Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, 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: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 18
Found at i:2422709 original size:3 final size:3
Alignment explanation
Indices: 2422701--2422737 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2422691 CTCTACCATT
*
2422701 ATC ATC ATC ATC ATC AAC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
2422738 ATTGGACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:2431621 original size:13 final size:13
Alignment explanation
Indices: 2431605--2431637 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2431595 GTCAACGGGT
*
2431605 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
2431618 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
2431631 CGGGTCG
1 CGGGTCG
2431638 TGACCGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.15
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:2431682 original size:20 final size:20
Alignment explanation
Indices: 2431647--2431696 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2431637 GTGACCGGTT
* **
2431647 AAACCGGTCAAAATCGGTTCA
1 AAACCGGT-TAAATCGGTAAA
2431668 AAACCGGTTAAATCGGTAAA
1 AAACCGGTTAAATCGGTAAA
2431688 AAACCGGTT
1 AAACCGGTT
2431697 TCCAGCGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
AAACCGGTTAAATCGGTAAA
Found at i:2438831 original size:13 final size:13
Alignment explanation
Indices: 2438799--2438847 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
2438789 GAATAGCACT
2438799 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2438812 GGT---CGGGTCG
1 GGTCAACGGGTCG
2438822 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
2438835 GGTAAACGGGTCG
1 GGTCAACGGGTCG
2438848 TGACCGGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 10 0.31
13 22 0.69
ACGTcount: A:0.14, C:0.20, G:0.49, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2438864 original size:9 final size:10
Alignment explanation
Indices: 2438850--2438904 Score: 60
Period size: 9 Copynumber: 5.6 Consensus size: 10
2438840 ACGGGTCGTG
2438850 ACCGGTC-AA
1 ACCGGTCAAA
2438859 ACCGGTCAAA
1 ACCGGTCAAA
*
2438869 ATCGGTTCAAA
1 ACCGG-TCAAA
*
2438880 ACCGGT-TAA
1 ACCGGTCAAA
*
2438889 ATCGGTCAAA
1 ACCGGTCAAA
2438899 ACCGGT
1 ACCGGT
2438905 TTCCAGCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
9 14 0.38
10 14 0.38
11 9 0.24
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:2438880 original size:11 final size:11
Alignment explanation
Indices: 2438857--2438905 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
2438847 GTGACCGGTC
2438857 AAACCGG-TCA
1 AAACCGGTTCA
*
2438867 AAATCGGTTCA
1 AAACCGGTTCA
2438878 AAACCGGTT--
1 AAACCGGTTCA
*
2438887 AAATCGG-TCA
1 AAACCGGTTCA
2438897 AAACCGGTT
1 AAACCGGTT
2438906 TCCAGCGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
8 1 0.03
9 6 0.19
10 12 0.39
11 12 0.39
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (11 bp):
AAACCGGTTCA
Found at i:2438905 original size:19 final size:19
Alignment explanation
Indices: 2438852--2438905 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2438842 GGGTCGTGAC
*
2438852 CGGTC-AAACCGGTCAAAAT
1 CGGTCAAAACCGGT-TAAAT
2438871 CGGTTCAAAACCGGTTAAAT
1 CGG-TCAAAACCGGTTAAAT
2438891 CGGTCAAAACCGGTT
1 CGGTCAAAACCGGTT
2438906 TCCAGCGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.47
20 9 0.28
21 8 0.25
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (19 bp):
CGGTCAAAACCGGTTAAAT
Found at i:2441201 original size:32 final size:31
Alignment explanation
Indices: 2441165--2441241 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
2441155 CGGGGCCATG
* *
2441165 GGGCCTACCTAAGAACACATTTTAGGGCCGTA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGTA
** **
2441197 GGGCCTACCCGAGAATGATCTCAGGGCCGTA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGTA
*
2441228 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
2441242 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGTA
Found at i:2441224 original size:63 final size:63
Alignment explanation
Indices: 2441118--2441241 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
2441108 ACCTAAGGGA
* * * *
2441118 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCATGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCATAGAGCCTACCTAAGAAC
* * * *
2441181 ACATTTTAGGGCC-GTAGGGCCTACCCGAGA-ATGATCTCAGGGCCGTAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCATAGAGCCTACCTAAGA
2441242 GTCACATTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCATAGAGCCTACCTAAGAAC
Found at i:2444124 original size:18 final size:18
Alignment explanation
Indices: 2444097--2444165 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
2444087 ACGGTTAACA
*
2444097 GTCAATGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
2444115 GTCAA-----CGGGTCGG
1 GTCAACGGGTCGGGTCGG
2444128 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
*
2444146 GTCAACAGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
2444164 GT
1 GT
2444166 TGTGACCGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
13 13 0.29
18 32 0.71
ACGTcount: A:0.13, C:0.20, G:0.48, T:0.19
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGG
Found at i:2444138 original size:31 final size:31
Alignment explanation
Indices: 2444097--2444161 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
2444087 ACGGTTAACA
* *
2444097 GTCAATGGGTCGGGTCGGGTCAACGGGTCGG
1 GTCAACGGGTCGGGTCGGGTCAACAGGTCGG
2444128 GTCAACGGGTCGGGTCGGGTCAACAGGTCGG
1 GTCAACGGGTCGGGTCGGGTCAACAGGTCGG
2444159 GTC
1 GTC
2444162 GGGTTGTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.14, C:0.22, G:0.46, T:0.18
Consensus pattern (31 bp):
GTCAACGGGTCGGGTCGGGTCAACAGGTCGG
Found at i:2444161 original size:13 final size:13
Alignment explanation
Indices: 2444107--2444143 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
2444097 GTCAATGGGT
2444107 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
2444120 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
2444133 CGGGTCGGGTC
1 CGGGTCGGGTC
2444144 GGGTCAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:2451251 original size:22 final size:22
Alignment explanation
Indices: 2451219--2451270 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
2451209 AAAGGGAACT
*
2451219 GATT-CCCCCCAAGGGGGTACC
1 GATTCCCCCCCAAGGGAGTACC
2451240 GATTCCCCCCCAAGGGAGTACC
1 GATTCCCCCCCAAGGGAGTACC
2451262 GATTCCCCC
1 GATTCCCCC
2451271 TGAATGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.19, C:0.42, G:0.23, T:0.15
Consensus pattern (22 bp):
GATTCCCCCCCAAGGGAGTACC
Found at i:2452582 original size:12 final size:12
Alignment explanation
Indices: 2452565--2452603 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
2452555 CCAAATACAA
2452565 TAAATTGATTTC
1 TAAATTGATTTC
*
2452577 TAAATTGATTGC
1 TAAATTGATTTC
2452589 TAAAATTGATCTTC
1 T-AAATTGAT-TTC
2452603 T
1 T
2452604 TTTGAAAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 12 0.52
13 8 0.35
14 3 0.13
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (12 bp):
TAAATTGATTTC
Found at i:2456578 original size:22 final size:23
Alignment explanation
Indices: 2456548--2456623 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
2456538 CAGAGTGAAT
2456548 CGATACCCCC-TTGAAGGGGAAC
1 CGATACCCCCTTTGAAGGGGAAC
* *
2456570 CGATCCCCCCTTTGAATGGGAAC
1 CGATACCCCCTTTGAAGGGGAAC
* * * * *
2456593 TGATTCCCTCTTT-TA-GGGAAT
1 CGATACCCCCTTTGAAGGGGAAC
2456614 CGATACCCCC
1 CGATACCCCC
2456624 ACGGGTTCTG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 12 0.28
22 10 0.23
23 21 0.49
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (23 bp):
CGATACCCCCTTTGAAGGGGAAC
Found at i:2458508 original size:13 final size:14
Alignment explanation
Indices: 2458490--2458519 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2458480 TAAGGGGGAG
2458490 TAATTTCAAAA-CT
1 TAATTTCAAAATCT
2458503 TAATTTCAAAATCT
1 TAATTTCAAAATCT
2458517 TAA
1 TAA
2458520 AATTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATTTCAAAATCT
Found at i:2460109 original size:360 final size:359
Alignment explanation
Indices: 2459449--2460170 Score: 1390
Period size: 360 Copynumber: 2.0 Consensus size: 359
2459439 CCTTAGTGTG
2459449 GATAGCTAAGGTAGTGTACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCATTGTGCAA
1 GATAGCTAAGGTAGTGTACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCATTGTGCAA
*
2459514 ATATTTTTAATTTTCTGCAAAAGCTTCACCAAAATTTTTATTGCCAATTCACCCCTCTTGACCAA
66 ATATTTTTAATTTTCTGCAAAAGCTTCACCAAAATTTTTATTGCCAATTCACCCCTCTTGACAAA
2459579 TTCCATCGATCGATTAACTCAACAGTATGACTTTTCAAAAAATTTGACTTTGTCAAAGTCAACTC
131 TTCCATCGATCGATTAACTCAACAGTATGACTTTTCAAAAAATTTGACTTTGTCAAAGTCAACTC
*
2459644 TAAGCATGTCAACTCGGTCAAAGTTAACAGGTCAAACCGATTAAAGTTCACTCGGTTAGATCCAA
196 TAAACATGTCAACTCGGTCAAAGTTAACAGGTCAAACCGATTAAAGTTCACTCGGTTAGATCCAA
*
2459709 GTTGACTCATACCAGTTTCTATATGATTCTCGACCGAATAAGCAGCCCCACACGTAAGGGTGGAG
261 GTTGACTCATACCAGTTTCTATATGATTCTCAACCGAATAAGCAGCCCCACACGTAAGGGTGGAG
*
2459774 TATGACGCAACAGAAAGAATGTCCAATGTGTTCT
326 CATGACGCAACAGAAAGAATGTCCAATGTGTTCT
2459808 GATAGCTAAGGTAGTGTACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCATTGTGCAA
1 GATAGCTAAGGTAGTGTACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCATTGTGCAA
*
2459873 ATATTTTTAATTTTCTGCAAAAGCTTCACCAAAATTTTTATTGCCAATTCACCCCCTCTTGGCAA
66 ATATTTTTAATTTTCTGCAAAAGCTTCACCAAAATTTTTATTGCCAATTCA-CCCCTCTTGACAA
2459938 ATTCCATCGATCGATTAACTCAACAGTATGACTTTTCAAAAAATTTGACTTTGTCAAAGTCAACT
130 ATTCCATCGATCGATTAACTCAACAGTATGACTTTTCAAAAAATTTGACTTTGTCAAAGTCAACT
2460003 CTAAACATGTCAACTCGGTCAAAGTTAACAGGTCAAACCGATTAAAGTTCACTCGGTTAGATCCA
195 CTAAACATGTCAACTCGGTCAAAGTTAACAGGTCAAACCGATTAAAGTTCACTCGGTTAGATCCA
2460068 AGTTGACTCATACCAGTTTCTATATGATTCTCAACCGAATAAGCAGCCCCACACGTAAGGGTGGA
260 AGTTGACTCATACCAGTTTCTATATGATTCTCAACCGAATAAGCAGCCCCACACGTAAGGGTGGA
2460133 GCATGACGCAACAGAAAGAATGTCCAATGTGTTCT
325 GCATGACGCAACAGAAAGAATGTCCAATGTGTTCT
2460168 GAT
1 GAT
2460171 TGCACCACCT
Statistics
Matches: 357, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
359 116 0.32
360 241 0.68
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (359 bp):
GATAGCTAAGGTAGTGTACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCATTGTGCAA
ATATTTTTAATTTTCTGCAAAAGCTTCACCAAAATTTTTATTGCCAATTCACCCCTCTTGACAAA
