Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_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: 3931635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 20
Found at i:1118725 original size:20 final size:20
Alignment explanation
Indices: 1118649--1118779 Score: 122
Period size: 20 Copynumber: 6.5 Consensus size: 20
1118639 GCGATTTTCC
* *
1118649 GACTATCACAATGCGAATAT
1 GACTATCGCAATGCGATTAT
* *
1118669 GTA-AATCGCAATGCGAATAT
1 G-ACTATCGCAATGCGATTAT
*
1118689 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTAT
*
1118709 GACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTAT
* * *
1118729 GATTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
* *
1118749 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
*
1118769 GACTGTCGCAA
1 GACTATCGCAA
1118780 CACTGAATTT
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.01
20 98 0.98
21 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (20 bp):
GACTATCGCAATGCGATTAT
Found at i:1118780 original size:20 final size:20
Alignment explanation
Indices: 1118693--1118780 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
1118683 GAATATGTAA
* *
1118693 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
* *
1118713 ATCGCAATGCGATTCTGATT
1 ATCGCAACGCGATTCTGACT
1118733 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1118753 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1118773 GTCGCAAC
1 ATCGCAAC
1118781 ACTGAATTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1119633 original size:24 final size:24
Alignment explanation
Indices: 1119601--1119654 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1119591 GTATTCGAAA
1119601 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1119625 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1119649 TTTGAT
1 TTTGAT
1119655 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1119873 original size:14 final size:14
Alignment explanation
Indices: 1119844--1119880 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1119834 AGAAAAAGAA
1119844 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
1119859 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
1119873 GAAGAAAA
1 GAAGAAAA
1119881 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:1121928 original size:6 final size:6
Alignment explanation
Indices: 1121914--1121947 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1121904 AGAAAAAGGC
*
1121914 AATCAA AATCGA AATCAA AATCAA AATCAA AATC
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATC
1121948 CCAATCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:1121953 original size:18 final size:18
Alignment explanation
Indices: 1121913--1121959 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1121903 AAGAAAAAGG
*
1121913 CAATCAAAATCGAAATCA
1 CAATCAAAATCAAAATCA
* *
1121931 AAATCAAAATCAAAATCC
1 CAATCAAAATCAAAATCA
*
1121949 CAATCACAATC
1 CAATCAAAATC
1121960 GGCTTCACCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.26, G:0.02, T:0.17
Consensus pattern (18 bp):
CAATCAAAATCAAAATCA
Found at i:1122278 original size:20 final size:20
Alignment explanation
Indices: 1122253--1122526 Score: 201
Period size: 20 Copynumber: 14.7 Consensus size: 20
1122243 TTACACATTC
*
1122253 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
1122273 ATTTGACTATCCCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
1122293 ATTTGATTAACGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
1122312 A----A-AATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
1122327 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
1122346 A----A-AAGCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
1122361 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
1122381 ATTTGACTATCGCAACG-GCT
1 ATTTGACTATCGCAACGCG-A
1122401 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
1122421 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * * *
1122441 ATTTGATTATCACAACGGGT
1 ATTTGACTATCGCAACGCGA
*
1122461 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
1122481 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
1122495 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
1122515 A-TTGACTTTCGC
1 ATTTGACTATCGC
1122527 GTTGCAATTT
Statistics
Matches: 199, Mismatches: 35, Indels: 41
0.72 0.13 0.15
Matches are distributed among these distances:
14 27 0.14
15 6 0.03
16 1 0.01
18 1 0.01
19 15 0.08
20 148 0.74
21 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:1122278 original size:140 final size:139
Alignment explanation
Indices: 1122014--1122282 Score: 511
Period size: 140 Copynumber: 1.9 Consensus size: 139
1122004 AAACGTTGTA
1122014 TTATGTATAAACTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTAT
1 TTATGTATAAACTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTAT
*
1122079 GATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTATT
66 GATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTATT
1122144 ATGTGTATT
131 ATGTGTATT
*
1122153 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTATAAAC-TTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1122218 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
65 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
1122283 CCCAACGCGA
Statistics
Matches: 127, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
139 11 0.09
140 116 0.91
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (139 bp):
TTATGTATAAACTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTAT
GATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTATT
ATGTGTATT
Found at i:1122328 original size:34 final size:34
Alignment explanation
Indices: 1122285--1122378 Score: 116
Period size: 34 Copynumber: 2.8 Consensus size: 34
1122275 TTGACTATCC
* * *
1122285 CAACGCGAATTTGATTAACGCAACTCAAAAATCG
1 CAACGCGAATTTGACTAACGCAACGCAAAAAGCG
* * *
1122319 CAACACGAATATGACTATCGCAACGCAAAAAGCG
1 CAACGCGAATTTGACTAACGCAACGCAAAAAGCG
* *
1122353 CAACGCGAATTTGTCTATCGCAACGC
1 CAACGCGAATTTGACTAACGCAACGC
1122379 GAATTTGACT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (34 bp):
CAACGCGAATTTGACTAACGCAACGCAAAAAGCG
Found at i:1122571 original size:20 final size:20
Alignment explanation
Indices: 1122516--1122573 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
1122506 GCAACGCGAA
* *
1122516 TTGACTTTCGCGTTGCAATT
1 TTGACTTTAGCGTTGCGATT
* * *
1122536 TTGTCTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATT
*
1122556 TTGAGTTTAGCGTTGCGA
1 TTGACTTTAGCGTTGCGA
1122574 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGACTTTAGCGTTGCGATT
Found at i:1124717 original size:18 final size:18
Alignment explanation
Indices: 1124694--1124760 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 18
1124684 GAAACTTAAA
* *
1124694 ATCGCAACACGAATGATT
1 ATCGCAACGCGAATGACT
1124712 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG--AATGACT
*
1124732 ATCGCAACGCGAATTTAACT
1 ATCGCAACGCGAA--TGACT
1124752 ATCGCAACG
1 ATCGCAACG
1124761 AGTCAAATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 12 0.29
20 30 0.71
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:1124734 original size:20 final size:20
Alignment explanation
Indices: 1124705--1124760 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1124695 TCGCAACACG
*
1124705 AATGATTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
1124725 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
** *
1124745 TTTAACTATCGCAACG
1 AATGACTATCGCAACG
1124761 AGTCAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:1124977 original size:18 final size:18
Alignment explanation
Indices: 1124954--1125003 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
1124944 TTTACTAAGC
1124954 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
1124972 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
1124990 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
1125004 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:1126755 original size:20 final size:20
Alignment explanation
Indices: 1126732--1126858 Score: 123
Period size: 20 Copynumber: 6.5 Consensus size: 20
1126722 TCTGAAACTT
*
1126732 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
1126752 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
1126772 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
** **
1126792 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
**
1126812 ACCATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
1126831 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
1126850 AAAATCGCA
1 AAAATCGCA
1126859 TTGCGATTCT
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
19 24 0.25
20 71 0.75
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:1127490 original size:20 final size:20
Alignment explanation
Indices: 1127460--1127593 Score: 178
Period size: 20 Copynumber: 6.7 Consensus size: 20
1127450 GCGCTTTGAA
*
1127460 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
1127480 CATCGCGTTGCGACAGTCAA
1 AATCGCGTTGCGATAGTCAG
*
1127500 AATCGCGTTGCGATAGTTAG
1 AATCGCGTTGCGATAGTCAG
*
1127520 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
1127540 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
1127560 AATCGCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
* *
1127580 ACTCGCATTGCGAT
1 AATCGCGTTGCGAT
1127594 TTACATATTC
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:1127513 original size:40 final size:40
Alignment explanation
Indices: 1127458--1127628 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 40
1127448 TGGCGCTTTG
* *
1127458 AAAATCGCATTGCGATAGTCAGCATCGCGTTGCGACAGTC
1 AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTC
* * *
1127498 AAAATCGCGTTGCGATAGTTAGAATCTCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTC
* * *
1127538 AGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTC
* * * * * *
1127578 ATACTCGCATTGCGAT-TTACATATTCGCATTGCGATAGTC
1 AAAATCGCATTGCGATAGT-CAGAATCGCGTTGCGATAGTC
1127618 GGAAAATCGCA
1 --AAAATCGCA
1127629 ACGCGAATTT
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.93
42 7 0.06
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTC
Found at i:1129521 original size:2 final size:2
