTCCTC
1 ATTTTCTCCCAAAACTTTTACTCTCCTC
236457 CCATCTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.21, C:0.32, G:0.04, T:0.44
Consensus pattern (30 bp):
ATTTTCTCCCAAAACTTTTACTCTCCTCTG
Found at i:243932 original size:60 final size:59
Alignment explanation
Indices: 243844--243955 Score: 188
Period size: 60 Copynumber: 1.9 Consensus size: 59
243834 TAAGAGACCC
*
243844 AAAAAAAAGGAAAGAAAAGTCAAGATGAAAACCCGCAAAGGGTATTTTGAAACCCAAAG
1 AAAAAAAAGGAAAGAAAAGTCAAGATGAAAACCCGCAAAGGGCATTTTGAAACCCAAAG
* *
243903 AAAAAAAGGGAAAGAAAAAGTCAATATGAAAACCCGCAAAGGGCATTTTGAAA
1 AAAAAAAAGGAAAG-AAAAGTCAAGATGAAAACCCGCAAAGGGCATTTTGAAA
243956 ATCTATGTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
59 13 0.27
60 36 0.73
ACGTcount: A:0.54, C:0.12, G:0.21, T:0.12
Consensus pattern (59 bp):
AAAAAAAAGGAAAGAAAAGTCAAGATGAAAACCCGCAAAGGGCATTTTGAAACCCAAAG
Found at i:244785 original size:3 final size:3
Alignment explanation
Indices: 244777--244814 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
244767 AATTTAACCC
244777 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
244815 AGAAAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:244828 original size:12 final size:12
Alignment explanation
Indices: 244813--244847 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
244803 TAATAATAAT
*
244813 AAAGAAAGAAAG
1 AAAGAAAAAAAG
244825 AAAGAAAAAAAG
1 AAAGAAAAAAAG
244837 AAA-AAAAAAAG
1 AAAGAAAAAAAG
244848 GAGAGGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:245365 original size:112 final size:112
Alignment explanation
Indices: 245168--245575 Score: 534
Period size: 112 Copynumber: 3.6 Consensus size: 112
245158 ATTTTTTATT
* * *
245168 TTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTCATCCATCTTAAAACCTTGTTCAA
1 TTTTCATTCATACAAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTGTTCAA
*
245233 GCATTTTTGCATCGAAATAACAGTTAGTGGACCAATAATTCATAATA
66 GCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCATAATA
* * * *
245280 TTTTCATTCATACAAGCTTAGCCTCTAATAAAATTCAATTTTATCCATCTTACAACCTTGTTCAA
1 TTTTCATTCATACAAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTGTTCAA
* *
245345 GCACTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTCATAATA
66 GCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCATAATA
* ** *
245392 -TTTCATTCATATAAATTTTGCCTCCAATAAAATTTAATCTT-ATCCACCTTACAACCTTGTTCA
1 TTTTCATTCATACAAGCTTTGCCTCCAATAAAATTCAAT-TTCATCCACCTTACAACCTTGTTCA
* * * * *
245455 AGCATTTTTGCATCGAAATGACTGCTAGTGGACCAATGATTCGTAATC
65 AGCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCATAATA
* ** * * * *
245503 TTTTCTTTCATATGAGCTTTGTCTCCAACAAAAATT-GATTTCATCCACCTCACAACCTTGATTC
1 TTTTCATTCATACAAGCTTTGCCTCCAA-TAAAATTCAATTTCATCCACCTTACAACCTTG-TTC
245567 AAGCATTTT
64 AAGCATTTT
245576 CTTTGAATAT
Statistics
Matches: 262, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
111 97 0.37
112 147 0.56
113 18 0.07
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (112 bp):
TTTTCATTCATACAAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTGTTCAA
GCATTTTTGCATCGAAATAACAGTTAGTGGACCAATGATTCATAATA
Found at i:246082 original size:99 final size:98
Alignment explanation
Indices: 245911--246299 Score: 392
Period size: 99 Copynumber: 3.9 Consensus size: 98
245901 ATCGAGGGAA
* *