TTCCATCGATCGATTAACTCAACAGTATGACTTTTCAAAAAATTTGACTTTGTCAAAGTCAACTC
TAAACATGTCAACTCGGTCAAAGTTAACAGGTCAAACCGATTAAAGTTCACTCGGTTAGATCCAA
GTTGACTCATACCAGTTTCTATATGATTCTCAACCGAATAAGCAGCCCCACACGTAAGGGTGGAG
CATGACGCAACAGAAAGAATGTCCAATGTGTTCT
Found at i:2473472 original size:38 final size:38
Alignment explanation
Indices: 2473395--2473472 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 38
2473385 ATTGAACATG
* * * *
2473395 ATATATTTTTATATAAATTATGTTGAAGTAAAATTTTA
1 ATATATTTTTAAATAAATTATGTTAAAATAAAATATTA
**
2473433 ATATATTTTTTAAATAAATTATG-TAAAATTTAATATTA
1 ATATA-TTTTTAAATAAATTATGTTAAAATAAAATATTA
2473471 AT
1 AT
2473473 TAAAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
38 17 0.52
39 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (38 bp):
ATATATTTTTAAATAAATTATGTTAAAATAAAATATTA
Found at i:2473550 original size:15 final size:15
Alignment explanation
Indices: 2473530--2473645 Score: 70
Period size: 15 Copynumber: 8.1 Consensus size: 15
2473520 TATCGATGAT
2473530 TTTTTATATAAATAA
1 TTTTTATATAAATAA
*
2473545 TTTTTATTTAAAT-A
1 TTTTTATATAAATAA
* *
2473559 -TATTATCGAT-GAT--
1 TTTTTAT--ATAAATAA
2473572 TTTTTATATAAATAA
1 TTTTTATATAAATAA
*
2473587 TTTTTATTTAAAT-A
1 TTTTTATATAAATAA
* **
2473601 --TAT-TATCGATGAA
1 TTTTTATATAAAT-AA
2473614 TTTTTATATAAATAA
1 TTTTTATATAAATAA
*
2473629 TTTTTATTTAAATAA
1 TTTTTATATAAATAA
2473644 TT
1 TT
2473646 AGAATTTCAC
Statistics
Matches: 75, Mismatches: 15, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
11 4 0.05
12 4 0.05
13 8 0.11
14 9 0.12
15 45 0.60
16 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTTATATAAATAA
Found at i:2473554 original size:19 final size:19
Alignment explanation
Indices: 2473532--2473596 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 19
2473522 TCGATGATTT
2473532 TTTATATAAATAATTTTTA
1 TTTATATAAATAATTTTTA
* * *
2473551 TTTAAATATATTATCGATGATTT-
1 TTT--ATATA-AAT-AAT-TTTTA
2473574 TTTATATAAATAATTTTTA
1 TTTATATAAATAATTTTTA
2473593 TTTA
1 TTTA
2473597 AATATATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 2 0.06
21 10 0.29
22 2 0.06
23 5 0.15
24 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTATATAAATAATTTTTA
Found at i:2473630 original size:42 final size:42
Alignment explanation
Indices: 2473513--2473646 Score: 252
Period size: 42 Copynumber: 3.2 Consensus size: 42
2473503 ATAATAAAAT
2473513 AATATATTATCGATGATTTTTTATATAAATAATTTTTATTTA
1 AATATATTATCGATGATTTTTTATATAAATAATTTTTATTTA
2473555 AATATATTATCGATGATTTTTTATATAAATAATTTTTATTTA
1 AATATATTATCGATGATTTTTTATATAAATAATTTTTATTTA
*
2473597 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
1 AATATATTATCGATGATTTTTTATATAAATAATTTTTATTTA
2473639 AATA-ATTA
1 AATATATTA
2473647 GAATTTCACA
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 4 0.04
42 87 0.96
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (42 bp):
AATATATTATCGATGATTTTTTATATAAATAATTTTTATTTA
Found at i:2473834 original size:20 final size:20
Alignment explanation
Indices: 2473798--2473835 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2473788 ATCCTATTCC
**
2473798 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2473818 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2473836 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2479726 original size:20 final size:20
Alignment explanation
Indices: 2479684--2479753 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
2479674 AAAATATTTT
* *
2479684 TATGAATAGTACTG-TATTG
1 TATGAATAGTACCGATACTG
*
2479703 TATGTATAGTACCGATACTG
1 TATGAATAGTACCGATACTG
*
2479723 TATGAATAGTACTGATACTG
1 TATGAATAGTACCGATACTG
*
2479743 TGTGAATAGTA
1 TATGAATAGTA
2479754 ATAAACTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 12 0.27
20 32 0.73
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (20 bp):
TATGAATAGTACCGATACTG
Found at i:2480194 original size:33 final size:34
Alignment explanation
Indices: 2480157--2480227 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
2480147 CCTTTTGTAA
* *
2480157 TAGGGA-AAGATTCTAGCTGAGCCCTTGAAAAGC
1 TAGGGATAAGATTCTAGCTGAGCCCGTGAAAAAC
* * *
2480190 TAGGGATAAGGTTCTAGTTTAGCCCGTGAAAAAC
1 TAGGGATAAGATTCTAGCTGAGCCCGTGAAAAAC
2480224 TAGG
1 TAGG
2480228 AGTTGTAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 6 0.19
34 26 0.81
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (34 bp):
TAGGGATAAGATTCTAGCTGAGCCCGTGAAAAAC
Found at i:2482915 original size:34 final size:34
Alignment explanation
Indices: 2482850--2482916 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
2482840 TCTAAATGGA
* *
2482850 AAGGTTCTAGCTAAGCCCTTGAAAAGCTAGGGAT
1 AAGGTTCTAGCTAAGCCCGTGAAAAACTAGGGAT
* * *
2482884 AAGGTTCTAGTTTAGCCCGTGAAAAATTAGGGA
1 AAGGTTCTAGCTAAGCCCGTGAAAAACTAGGGA
2482917 GTTGTAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (34 bp):
AAGGTTCTAGCTAAGCCCGTGAAAAACTAGGGAT
Found at i:2485129 original size:19 final size:20
Alignment explanation
Indices: 2485105--2485154 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2485095 AAAATATTTT
*
2485105 TATGAATAGTATTG-TATTG
1 TATGAATAGTATCGATATTG
2485124 TATGAATAGTATCGATATTG
1 TATGAATAGTATCGATATTG
* *
2485144 TGTGAACAGTA
1 TATGAATAGTA
2485155 ATGAATAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (20 bp):
TATGAATAGTATCGATATTG
Found at i:2485234 original size:20 final size:20
Alignment explanation
Indices: 2485187--2485234 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2485177 AATTCCAGAA
* *
2485187 TGCTACAAGGGTATCGATAG
1 TGCTACAGGGGTATCGATAC
2485207 TGCTACAGGGGTATCGATAC
1 TGCTACAGGGGTATCGATAC
2485227 TGCTACAG
1 TGCTACAG
2485235 TAATTTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (20 bp):
TGCTACAGGGGTATCGATAC
Found at i:2485621 original size:34 final size:34
Alignment explanation
Indices: 2485578--2485642 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
2485568 TAAAAGGAAT
* *
2485578 GGTTCTAGTTGAGCCCTTGAAAAGCTAGGGATAA
1 GGTTCTAGTTGAGCCCGTGAAAAACTAGGGATAA
**
2485612 GGTTCTAGTTTTGCCCGTGAAAAACTAGGGA
1 GGTTCTAGTTGAGCCCGTGAAAAACTAGGGA
2485643 GTTGTAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (34 bp):
GGTTCTAGTTGAGCCCGTGAAAAACTAGGGATAA
Found at i:2487323 original size:34 final size:34
Alignment explanation
Indices: 2487280--2487346 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
2487270 GTAAAATGTA
* *
2487280 AAGGTTCTAGCTGAGCCCTTGAAAAGCTAGGGAT
1 AAGGTTCTAGCTGAGCCCGTGAAAAACTAGGGAT
* *
2487314 AAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
1 AAGGTTCTAGCTGAGCCCGTGAAAAACTAGGGA
2487347 GTTGTAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (34 bp):
AAGGTTCTAGCTGAGCCCGTGAAAAACTAGGGAT
Found at i:2488669 original size:24 final size:21
Alignment explanation
Indices: 2488631--2488686 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
2488621 AAATTTGTGT
*
2488631 TTTTTTTATTCTAAAATGTACTC
1 TTTTTTTATTCTAAAA-AT-CTC
*
2488654 TTTTTTTATTAGTAAAAATCTC
1 TTTTTTTATT-CTAAAAATCTC
2488676 TTTATTTTATT
1 TTT-TTTTATT
2488687 TTCGTATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.21
23 18 0.62
24 5 0.17
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTTTTATTCTAAAAATCTC
Found at i:2492029 original size:67 final size:67
Alignment explanation
Indices: 2491950--2492078 Score: 222
Period size: 67 Copynumber: 1.9 Consensus size: 67
2491940 GTGCATGAAG
*
2491950 AAGCTCTTGTTCTTCATTTGTTAACGTGTATTGATGATGTGGATAATGCATTACATGGTACATTA
1 AAGCTCATGTTCTTCATTTGTTAACGTGTATTGATGATGTGGATAATGCATTACATGGTACATTA
2492015 TA
66 TA
* * *
2492017 AAGCTCATGTTCTTCATTTGTTAACGTTTATTGATGCTGTGGATGATGCATTACATGGTACA
1 AAGCTCATGTTCTTCATTTGTTAACGTGTATTGATGATGTGGATAATGCATTACATGGTACA
2492079 AAGGCTCCTG
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:0.13, G:0.20, T:0.41
Consensus pattern (67 bp):
AAGCTCATGTTCTTCATTTGTTAACGTGTATTGATGATGTGGATAATGCATTACATGGTACATTA
TA
Found at i:2492198 original size:4 final size:4
Alignment explanation
Indices: 2492189--2492217 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
2492179 ATTTTCATTG
2492189 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
2492218 CCTTTACCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:2492202 original size:30 final size:26
Alignment explanation
Indices: 2492147--2492198 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2492137 ATCAAAATTG
2492147 CATAGCATTTTCATTGTTTCTTTCTT
1 CATAGCATTTTCATTGTTTCTTTCTT
2492173 CATAGCATTTTCATTGTTTCTTTCTT
1 CATAGCATTTTCATTGTTTCTTTCTT
2492199 TCTTTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.08, T:0.58
Consensus pattern (26 bp):
CATAGCATTTTCATTGTTTCTTTCTT
Found at i:2493161 original size:31 final size:31
Alignment explanation
Indices: 2493108--2493177 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
2493098 AAAAAAACAA
**
2493108 AAGATAT-AGTCACTTTTGTTTTTATTTAATT
1 AAGATATGA-TCACTTTCATTTTTATTTAATT
*
2493139 AAGTTATGATCACTTTCATTTTTATTTAATT
1 AAGATATGATCACTTTCATTTTTATTTAATT
2493170 AAGATATG
1 AAGATATG
2493178 GTCATCATGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.51
Consensus pattern (31 bp):
AAGATATGATCACTTTCATTTTTATTTAATT
Found at i:2493361 original size:27 final size:26
Alignment explanation
Indices: 2493330--2493417 Score: 101
Period size: 26 Copynumber: 3.3 Consensus size: 26
2493320 AAATAAAAAT
2493330 AAAAATATTTTTAAATTAAGTTAATA-A
1 AAAAATATTTTT-AA-TAAGTTAATATA
* *
2493357 TAAAATATATTTAATAAGTTAATATA
1 AAAAATATTTTTAATAAGTTAATATA
2493383 AAAAATATTTTT--TAAGTTAATATA
1 AAAAATATTTTTAATAAGTTAATATA
2493407 TATAAAATATT
1 -A-AAAATATT
2493418 ATGAATTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
24 12 0.22
25 11 0.20
26 21 0.39
27 10 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
AAAAATATTTTTAATAAGTTAATATA
Found at i:2493390 original size:24 final size:24
Alignment explanation
Indices: 2493328--2493417 Score: 90
Period size: 24 Copynumber: 3.5 Consensus size: 24
2493318 GAAAATAAAA
*
2493328 ATAAAAATATTTTTAAATTAAGTTAAT
1 ATAAAAA-ATATTT-AA-TAAGTTAAT
*
2493355 AATAAAATATATTTAATAAGTTAAT
1 -ATAAAAAATATTTAATAAGTTAAT
**
2493380 ATAAAAAATATTTTTTAAGTTAAT
1 ATAAAAAATATTTAATAAGTTAAT
2493404 ATATATAAAATATT
1 ATA-A-AAAATATT
2493418 ATGAATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
24 24 0.44
25 10 0.18
26 10 0.18
27 5 0.09
28 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (24 bp):
ATAAAAAATATTTAATAAGTTAAT
Found at i:2493407 original size:26 final size:26