Alignment explanation
Indices: 1129514--1129549 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
1129504 ATTAAAACAA
1129514 AT AT AT AT -T AT -T 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 AT AT AT
1129550 GACTAAGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1129576 original size:11 final size:11
Alignment explanation
Indices: 1129560--1129593 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1129550 GACTAAGATG
1129560 AAAATAATAAT
1 AAAATAATAAT
1129571 AAAATAATAATT
1 AAAATAATAA-T
*
1129583 AAATTAATAAT
1 AAAATAATAAT
1129594 TTAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:1129609 original size:23 final size:24
Alignment explanation
Indices: 1129558--1129612 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
1129548 ATGACTAAGA
*
1129558 TGAAAATAATAATAAAATAATAAT
1 TGAAATTAATAATAAAATAATAAT
*
1129582 T-AAATTAATAATTTAAAT-AT-AT
1 TGAAATTAATAA-TAAAATAATAAT
1129604 TGAAATTAA
1 TGAAATTAA
1129613 AAGGGTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.11
23 18 0.67
24 6 0.22
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
TGAAATTAATAATAAAATAATAAT
Found at i:1129686 original size:14 final size:15
Alignment explanation
Indices: 1129657--1129690 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1129647 AAACAGTGAC
1129657 TAAAACAAATAAAAT
1 TAAAACAAATAAAAT
*
1129672 TAAAAC-AATATAAT
1 TAAAACAAATAAAAT
1129686 TAAAA
1 TAAAA
1129691 TGTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAACAAATAAAAT
Found at i:1130932 original size:3 final size:3
Alignment explanation
Indices: 1130924--1131012 Score: 105
Period size: 3 Copynumber: 30.0 Consensus size: 3
1130914 ATTTTTTATT
*
1130924 TAA TAA TAA TAA -AA TATA TAA -AA TATA TAA TAT TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
1130968 TAA TATT TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1131013 AAGTAAAATG
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.11
3 59 0.79
4 8 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1131335 original size:45 final size:45
Alignment explanation
Indices: 1131267--1133093 Score: 2535
Period size: 45 Copynumber: 40.8 Consensus size: 45
1131257 TAAAATCTCA
* * **
1131267 TTTGAAAACATCATGCATTGTAGGTCTTATGGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * * *
1131312 TTTAAAAACATCATGCACTGTAGGTCTTAGAGATGACCTGAACGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1131357 TTTGAAAACATCATGCACTGAAGGGCTTACA-ATGACCAGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * ** *
1131401 TTTGAAAACATTATCCACTGAAGGGCTTACAGATGACCAAAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1131446 TTTGAAAACATCATGCACTGTAGGTCTTAAAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1131491 TTTGAAAACATCATGCACTGAAGAG-CTTACAGATAACTCGAAGGC
1 TTTGAAAACATCATGCACTGAAG-GTCTTACAGATGACCCGAAGGT
* * *
1131536 TTTGAAAATATCATGCACTGTAGGTCTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * ***
1131581 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAATAC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1131626 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCAGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1131671 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1131716 TTTGAAAACATCTTGCACTGTAGGTCTTACAGATGACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1131761 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1131806 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCGATGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
*
1131851 TTTGAAAATATCATGCACTGAAGGTCTTACAGATGA-CC--AGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * *
1131893 TTTGAAAACATCCTGCACTGTAGGTCTTATAGATGACCCGAAGAT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
*
1131938 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1131983 TTTGAAAACATCATGCATTGTAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
*
1132028 TTTGAAAACATCATGCACTAAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1132073 TTTGAAAACATCCTGCA-TGTAGGT-TTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1132116 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1132161 TTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * *
1132206 TTTGAAAACATCCTGCACTAAAGGGCTTACAGATGACACGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * *
1132251 TTTGAAAACATCCTGCACTGAAGGGCTTACAGATGACCCAAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * * *
1132296 TTTGAAAACATTATGCACTTAAGGGCTTACAGATAACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
*
1132341 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * * *
1132385 CTTGAAAATATCATGCATTGAAGGTCTTACATATGACCGGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1132430 TTTGAAAACATCATGTACTGAAGAG-CTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAG-GTCTTACAGATGACCCGAAGGT
* * * *
1132475 TTTGAAAACATCATGCACTGTAGATCTTATAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1132520 TTTGAAAACATCATGCACTGAAAGG-CTTACAGATGACCAGAAGGC
1 TTTGAAAACATCATGCACTG-AAGGTCTTACAGATGACCCGAAGGT
* *
1132565 TTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1132610 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1132655 TTTGGAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1132700 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
*
1132745 TTTGAAAACATCATGCACTGAAGCG-CTTACAGATGACTCGAAGGT
1 TTTGAAAACATCATGCACTGAAG-GTCTTACAGATGACCCGAAGGT
* * *
1132790 TTTGAAAACATCTTGCACTAAAGGGCTTACAGATGA-CCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * *
1132834 TTTGAAAACATCCTGCACTAAAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * * *
1132879 TTTGAAAACATCATGCACTGAAGGGCTTAAAGATGACCTGAAGGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1132924 TTTGAAAACATCATGCACTAAAGGGCTTAGAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
1132969 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGAACTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
*
1133014 TTTGAAAACGTCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
1133059 TTTGAAAACATCATGCACTAAAGGGCTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATG
1133094 TAGGAAATAG
Statistics
Matches: 1595, Mismatches: 171, Indels: 32
0.89 0.10 0.02
Matches are distributed among these distances:
42 35 0.02
43 36 0.02
44 137 0.09
45 1382 0.87
46 5 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
Found at i:1134318 original size:54 final size:54
Alignment explanation
Indices: 1134159--1134318 Score: 187
Period size: 54 Copynumber: 3.0 Consensus size: 54
1134149 AATAACTGGC
* * *
1134159 TCGTAAAACATTGGACAACACGTTCATAATTTCTTGTGGTTTCTGTACAGAAGT
1 TCGTAAAACATTTGACAACACATTCATAATTTCTTGTGGTTTCTGTACAGATGT
* * ** * * *
1134213 TTGTAAAACATTTGACAACAAATTCATCCTTTCCTGTGGCTTCTGCACAGATGT
1 TCGTAAAACATTTGACAACACATTCATAATTTCTTGTGGTTTCTGTACAGATGT
** *
1134267 TCGTAAAACATTTGACAA-ACATTCATTTTTTCTTGTGGTTTTTTGTACAGAT
1 TCGTAAAACATTTGACAACACATTCATAATTTCTTGTGG-TTTCTGTACAGAT
1134319 TTCTGGTCAG
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 16 0.18
54 71 0.82
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (54 bp):
TCGTAAAACATTTGACAACACATTCATAATTTCTTGTGGTTTCTGTACAGATGT
Found at i:1135569 original size:41 final size:41
Alignment explanation
Indices: 1135504--1135623 Score: 113
Period size: 41 Copynumber: 3.0 Consensus size: 41
1135494 CACATAGATC
* *
1135504 ATTTCTGTATGAATTAGGCATTCAAGATGCCCCAACATTCT
1 ATTTCTGTATGAATTGGGCCTTCAAGATGCCCCAACATTCT
* * ** * **
1135545 ATTTCTGTTTGAAATGGGCCTTCAAGATATCCC-ATA-TGG
1 ATTTCTGTATGAATTGGGCCTTCAAGATGCCCCAACATTCT
* *
1135584 A--TCTGTCTGAATTGGGCCTTCAAAATGCCCCAACATTCT
1 ATTTCTGTATGAATTGGGCCTTCAAGATGCCCCAACATTCT
1135623 A
1 A
1135624 AATTGTAAGG
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
37 25 0.42
38 2 0.03
39 4 0.07
40 2 0.03
41 27 0.45
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (41 bp):
ATTTCTGTATGAATTGGGCCTTCAAGATGCCCCAACATTCT
Found at i:1139056 original size:20 final size:19
Alignment explanation
Indices: 1139025--1139067 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
1139015 ACAAAGATGC
1139025 AAATATAAAATGAAAATGA
1 AAATATAAAATGAAAATGA
* *
1139044 AAATATAAAAATGCAAATGC
1 AAATAT-AAAATGAAAATGA
1139064 AAAT
1 AAAT
1139068 GCAAACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (19 bp):
AAATATAAAATGAAAATGA
Found at i:1139080 original size:27 final size:26
Alignment explanation
Indices: 1139032--1139098 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
1139022 TGCAAATATA
1139032 AAATGAAAATGAAAATATAAAAATGC
1 AAATGAAAATGAAAATATAAAAATGC
*
1139058 AAATGCAAATGCAAACATA-AAAAATGC
1 AAATGAAAATG-AAA-ATATAAAAATGC
*
1139085 AAATG-TAATGAAAA
1 AAATGAAAATGAAAA
1139099 AAATACGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
24 1 0.03
25 3 0.08
26 14 0.38
27 16 0.43
28 3 0.08
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.18
Consensus pattern (26 bp):
AAATGAAAATGAAAATATAAAAATGC
Found at i:1141469 original size:17 final size:18
Alignment explanation
Indices: 1141441--1141474 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1141431 ATTAATATAT
1141441 AAGGATATAAAAATAATA
1 AAGGATATAAAAATAATA
1141459 AAGGATA-AAAAATAAT
1 AAGGATATAAAAATAAT
1141475 TGAATGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (18 bp):
AAGGATATAAAAATAATA
Found at i:1142352 original size:11 final size:11
Alignment explanation
Indices: 1142338--1142371 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1142328 GAATAAGATG
1142338 AAAATAATAAT
1 AAAATAATAAT
1142349 AAAATAATAATT
1 AAAATAATAA-T
*
1142361 AAAGTAATAAT
1 AAAATAATAAT
1142372 TTAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:1142368 original size:12 final size:12
Alignment explanation
Indices: 1142338--1142378 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
1142328 GAATAAGATG
1142338 AAAATAATAA-T
1 AAAATAATAATT
1142349 AAAATAATAATT
1 AAAATAATAATT
*
1142361 AAAGTAATAATT
1 AAAATAATAATT
*
1142373 TAAATA
1 AAAATA
1142379 TATTGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (12 bp):
AAAATAATAATT
Found at i:1142464 original size:14 final size:15
Alignment explanation
Indices: 1142435--1142468 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1142425 AAATAGTGAC