245911 CATGAAGATATGAAGGGAAAGGTTGAGACCGCAATTG-CGAACCCGATACCTTAGAAGATGTGAT
1 CATGAAGATATGAAGGGAAAGGTTGAG-CCGCAA-CGACGAACCTGATACCTTAGAAGATGTGAT
* ** *
245975 GGGAAGGATTAAGGTAGTAACGGCGAATCCGGTAC
64 GGGAAGGATTGAGGCCGTAACGACGAATCCGGTAC
* * * *
246010 CATGAAGATATGAAGGGAAAGGCTGAGTCCGCAACGACGAACCTGATACCTTAGAACATGTAATA
1 CATGAAGATATGAAGGGAAAGGTTGAG-CCGCAACGACGAACCTGATACCTTAGAAGATGTGATG
* * * *
246075 GGAAGGATTGAGGCCGCAATGACGAATTCGATAC
65 GGAAGGATTGAGGCCGTAACGACGAATCCGGTAC
* * * * *
246109 TATGAAGATATGAAGGGAAAGGTTGAGGCCGTAAC-AGTGAACTTGGTACCTTAGAAGATGTGAT
1 CATGAAGATATGAAGGGAAAGGTTGA-GCCGCAACGA-CGAACCTGATACCTTAGAAGATGTGAT
**
246173 GGGAAGGATTGAGGCCGTAACGACGAATCTTGTAC
64 GGGAAGGATTGAGGCCGTAACGACGAATCCGGTAC
* * * *
246208 CATGGAGATATAGAA-GGAAAGG-TGAAAGCCGTAACGACGAACCTTATACCTTAG-AGATATGA
1 CATGAAGATAT-GAAGGGAAAGGTTG--AGCCGCAACGACGAACCTGATACCTTAGAAGATGTGA
* * * * * *
246270 AGGGAAAGAGTGAGGTCGCAACGGCGAATC
63 TGGGAAGGATTGAGGCCGTAACGACGAATC
246300 TCATACCCTG
Statistics
Matches: 240, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
98 35 0.15
99 199 0.83
100 6 0.03
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.19
Consensus pattern (98 bp):
CATGAAGATATGAAGGGAAAGGTTGAGCCGCAACGACGAACCTGATACCTTAGAAGATGTGATGG
GAAGGATTGAGGCCGTAACGACGAATCCGGTAC
Found at i:246306 original size:49 final size:49
Alignment explanation
Indices: 246015--246306 Score: 172
Period size: 49 Copynumber: 5.9 Consensus size: 49
246005 GGTACCATGA
* * * *
246015 AGATATGAAGGGAAAG-GCTGAGTCCGCAACGACGAACCTGATACCTTAG
1 AGATATGAAGGGAAAGAG-TGAGGCCGTAACGACGAATCTTATACCTTAG
* * * * * * *
246064 A-ACATGTAATAGGAAGGATTGAGGCCGCAATGACGAAT-TCGATA-C-TATG
1 AGATATG-AA-GGGAAAGAGTGAGGCCGTAACGACGAATCT-TATACCTTA-G
* *
246113 AAGATATGAAGGGAAAG-GTTGAGGCCGTAAC-AGTGAA-CTTGGTACCTTAG
1 -AGATATGAAGGGAAAGAG-TGAGGCCGTAACGA-CGAATCTT-ATACCTTAG
* * * * * * *
246163 AAGATGTGATGGGAAGGATTGAGGCCGTAACGACGAATCTTGTACCATGG
1 -AGATATGAAGGGAAAGAGTGAGGCCGTAACGACGAATCTTATACCTTAG
* *
246213 AGATATAGAA-GGAAAG-GTGAAAGCCGTAACGACGAACCTTATACCTTAG
1 AGATAT-GAAGGGAAAGAGTG-AGGCCGTAACGACGAATCTTATACCTTAG
* * * *
246262 AGATATGAAGGGAAAGAGTGAGGTCGCAACGGCGAATCTCATACC
1 AGATATGAAGGGAAAGAGTGAGGCCGTAACGACGAATCTTATACC
246307 CTGAAGATGA
Statistics
Matches: 185, Mismatches: 38, Indels: 40
0.70 0.14 0.15
Matches are distributed among these distances:
48 12 0.06
49 92 0.50
50 71 0.38
51 10 0.05
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (49 bp):
AGATATGAAGGGAAAGAGTGAGGCCGTAACGACGAATCTTATACCTTAG
Found at i:247125 original size:42 final size:42
Alignment explanation
Indices: 246536--247624 Score: 852
Period size: 42 Copynumber: 26.8 Consensus size: 42
246526 AAGCTACATA
* * *
246536 CCAATCTCTTACCCCGATCATGGGACAGATTGAAGACA--AA
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
*
246576 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAG--A--AT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * * * *
246614 CCAATATTTTACC-CTAATCA-GAGTGTAGATTGAAG--A-CA-
1 CCAATCTCTTACCTC-GATCATG-GGGCAGATTGAAGACATCAT
* * *
246652 CCAATCTCTTACCTCGATCATGGGGTAGATTGAAG--ATAAA
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * ** * *
246692 CCAATATCTTACCTCGATAATAAGGTAGATTGAAGATATCAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * ** ***
246734 CCGATCTTTTACCTTAATCAAAAGGCAGATTGAAGACA-CA-