Alignment explanation
Indices: 2493344--2493417 Score: 91
Period size: 24 Copynumber: 3.0 Consensus size: 26
2493334 ATATTTTTAA
*
2493344 ATTAAGTTAATA-ATAAAATATATTT
1 ATTAAGTTAATATATAAAAAATATTT
*
2493369 AATAAGTT-A-ATATAAAAAATATTT
1 ATTAAGTTAATATATAAAAAATATTT
* *
2493393 TTTAAGTTAATATATATAAAATATT
1 ATTAAGTTAATATATAAAAAATATT
2493418 ATGAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.46
25 8 0.20
26 13 0.32
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (26 bp):
ATTAAGTTAATATATAAAAAATATTT
Found at i:2494174 original size:2 final size:2
Alignment explanation
Indices: 2494167--2494225 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
2494157 AGGGCAAAGT
2494167 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2494208 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2494226 GTGGGAGGGA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2497923 original size:18 final size:19
Alignment explanation
Indices: 2497890--2497929 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
2497880 AAGTATTTGA
2497890 ATACATGCATATGAATCAT
1 ATACATGCATATGAATCAT
*
2497909 ATACATGTA-ATGAATCAT
1 ATACATGCATATGAATCAT
2497927 ATA
1 ATA
2497930 TAAGCATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (19 bp):
ATACATGCATATGAATCAT
Found at i:2501326 original size:23 final size:23
Alignment explanation
Indices: 2501292--2501369 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
2501282 AAACTTTTGG
2501292 TGGTTGAAAGTTGGCAACAATAA
1 TGGTTGAAAGTTGGCAACAATAA
* * *
2501315 TGGTTGATAGTTGGCAGCAATGAT
1 TGGTTGAAAGTTGGCAACAAT-AA
***
2501339 TCAATGAAAGTTGGCAACAATAA
1 TGGTTGAAAGTTGGCAACAATAA
2501362 T-GTTGAAA
1 TGGTTGAAA
2501370 AAAGTGGGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
22 5 0.12
23 21 0.49
24 17 0.40
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGTTGAAAGTTGGCAACAATAA
Found at i:2514717 original size:15 final size:15
Alignment explanation
Indices: 2514697--2514726 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2514687 CAATATTATG
2514697 TATATAATAAAATAA
1 TATATAATAAAATAA
*
2514712 TATATAATAATATAA
1 TATATAATAAAATAA
2514727 GTAAACTAAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TATATAATAAAATAA
Found at i:2516331 original size:91 final size:91
Alignment explanation
Indices: 2516108--2516618 Score: 643
Period size: 91 Copynumber: 5.7 Consensus size: 91
2516098 TTGAAAGTAT
*
2516108 CAAGTTCTTCTCATTATGAACTT-TT-T---TCTTTAGGACGAGTTCTTCTCATTATGAACTCT-
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTT-GGACGAGTTCTTCTCATTATGAACTCTC
* * * *
2516167 -TCTGAAAATG-TCACTCCAAGGTCGAA
65 CACTGGAAATGTTGA-TCCAAGGTTGAA
* * * *
2516193 CAAATTTTTCTCATTATGAA--T-TTCTCCCTCGTTGGATGAGTTTTTCTCATTATGAACTCTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCC
* ** *
2516255 ATTGGAAACATTGATCAAAGGTTGAA
66 ACTGGAAATGTTGATCCAAGGTTGAA
* ** * * *
2516281 CAAGTTATTCTCATTATGTTCTTTTTCTCCTTCATTGGACGAGTTCTTCTCATTATGAACTCTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCC
* *
2516346 ACTGGAAATGTTGAGCCATGGTTGAA
66 ACTGGAAATGTTGATCCAAGGTTGAA
* *
2516372 CAAGCTCTTCTCATTATGAACTACTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCC
*
2516437 ACTGGAAATGTTGAGCCAAGGTTGAA
66 ACTGGAAATGTTGATCCAAGGTTGAA
*
2516463 CAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCC
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCC
2516528 ACTGGAAATGTTGAT-CAAGGGTTGAA
66 ACTGGAAATGTTGATCCAA-GGTTGAA
* *
2516554 CAAGTTCTTCTAATTATGAACTTCTTCTCCCTC-TAATGGAAGAGTTCTTCTCATTATGAACTCT
1 CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGT--TGGACGAGTTCTTCTCATTATGAACTCT
2516618 C
64 C
2516619 TATTTGAAAT
Statistics
Matches: 372, Mismatches: 41, Indels: 19
0.86 0.09 0.04
Matches are distributed among these distances:
83 3 0.01
84 1 0.00
85 18 0.05
86 25 0.07
87 4 0.01
88 31 0.08
89 2 0.01
90 5 0.01
91 255 0.69
92 28 0.08
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (91 bp):
CAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTCC
ACTGGAAATGTTGATCCAAGGTTGAA
Found at i:2516794 original size:135 final size:136
Alignment explanation
Indices: 2516551--2516891 Score: 533
Period size: 135 Copynumber: 2.5 Consensus size: 136
2516541 ATCAAGGGTT
* ** *
2516551 GAACAAGTTCTTCTAATTATGAACTTCTTCTCCCTCTAATGGAAGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
* * *
2516616 CTCTATTTGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGTCGTGAATCGAGTGA
66 CTCCATTTGAAATGTAAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGA
2516681 TAGGTC
131 TAGGTC
2516687 GAACAA-TCTCTTCTCATTATGAACTTCTTCTCCCT-TGTTGGATGAGTTCTTCTCATTATGAAC
1 GAACAAGT-TCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAAC
* * * *
2516750 TCTCCATTTGAAGTGTAAATCCCTCAAGCGAGGCGTCGCTGATTCGAAATGCCGTGAATCGAGTG
65 TCTCCATTTGAAATGTAAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTG
*
2516815 ATAGGTT
130 ATAGGTC
* *
2516822 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
2516887 CTCCA
66 CTCCA
2516892 CTGGAAAATA
Statistics
Matches: 188, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
135 123 0.65
136 65 0.35
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (136 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
CTCCATTTGAAATGTAAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGA
TAGGTC
Found at i:2517500 original size:37 final size:37
Alignment explanation
Indices: 2517395--2517513 Score: 105
Period size: 37 Copynumber: 3.2 Consensus size: 37
2517385 ACAAAATTTC
* * *
2517395 TTGTTTCAAGGGAAAACTGTCTCAAGCAAGACGAAGT
1 TTGTTTTAAAGGAAAACTGTCTCAAGCAAGATGAAGT
* * ** * ** *
2517432 TGGTTTT-AAGAAAAACCATCTCGAGTTAGATGAATT
1 TTGTTTTAAAGGAAAACTGTCTCAAGCAAGATGAAGT
* *
2517468 TTGTTTTAAAGGAAAACTGTCTCAAGCGAGATGAAGC
1 TTGTTTTAAAGGAAAACTGTCTCAAGCAAGATGAAGT
*
2517505 TGGTTTTAA
1 TTGTTTTAA
2517514 GAAAAAACAT
Statistics
Matches: 60, Mismatches: 21, Indels: 2
0.72 0.25 0.02
Matches are distributed among these distances:
36 26 0.43
37 34 0.57
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (37 bp):
TTGTTTTAAAGGAAAACTGTCTCAAGCAAGATGAAGT
Found at i:2517521 original size:37 final size:37
Alignment explanation
Indices: 2517407--2517529 Score: 108
Period size: 36 Copynumber: 3.4 Consensus size: 37
2517397 GTTTCAAGGG
* *
2517407 AAAACTGTCTCAAGCAAGACGAAGTTGGTTTTAAG-A
1 AAAACTATCTCAAGCAAGATGAAGTTGGTTTTAAGAA
* * ** * * *
2517443 AAAACCATCTCGAGTTAGATGAATTTTGTTTTAA-AGG
1 AAAACTATCTCAAGCAAGATGAAGTTGGTTTTAAGA-A
* * *
2517480 AAAACTGTCTCAAGCGAGATGAAGCTGGTTTTAAGAA
1 AAAACTATCTCAAGCAAGATGAAGTTGGTTTTAAGAA
2517517 AAAAC-ATCTCAAG
1 AAAACTATCTCAAG
2517530 TGAAATAAAA
Statistics
Matches: 65, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
36 33 0.51
37 31 0.48
38 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (37 bp):
AAAACTATCTCAAGCAAGATGAAGTTGGTTTTAAGAA
Found at i:2517657 original size:66 final size:66
Alignment explanation
Indices: 2517573--2517952 Score: 331
Period size: 66 Copynumber: 5.7 Consensus size: 66
2517563 AATCAACGTT
* **
2517573 TTTGTGTTTCAAGAGAAACTGTCTCCAGGGAGACAAAATTAATTTCAAGGGAAACGATCTCAAAG
1 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAG
2517638 A
66 A
** * * * *
2517639 TCGGTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTTTTTTCAAGGGAAACGATCTCAAAG
1 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAG
2517704 A
66 A
* * * * *
2517705 TTTTTGTTTCAAGAGAAACTGTTTCAAGGGAGACAAAATTTGTTTCAAGAGAAAC-ATATTCAAT
1 TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACGAT-CTCAAA
2517769 GA
65 GA
** * *
2517771 TTTTGTGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTCTAGGGAAATTG-TCTCAA
1 -TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA-CGATCTC-A
2517835 GAGAGACA
63 -A-AG--A
**** * * **
2517843 AAACTCGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACTTTGTTTCAAAAGAAAC-AGTCTC-A
1 TTTGT-GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACGA-TCTCAA
* *
2517906 GGC
64 AGA
* ** *
2517909 TTT-TGTCTT-GAGAGAAACTGTCTCAAAAGAGACAAAACTTGTTT
1 TTTGTGT-TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
2517953 TGAGTAAAAA
Statistics
Matches: 253, Mismatches: 48, Indels: 28
0.77 0.15 0.09
Matches are distributed among these distances:
64 33 0.13
65 5 0.02
66 110 0.43
67 50 0.20
68 3 0.01
69 2 0.01
70 1 0.00
71 1 0.00
72 48 0.19
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (66 bp):
TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACGATCTCAAAG
A
Found at i:2517692 original size:36 final size:36
Alignment explanation
Indices: 2517643--2517905 Score: 205
Period size: 36 Copynumber: 7.6 Consensus size: 36
2517633 CAAAGATCGG
* *
2517643 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
2517679 TTTTTCAAGGGAAAC-GATCTC-A-A-AG---ATTTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
2517709 TGTTTCAAGAGAAACTGTTTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
2517745 TGTTTCAAGAGAAACATAT-TC-A-A-TG---ATTTT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
2517775 GTGTTTCAAGAGAAACTGTCTCAAGCA-AGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAG-AGAGACAAAATT
* * * *
2517812 TGTTTCTAGGGAAATTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
2517848 CGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
2517884 TGTTTCAAAAGAAACAGTCTCA
1 TGTTTCAAGAGAAACTGTCTCA
2517906 GGCTTTTGTC
Statistics
Matches: 179, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
30 25 0.14
31 19 0.11
32 1 0.01
33 5 0.03
34 3 0.02
35 4 0.02
36 117 0.65
37 5 0.03
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:2518159 original size:42 final size:41
Alignment explanation
Indices: 2518073--2518180 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 41
2518063 GCTCGGGGGT
* * *
2518073 CTTATGGATGGCCTGAATGACTTA-TCATCTTGCTCAAAAGA
1 CTTAT-GATGGCCCGAATGACTTACGCATCATGCTCAAAAGA
* *
2518114 CTTATAGATGGCCCGAAGGACTTACGCATCATGCTCGAAAGA
1 CTTAT-GATGGCCCGAATGACTTACGCATCATGCTCAAAAGA
2518156 CTTACTGATGGCCCGAATGACTTAC
1 CTTA-TGATGGCCCGAATGACTTAC
2518181 TCCTCAGGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
41 21 0.36
42 36 0.62
43 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (41 bp):
CTTATGATGGCCCGAATGACTTACGCATCATGCTCAAAAGA
Found at i:2523447 original size:21 final size:21
Alignment explanation
Indices: 2523399--2523449 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
2523389 AAGAACCTAG
*