1142435 TAAAACAAATAAAAT
1 TAAAACAAATAAAAT
*
1142450 TAAAAC-AATATAAT
1 TAAAACAAATAAAAT
1142464 TAAAA
1 TAAAA
1142469 TGTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAACAAATAAAAT
Found at i:1143695 original size:3 final size:3
Alignment explanation
Indices: 1143687--1143764 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
1143677 ATTTTTTATT
*
1143687 TAA TAA TAA TAA TAA T-A TATA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
1143732 TAT TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1143765 AAGTAAAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.93
4 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1144998 original size:24 final size:24
Alignment explanation
Indices: 1144971--1145024 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1144961 ATTATAAGAT
*
1144971 TAGATTTTATCACATCTCAATCAA
1 TAGATTTTATCACATCTCAATAAA
1144995 TAGATTTTATCACATCTCAATAAA
1 TAGATTTTATCACATCTCAATAAA
1145019 TAGATT
1 TAGATT
1145025 AATGTCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (24 bp):
TAGATTTTATCACATCTCAATAAA
Found at i:1148589 original size:46 final size:46
Alignment explanation
Indices: 1148517--1148610 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
1148507 GGTGCTCCAT
1148517 GACAGGATGCTGGCTCCAGAGACGGAGTCTCTGTTGGCTGATGCGG
1 GACAGGATGCTGGCTCCAGAGACGGAGTCTCTGTTGGCTGATGCGG
*
1148563 GACAGGATGCTGGCTCCAGAGGCGGAGTCTCTGTTGGCTGATGCGG
1 GACAGGATGCTGGCTCCAGAGACGGAGTCTCTGTTGGCTGATGCGG
1148609 GA
1 GA
1148611 AGGCTCTCTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.21, G:0.40, T:0.21
Consensus pattern (46 bp):
GACAGGATGCTGGCTCCAGAGACGGAGTCTCTGTTGGCTGATGCGG
Found at i:1149459 original size:20 final size:20
Alignment explanation
Indices: 1149394--1149459 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
1149384 TGACACTTTA
1149394 ATTTTATGGTTTG-TTATGG
1 ATTTTATGGTTTGTTTATGG
*
1149413 ATTTTATTGTTTTAGATTTA--G
1 ATTTTA-TGGTTT-G-TTTATGG
*
1149434 -TATTATGGTTTGTTTATGG
1 ATTTTATGGTTTGTTTATGG
1149453 ATTTTAT
1 ATTTTAT
1149460 TATTCTAGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 13
0.68 0.08 0.25
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 12 0.33
20 14 0.39
21 2 0.06
23 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (20 bp):
ATTTTATGGTTTGTTTATGG
Found at i:1149485 original size:40 final size:39
Alignment explanation
Indices: 1149390--1149485 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
1149380 GATTTGACAC
* * * *
1149390 TTTAATTTTATGGTTTGTTATGGATTTTATTGTTTTAGA
1 TTTAATATTATAGTTTGTTATGGATTTTATTATTCTAGA
* *
1149429 TTTAGTATTATGGTTTGTTTATGGATTTTATTATTCTAG-
1 TTTAATATTATAGTTTG-TTATGGATTTTATTATTCTAGA
*
1149468 TGTTAATATTGTAGTTTG
1 T-TTAATATTATAGTTTG
1149486 AATATTGAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 16 0.33
40 32 0.67
ACGTcount: A:0.21, C:0.01, G:0.19, T:0.59
Consensus pattern (39 bp):
TTTAATATTATAGTTTGTTATGGATTTTATTATTCTAGA
Found at i:1149589 original size:73 final size:75
Alignment explanation
Indices: 1149429--1149570 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 75
1149419 TTGTTTTAGA
*
1149429 TTTAGTATTATGGTTTGTTTATGGATTTTATTATTCTAGTGTTAATATTGTAGTTTGAATATTGA
1 TTTAATATTATGGTTTGTTTATGGATTTTATTATTCTAGTGTTAATATTGTAGTTTGAATATTGA
1149494 GATTTAACAT
66 GATTTAACAT
* * *
1149504 TTTAATATTATGGTTTGTTTATGGATTTTTTTA-T-TAGAT-TTAATATTGTGGTTTGAGTATTG
1 TTTAATATTATGGTTTGTTTATGGATTTTATTATTCTAG-TGTTAATATTGTAGTTTGAATATTG
1149566 AGATT
65 AGATT
1149571 GTTTATGGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
73 29 0.47
74 2 0.03
75 31 0.50
ACGTcount: A:0.25, C:0.01, G:0.18, T:0.55
Consensus pattern (75 bp):
TTTAATATTATGGTTTGTTTATGGATTTTATTATTCTAGTGTTAATATTGTAGTTTGAATATTGA
GATTTAACAT
Found at i:1158074 original size:75 final size:75
Alignment explanation
Indices: 1157946--1158159 Score: 242
Period size: 75 Copynumber: 2.9 Consensus size: 75
1157936 TTTGGTTTAA
* * *
1157946 TATTTTTCTAGACTTAATATTATGGTTTGAGTCTTAAGATTTGACAGTTTAATATTATGATTTTT
1 TATTATTCTAGACTTAATATTATGGTTTGAATCTTAAGATTTGACAGTTTAATATTATGATTTGT
1158011 TTATGGATTT
66 TTATGGATTT
* * *
1158021 TATTATTCTAGAGTTAATATTATGGTTTGAATCTTGAA-ATTTGACATTTTAATATTGTGATTTG
1 TATTATTCTAGACTTAATATTATGGTTTGAATCTT-AAGATTTGACAGTTTAATATTATGATTTG
1158085 TTTATGGATTT
65 TTTATGGATTT
* * * * * * * * *
1158096 TACTGTTCTAAACTTAGTATTGTTGTTTGAGTATTAATATTTGAC--TTT-AT-TTATGATTT-T
1 TATTATTCTAGACTTAATATTATGGTTTGAATCTTAAGATTTGACAGTTTAATATTATGATTTGT
1158156 TTAT
66 TTAT
1158160 ATATATTTAT
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
70 5 0.04
71 8 0.07
72 2 0.02
73 3 0.02
74 2 0.02
75 99 0.82
76 2 0.02
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (75 bp):
TATTATTCTAGACTTAATATTATGGTTTGAATCTTAAGATTTGACAGTTTAATATTATGATTTGT
TTATGGATTT
Found at i:1165419 original size:42 final size:44
Alignment explanation
Indices: 1165373--1165463 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
1165363 TTAAATCAAA
*
1165373 AAAGGTAAATAC-TACG-A-ATATACAAACATAAGGTAATAATAC
1 AAAGGTAAAAACTTACGAATATATACAAACATAAGGTAATAA-AC
*
1165415 AAAGG-AAAAACTTACGAATATATACAAACATAAGGTAATAAAT
1 AAAGGTAAAAACTTACGAATATATACAAACATAAGGTAATAAAC
1165458 AAAGGT
1 AAAGGT
1165464 GACCAAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
41 5 0.12
42 9 0.21
43 7 0.16
44 22 0.51
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (44 bp):
AAAGGTAAAAACTTACGAATATATACAAACATAAGGTAATAAAC
Found at i:1180184 original size:22 final size:21
Alignment explanation
Indices: 1180159--1180199 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1180149 TAAACATTAT
1180159 TATTTAAAAGAATATAGATATA
1 TATTTAAAAGAATA-AGATATA
* *
1180181 TATTTATATGAATAAGATA
1 TATTTAAAAGAATAAGATA
1180200 ATAATAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (21 bp):
TATTTAAAAGAATAAGATATA
Found at i:1180292 original size:16 final size:16
Alignment explanation
Indices: 1180239--1180294 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
1180229 ATTTAAACAT
1180239 ATAAAATTAAAATATAA
1 ATAAAATTAAAAT-TAA
1180256 ATAAACAATGAGTAAAA-TAA
1 AT-AA-AAT---TAAAATTAA
1180276 ATAAAATTAAAATTAA
1 ATAAAATTAAAATTAA
1180292 ATA
1 ATA
1180295 TAAAAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
15 5 0.15
16 6 0.18
17 2 0.06
18 5 0.15
19 5 0.15
20 5 0.15
22 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAATTAA
Found at i:1180309 original size:37 final size:37
Alignment explanation
Indices: 1180239--1180309 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
1180229 ATTTAAACAT
* *
1180239 ATAAAATTAAAATATAAATAAACAATGAGTAAAATAA
1 ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
1180276 ATAAAATTAAAAT-TAAATATAAAAA-GTAATAAAA
1 ATAAAATTAAAATATAAATA-AAAAATG-AATAAAA
1180310 CTTATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.77
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (37 bp):
ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
Found at i:1181585 original size:3 final size:3
Alignment explanation
Indices: 1181567--1181650 Score: 69
Period size: 3 Copynumber: 27.0 Consensus size: 3
1181557 TTTGTGCTTG
* * * *
1181567 TAA TAA TTAA TAAA TAA TATA TAT TAT TAA TAT TAA TAA TAA TTA TAA
1 TAA TAA -TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
1181615 TTA TAA TAA TAA AAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1181651 ATTTAAATTT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
3 55 0.86
4 9 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1181655 original size:18 final size:18
Alignment explanation
Indices: 1181599--1181656 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
1181589 ATTATTAATA
*
1181599 TTAATAATAATTAT-AAT
1 TTAATAATAATAATAAAT
* *
1181616 TATAATAATAAAAATAATT
1 T-TAATAATAATAATAAAT
1181635 TTAATAATAATAATAAAT
1 TTAATAATAATAATAAAT
1181653 TTAA
1 TTAA
1181657 ATTTAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 1 0.03
18 30 0.88
19 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAATAATAATAATAAAT
Found at i:1181661 original size:24 final size:24
Alignment explanation
Indices: 1181567--1181662 Score: 68
Period size: 24 Copynumber: 3.9 Consensus size: 24
1181557 TTTGTGCTTG
* * *
1181567 TAATAATTAATAAATAATATATATTAT
1 TAATAA-TAA-AAATAA-ATTTAATAA
* * *
1181594 TAATATTAATAAT-AATTATAATTA
1 TAATAATAAAAATAAATT-TAATAA
*
1181618 TAATAATAAAAATAATTTTAATAA
1 TAATAATAAAAATAAATTTAATAA
**
1181642 TAATAATAAATTTAAATTTAA
1 TAATAATAAAAATAAATTTAA
1181663 AATGAAAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.04
24 38 0.70
25 6 0.11
26 3 0.06
27 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAATAAAAATAAATTTAATAA
Found at i:1181850 original size:45 final size:45
Alignment explanation
Indices: 1181786--1181884 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
1181776 GATGGAAATG
* *
1181786 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCT
*
1181831 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCT
1181876 TTGAAAACA
1 TTGAAAACA
1181885 CCAAAAAGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCT
Found at i:1182303 original size:75 final size:76
Alignment explanation
Indices: 1181821--1183072 Score: 2087
Period size: 76 Copynumber: 16.6 Consensus size: 76
1181811 TTACAGATGA
* *
1181821 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
1181884 ACCAAAAAGCT
66 ATCAAAAAGCT
* * *
1181895 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1181959 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1181970 CTCGAAGGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAA
1 CCCGAAGGC-TTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
1182034 CATCAAAAAGCT
65 CATCAAAAAGCT
*
1182046 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAT
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182111 ATCAAAAAG--
66 ATCAAAAAGCT
1182120 -CCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182184 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1182195 CCTTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAA
1 CC-CGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAA
1182259 CATCAAAAAGCT
65 CATCAAAAAGCT
* *
1182271 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182335 ATCAAAAAGCT