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * * * *
246774 CCAATCTCTTATCTTGATCATTGGGCAAATTTAAGACAT-A-
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * * * *
246814 CCAATCTCTTACCCCCGATCATGAGACAGATTGAAG--ATAAA
1 CCAATCTCTTA-CCTCGATCATGGGGCAGATTGAAGACATCAT
* * * * *
246855 CCAATTTTTTACCCCGATCATGGGACAGATTGAAGACGTCAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* ** * *
246897 CCAATCTTTTACCTTAATCA-GAAGACAGATTGAAGACA-CA-
1 CCAATCTCTTACCTCGATCATG-GGGCAGATTGAAGACATCAT
* *
246937 CCAATCTCATACCTCGATCATGGGACAGATTGAAG----CAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * *
246975 CCAATCTATTACC-CTAATCA-GAGGGCAAATTGAAGACA-CA-
1 CCAATCTCTTACCTC-GATCATG-GGGCAGATTGAAGACATCAT
* *
247015 CCAATCTCTTACCCCGATCATGGGACAGATTGAAGA-ATC-T
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * * * * *
247055 --AATCTCTTACCCCAACCATGAGGCAGATTGAAGATATAAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * * *
247095 TCAATCTCTAACCTCGATCATGGGGTAGATTGAAGACATTAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* *
247137 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * *
247179 CCAATCTTTTACC-CTGATCATGGAGCAGATTGAAGACATTAT
1 CCAATCTCTTACCTC-GATCATGGGGCAGATTGAAGACATCAT
* * *** * * *
247221 CAAATCTCTTACC-CTAATCAAAAGTCAGATTTAAGATA-CA-
1 CCAATCTCTTACCTC-GATCATGGGGCAGATTGAAGACATCAT
*
247261 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CATC-T
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* * * * * *
247301 --AATCTCTTACCCCAACCATAGAGCAGATTAAAGACATCAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* *
247341 CCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACGTCAT
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
* *
247383 CCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACATCAC
1 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
*
247425 CCAATCTCTTACC-CTAATCATGGGGCA-AGTTGAAGACATCAT
1 CCAATCTCTTACCTC-GATCATGGGGCAGA-TTGAAGACATCAT
*
247467 CCAATCTCTTAACCT-GATCATGGGACAGATTGAAGACATCAT
1 CCAATCTCTT-ACCTCGATCATGGGGCAGATTGAAGACATCAT
* * *
247509 TCAATCTCTTACC-CTGATCATGGGGCAGATTAAAGATATCAT
1 CCAATCTCTTACCTC-GATCATGGGGCAGATTGAAGACATCAT
* * * *
247551 TCAATCTCTTA-CTCCGATCATAGGGTAGATTTAAGACATCAT
1 CCAATCTCTTACCT-CGATCATGGGGCAGATTGAAGACATCAT
* *
247593 CCAATCTCCTACCCCGATCATGGGGCAGATTG
1 CCAATCTCTTACCTCGATCATGGGGCAGATTG
247625 CAGCCACAAC
Statistics
Matches: 855, Mismatches: 145, Indels: 96
0.78 0.13 0.09
Matches are distributed among these distances:
37 6 0.01
38 141 0.16
39 14 0.02
40 216 0.25
41 44 0.05
42 428 0.50
43 6 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (42 bp):
CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGACATCAT
Found at i:247303 original size:246 final size:245
Alignment explanation
Indices: 246535--247624 Score: 994
Period size: 246 Copynumber: 4.5 Consensus size: 245
246525 GAAGCTACAT
* * * * *
246535 ACCAATCTCTTACCCCGATCATGGGACAGATTGAAGACAAACCAATCTCTTACCCCGATCATGGG
1 ACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-ATCCAATCTCTTACCCCAACCATGAG
* * * * * *
246600 GCAGATTGAAGA-AT--CCAATATTTTACC-CTAATCA-GAGTGTAGATTGAAGA---CA-CCAA
65 GCAGATTGAAGATATAACCAATCTCTAACCTC-GATCATG-GGGCAGATTGAAGACGTCATCCAA
* * * * * * * *
246656 TCTCTTACCTCGATCATGGGGTAGATTGAAGATA-AACCAATATCTTACCTCGATAAT-AAGGTA