2523399 AGGCTCAAATCTAAAAAATGT
1 AGGCTCTAATCTAAAAAATGT
2523420 AGGCTCTAATCTAAAAAATGT
1 AGGCTCTAATCTAAAAAATGT
2523441 AGGCTCTAA
1 AGGCTCTAA
2523450 GATTAATCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (21 bp):
AGGCTCTAATCTAAAAAATGT
Found at i:2533190 original size:17 final size:17
Alignment explanation
Indices: 2533165--2533207 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
2533155 TGAAGTAAAT
2533165 AAAGAAAGTCATCTAGA
1 AAAGAAAGTCATCTAGA
*
2533182 AACGAAAGTCATCTAGA
1 AAAGAAAGTCATCTAGA
2533199 AAAGAAAGT
1 AAAGAAAGT
2533208 AAGCTTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.19, T:0.16
Consensus pattern (17 bp):
AAAGAAAGTCATCTAGA
Found at i:2543018 original size:24 final size:24
Alignment explanation
Indices: 2542970--2543018 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2542960 TAGCTCGTAT
* ***
2542970 AAATTGTACCGAAGTGCCGTGTAG
1 AAATTGCACCGAAGTGCCACATAG
2542994 AAATTGCACCGAAGTGCCACATAG
1 AAATTGCACCGAAGTGCCACATAG
2543018 A
1 A
2543019 TATGTTCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (24 bp):
AAATTGCACCGAAGTGCCACATAG
Found at i:2543041 original size:23 final size:22
Alignment explanation
Indices: 2543028--2543088 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
2543018 ATATGTTCCA
2543028 AAGGACCGCGTAGAAATGTCCCG
1 AAGGACCGCGTAG-AATGTCCCG
**
2543051 AAGGACCAAGTAGAATTGTCCCG
1 AAGGACCGCGTAGAA-TGTCCCG
2543074 AAGGACCGCGTAGAA
1 AAGGACCGCGTAGAA
2543089 CCCTCGACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 2 0.06
23 31 0.94
ACGTcount: A:0.34, C:0.23, G:0.30, T:0.13
Consensus pattern (22 bp):
AAGGACCGCGTAGAATGTCCCG
Found at i:2543259 original size:45 final size:45
Alignment explanation
Indices: 2543166--2543297 Score: 176
Period size: 45 Copynumber: 3.0 Consensus size: 45
2543156 TATAACATTT
* * * * * * *
2543166 CACATAGGTTATATCACA-TTACATATATTCACATAGATCATTGT
1 CACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAATGC
*
2543210 CACATAGCTTATATCATATTTTCATGTAATCACATAGGTCAATGC
1 CACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAATGC
*
2543255 CACATAACTTATATCACATTTTCATGTAATCACATAGGTCAAT
1 CACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAAT
2543298 ATCATATAGC
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 16 0.21
45 61 0.79
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (45 bp):
CACATAGCTTATATCACATTTTCATGTAATCACATAGGTCAATGC
Found at i:2547752 original size:36 final size:36
Alignment explanation
Indices: 2547705--2547784 Score: 160
Period size: 36 Copynumber: 2.2 Consensus size: 36
2547695 TAATACACTC
2547705 TCAGCATCAATTAGCAATTACAAACTCCTAGATGTA
1 TCAGCATCAATTAGCAATTACAAACTCCTAGATGTA
2547741 TCAGCATCAATTAGCAATTACAAACTCCTAGATGTA
1 TCAGCATCAATTAGCAATTACAAACTCCTAGATGTA
2547777 TCAGCATC
1 TCAGCATC
2547785 TACCAAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (36 bp):
TCAGCATCAATTAGCAATTACAAACTCCTAGATGTA
Found at i:2552128 original size:13 final size:13
Alignment explanation
Indices: 2552110--2552136 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2552100 TTCTATAAAA
2552110 TATTTTCTATTTT
1 TATTTTCTATTTT
2552123 TATTTTCTATTTT
1 TATTTTCTATTTT
2552136 T
1 T
2552137 TTAGAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TATTTTCTATTTT
Found at i:2552165 original size:28 final size:28
Alignment explanation
Indices: 2552119--2552172 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
2552109 ATATTTTCTA
* *
2552119 TTTTTATTTTCTATTTTTTTAGAAAATAG
1 TTTTCATTTTCTAATTTTTT-GAAAATAG
2552148 TTTTCATTTTC-AATTTTTTGAAAAT
1 TTTTCATTTTCTAATTTTTTGAAAAT
2552173 TAGAAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 7 0.30
29 10 0.43
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTTCATTTTCTAATTTTTTGAAAATAG
Found at i:2559503 original size:23 final size:21
Alignment explanation
Indices: 2559451--2559512 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
2559441 TTTTGGTGCA
*
2559451 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
2559471 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
2559492 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
2559513 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:2559538 original size:20 final size:20
Alignment explanation
Indices: 2559453--2559538 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 20
2559443 TTGGTGCAGA
* *
2559453 GGGAATCGA-TCCCCCCTTG
1 GGGAACCGATTCCCCCCTAG
*
2559472 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATTCCCCC-CT--AG
*
2559496 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCC-TAG
* *
2559517 GGGAATCGATACCCCCCTAG
1 GGGAACCGATTCCCCCCTAG
2559537 GG
1 GG
2559539 TTCTGGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.23
21 23 0.43
22 1 0.02
23 16 0.30
24 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (20 bp):
GGGAACCGATTCCCCCCTAG
Found at i:2559911 original size:9 final size:9
Alignment explanation
Indices: 2559897--2559924 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2559887 ACACAAGATT
2559897 TTTTCAAAA
1 TTTTCAAAA
2559906 TTTTCAAAA
1 TTTTCAAAA
2559915 TTTTCAAAA
1 TTTTCAAAA
2559924 T
1 T
2559925 AATATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (9 bp):
TTTTCAAAA
Found at i:2564128 original size:29 final size:29
Alignment explanation
Indices: 2564085--2564142 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2564075 TAACCAAACA
* ***
2564085 TCGGCAAGTATAATAGTTAAGAGAGAAAG
1 TCGGCAAGTAGAATAAAGAAGAGAGAAAG
2564114 TCGGCAAGTAGAATAAAGAAGAGAGAAAG
1 TCGGCAAGTAGAATAAAGAAGAGAGAAAG
2564143 AAGACTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.29, T:0.16
Consensus pattern (29 bp):
TCGGCAAGTAGAATAAAGAAGAGAGAAAG
Found at i:2566165 original size:21 final size:20
Alignment explanation
Indices: 2566139--2566256 Score: 85
Period size: 20 Copynumber: 5.8 Consensus size: 20
2566129 ATCAGTTTCC
2566139 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
2566160 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** * *
2566179 ACAAATTCGCATTGAGATTTTCC
1 A-AAA-TCGCAACGCGATTTT-G
* *
2566202 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
* *
2566222 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
*
2566242 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
2566257 ACACATAAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.01
20 38 0.48
21 36 0.46
22 3 0.04
23 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:2566285 original size:20 final size:20
Alignment explanation
Indices: 2566203--2566416 Score: 216
Period size: 20 Copynumber: 10.7 Consensus size: 20
2566193 AGATTTTCCA
* ** *
2566203 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* ** *
2566223 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* * *
2566243 AAATCGCAATGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2566263 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2566283 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2566303 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2566323 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2566343 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2566363 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2566383 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2566404 AAATCGCAACGCG
1 AAATCGCAACGCG
2566417 ATATTTAAAG
Statistics
Matches: 164, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.01
20 144 0.88
21 17 0.10
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2566287 original size:60 final size:60
Alignment explanation
Indices: 2566203--2566417 Score: 241
Period size: 60 Copynumber: 3.6 Consensus size: 60
2566193 AGATTTTCCA
* ** * ** * * *
2566203 AAATCGCAACGCGAATATGAAAATCGCAACGCGAATATGAAAATCGCAATGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
* * * ***
2566263 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
* * * **
2566323 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
2566383 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
2566418 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 27, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 96 0.76
61 31 0.24
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT
Found at i:2566837 original size:33 final size:33
Alignment explanation
Indices: 2566798--2566868 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2566788 TTCACTTAGA
* *
2566798 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
2566831 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
2566864 TTTCA
1 TTTCA
2566869 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:2566980 original size:21 final size:20
Alignment explanation
Indices: 2566954--2567057 Score: 87
Period size: 21 Copynumber: 5.5 Consensus size: 20
2566944 TGCAGAAGAG
2566954 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
2566975 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
2566995 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
2567016 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
2567030 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
2567049 TCGCAACGA
1 TCGCAACGA
2567058 AAGAATCGCA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 10 0.15
20 16 0.25
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:2566998 original size:20 final size:21
Alignment explanation
Indices: 2566952--2567030 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
2566942 TTTGCAGAAG
*
2566952 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
2566974 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
2566993 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
2567015 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
2567031 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:2567011 original size:41 final size:41
Alignment explanation
Indices: 2566953--2567030 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
2566943 TTGCAGAAGA
* *
2566953 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
2566994 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
2567031 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.27, T:0.12
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
Found at i:2567046 original size:33 final size:33
Alignment explanation
Indices: 2567006--2567075 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
2566996 CGCAACGAGA
*