66 ATCAAAAAGCT
1182346 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182410 ATCAAAAAGCT
66 ATCAAAAAGCT
* * * * *
1182421 CCCGAAGGTTTTTTGGAAACATCATGCACTACAGGACTTACAGATGATCCTAAGGCTTTAAAAAT
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182486 ATCAAAAAGCT
66 ATCAAAAAGCT
1182497 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182562 ATCAAAAAGCT
66 ATCAAAAAGCT
* * * *
1182573 CCCAAAGGCTTTTTGGAAACATCATGCACTGTAGGAGTTACAGATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182637 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1182648 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182712 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1182723 CCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCTAAGCCTTTGAAAAT
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182788 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1182799 CCCGAAGGCTTTTTGGAAACACCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAT
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1182864 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1182875 CCCGAATGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
1182940 ATCAAATAGCT
66 ATCAAAAAGCT
1182951 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1183016 ATCAAAAAGCT
66 ATCAAAAAGCT
1183027 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
1183073 TGGGAAATTG
Statistics
Matches: 1118, Mismatches: 50, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
73 72 0.06
74 8 0.01
75 412 0.37
76 576 0.52
77 50 0.04
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1182606 original size:302 final size:302
Alignment explanation
Indices: 1181821--1183072 Score: 2151
Period size: 302 Copynumber: 4.2 Consensus size: 302
1181811 TTACAGATGA
*
1181821 CCCGAAGG--TTTTGAAAACATCATGCACTGA-AGGACTTACAGATGACCCTAAGGCTTTGAAAA
1 CCCGAAGGCTTTTTGGAAACATCATGCACT-ACAGGACTTACAGATGACCCTAAGGCTTTGAAAA
* * *
1181883 CACCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCGAA
65 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAA
*
1181948 GGTTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTTGGAAACATCATGCACTGTAGGACTTACA
130 GGTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGTAGGACTTACA
1182013 GATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
194 GATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
*
1182078 AGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAG--
259 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1182120 -CCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
* *
1182184 ATCAAAAAGCTCCTTGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAA
66 ATCAAAAAGCTCC-CGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAA
1182249 GGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
130 GGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
1182314 ATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCA
195 ATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCA
1182379 GGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCT
260 GGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
* * * *
1182421 CCCGAAGGTTTTTTGGAAACATCATGCACTACAGGACTTACAGATGATCCTAAGGCTTTAAAAAT
1 CCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
1182486 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAG
66 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAG
* *
1182551 GCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGTAGGAGTTACAG
131 G-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
*
1182616 ATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTA
195 ATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCA
*
1182681 GGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCT
260 GGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
* *
1182723 CCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCTAAGCCTTTGAAAAT
1 CCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
* *
1182788 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACACCATGCACTGCAGGACTTACAGATGACCCTAAG
66 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAG
* *
1182853 GCTTTGAAAATATCAAAAAGCTCCCGAATGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
131 G-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAG
* *
1182918 ATGACCCTAAGGTTTTGAAAACATCAAATAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
195 ATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1182983 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
259 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
1183027 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATG
1183073 TGGGAAATTG
Statistics
Matches: 910, Mismatches: 33, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
298 7 0.01
299 17 0.02
300 185 0.20
301 129 0.14
302 435 0.48
303 72 0.08
304 65 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (302 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAG
GTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGA
TGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
Found at i:1183774 original size:22 final size:22
Alignment explanation
Indices: 1183749--1183801 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
1183739 TAAAGCTTTT
1183749 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
* *
1183771 ATCTTTAAAAAGAGAGTCTATC
1 ATCTTTGAAAAGAGAATCTATC
1183793 ATCTTTGAA
1 ATCTTTGAA
1183802 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:1188684 original size:8 final size:8
Alignment explanation
Indices: 1188673--1188759 Score: 121
Period size: 7 Copynumber: 11.4 Consensus size: 8
1188663 AATTTTCCTT
1188673 TTTTTTCC
1 TTTTTTCC
1188681 TTTTTT-C
1 TTTTTTCC
1188688 TTTTTTCC
1 TTTTTTCC
*
1188696 TTTTTTTCT
1 -TTTTTTCC
1188705 TTTTTTCC
1 TTTTTTCC
1188713 -TTTTTCC
1 TTTTTTCC
1188720 TTTTTTCC
1 TTTTTTCC
1188728 -TTTTTCC
1 TTTTTTCC
1188735 TTTTTTCC
1 TTTTTTCC
1188743 -TTTTTCC
1 TTTTTTCC
1188750 -TTTTTCC
1 TTTTTTCC
1188757 TTT
1 TTT
1188760 CTTTGCTGGA
Statistics
Matches: 72, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
7 35 0.49
8 30 0.42
9 7 0.10
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCC
Found at i:1188693 original size:15 final size:15
Alignment explanation
Indices: 1188673--1188759 Score: 122
Period size: 15 Copynumber: 5.7 Consensus size: 15
1188663 AATTTTCCTT
1188673 TTTTTTCCTTTTTTC
1 TTTTTTCCTTTTTTC
1188688 TTTTTTCCTTTTTTTC
1 TTTTTTCC-TTTTTTC
*
1188704 TTTTTTTCCTTTTTCC
1 -TTTTTTCCTTTTTTC
*
1188720 TTTTTTCCTTTTTCC
1 TTTTTTCCTTTTTTC
1188735 TTTTTTCC-TTTTTC
1 TTTTTTCCTTTTTTC
*
1188749 CTTTTTCCTTT
1 TTTTTTCCTTT
1188760 CTTTGCTGGA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.18
15 33 0.50
16 13 0.20
17 8 0.12
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTCCTTTTTTC
Found at i:1188773 original size:26 final size:26
Alignment explanation
Indices: 1188722--1188796 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
1188712 CTTTTTCCTT
*
1188722 TTTTCCTTTTTCCTTT-TTTCCT---
1 TTTTCCTTTTTCCTTTCTTTGCTGGA
1188744 TTTTCCTTTTTCCTTTCTTTGCTGGA
1 TTTTCCTTTTTCCTTTCTTTGCTGGA
*
1188770 TTTTTCTTTCTT-CTTTCTTTGCTGGA
1 TTTTCCTTT-TTCCTTTCTTTGCTGGA
1188796 T
1 T
1188797 GAGTATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
22 16 0.35
23 5 0.11
26 23 0.50
27 2 0.04
ACGTcount: A:0.03, C:0.23, G:0.08, T:0.67
Consensus pattern (26 bp):
TTTTCCTTTTTCCTTTCTTTGCTGGA
Found at i:1194352 original size:16 final size:16
Alignment explanation
Indices: 1194299--1194354 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
1194289 ATTTAAACAT
1194299 ATAAAATTAAAATATAA
1 ATAAAATTAAAAT-TAA
1194316 ATAAACAATGAGTAAAA-TAA
1 AT-AA-AAT---TAAAATTAA
1194336 ATAAAATTAAAATTAA
1 ATAAAATTAAAATTAA
1194352 ATA
1 ATA
1194355 TAAAAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
15 5 0.15
16 6 0.18
17 2 0.06
18 5 0.15
19 5 0.15
20 5 0.15
22 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAATTAA
Found at i:1194369 original size:37 final size:37
Alignment explanation
Indices: 1194299--1194369 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
1194289 ATTTAAACAT
* *
1194299 ATAAAATTAAAATATAAATAAACAATGAGTAAAATAA
1 ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
1194336 ATAAAATTAAAAT-TAAATATAAAAA-GTAATAAAA
1 ATAAAATTAAAATATAAATA-AAAAATG-AATAAAA
1194370 CTTATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.77
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (37 bp):
ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
Found at i:1195646 original size:3 final size:3
Alignment explanation
Indices: 1195628--1195708 Score: 81
Period size: 3 Copynumber: 26.0 Consensus size: 3
1195618 TTTGGGCTTG
* * * *
1195628 TAA TAA TTAA TAAA TAA TATA TAT TAT TAA TAT TAA TAA TAA TTA TAA
1 TAA TAA -TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
1195676 TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1195709 ATTTAAATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
3 56 0.86
4 9 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1198231 original size:16 final size:15
Alignment explanation
Indices: 1198202--1198232 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1198192 TTCATTTCAA
1198202 AATTTTATAAAATAT
1 AATTTTATAAAATAT
1198217 AATTTTATAAAA-AT
1 AATTTTATAAAATAT
1198231 AA
1 AA
1198233 CTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTTTATAAAATAT
Found at i:1198409 original size:14 final size:15
Alignment explanation
Indices: 1198374--1198411 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
1198364 CAATGTAAAT
1198374 TGTTTTTCTGGAAAA
1 TGTTTTTCTGGAAAA
1198389 TGTTTTTCTGGAAAA
1 TGTTTTTCTGGAAAA
1198404 TGTTTTTC
1 TGTTTTTC
1198412 AAAAATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.08, G:0.18, T:0.53
Consensus pattern (15 bp):
TGTTTTTCTGGAAAA
Found at i:1201441 original size:2 final size:2
Alignment explanation
Indices: 1201428--1201470 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
1201418 AGAAAAAAAT
1201428 TA TA -A TA T- TA TA 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 TA TA TA TA TA TA TA
1201468 TA T
1 TA T