128 TCTCTTACCTCGATCATGAGGCAGATTGAAGACATCACCAATCTCTTACCTCGATCATGGA-GCA
* * * *
246719 GATTGAAGATATCATCCGATCTTTTACCTTAATCAAAAGGCAGATTGAAGACAC
192 GATTGAAGACATCATCCAATCTCTTACCCTAATCAAAAGGCAGATTGAAGACAC
* ** * * * * *
246773 ACCAATCTCTTATCTTGATCATTGGGCAAATTTAAGACATACCAATCTCTTACCCCCGATCATGA
1 ACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT-CCAATCTCTTA-CCCCAACCATGA
* * * * * *
246838 GACAGATTGAAGATA-AACCAATTTTTTACCCCGATCATGGGACAGATTGAAGACGTCATCCAAT
64 GGCAGATTGAAGATATAACCAATCTCTAACCTCGATCATGGGGCAGATTGAAGACGTCATCCAAT
* ** * *
246902 CTTTTACCTTAATCA-GAAGACAGATTGAAGACA-CACCAATCTCATACCTCGATCATGG-GACA
129 CTCTTACCTCGATCATG-AGGCAGATTGAAGACATCACCAATCTCTTACCTCGATCATGGAG-CA
* * * *
246964 GATTGAAG----CATCCAATCTATTACCCTAATCAGAGGGCAAATTGAAGACAC
192 GATTGAAGACATCATCCAATCTCTTACCCTAATCAAAAGGCAGATTGAAGACAC
* *
247014 ACCAATCTCTTACCCCGATCATGGGACAGATTGAAGA-ATCTAATCTCTTACCCCAACCATGAGG
1 ACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAACCATGAGG
* * * *
247078 CAGATTGAAGATATAATTCAATCTCTAACCTCGATCATGGGGTAGATTGAAGACATTATCCAATC
66 CAGATTGAAGATATAA-CCAATCTCTAACCTCGATCATGGGGCAGATTGAAGACGTCATCCAATC
* *
247143 TCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTTTTACC-CTGATCATGGAGCAG
130 TCTTACCTCGATCATGAGGCAGATTGAAGACATCA-CCAATCTCTTACCTC-GATCATGGAGCAG
* * * * *
247207 ATTGAAGACATTATCAAATCTCTTACCCTAATCAAAAGTCAGATTTAAGATAC
193 ATTGAAGACATCATCCAATCTCTTACCCTAATCAAAAGGCAGATTGAAGACAC
*
247260 ACCAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CATCTAATCTCTTACCCCAACCAT-AGA
1 ACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAACCATGAG-
* * * * *
247323 GCAGATTAAAGACATCATCCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACGTCATCCAAT
65 GCAGATTGAAGATAT-AACCAATCTCTAACCTCGATCATGGGGCAGATTGAAGACGTCATCCAAT
* * * *
247388 CTCTTACCTCGATCATGGGGCAAATTGAAGACATCACCCAATCTCTTACC-CTAATCATGGGGCA
129 CTCTTACCTCGATCATGAGGCAGATTGAAGACATCA-CCAATCTCTTACCTC-GATCATGGAGCA
* * **
247452 -AGTTGAAGACATCATCCAATCTCTTAACCTGATC-ATGGGACAGATTGAAGACATC
192 GA-TTGAAGACATCATCCAATCTCTTACCCTAATCAAAAGG-CAGATTGAAGACA-C
* * * * * * *
247507 ATTCAATCTCTTACCCTGATCATGGGGCAGATTAAAGATATCATTCAATCTCTTACTCCGATCAT
1 A-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAG--A-CATCCAATCTCTTACCCCAACCAT
* * * * *
247572 -AGGGTAGATTTAAGACATCATCCAATCTCCT-ACCCCGATCATGGGGCAGATTG
62 GA-GGCAGATTGAAGATAT-AACCAATCT-CTAACCTCGATCATGGGGCAGATTG
247625 CAGCCACAAC
Statistics
Matches: 706, Mismatches: 108, Indels: 62
0.81 0.12 0.07
Matches are distributed among these distances:
237 1 0.00
238 66 0.09
239 35 0.05
240 67 0.09
241 97 0.14
242 31 0.04
243 1 0.00
244 4 0.01
245 62 0.09
246 241 0.34
247 3 0.00
248 32 0.05
252 63 0.09
253 3 0.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (245 bp):
ACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCCAATCTCTTACCCCAACCATGAGG
CAGATTGAAGATATAACCAATCTCTAACCTCGATCATGGGGCAGATTGAAGACGTCATCCAATCT
CTTACCTCGATCATGAGGCAGATTGAAGACATCACCAATCTCTTACCTCGATCATGGAGCAGATT
GAAGACATCATCCAATCTCTTACCCTAATCAAAAGGCAGATTGAAGACAC
Found at i:248555 original size:2 final size:2
Alignment explanation
Indices: 248548--248574 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
248538 CTAACATTTA
248548 AT 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 AT A
248575 AAAACATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.