2567006 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAAAGAATCGCAACGC
*
2567039 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAAAGAATCGCAACGC
2567072 GAAA
1 GAAA
2567076 CCAAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.20, G:0.24, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAAAGAATCGCAACGC
Found at i:2567052 original size:19 final size:18
Alignment explanation
Indices: 2567028--2567086 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
2567018 GCAACGAGAG
2567028 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
2567047 AATCGCAA--CGAAAG--
1 AATCGCAACGCGAAAGAA
*
2567061 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
2567080 AATCGCA
1 AATCGCA
2567087 TTGCGATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 8 0.24
16 6 0.18
17 5 0.15
19 15 0.44
ACGTcount: A:0.47, C:0.25, G:0.19, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:2567082 original size:33 final size:33
Alignment explanation
Indices: 2567012--2567086 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
2567002 GAGAGAAATG
* * **
2567012 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAAAGAATCGCAACGCGAAACC
2567045 AAAATCGCAACGAAAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAAAGAATCGCAACGCGAAACC
2567078 AAAATCGCA
1 AAAATCGCA
2567087 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAAAGAATCGCAACGCGAAACC
Found at i:2567104 original size:19 final size:19
Alignment explanation
Indices: 2567082--2567184 Score: 100
Period size: 19 Copynumber: 5.9 Consensus size: 19
2567072 GAAACCAAAA
* *
2567082 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
2567101 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
*
2567117 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
*
2567134 TCGCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATC
2567153 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
2567169 T--CGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
2567185 TTCAACCAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
14 16 0.23
16 11 0.16
17 8 0.11
19 35 0.50
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATC
Found at i:2567165 original size:52 final size:52
Alignment explanation
Indices: 2567082--2567187 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
2567072 GAAACCAAAA
* *
2567082 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
2567134 TCGCGTTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
2567186 TC
1 TC
2567188 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:2569120 original size:185 final size:185
Alignment explanation
Indices: 2568890--2569264 Score: 741
Period size: 185 Copynumber: 2.0 Consensus size: 185
2568880 TGGATTGCTT
2568890 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2568955 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2569020 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
*
2569075 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2569140 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2569205 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
2569260 AGTAA
1 AGTAA
2569265 TGCAATCCAT
Statistics
Matches: 189, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 189 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:2569139 original size:92 final size:93
Alignment explanation
Indices: 2568890--2569264 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
2568880 TGGATTGCTT
*
2568890 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2568955 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2568983 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2569048 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2569075 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2569140 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2569168 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2569233 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2569260 AGTAA
1 AGTAA
2569265 TGCAATCCAT
Statistics
Matches: 280, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 98 0.35
93 182 0.65
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2569352 original size:19 final size:19
Alignment explanation
Indices: 2569312--2569440 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
2569302 TAGTTTACTT
* *
2569312 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2569332 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2569351 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2569370 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2569384 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2569403 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
*
2569417 TCGCAACGCGAAGCCAAAA
1 TCGCAACGCGAAACCAAAA
2569436 TCGCA
1 TCGCA
2569441 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 1 0.01
19 46 0.52
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.18, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2569391 original size:33 final size:32
Alignment explanation
Indices: 2569348--2569440 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
2569338 CGCGAAACCA
**
2569348 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2569380 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
*
2569413 AAGATCGCAACGCGAAGCCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2569441 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.45, C:0.28, G:0.19, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2569458 original size:19 final size:19
Alignment explanation
Indices: 2569436--2569570 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
2569426 GAAGCCAAAA
*
2569436 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2569455 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
2569471 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2569488 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2569504 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2569521 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2569540 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2569560 TCGTGTTGCGA
1 TCGCGTTGCGA
2569571 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2569477 original size:14 final size:14
Alignment explanation
Indices: 2569458--2569514 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2569448 TTTCATTTCG
2569458 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2569472 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2569489 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
2569505 CGTTGCGATT
1 CGTTGCGATT
2569515 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2569483 original size:33 final size:33
Alignment explanation
Indices: 2569441--2569533 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
2569431 CAAAATCGCA
*
2569441 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2569474 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2569507 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
2569534 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:2571514 original size:14 final size:14
Alignment explanation
Indices: 2571495--2571530 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2571485 ATTGTTTAAT
2571495 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2571509 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2571523 TGATTTGT
1 TGATTTGT
2571531 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2571661 original size:19 final size:19
Alignment explanation
Indices: 2571637--2571734 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
2571627 AAAATTGACT
2571637 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2571656 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2571675 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2571694 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2571708 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2571728 ATCGCAA
1 ATCGCAA
2571735 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 1 0.01
17 3 0.04
19 46 0.65
20 10 0.14
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2571728 original size:34 final size:33
Alignment explanation
Indices: 2571637--2571753 Score: 171
Period size: 34 Copynumber: 3.4 Consensus size: 33
2571627 AAAATTGACT
*
2571637 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGA
2571675 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2571708 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
2571742 ATCGCAATGCGA
1 ATCGCAATGCGA
2571754 TTTTCATTTC
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
33 15 0.19
34 34 0.44
36 2 0.03
38 26 0.34
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2574086 original size:12 final size:12
Alignment explanation
Indices: 2574069--2574093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2574059 TTCTTCGGGA
2574069 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2574081 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2574093 C
1 C
2574094 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2574302 original size:24 final size:24
Alignment explanation
Indices: 2574268--2574314 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2574258 CTGAAACATC
2574268 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2574292 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2574315 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2575025 original size:20 final size:20
Alignment explanation
Indices: 2574997--2575246 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
2574987 AAATTTCAGT
* *
2574997 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2575017 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
2575037 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2575057 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
2575077 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2575097 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
2575117 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2575137 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2575157 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2575177 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
2575197 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
2575217 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
2575237 GTTGCGATTT