1201471 GGAGAGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1203199 original size:24 final size:20
Alignment explanation
Indices: 1203148--1203201 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1203138 CATTTTGATC
*
1203148 AAAGGATCTATCCCCTTAAG
1 AAAGGATCGATCCCCTTAAG
1203168 AAAGGATCGATCCCCTTAAG
1 AAAGGATCGATCCCCTTAAG
1203188 AAAGGATCGATCCC
1 AAAGGATCGATCCC
1203202 TTGCATTCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAAGGATCGATCCCCTTAAG
Found at i:1205532 original size:18 final size:18
Alignment explanation
Indices: 1205509--1205554 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
1205499 AGGCATTTGA
1205509 TCCTCTGGCT-ATGCTTGT
1 TCCTCT-GCTCATGCTTGT
*
1205527 TCCTCTGCTCGTGCTTGT
1 TCCTCTGCTCATGCTTGT
1205545 TCCTCGTGCT
1 TCCTC-TGCT
1205555 GTTATGGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.02, C:0.33, G:0.22, T:0.43
Consensus pattern (18 bp):
TCCTCTGCTCATGCTTGT
Found at i:1207214 original size:22 final size:23
Alignment explanation
Indices: 1207128--1207213 Score: 111
Period size: 23 Copynumber: 3.8 Consensus size: 23
1207118 CCAGAACCTC
* *
1207128 AGGGGGGTATCGATTCCCCTAC-
1 AGGGGGGAATCGATTCCCCTTCA
*
1207150 AGGGGGGAATCGGTTCCCCTTCA
1 AGGGGGGAATCGATTCCCCTTCA
* *
1207173 AAGGGGGAATCGGTTCCCCTTCA
1 AGGGGGGAATCGATTCCCCTTCA
*
1207196 AGGGGGGTATCGATTCCC
1 AGGGGGGAATCGATTCCC
1207214 TCTGCACTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
22 19 0.34
23 37 0.66
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.22
Consensus pattern (23 bp):
AGGGGGGAATCGATTCCCCTTCA
Found at i:1213907 original size:197 final size:197
Alignment explanation
Indices: 1213558--1213949 Score: 599
Period size: 197 Copynumber: 2.0 Consensus size: 197
1213548 GAAGATTTAT
* * *
1213558 AATCTGTCAACAAGCCAGCATATTTAATGAAGCAAATTATACCTATTGGAAGAATAAGATGATGA
1 AATCGGTCAACAAGCCACCATATTTAATGAAGCAAATTATACCTATTAGAAGAAT-A-ATGATGA
* * *
1213623 TGCTCTTCATTCAAGAAAATGATATAGGACCTTGAAACTCTATAATGCAAGGTCACTCTACTCCA
64 TGCTCTTCATTCAAGAAAATGATATAGGAACTAGAAACTCTATAATGCAAGGTCACTCTAATCCA
* * *
1213688 ACCAATGAGATGGAATATTGGAGTGAAAAAGAAAAGAAGAAGTTCCAACAAAATGTCAAGGCCAT
129 ACCAATGAGATGAAAGATTGGAGTGAAAAAGAAAAGAAAAAGTTCCAACAAAATGTCAAGGCCAT
1213753 TCAC
194 TCAC
1213757 AATCGGTCAACAAGCCACCATATTTTAAT-AGAGCAAATTATACCTATTAGAAGAAT-ATGATGA
1 AATCGGTCAACAAGCCACCATA-TTTAATGA-AGCAAATTATACCTATTAGAAGAATAATGATGA
* * * *
1213820 TGCTCTTCATTCAATAAAATGATCTAGGAACTAGGAACTCTATAATGCAGGGTCACTCTAATCCA
64 TGCTCTTCATTCAAGAAAATGATATAGGAACTAGAAACTCTATAATGCAAGGTCACTCTAATCCA
* *
1213885 ACCAATGAGATGAAAGATTGGAGTGAAGAAGAAAATAAAAAGTTCCAACAAAATGTCAAGGCCAT
129 ACCAATGAGATGAAAGATTGGAGTGAAAAAGAAAAGAAAAAGTTCCAACAAAATGTCAAGGCCAT
1213950 GCATATTCTA
Statistics
Matches: 176, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
197 125 0.71
199 21 0.12
200 30 0.17
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (197 bp):
AATCGGTCAACAAGCCACCATATTTAATGAAGCAAATTATACCTATTAGAAGAATAATGATGATG
CTCTTCATTCAAGAAAATGATATAGGAACTAGAAACTCTATAATGCAAGGTCACTCTAATCCAAC
CAATGAGATGAAAGATTGGAGTGAAAAAGAAAAGAAAAAGTTCCAACAAAATGTCAAGGCCATTC
AC
Found at i:1218358 original size:23 final size:23
Alignment explanation
Indices: 1218316--1218438 Score: 100
Period size: 23 Copynumber: 5.5 Consensus size: 23
1218306 GTAATTTGCA
* *
1218316 CCGAAGTGCCTCATA--ATTGTC
1 CCGAAGTGCCACATAGGTTTGTC
* *
1218337 CCAAAG-GACCACATAGGTTTGTA
1 CCGAAGTG-CCACATAGGTTTGTC
1218360 CCGAAGTGCCACATAGGTTTG-C
1 CCGAAGTGCCACATAGGTTTGTC
1218382 ACCGAAGTGCCACATA--TTTGTC
1 -CCGAAGTGCCACATAGGTTTGTC
*
1218404 CCGAAG-GACCACATATGTTTG-C
1 CCGAAGTG-CCACATAGGTTTGTC
*
1218426 ACCGAAGAGCCAC
1 -CCGAAGTGCCAC
1218439 CTAAACCCTC
Statistics
Matches: 85, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
20 2 0.02
21 28 0.33
22 2 0.02
23 51 0.60
24 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (23 bp):
CCGAAGTGCCACATAGGTTTGTC
Found at i:1218402 original size:44 final size:45
Alignment explanation
Indices: 1218345--1218438 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 45
1218335 TCCCAAAGGA
*
1218345 CCACATAGGTTTGTACCGAAGTG-CCACATAGGTTTGCACCGAAGTG
1 CCACATA-GTTTGTACCGAAG-GACCACATAGGTTTGCACCGAAGAG
* *
1218391 CCACATA-TTTGTCCCGAAGGACCACATATGTTTGCACCGAAGAG
1 CCACATAGTTTGTACCGAAGGACCACATAGGTTTGCACCGAAGAG
1218435 CCAC
1 CCAC
1218439 CTAAACCCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 36 0.82
46 7 0.16
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CCACATAGTTTGTACCGAAGGACCACATAGGTTTGCACCGAAGAG
Found at i:1218418 original size:67 final size:67
Alignment explanation
Indices: 1218310--1218438 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 67
1218300 CAGTTCGTAA
* * *
1218310 TTTGCACCGAAGTGCCTCATAATTGTCCCAAAGGACCACATAGGTTTGTACCGAAGTGCCACATA
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGGTTTGCACCGAAGAGCCACATA
1218375 GG
66 GG
* * *
1218377 TTTGCACCGAAGTGCCACATATTTGTCCCGAAGGACCACATATGTTTGCACCGAAGAGCCAC
1 TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGGTTTGCACCGAAGAGCCAC
1218439 CTAAACCCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (67 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCAAAGGACCACATAGGTTTGCACCGAAGAGCCACATA
GG
Found at i:1218528 original size:13 final size:15
Alignment explanation
Indices: 1218500--1218531 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
1218490 TACTTTGGAC
1218500 TATTAATCACATCAT
1 TATTAATCACATCAT
1218515 TATT-ATCA-ATCAT
1 TATTAATCACATCAT
1218528 TATT
1 TATT
1218532 CGAAGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATCACATCAT
Found at i:1219150 original size:20 final size:21
Alignment explanation
Indices: 1219108--1219150 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
1219098 ATTCGATGTT
* *
1219108 TTCAGGGTATCGATACCATCC
1 TTCAGGGTATAGATACCACCC
*
1219129 TTCA-GGTATAGATACTACCC
1 TTCAGGGTATAGATACCACCC
1219149 TT
1 TT
1219151 ACGTATCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (21 bp):
TTCAGGGTATAGATACCACCC
Found at i:1225353 original size:44 final size:44
Alignment explanation
Indices: 1225272--1225357 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
1225262 CAGCTCGTAA
* *
1225272 TTTGCACCGAAGTACCACATAATTATCTCGAATGACCACATAGG
1 TTTGCACCGAAGTACCACATAATTATCTCAAAGGACCACATAGG
* *
1225316 TTTGCACCGAAGTGCCACATAATTGTC-CTAAAGGACCACATA
1 TTTGCACCGAAGTACCACATAATTATCTC-AAAGGACCACATA
1225358 AACCCTCGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (44 bp):
TTTGCACCGAAGTACCACATAATTATCTCAAAGGACCACATAGG
Found at i:1225444 original size:13 final size:15
Alignment explanation
Indices: 1225416--1225447 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
1225406 TACTTTGGGC
1225416 TATTAATCACATCAT
1 TATTAATCACATCAT
1225431 TATT-ATCA-ATCAT
1 TATTAATCACATCAT
1225444 TATT
1 TATT
1225448 CGAAGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATCACATCAT
Found at i:1225985 original size:54 final size:54
Alignment explanation
Indices: 1225914--1226044 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
1225904 AATACTTCCC
* * *
1225914 TTCAAGACTATCAATACCTCCTCATGGTACCGATACCGATATAGCATTCAATGT
1 TTCAAGAGTATCGATACCTCCTCAAGGTACCGATACCGATATAGCATTCAATGT
* * *
1225968 TTCAAGAGTATCGATACCTCCTCAAGGTACCGATATCGATCTAGCATTCGATGT
1 TTCAAGAGTATCGATACCTCCTCAAGGTACCGATACCGATATAGCATTCAATGT
* * *
1226022 TTTAAGGGTATTGATACCATCCT
1 TTCAAGAGTATCGATACC-TCCT
1226045 TCAGGAATCG
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 63 0.94
55 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (54 bp):
TTCAAGAGTATCGATACCTCCTCAAGGTACCGATACCGATATAGCATTCAATGT
Found at i:1228880 original size:17 final size:18
Alignment explanation
Indices: 1228847--1228880 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1228837 TCTTCTGATA
1228847 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
1228865 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
1228881 ATATTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:1229087 original size:58 final size:59
Alignment explanation
Indices: 1229025--1229152 Score: 145
Period size: 58 Copynumber: 2.2 Consensus size: 59
1229015 GATCATACAC
* * *
1229025 TTAGTATGCTTCATCTTTC-ATTTTAGCACACGAAGTGCC-TAT-TCAAAAATCCATACCA
1 TTAGTATGATT-ATCTTACGATTTTAGCACACGAAATGCCATATAT-AAAAATCCATACCA
* * * * *
1229083 TTAGTATGATTTTGTTACGATTTTAGCACATGAAATTCCATATATGAAAATCCATACCA
1 TTAGTATGATTATCTTACGATTTTAGCACACGAAATGCCATATATAAAAATCCATACCA
1229142 TTAGTATGATT
1 TTAGTATGATT
1229153 TCCTTATCCT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
57 4 0.07
58 27 0.46
59 27 0.46
60 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (59 bp):
TTAGTATGATTATCTTACGATTTTAGCACACGAAATGCCATATATAAAAATCCATACCA
Found at i:1229231 original size:118 final size:117
Alignment explanation
Indices: 1229071--1229346 Score: 270
Period size: 118 Copynumber: 2.4 Consensus size: 117
1229061 GCCTATTCAA
* *** * * *
1229071 AAATCCATAC-CATTAGTATGATTTTGTTACGATTTTAGCACATGAAATTCCATATATGAAAATC
1 AAATCCATACAC-TCAGTATGATTCCCTTACAATTTTAGCACATAAAATGCCATATATGAAAATC
* * * * * ** *
1229135 CATACCATT-AGTATGATTTCCTTATCCTTGTAGCACCCTTAGTGCTTTATCTGG
65 CATA-CATTCAATATGATTTCCTTATCATT-TAGCACACTCAATGCTCCATATGG
* * *
1229189 AAATCCATACACTCAGTATGATTCCCTTACAATTTTATCACATAAAATGCCCTATATGGAAATCC
1 AAATCCATACACTCAGTATGATTCCCTTACAATTTTAGCACATAAAATGCCATATATGAAAATCC
** *
1229254 ATATTTTCAATATGATTTCCTTGTCATTTAGCACACTCAATGCTCCATATGG
66 ATACATTCAATATGATTTCCTTATCATTTAGCACACTCAATGCTCCATATGG
* * **
1229306 AAAACTATACACTCAGTATGATTTTCTTATC-ATTTTAGCAC
1 AAATCCATACACTCAGTATGATTCCCTTA-CAATTTTAGCAC
1229347 GCAAAGTGTC
Statistics
Matches: 129, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
117 54 0.42
118 74 0.57
119 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (117 bp):
AAATCCATACACTCAGTATGATTCCCTTACAATTTTAGCACATAAAATGCCATATATGAAAATCC
ATACATTCAATATGATTTCCTTATCATTTAGCACACTCAATGCTCCATATGG
Found at i:1229727 original size:19 final size:19
Alignment explanation
Indices: 1229689--1229727 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1229679 CCTTAACGTG
** *
1229689 TGCATCGGTACATTACTTA
1 TGCATCGGTACACAAATTA
1229708 TGCATCGGTACACAAATTA
1 TGCATCGGTACACAAATTA
1229727 T
1 T
1229728 ATTCGATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (19 bp):
TGCATCGGTACACAAATTA
Found at i:1235740 original size:17 final size:18
Alignment explanation
Indices: 1235707--1235740 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1235697 TCTTCTGATA
1235707 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
1235725 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
1235741 ATACTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:1236206 original size:117 final size:117
Alignment explanation
Indices: 1235961--1236216 Score: 291
Period size: 117 Copynumber: 2.2 Consensus size: 117
1235951 ATTTTGTTAC
* * *
1235961 CATTTTAGCACATGAAATGCCCTATATGAAAATCCATACCATTAGTATGATTTCCTTATCCTTGT
1 CATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATGATTTCCTTATCATTGT
* * ** *
1236026 AGCACCCTTAGTGCTTTATATAGAAATCCATACACTCAGTATGATTCCCTTA
66 AGCACACTCAGTGCTCCATATAGAAAACCATACACTCAGTATGATTCCCTTA
* * ** * *
1236078 CAATTTTAGCACATAAAATGCCCTATCTGGAAATCCATA-TTTTCAATATGATTTTCTTGTCATT
1 C-ATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATT-AATATGATTTCCTTATCATT
* * * *
1236142 -TAGCACACTCAGTGCTCCATATGGAAAACTATACACTCAGTATTATTTCCTTA
64 GTAGCACACTCAGTGCTCCATATAGAAAACCATACACTCAGTATGATTCCCTTA
* *
1236195 TCATTTTAGCACACAAAGTGCC
1 -CATTTTAGCACATAAAATGCC
1236217 ATTCGGTAAT
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
117 65 0.56
118 51 0.44
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (117 bp):
CATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATATGATTTCCTTATCATTGT
AGCACACTCAGTGCTCCATATAGAAAACCATACACTCAGTATGATTCCCTTA
Found at i:1236215 original size:59 final size:59
Alignment explanation
Indices: 1235859--1236215 Score: 214
Period size: 59 Copynumber: 6.1 Consensus size: 59
1235849 TAACACTCTC
* * * * *
1235859 AGTGCTCTATTTGGAAGAT-CATACACTTAGTATG-TTTCCTCTTTCATTTTAGCACACGA
1 AGTGCTCCATATGGAA-ATCCATACACTCAGTATGATTTCCT-TATCATTTTAGCACACAA
* * * * ** * *
1235918 AGTGC-CTAT-TCGAAAATACATAC-CATTAGTATGATTTTGTTACCATTTTAGCACATGAA
1 AGTGCTCCATAT-GGAAATCCATACAC-TCAGTATGATTTCCTTATCATTTTAGCACA-CAA
* * * * * **
1235977 A-TGC-CCTATATGAAAATCCATAC-CATTAGTATGATTTCCTTATCCTTGTAGCACCCTT
1 AGTGCTCC-ATATGGAAATCCATACAC-TCAGTATGATTTCCTTATCATTTTAGCACACAA
** * * *
1236035 AGTGCTTTATATAGAAATCCATACACTCAGTATGATTCCCTTA-CAATTTTAGCACATAA
1 AGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATC-ATTTTAGCACACAA
* * *** * * * **
1236094 AATGC-CCTATCTGGAAATCCATATTTTCAATATGATTTTCTTGTCA-TTTAGCACACTC
1 AGTGCTCC-ATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACAA
* * *
1236152 AGTGCTCCATATGGAAAACTATACACTCAGTATTATTTCCTTATCATTTTAGCACACAA
1 AGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACAA
1236211 AGTGC
1 AGTGC
1236216 CATTCGGTAA
Statistics
Matches: 225, Mismatches: 58, Indels: 30
0.72 0.19 0.10
Matches are distributed among these distances:
57 4 0.02
58 80 0.36
59 138 0.61
60 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (59 bp):
AGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACAA
Found at i:1236654 original size:17 final size:18
Alignment explanation
Indices: 1236613--1236659 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
1236603 TCTTAAGGGG
*
1236613 GTGCATCGATACACTAACC
1 GTGCATCGATACACT-ACA
1236632 GTGCATCGATACACT-CA
1 GTGCATCGATACACTACA
1236649 GTGCATTCGAT
1 GTGCA-TCGAT
1236660 GTTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 5 0.19
19 15 0.58
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (18 bp):
GTGCATCGATACACTACA
Found at i:1250526 original size:2 final size:2
Alignment explanation
Indices: 1250519--1250545 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1250509 ATTAATTTTA
1250519 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1250546 AATCATTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1251124 original size:43 final size:43
Alignment explanation
Indices: 1251077--1251447 Score: 211
Period size: 43 Copynumber: 8.6 Consensus size: 43
1251067 TAACAAGATA
* * * *
1251077 TAGCGGCATTTGTTGAACAAACGCCGCAATAGGTGTTGTTATT
1 TAGCGGCGTTTCTTCAACAAACGCCGCAATAGGTGTTGATATT
* * * * * *
1251120 TAGCGGCGTTT-GTCACAAAAATGCCGTAATAGGTTTTGATGTT
1 TAGCGGCGTTTCTTCA-ACAAACGCCGCAATAGGTGTTGATATT
* * * * *
1251163 TAGCGGCGTTT-TCCCTACAAATGCCGCAGTAGGTGTTAATATT
1 TAGCGGCGTTTCT-TCAACAAACGCCGCAATAGGTGTTGATATT
1251206 TAGCGGCGTTTAACTT--ACAAACGCCGCAGA-AGGTGTTGATATT
1 TAGCGGCGTTT--CTTCAACAAACGCCGCA-ATAGGTGTTGATATT
* * * * * *
1251249 TTGCGGCATTTTTTCAACAAATGCCGCAATAGGTGATGATGTT
1 TAGCGGCGTTTCTTCAACAAACGCCGCAATAGGTGTTGATATT
* * * * * *
1251292 TAGCGGCGTTTCTCCCACAAACGTCGCAATAGGTTTTCAGATT
1 TAGCGGCGTTTCTTCAACAAACGCCGCAATAGGTGTTGATATT
* ** * * * * * * *
1251335 AAGCGATGTTTGTAT-AAAAAATGACGCAATA-ATGGTTGAGAAT
1 TAGCGGCGTTTCT-TCAACAAACGCCGCAATAGGT-GTTGATATT
* ** **
1251378 TAGCGGCGTTTTTATTGA-AAACGCCGCAATAGGTGTTGAGCTT
1 TAGCGGCGTTTCT-TCAACAAACGCCGCAATAGGTGTTGATATT
*
1251421 TAGCGGCCTTT-TTCATACAAACGCCGC
1 TAGCGGCGTTTCTTCA-ACAAACGCCGC
1251448 TAAAGTTCGG
Statistics
Matches: 247, Mismatches: 66, Indels: 30
0.72 0.19 0.09
Matches are distributed among these distances:
41 3 0.01
42 6 0.02
43 234 0.95
44 3 0.01
46 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTCTTCAACAAACGCCGCAATAGGTGTTGATATT
Found at i:1251312 original size:86 final size:86
Alignment explanation
Indices: 1251077--1251325 Score: 257
Period size: 86 Copynumber: 2.9 Consensus size: 86
1251067 TAACAAGATA
* * * * * * *
1251077 TAGCGGCATTTGTTGAACAAACGCCGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCACAAAAAT
1 TAGCGGCATTTTTTCAACAAATGCCGCAATAGGTGTTGATATTTAGCGGCGTTTATCACACAAAC
* * *
1251142 GCCGTAATAGGTTTTGATGTT
66 GCCGCAATAGGTGTTGATATT
* ** * * * * **
1251163 TAGCGGCGTTTTCCCTACAAATGCCGCAGTAGGTGTTAATATTTAGCGGCGTTTAACTTACAAAC
1 TAGCGGCATTTTTTCAACAAATGCCGCAATAGGTGTTGATATTTAGCGGCGTTTATCACACAAAC
1251228 GCCGCAGA-AGGTGTTGATATT
66 GCCGCA-ATAGGTGTTGATATT
* * * * *
1251249 TTGCGGCATTTTTTCAACAAATGCCGCAATAGGTGATGATGTTTAGCGGCGTTTCTCCCACAAAC
1 TAGCGGCATTTTTTCAACAAATGCCGCAATAGGTGTTGATATTTAGCGGCGTTTATCACACAAAC
*
1251314 GTCGCAATAGGT
66 GCCGCAATAGGT
1251326 TTTCAGATTA
Statistics
Matches: 128, Mismatches: 33, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
85 1 0.01
86 126 0.98
87 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (86 bp):
TAGCGGCATTTTTTCAACAAATGCCGCAATAGGTGTTGATATTTAGCGGCGTTTATCACACAAAC
GCCGCAATAGGTGTTGATATT
Found at i:1251325 original size:129 final size:129
Alignment explanation
Indices: 1251093--1251325 Score: 319
Period size: 129 Copynumber: 1.8 Consensus size: 129
1251083 CATTTGTTGA
* * **
1251093 ACAAACGCCGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCACAAAAATGCCGTAATAGGTTTTG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCACAAAAATGCCGCAATAGGTGATG
* *
1251158 ATGTTTAGCGGCGTTTTCCCTACAAATGCCGCAGTAGGTGTTAATATTTAGCGGCGTTTAACTT
66 ATGTTTAGCGGCGTTTTCCCTACAAACGCCGCAATAGGTGTTAATATTTAGCGGCGTTTAACTT
* * * *
1251222 ACAAACGCCGCAGA-AGGTGTTGATATTTTGCGGCATTTTTTCA-ACAAATGCCGCAATAGGTGA
1 ACAAACGCCGCA-ATAGGTGTTGATATTTAGCGGC-GTTTGTCACAAAAATGCCGCAATAGGTGA
*
1251285 TGATGTTTAGCGGCGTTTCTCCC-ACAAACGTCGCAATAGGT
64 TGATGTTTAGCGGCGTTT-TCCCTACAAACGCCGCAATAGGT
1251326 TTTCAGATTA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
129 79 0.88
130 11 0.12
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (129 bp):
ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCACAAAAATGCCGCAATAGGTGATG
ATGTTTAGCGGCGTTTTCCCTACAAACGCCGCAATAGGTGTTAATATTTAGCGGCGTTTAACTT
Found at i:1251935 original size:21 final size:21
Alignment explanation
Indices: 1251852--1251932 Score: 117
Period size: 21 Copynumber: 3.9 Consensus size: 21
1251842 CTGCTGATAT
*
1251852 GCTGCTTCTCTCTGTGCTGCC
1 GCTGCTTCTCTCTCTGCTGCC
*
1251873 GCTGCTTCTCTCTGTGCTGCC
1 GCTGCTTCTCTCTCTGCTGCC
* *
1251894 GCTGCTTCTTTCTCTGCTTCC
1 GCTGCTTCTCTCTCTGCTGCC
*
1251915 GCTGCTGCTCTCTCTGCT
1 GCTGCTTCTCTCTCTGCT
1251933 TCCCTTGCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.00, C:0.38, G:0.21, T:0.41
Consensus pattern (21 bp):
GCTGCTTCTCTCTCTGCTGCC
Found at i:1253660 original size:18 final size:18
Alignment explanation
Indices: 1253634--1253669 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1253624 TCTAAACAAG
* *
1253634 AATACTTTAATTTCACAT
1 AATAATTTAAGTTCACAT
1253652 AATAATTTAAGTTCACAT
1 AATAATTTAAGTTCACAT
1253670 TTATTTGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.42
Consensus pattern (18 bp):
AATAATTTAAGTTCACAT
Found at i:1259366 original size:84 final size:82
Alignment explanation
Indices: 1259258--1259415 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 82
1259248 TTTTGCGGCG
* * *
1259258 TTTTTTTAAAAATGCACTATAAACAAACATATGGCGGTGTTTGTTCT-ATAAACGTCGCTAAATT
1 TTTTTTTAAAAATGCACTATAAACAAACATATGACGGCGTTTGTT-TAATAAACGCCGCTAAATT
1259322 -ATTAATCTATTGTGGCAT
65 AATT-ATCTATTGTGGCAT
* * * *
1259340 TTTTTTGTAAAAATGCCGCTATAAACAAACCTATTACGGCGTTTGTTTAATAAGCGCCGCTAAAT
1 TTTTTT-TAAAAATG-CACTATAAACAAACATATGACGGCGTTTGTTTAATAAACGCCGCTAAAT
1259405 TAATTATCTAT
64 TAATTATCTAT
1259416 AGCGTCGTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
82 6 0.09
83 9 0.14
84 47 0.72
85 3 0.05
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (82 bp):
TTTTTTTAAAAATGCACTATAAACAAACATATGACGGCGTTTGTTTAATAAACGCCGCTAAATTA
ATTATCTATTGTGGCAT
Found at i:1259523 original size:82 final size:82
Alignment explanation
Indices: 1259250--1259581 Score: 253
Period size: 82 Copynumber: 4.0 Consensus size: 82
1259240 GTACACGTTT
** * ** ** * *
1259250 TTGCGGCGTTT-TTTTAAAAATG-CACTATAAACAAACATATGGCGGTGTTTGTTCTATAAACGT
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAACAAACCTATTACGGCATTT-TTATATAAACGC
* *
1259313 CGCTAAATTATTAATCTA
65 CGCTAAATTACTACTCTA
* * * * * * *
1259331 TTGTGGCATTTTTTTGTAAAAATGCCGCTATAAACAAACCTATTACGGCGTTTGTT-TAATAAGC
1 TTGCGGC-GTTTATTGAAAAAATGCCACTATAAACAAACCTATTACGGCATTT-TTAT-ATAAAC
*
1259395 GCCGCTAAATTAATTA-TCTA
63 GCCGCTAAATT-ACTACTCTA
* * * * * * * * * *
1259415 TAGCGTCGTTTGTTGGACAAACGCCACTATAAACAACCCTGTTACGACATTTTTATATAAACACC
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAACAAACCTATTACGGCATTTTTATATAAACGCC
1259480 GCTAAATTACTACTCTA
66 GCTAAATTACTACTCTA
* * *