1 GTTGCGATTT
2575247 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:2575263 original size:21 final size:21
Alignment explanation
Indices: 2575239--2575294 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
2575229 ATATTCGCGT
2575239 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* * ** *
2575260 TGCGAATTTGTACTATCGCAT
1 TGCGATTTTGGAAAATCGCAA
2575281 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2575295 CTGATTTGCG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (21 bp):
TGCGATTTTGGAAAATCGCAA
Found at i:2577801 original size:21 final size:21
Alignment explanation
Indices: 2577759--2577801 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2577749 ATATACCTAA
* *
2577759 GATTTTATGTTAGGGTTTAAT
1 GATTTTATGTTAGGATTGAAT
2577780 GATTTTATGTTAGGATTGAAT
1 GATTTTATGTTAGGATTGAAT
2577801 G
1 G
2577802 TATAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
GATTTTATGTTAGGATTGAAT
Found at i:2580384 original size:20 final size:19
Alignment explanation
Indices: 2580361--2580407 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2580351 CGATATACCA
2580361 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2580381 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2580401 GGTAAAA
1 GGTAAAA
2580408 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2580495 original size:181 final size:182
Alignment explanation
Indices: 2580149--2580621 Score: 680
Period size: 181 Copynumber: 2.6 Consensus size: 182
2580139 GATCCAAATT
* * * * * *
2580149 AAAAATGTGTCGATCCAAAACGATATAACATGTAAAACTATGACAGAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * *
2580213 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
2580278 CGTGACTTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
2580331 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* * * *
2580396 AAACCGGTAAAACGTTACCGGATATATTGAAATTGTCGACACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
2580460 GTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
2580512 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
2580577 AAACCGGTATAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
2580622 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 166 0.64
182 94 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:2580565 original size:20 final size:20
Alignment explanation
Indices: 2580528--2580588 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
2580518 ATATCGATCC
* * *
2580528 AAAACGATATAACAGGTA-A
1 AAAATGATAAAACCGGTATA
*
2580547 AAATATGATAAAACCGGTATC
1 AAA-ATGATAAAACCGGTATA
2580568 AAAATGATAAAACCGGTATA
1 AAAATGATAAAACCGGTATA
2580588 A
1 A
2580589 TGATACCGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.09
20 29 0.83
21 3 0.09
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (20 bp):
AAAATGATAAAACCGGTATA
Found at i:2580592 original size:17 final size:18
Alignment explanation
Indices: 2580551--2580593 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2580541 AGGTAAAAAT
2580551 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGGTAT--AA
2580571 ATGATAAAACCGGTAT-A
1 ATGATAAAACCGGTATAA
2580588 ATGATA
1 ATGATA
2580594 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
20 16 0.70
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (18 bp):
ATGATAAAACCGGTATAA
Found at i:2582665 original size:9 final size:9
Alignment explanation
Indices: 2582653--2582683 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2582643 AGGATGTAGA
2582653 GGAGGCAGT
1 GGAGGCAGT
2582662 GGAGGCAGT
1 GGAGGCAGT
*
2582671 GGAGGCAGA
1 GGAGGCAGT
2582680 GGAG
1 GGAG
2582684 AAGAAAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.58, T:0.06
Consensus pattern (9 bp):
GGAGGCAGT
Found at i:2582833 original size:21 final size:21
Alignment explanation
Indices: 2582807--2582871 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2582797 AAGACAATCA
*
2582807 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
2582828 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2582849 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2582870 AG
1 AG
2582872 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2582948 original size:33 final size:33
Alignment explanation
Indices: 2582906--2582971 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2582896 AAATAGATGG
*
2582906 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
2582939 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2582972 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2584786 original size:19 final size:19
Alignment explanation
Indices: 2584762--2584810 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2584752 AATGTAGGGT
2584762 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2584781 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
2584800 TATTTTTGTAT
1 TAATTTTGTAT
2584811 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2585483 original size:200 final size:200
Alignment explanation
Indices: 2584929--2587102 Score: 4142
Period size: 200 Copynumber: 10.9 Consensus size: 200
2584919 CAATATGGCC
* *
2584929 AACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
2584994 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2585059 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2585124 TGGAA
196 TGGAA
2585129 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
2585193 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2585258 GAATATGTCTAAATAATGTGTCGACACGTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2585323 TGGAA
196 TGGAA
*
2585328 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTTTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
2585393 CCAAATGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2585458 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2585522 TGGAA
196 TGGAA
*
2585527 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2585592 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2585657 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2585722 TGGAA
196 TGGAA
2585727 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2585792 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2585857 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2585922 TGGAA
196 TGGAA
2585927 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2585992 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2586057 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2586122 TGGAA
196 TGGAA
2586127 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2586192 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2586257 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2586321 TGGAA
196 TGGAA
*
2586326 AACAGGGTGTAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2586391 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
2586456 GCATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCAATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2586520 TGGAA
196 TGGAA
* *
2586525 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATTGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2586590 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2586655 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2586719 TGGAA
196 TGGAA
2586724 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
2586789 CCAAAAGCATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2586854 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2586919 TGGAA
196 TGGAA
*
2586924 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACACCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2586989 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2587054 GCATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
2587103 AATTTAAATA
Statistics
Matches: 1944, Mismatches: 26, Indels: 8
0.98 0.01 0.00
Matches are distributed among these distances:
198 18 0.01
199 941 0.48
200 985 0.51
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
TGGAA
Found at i:2585667 original size:399 final size:400
Alignment explanation
Indices: 2584929--2587102 Score: 4142
Period size: 399 Copynumber: 5.4 Consensus size: 400
2584919 CAATATGGCC
* *
2584929 AACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
2584994 CCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2585059 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2585124 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
2585188 GAAACCCAAAAGTATAATGTAATATGTAATTTTCCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
2585253 TGAGAGAATATGTCTAAATAATGTGTCGACACGTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
2585318 ATGAATGGAA
391 ATGAATGGAA
*
2585328 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTTTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
2585393 CCAAATGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2585458 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
*
2585522 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
2585587 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
2585652 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
2585717 ATGAATGGAA
391 ATGAATGGAA
2585727 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2585792 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2585857 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2585922 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
2585987 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
2586052 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
2586117 ATGAATGGAA
391 ATGAATGGAA
2586127 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2586192 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2586257 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
*
2586321 TGGAAAACAGGGTGTAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
2586386 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
* * *
2586451 TGAGAGCATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCAATAGTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
2586515 ATGAATGGAA
391 ATGAATGGAA
* *
2586525 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATTGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2586590 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
2586655 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