1259497 TTGCGGCGTTTATTGAAAAAATGCCACTGTAAA-AAATCTATTCCGGCA-TTTTAGCTATAAACG
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAACAAACCTATTACGGCATTTTTA--TATAAACG
* *
1259560 CCGTTAAATTACCACTCTA
64 CCGCTAAATTACTACTCTA
1259579 TTG
1 TTG
1259582 AGACTTTTTT
Statistics
Matches: 201, Mismatches: 41, Indels: 17
0.78 0.16 0.07
Matches are distributed among these distances:
80 5 0.02
81 19 0.09
82 77 0.38
83 47 0.23
84 49 0.24
85 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (82 bp):
TTGCGGCGTTTATTGAAAAAATGCCACTATAAACAAACCTATTACGGCATTTTTATATAAACGCC
GCTAAATTACTACTCTA
Found at i:1267117 original size:56 final size:56
Alignment explanation
Indices: 1267021--1267515 Score: 785
Period size: 56 Copynumber: 8.8 Consensus size: 56
1267011 CCCACTACTA
* * * *
1267021 ATACGGAAATTCATATACTTATTATGAATTCCTTAGTTTTTGTACACAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
1267077 ATATGGAAATTCATAAACTTATTATGAATTTCTTAATTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
*
1267133 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCT
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1267189 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * * *
1267245 ATACGGTAATTCATAAACTCATTATGAATTTATTAGATTTTGCACACAAAATGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
1267301 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTTACACACAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* * *
1267357 ATACGGAAATTCATAAACTCATTATGAAATTCTTAGTTTTTGCAAACAAAGTGCCT
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
1267413 ATGCGGAAATTCATAAACTGATTATGAATTTCTTAGTTTTTGCACACAAAGTG-CC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
* *
1267468 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACAC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTT-AGTTTTTGCACAC
1267516 TCAGTTTCAT
Statistics
Matches: 405, Mismatches: 33, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
55 33 0.08
56 372 0.92
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (56 bp):
ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCC
Found at i:1273209 original size:17 final size:17
Alignment explanation
Indices: 1273175--1273226 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1273165 GACCGACAAA
* *
1273175 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
1273192 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
1273209 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
1273224 TTT
1 TTT
1273227 TACTGTAGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:1274384 original size:11 final size:11
Alignment explanation
Indices: 1274368--1274398 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1274358 AAGTAAACGT
1274368 TCTAGAATGAA
1 TCTAGAATGAA
*
1274379 TCTAGAATGAG
1 TCTAGAATGAA
1274390 TCTAGAATG
1 TCTAGAATG
1274399 CTGAAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (11 bp):
TCTAGAATGAA
Found at i:1279326 original size:14 final size:14
Alignment explanation
Indices: 1279307--1279334 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1279297 CTTCTCAAAC
1279307 AACTGTGTCAATGT
1 AACTGTGTCAATGT
1279321 AACTGTGTCAATGT
1 AACTGTGTCAATGT
1279335 CATGTGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
AACTGTGTCAATGT
Found at i:1280203 original size:2 final size:2
Alignment explanation
Indices: 1280196--1280221 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1280186 TGCTCCACTT
1280196 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
1280222 AAAGTAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1284153 original size:28 final size:29
Alignment explanation
Indices: 1284120--1284183 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
1284110 TTAAATTCAT
1284120 AATATTTTATATATATTAACTT-A-TTAAA
1 AATATTTTATAT-TATTAACTTAATTTAAA
*
1284148 TATA-TTT-TATTATTAACTTAATTTAAA
1 AATATTTTATATTATTAACTTAATTTAAA
1284175 AATATTTTA
1 AATATTTTA
1284184 AAAATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 9 0.30
26 4 0.13
27 11 0.37
28 6 0.20
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
AATATTTTATATTATTAACTTAATTTAAA
Found at i:1285113 original size:25 final size:25
Alignment explanation
Indices: 1285085--1285210 Score: 72
Period size: 26 Copynumber: 5.2 Consensus size: 25
1285075 ATGTTTTCTA
1285085 TATTAACTTATTAAATATATTTTAT
1 TATTAACTTATTAAATATATTTTAT
* *
1285110 TATT-ACTTAATTTAAAAATAATTTAAT
1 TATTAACTT-A-TTAAATAT-ATTTTAT
* * * *
1285137 CCATT--TTTATTTAAAAATA-TATAT
1 -TATTAACTTA-TTAAATATATTTTAT
**
1285161 T-TTATGTTA--AAATATA-TTTA-
1 TATTAACTTATTAAATATATTTTAT
1285181 TATTAACTTATTAAATATATTTTAT
1 TATTAACTTATTAAATATATTTTAT
1285206 TATTA
1 TATTA
1285211 TTTTAAAATA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
20 1 0.01
21 15 0.19
22 2 0.03
23 7 0.09
24 14 0.18
25 11 0.14
26 17 0.22
27 8 0.10
28 3 0.04
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (25 bp):
TATTAACTTATTAAATATATTTTAT
Found at i:1285165 original size:19 final size:19
Alignment explanation
Indices: 1285141--1285177 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1285131 TTTAATCCAT
1285141 TTTTAT-TTAAAAATATATA
1 TTTTATGTT-AAAATATATA
1285160 TTTTATGTTAAAATATAT
1 TTTTATGTTAAAATATAT
1285178 TTATATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTATGTTAAAATATATA
Found at i:1285184 original size:23 final size:23
Alignment explanation
Indices: 1285097--1285221 Score: 77
Period size: 23 Copynumber: 5.3 Consensus size: 23
1285087 TTAACTTATT
1285097 AAATATATTTTATTATTACTTAATTTA
1 AAATATA-TTTA-TATTA-TT-ATTTA
*
1285124 AAA-ATAATTTAATCCATTTTTATTTA
1 AAATAT-ATTT-AT--ATTATTATTTA
1285150 AAA-ATA--TATATT-TTATGTTA
1 AAATATATTTATATTATTAT-TTA
1285170 AAATATATTTATATTAACTTA-TT-
1 AAATATATTTATATT-A-TTATTTA
1285193 AAATATATTT-TATTATTATTTTA
1 AAATATATTTATATTATTA-TTTA
1285216 AAATAT
1 AAATAT
1285222 CTTATTTTGT
Statistics
Matches: 83, Mismatches: 1, Indels: 32
0.72 0.01 0.28
Matches are distributed among these distances:
19 4 0.05
20 12 0.14
21 4 0.05
22 8 0.10
23 23 0.28
24 2 0.02
25 1 0.01
26 19 0.23
27 7 0.08
28 3 0.04
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (23 bp):
AAATATATTTATATTATTATTTA
Found at i:1285217 original size:46 final size:47
Alignment explanation
Indices: 1285083--1285221 Score: 128
Period size: 46 Copynumber: 2.9 Consensus size: 47
1285073 AAATGTTTTC
1285083 TATATTAACTTATTAAATATATTTTATTATTACTTAATTTAAAA-ATAATT
1 TATATTAACTTATTAAATATATTTTATTATTA--T--TTTAAAATATAATT
* * * *
1285133 TAATCCATT--TTTATTTAAAAATA-TATATT-TTATGTTAAAATAT-ATT
1 T-AT--ATTAACTTA-TTAAATATATTTTATTATTATTTTAAAATATAATT
1285179 TATATTAACTTATTAAATATATTTTATTATTATTTTAAAATAT
1 TATATTAACTTATTAAATATATTTTATTATTATTTTAAAATAT
1285222 CTTATTTTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
43 3 0.04
44 8 0.11
45 10 0.14
46 23 0.32
47 2 0.03
48 1 0.01
50 4 0.06
51 10 0.14
52 8 0.11
53 3 0.04
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (47 bp):
TATATTAACTTATTAAATATATTTTATTATTATTTTAAAATATAATT
Found at i:1285226 original size:21 final size:19
Alignment explanation
Indices: 1285141--1285236 Score: 66
Period size: 20 Copynumber: 4.6 Consensus size: 19
1285131 TTTAATCCAT
* *
1285141 TTTTATTTAAAAATATATA
1 TTTTATTTTAAAATATTTA
*
1285160 TTTTATGTTAAAATATATTTA
1 TTTTAT-TTTAAA-ATATTTA
*
1285181 TATTAACTTATTAAATATATTTTA
1 T-TTTA-TT-TTAAA-ATA-TTTA
1285205 TTATTATTTTAAAATATCTTA
1 TT-TTATTTTAAAATAT-TTA
*
1285226 TTTTGTTTTAA
1 TTTTATTTTAA
1285237 TTTAAAAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.09
20 15 0.23
21 15 0.23
22 9 0.14
23 12 0.19
24 7 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTATTTTAAAATATTTA
Found at i:1287510 original size:10 final size:10
Alignment explanation
Indices: 1287481--1287514 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1287471 TTCCTAATGC
1287481 TTCTGTTTTT
1 TTCTGTTTTT
*
1287491 TTCTTATTTTT
1 TTC-TGTTTTT
1287502 TTCTGTTTTT
1 TTCTGTTTTT
1287512 TTC
1 TTC
1287515 GTGGAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (10 bp):
TTCTGTTTTT
Found at i:1290538 original size:64 final size:64
Alignment explanation
Indices: 1290469--1290610 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 64
1290459 ACTAAGAGTT
*
1290469 CATCGATGCATCAAGTGCATTCAATGTTTCAA-AATAGCCA-GAGTGCATCGATGCATGG-CTGG
1 CATCGATGCATCAAATGCATTCAATG-TTCAATAA-AGCCATG-GTGCATCGATGCATGGACTGG
1290531 TG
63 TG
* * ** *
1290533 CATCGATGCATCAAATGTATTCGATGTTCAATTAAATTCATGGTGCATCGATGCATGGATTGGTG
1 CATCGATGCATCAAATGCATTCAATGTTCAA-TAAAGCCATGGTGCATCGATGCATGGACTGGTG
*
1290598 CATCGGTGCATCA
1 CATCGATGCATCA
1290611 CTCTGAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
63 5 0.07
64 42 0.63
65 20 0.30
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (64 bp):
CATCGATGCATCAAATGCATTCAATGTTCAATAAAGCCATGGTGCATCGATGCATGGACTGGTG
Found at i:1293244 original size:20 final size:20
Alignment explanation
Indices: 1293219--1293272 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1293209 ACCCGACGGA
*
1293219 TGCATCGATGCATAACCCTG
1 TGCATCGATGCATAACCATG
*
1293239 TGCATCGATGCATGACCATG
1 TGCATCGATGCATAACCATG
1293259 TGCATCGATGCATA
1 TGCATCGATGCATA
1293273 TTCAAGGCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCATAACCATG
Found at i:1309784 original size:21 final size:21
Alignment explanation
Indices: 1309735--1309816 Score: 101
Period size: 21 Copynumber: 3.8 Consensus size: 21
1309725 ACACCCTTGA
* *
1309735 AGGGGAACCGATTCCCCCTTTGA
1 AGGGGAACCGATT-CCCC-ATGT
1309758 AGGGGAACCGATTCCCCATGT
1 AGGGGAACCGATTCCCCATGT
*
1309779 AGGGGAACCAATTCCCCATGT
1 AGGGGAACCGATTCCCCATGT
* *
1309800 AGGGGAATCGATACCCC
1 AGGGGAACCGATTCCCC
1309817 CCTGGGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 36 0.68
22 4 0.08
23 13 0.25
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (21 bp):
AGGGGAACCGATTCCCCATGT
Found at i:1310204 original size:9 final size:10
Alignment explanation
Indices: 1310179--1310209 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1310169 AAAACACAAG
1310179 AATTTTTGAA
1 AATTTTTGAA
1310189 AATTTTTGAA
1 AATTTTTGAA
*
1310199 AATTTTCGAA
1 AATTTTTGAA
1310209 A
1 A
1310210 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (10 bp):
AATTTTTGAA
Found at i:1314410 original size:27 final size:27
Alignment explanation
Indices: 1314360--1314454 Score: 163
Period size: 27 Copynumber: 3.5 Consensus size: 27
1314350 AATTCTAGGG
* *
1314360 TTTAGAGGTACTTTAGGTCATTTTACAC
1 TTTAGGGGTA-TTTTGGTCATTTTACAC
1314388 TTTAGGGGTATTTTGGTCATTTTACAC
1 TTTAGGGGTATTTTGGTCATTTTACAC
1314415 TTTAGGGGTATTTTGGTCATTTTACAC
1 TTTAGGGGTATTTTGGTCATTTTACAC
1314442 TTTAGGGGTATTT
1 TTTAGGGGTATTT
1314455 CTATAATTCC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 56 0.86
28 9 0.14
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (27 bp):
TTTAGGGGTATTTTGGTCATTTTACAC
Found at i:1315440 original size:9 final size:10
Alignment explanation
Indices: 1315418--1315460 Score: 63
Period size: 9 Copynumber: 4.5 Consensus size: 10
1315408 TCGGTCAGCT
1315418 CGGTCCAGAC
1 CGGTCCAGAC
1315428 CGGTCCAGA-
1 CGGTCCAGAC
*
1315437 CGGTTCAGAC
1 CGGTCCAGAC
1315447 CGGTCCA-AC
1 CGGTCCAGAC
1315456 CGGTC
1 CGGTC
1315461 AGCTGGTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (10 bp):
CGGTCCAGAC
Found at i:1315811 original size:32 final size:32
Alignment explanation
Indices: 1315767--1315829 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1315757 TATAAATAGG
1315767 TTTTTAGTATTTTAAT-TAAGTTTTAGGATATTA
1 TTTTTAGTATTTT-ATCTAAGTTTTAGG-TATTA
*
1315800 TTTTTA-TATTTTATCTTAGTTTTAGGTATT
1 TTTTTAGTATTTTATCTAAGTTTTAGGTATT
1315830 TTAGATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.21
32 16 0.57
33 6 0.21
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (32 bp):
TTTTTAGTATTTTATCTAAGTTTTAGGTATTA
Found at i:1315950 original size:64 final size:65
Alignment explanation
Indices: 1315805--1315952 Score: 173
Period size: 64 Copynumber: 2.3 Consensus size: 65
1315795 TATTATTTTT
1315805 ATATTTTATCTTAG-TTTTAGGTATTTTAGATGAAATAGGTTTTAGTGTTTAAATTAGGATTTAG
1 ATATTTTATCTT-GTTTTTAGGTATTTTAGATGAAATAGGTTTTAGTGTTTAAATTAGGATTTAG
1315869 A
65 A
* * * *
1315870 ATATTATAT-TAT-TTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGT-TTTTAATTAGGATTTA
1 ATATTTTATCT-TGTTTTTAGGTATTTTAGATGAAATAGGTTTT-AGTGTTTAAATTAGGATTTA
1315931 -A
64 GA
*
1315932 GATGTTTTATCTTGTTTTTAG
1 -ATATTTTATCTTGTTTTTAG
1315953 TAATTTGAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
62 1 0.01
63 28 0.39
64 33 0.46
65 9 0.13
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.54
Consensus pattern (65 bp):
ATATTTTATCTTGTTTTTAGGTATTTTAGATGAAATAGGTTTTAGTGTTTAAATTAGGATTTAGA
Found at i:1319571 original size:16 final size:14
Alignment explanation
Indices: 1319558--1319609 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
1319548 CCCATTTTGT
1319558 TTTATTTTCATTTTA
1 TTTA-TTTCATTTTA
**
1319573 TTTATTTCATTCCA
1 TTTATTTCATTTTA
*
1319587 TTTATTTTATTTTTA
1 TTTATTTCA-TTTTA
1319602 TTTTATTT
1 -TTTATTT
1319610 TTCTCTAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 16 0.53
15 7 0.23
16 7 0.23
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTTCATTTTA
Found at i:1319573 original size:11 final size:11
Alignment explanation
Indices: 1319552--1319611 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
1319542 AGGCAACCCA
*
1319552 TTTTGTTTTAT
1 TTTTATTTTAT
*
1319563 TTTCATTTTA-
1 TTTTATTTTAT
*
1319573 -TTTATTTCAT
1 TTTTATTTTAT
1319583 TCCATTTATTTTAT
1 T---TTTATTTTAT
1319597 TTTTATTTTAT
1 TTTTATTTTAT
1319608 TTTT
1 TTTT
1319612 CTCTAAACAG
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
9 7 0.18
11 22 0.56
14 10 0.26
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:1319611 original size:6 final size:5
Alignment explanation
Indices: 1319551--1319610 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
1319541 GAGGCAACCC
* * **
1319551 ATTTT GTTTT ATTTT CATTTT A-TTT ATTTC ATTCC A-TTT ATTTT ATTTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT
1319601 ATTTT ATTTT
1 ATTTT ATTTT
1319611 TCTCTAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 6 0.13
5 29 0.64
6 10 0.22
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:1320392 original size:10 final size:10
Alignment explanation
Indices: 1320377--1320402 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1320367 TTCAATGTTT
1320377 AAAAAAAATA
1 AAAAAAAATA
1320387 AAAAAAAATA
1 AAAAAAAATA
1320397 AAAAAA
1 AAAAAA
1320403 GACCCTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:1322031 original size:19 final size:18
Alignment explanation
Indices: 1321986--1322035 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1321976 AATCTATTTA
*
1321986 ATTTGTTTATTTAATAAT
1 ATTTTTTTATTTAATAAT
* *
1322004 TTTTCTTTTATTTAATTCAT
1 ATTT-TTTTATTTAA-TAAT
1322024 ATTTTTTTATTT
1 ATTTTTTTATTT
1322036 TAAAAACAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTTTATTTAATAAT
Found at i:1325087 original size:11 final size:11
Alignment explanation
Indices: 1325033--1325087 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
1325023 ACCCATTTCG
*
1325033 TTTTATTTTCA
1 TTTTATTTTTA
1325044 TTTTA--TTTA
1 TTTTATTTTTA
*
1325053 TTTCATTCCATTTA
1 TTTTATT---TTTA
1325067 TTTTATTTTTA
1 TTTTATTTTTA
1325078 TTTTATTTTT
1 TTTTATTTTT
1325088 CTCTAAACAG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
9 7 0.19
11 19 0.53
14 10 0.28
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:1330298 original size:97 final size:97
Alignment explanation
Indices: 1330094--1330311 Score: 264
Period size: 97 Copynumber: 2.2 Consensus size: 97
1330084 AAAACAAAAA
* *
1330094 ACCATAGTTCATAAACCAGTAAATTCCAAGATTCCGTAAATTTGGAACAATTCATATTTTCCAGT
1 ACCATAGTTCATAAACCAGTAAATTCCAAGATTCCATAAATATGGAACAATTCATATTTTCCAGT
* **
1330159 GAAAACAAGACACCCGATAATACATTTCAGGT
66 GAAAACAAGACACCAGATAATACATACCAGGT
* *
1330191 ACCATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAT-GAACAATTCATAGTTTTCGA
1 ACCATAGTTCATAAACCAGTAAATTCCAAGATTCCATAAAT-ATGGAACAATTCATA-TTTTCCA
* * *
1330255 -TGAAAACCAA-A-ATCAGATATTACATACCATGTT
64 GTGAAAA-CAAGACACCAGATAATACATACCA-GGT
* *
1330288 GCCATGGTTCATAAACCAGTAAAT
1 ACCATAGTTCATAAACCAGTAAAT
1330312 CAATACTTCC
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
96 13 0.12
97 82 0.78
98 10 0.10
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (97 bp):
ACCATAGTTCATAAACCAGTAAATTCCAAGATTCCATAAATATGGAACAATTCATATTTTCCAGT
GAAAACAAGACACCAGATAATACATACCAGGT
Found at i:1331304 original size:27 final size:27
Alignment explanation
Indices: 1331271--1331332 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
1331261 AAGGTTTATA
* *
1331271 GGGCATTTTGGTTATTTTATACTTTAG
1 GGGCATTTTGGTCATTTTACACTTTAG
1331298 GGGCATTTTGGTCATTTTACACTTTAG
1 GGGCATTTTGGTCATTTTACACTTTAG
*
1331325 GGGTATTT
1 GGGCATTT
1331333 CTATAATTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.48
Consensus pattern (27 bp):
GGGCATTTTGGTCATTTTACACTTTAG
Found at i:1332247 original size:19 final size:19
Alignment explanation
Indices: 1332223--1332262 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
1332213 CGACGGTCAA
1332223 CGGTTCGGTCCAGGCGGTT
1 CGGTTCGGTCCAGGCGGTT
*
1332242 CGGTTCGGTCTAGGCGGTT
1 CGGTTCGGTCCAGGCGGTT
1332261 CG
1 CG
1332263 ATCCAGGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.25, G:0.42, T:0.28
Consensus pattern (19 bp):
CGGTTCGGTCCAGGCGGTT
Found at i:1332341 original size:20 final size:20
Alignment explanation
Indices: 1332316--1332365 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1332306 CTGGTTCAGC
*
1332316 CGGTCAGCTGGTTCTCCAGG
1 CGGTCAGATGGTTCTCCAGG
1332336 CGGTCAGATGGTTCTCCAGG
1 CGGTCAGATGGTTCTCCAGG
*
1332356 CGATCAGATG
1 CGGTCAGATG
1332366 AAGCCCACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.26, G:0.34, T:0.24
Consensus pattern (20 bp):
CGGTCAGATGGTTCTCCAGG
Found at i:1342633 original size:20 final size:19
Alignment explanation
Indices: 1342595--1342633 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1342585 AACTCTTTGG
* *
1342595 AATACATTATTTTAATGAA
1 AATACATGATTTCAATGAA
1342614 AATACATGAGTTTCAATGAA
1 AATACATGA-TTTCAATGAA
1342634 TGTGCATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (19 bp):
AATACATGATTTCAATGAA
Found at i:1344935 original size:13 final size:13
Alignment explanation
Indices: 1344917--1344942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1344907 AAAGTAACCC
1344917 AAATCCAATAAAA
1 AAATCCAATAAAA
1344930 AAATCCAATAAAA
1 AAATCCAATAAAA
1344943 GTAACCCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATCCAATAAAA
Found at i:1345940 original size:33 final size:33
Alignment explanation
Indices: 1345886--1345966 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
1345876 ATTGAAACAA
1345886 TTAT-AATA-TATATATAT-ATAAACTATATAGA-
1 TTATAAATAGTATATAT-TCATAAACTATATA-AT
*
1345917 TTATAAATAGTTTATATTCATAAACTATATAAT
1 TTATAAATAGTATATATTCATAAACTATATAAT
*
1345950 TTATACATAGTATATAT
1 TTATAAATAGTATATAT
1345967 AACTTATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
31 4 0.09
32 6 0.14
33 33 0.77
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (33 bp):
TTATAAATAGTATATATTCATAAACTATATAAT
Found at i:1345983 original size:26 final size:27
Alignment explanation
Indices: 1345887--1345994 Score: 107
Period size: 26 Copynumber: 3.9 Consensus size: 27
1345877 TTGAAACAAT
*
1345887 TATAA-TATATATA-TATATA-AACTA
1 TATAATTATACATAGTATATATAACTA
*
1345911 TATAGATTATAAATAGTTTATATTCATAAACTA
1 TATA-ATTATACATAG--TATA-T-AT-AACTA
1345944 TATAATTTATACATAGTATATATAACT-
1 TATAA-TTATACATAGTATATATAACTA
1345971 TATAATTATACATAGTATATATAA
1 TATAATTATACATAGTATATATAA
1345995 AAATATAAAC
Statistics
Matches: 72, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
24 4 0.06
25 1 0.01
26 26 0.36
27 5 0.07
28 4 0.06
29 6 0.08
30 2 0.03
31 5 0.07
32 1 0.01
33 18 0.25
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (27 bp):
TATAATTATACATAGTATATATAACTA
Found at i:1346029 original size:11 final size:11
Alignment explanation
Indices: 1346013--1346063 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
1346003 ACTATGTAGT
1346013 TTATATATAAA
1 TTATATATAAA
*
1346024 TTATATATATA
1 TTATATATAAA
1346035 TTAAATATATAAA
1 TT--ATATATAAA
*
1346048 CTATATAT-AA
1 TTATATATAAA
1346058 TTATAT
1 TTATAT
1346064 TAATACGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 7 0.21
11 18 0.53
13 9 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
TTATATATAAA
Done.