2586719 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
2586784 GAAACCCAAAAGCATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
2586849 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
2586914 ATGAATGGAA
391 ATGAATGGAA
*
2586924 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACACCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
2586989 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2587054 GCATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
2587103 AATTTAAATA
Statistics
Matches: 1741, Mismatches: 29, Indels: 9
0.98 0.02 0.01
Matches are distributed among these distances:
397 19 0.01
398 448 0.26
399 837 0.48
400 437 0.25
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (400 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
ATGAATGGAA
Found at i:2588595 original size:24 final size:24
Alignment explanation
Indices: 2588563--2588647 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
2588553 CAAGCGGTCA
* *
2588563 ATGAAGATGAAGCTAACGATGAAG
1 ATGACGATGAAGATAACGATGAAG
* * *
2588587 ATGACGATGATGATGACGATTAAG
1 ATGACGATGAAGATAACGATGAAG
* *
2588611 CTGACGATGAAGATGATGACGATGATG
1 ATGACGATGAAGAT-A--ACGATGAAG
*
2588638 ATGATGATGA
1 ATGACGATGA
2588648 TCCAAACAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 31 0.67
27 15 0.33
ACGTcount: A:0.39, C:0.08, G:0.31, T:0.22
Consensus pattern (24 bp):
ATGACGATGAAGATAACGATGAAG
Found at i:2588600 original size:3 final size:3
Alignment explanation
Indices: 2588580--2588648 Score: 57
Period size: 3 Copynumber: 23.0 Consensus size: 3
2588570 TGAAGCTAAC
* * * * * * * *
2588580 GAT GAA GAT GAC GAT GAT GAT GAC GAT TAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
2588628 GAC GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT
2588649 CCAAACAAGT
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:2588619 original size:36 final size:36
Alignment explanation
Indices: 2588563--2588644 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
2588553 CAAGCGGTCA
*
2588563 ATGAAGATGAAGCTAACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTAACGATGAAGATGACGACGATG
* * * *
2588599 ATGACGATTAAGCTGACGATGAAGATGATGACGATG
1 ATGAAGATGAAGCTAACGATGAAGATGACGACGATG
*
2588635 ATGATGATGA
1 ATGAAGATGA
2588645 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (36 bp):
ATGAAGATGAAGCTAACGATGAAGATGACGACGATG
Found at i:2588637 original size:12 final size:12
Alignment explanation
Indices: 2588563--2588626 Score: 74
Period size: 12 Copynumber: 5.3 Consensus size: 12
2588553 CAAGCGGTCA
*
2588563 ATGAAGATGAAG
1 ATGACGATGAAG
* *
2588575 CTAACGATGAAG
1 ATGACGATGAAG
*
2588587 ATGACGATGATG
1 ATGACGATGAAG
*
2588599 ATGACGATTAAG
1 ATGACGATGAAG
*
2588611 CTGACGATGAAG
1 ATGACGATGAAG
2588623 ATGA
1 ATGA
2588627 TGACGATGAT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.41, C:0.09, G:0.30, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:2588639 original size:12 final size:12
Alignment explanation
Indices: 2588578--2588648 Score: 70
Period size: 12 Copynumber: 5.7 Consensus size: 12
2588568 GATGAAGCTA
*
2588578 ACGATGAAGATG
1 ACGATGATGATG
2588590 ACGATGATGATG
1 ACGATGATGATG
* * *
2588602 ACGATTAAGCTG
1 ACGATGATGATG
2588614 ACGATGAAGATGATG
1 ACGAT---GATGATG
2588629 ACGATGATGATG
1 ACGATGATGATG
*
2588641 ATGATGAT
1 ACGATGAT
2588649 CCAAACAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
12 39 0.81
15 9 0.19
ACGTcount: A:0.37, C:0.08, G:0.31, T:0.24
Consensus pattern (12 bp):
ACGATGATGATG
Found at i:2590618 original size:183 final size:184
Alignment explanation
Indices: 2590341--2590835 Score: 852
Period size: 183 Copynumber: 2.7 Consensus size: 184
2590331 TTGCAATGCT
*
2590341 ATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATA
1 ATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
* * *
2590406 TTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAACGTGTCG
66 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG
2590470 ACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
131 ACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
2590524 ATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
1 ATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
* * *
2590589 TTGTGTCGGTACTTAATGTCCAGATTGGAAGAAAAATGTATCTATACCATT-TAAAAAAGTGTCG
66 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG
* * *
2590653 ACATTTTCACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATA
131 ACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
* **
2590707 ACCGGTATAAATATACCAATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
1 ATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
2590772 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTG-AAAAAAGTGTCG
66 TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG
2590836 GTAATTTTAA
Statistics
Matches: 294, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
183 290 0.99
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (184 bp):
ATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATA
TTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTGTAAAAAAGTGTCG
ACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
Found at i:2593408 original size:23 final size:23
Alignment explanation
Indices: 2593377--2593449 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2593367 ATAGGTAAAA
*
2593377 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2593400 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2593423 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2593446 ATAT
1 ATAT
2593450 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2593838 original size:23 final size:23
Alignment explanation
Indices: 2593807--2593879 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2593797 ATAGGTAAAA
*
2593807 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2593830 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2593853 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2593876 ATAT
1 ATAT
2593880 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2594266 original size:23 final size:23
Alignment explanation
Indices: 2594235--2594307 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2594225 ATAGGTAAAA
*
2594235 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2594258 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2594281 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2594304 ATAT
1 ATAT
2594308 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2594358 original size:428 final size:430
Alignment explanation
Indices: 2593172--2595081 Score: 3610
Period size: 430 Copynumber: 4.4 Consensus size: 430
2593162 TTGGTTAATG
2593172 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
* *
2593237 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACGTGAAATACTATT-AAAAAAATTGAAAC
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
2593301 ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
131 ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
2593366 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
196 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
*
2593431 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCAC
261 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
*
2593496 TGTGGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATA
326 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
2593561 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
391 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
2593601 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
2593666 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
*
2593731 ATAAATTACATAACTTTAAATAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
131 ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
2593796 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
196 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
* *
2593861 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTTAC
261 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
*
2593926 TGTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
326 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
2593991 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
391 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
2594031 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT-ATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
2594095 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAAC
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
*
2594159 ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGGCACTTTCAATAT
131 ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
2594224 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
196 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
2594289 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
261 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
*
2594354 TGTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
326 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
2594419 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
391 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
2594459 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
*
2594524 AAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
*
2594589 ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATAT
131 ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
2594654 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
196 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
*
2594719 TAATAGGTAGTGGTTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
261 TAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
**
2594784 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGACCTTTAAGATATTAATTTAGTAATTATA
326 TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
2594849 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
391 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
* * *
2594889 TTATTAAATTAAAAATTCTAAATATTATTTTATACAATATCAAAACAATCAAATAATTTTTTGTG
1 TTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTG
*
2594954 CAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAA
65 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAA
*
2595019 CATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAA
130 CATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
2595082 CATATTATAA
Statistics
Matches: 1455, Mismatches: 22, Indels: 6
0.98 0.01 0.00
Matches are distributed among these distances:
428 363 0.25
429 234 0.16
430 680 0.47
431 178 0.12
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (430 bp):
TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
ATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT
AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
TAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCAC
TGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTA
Found at i:2594696 original size:23 final size:23
Alignment explanation
Indices: 2594665--2594737 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2594655 ATAGGTAAAA
*
2594665 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2594688 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2594711 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2594734 ATAT
1 ATAT
2594738 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2594881 original size:858 final size:859
Alignment explanation
Indices: 2593172--2595081 Score: 3615
Period size: 858 Copynumber: 2.2 Consensus size: 859
2593162 TTGGTTAATG
2593172 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
* *
2593237 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACGTGAAATACTATTAAAAAAATTGAAACA
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
2593302 TAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
131 TAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
2593367 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
196 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
*
2593432 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
261 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
2593497 GTGGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
326 GTGGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
2593562 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTGTTAAATTTAAATTCTAAATATTA
391 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTGTTAAATTTAAATTCTAAATATTA
*
2593627 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGT
*
2593692 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAATAAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGT
*
2593757 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
586 ATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
2593822 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
651 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
* * *
2593887 TATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTTACTGTGGAAAACATTAATTTAATGTTAT
716 TATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
**
2593952 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
781 CTTTTGAGTGACCTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
2594017 TACGATATATATTA
846 TACGATATATATTA
2594031 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT-ATTTTTTGTGT
1 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
2594095 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
66 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
*
2594160 TAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGGCACTTTCAATATA
131 TAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
2594225 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
196 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
2594290 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
261 AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
* *
2594355 GTGGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
326 GTGGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
2594420 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTGTTAAATTTAAATTCTAAATATTA
391 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTGTTAAATTTAAATTCTAAATATTA
2594485 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGT
456 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGT
2594550 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGT
521 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGT
2594615 ATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
586 ATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
2594680 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
651 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
*
2594745 TATTTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
716 TATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
2594810 CTTTTGAGTGACCTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
781 CTTTTGAGTGACCTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
2594875 TACGATATATATTA
846 TACGATATATATTA
* * *
2594889 TTATTAAATTAAAAATTCTAAATATTATTTTATACAATATCAAAACAATCAAATAATTTTTTGTG
1 TTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTG
*
2594954 CAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAA
65 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAA
*
2595019 CATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAA
129 CATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
2595082 CATATTATAA
Statistics
Matches: 1027, Mismatches: 21, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
858 799 0.78
859 94 0.09
860 60 0.06
861 74 0.07
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (859 bp):
TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
TAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
AATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACT
GTGGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTGTTAAATTTAAATTCTAAATATTA
TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGT
AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACAAAGT
ATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
TATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
CTTTTGAGTGACCTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
TACGATATATATTA
Found at i:2595782 original size:32 final size:33
Alignment explanation
Indices: 2595745--2595807 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
2595735 AAAGTTTTCC
*
2595745 TTTCATTTTTATTATAAA-AACCCAACTTTTGG
1 TTTCATTTTAATTATAAACAACCCAACTTTTGG
*
2595777 TTTCATTTTAATTATAAACAATCCAACTTTT
1 TTTCATTTTAATTATAAACAACCCAACTTTT
2595808 TATTTATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (33 bp):
TTTCATTTTAATTATAAACAACCCAACTTTTGG
Found at i:2598330 original size:5 final size:5
Alignment explanation
Indices: 2598320--2598347 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2598310 GCTTCCCATA
2598320 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
2598348 AATCAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:2598389 original size:2 final size:2
Alignment explanation
Indices: 2598382--2598409 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2598372 CAAACGCTCC
2598382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2598410 AAAAGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2598723 original size:21 final size:22
Alignment explanation
Indices: 2598697--2598738 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2598687 TATATTGTAA
2598697 TACTTTTA-ACTATAAAATAAT
1 TACTTTTACACTATAAAATAAT
*
2598718 TACTTTTACATTATAAAATAA
1 TACTTTTACACTATAAAATAA
2598739 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (22 bp):
TACTTTTACACTATAAAATAAT
Found at i:2599531 original size:2 final size:2
Alignment explanation
Indices: 2599524--2599555 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2599514 TGAGTGGAGG
2599524 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2599556 TTGGATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2609490 original size:14 final size:14
Alignment explanation
Indices: 2609471--2609497 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2609461 AATAACTTAA
2609471 TATTTTTTTATTTT
1 TATTTTTTTATTTT
2609485 TATTTTTTTATTT
1 TATTTTTTTATTT
2609498 CTTTGAAAAA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TATTTTTTTATTTT
Found at i:2611096 original size:42 final size:42
Alignment explanation
Indices: 2611016--2611096 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
2611006 CGGGACAAAT
* * ***
2611016 CTATGTGGTCATTCGAGACATTTCTACACGGTTTTTCGGATA
1 CTATGTCGTCATTCAAGACATTTCTACACGGCACTTCGGATA
**
2611058 CTATGTCGTCATTCAAGACATTTCTACGTGGCACTTCGG
1 CTATGTCGTCATTCAAGACATTTCTACACGGCACTTCGG
2611097 TGCAATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (42 bp):
CTATGTCGTCATTCAAGACATTTCTACACGGCACTTCGGATA
Found at i:2611114 original size:24 final size:24
Alignment explanation
Indices: 2611077--2611133 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
2611067 CATTCAAGAC
*
2611077 ATTTCTACGTGGCACTTCGGTGCA
1 ATTTCTACGCGGCACTTCGGTGCA
*
2611101 ATTTCTTCGCGGCACTTCGGTGCA
1 ATTTCTACGCGGCACTTCGGTGCA
*
2611125 ATTTATACG
1 ATTTCTACG
2611134 AGCTATGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
ATTTCTACGCGGCACTTCGGTGCA
Found at i:2611311 original size:2 final size:2
Alignment explanation
Indices: 2611268--2611303 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2611258 GATGTTGATG
*
2611268 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2611304 GCATATATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2619523 original size:16 final size:17
Alignment explanation
Indices: 2619502--2619555 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
2619492 GACAAGGATT
*
2619502 TATGTGATTATATG-TC
1 TATGTGATTATATGAAC
2619518 TATGTGA-TAT-TGAAC
1 TATGTGATTATATGAAC
*
2619533 TACGTGATTATATGAA-
1 TATGTGATTATATGAAC
2619549 TATGTGA
1 TATGTGA
2619556 AATGTGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.06
15 10 0.31
16 16 0.50
17 4 0.12
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (17 bp):
TATGTGATTATATGAAC
Found at i:2619712 original size:23 final size:24
Alignment explanation
Indices: 2619649--2619715 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
2619639 GATTCTTTGA
*
2619649 GACAA-ATCTATGTGGTCATTCGG
1 GACAATATCTATGTGGTCCTTCGG
* * *
2619672 AAC-ATTTCTACGTGGTCCTTCGG
1 GACAATATCTATGTGGTCCTTCGG
2619695 GACAATAT-TATGTGGTCCTTC
1 GACAATATCTATGTGGTCCTTC
2619716 AAGATATTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.89
24 3 0.09
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (24 bp):
GACAATATCTATGTGGTCCTTCGG
Done.