Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002070.1 Hibiscus syriacus cultivar Beakdansim tig00004227_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: 812484
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:497403 original size:23 final size:22
Alignment explanation
Indices: 497368--497418 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
497358 TTCCTTTTTC
497368 TTCTTTTTTGAGTGCTTTCAAT
1 TTCTTTTTTGAGTGCTTTCAAT
* *
497390 TTCTTCTTTTGAGTGCTTTGATT
1 TTCTT-TTTTGAGTGCTTTCAAT
497413 TTCTTT
1 TTCTTT
497419 GCTAGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.63
Consensus pattern (22 bp):
TTCTTTTTTGAGTGCTTTCAAT
Found at i:504106 original size:22 final size:22
Alignment explanation
Indices: 504072--504126 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
504062 CATATCTACA
*
504072 TTTTGCAAGGATGATAGATTCTC
1 TTTT-CAAAGATGATAGATTCTC
504095 TTTTCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
504117 TTTTCAAAGA
1 TTTTCAAAGA
504127 CGAGAGCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTCTC
Found at i:504918 original size:20 final size:20
Alignment explanation
Indices: 504893--504976 Score: 105
Period size: 20 Copynumber: 4.2 Consensus size: 20
504883 TCTAGAAAAT
* *
504893 TAAATCCTCTGGGTAATTTG
1 TAAAGCCTCCGGGTAATTTG
* *
504913 TAAATCCTCCGGGTAACTTG
1 TAAAGCCTCCGGGTAATTTG
*
504933 TAAAGCCTCCAGGTAATTTG
1 TAAAGCCTCCGGGTAATTTG
* *
504953 TAAAGCCTCTGGGTAATTTT
1 TAAAGCCTCCGGGTAATTTG
504973 TAAA
1 TAAA
504977 ATTCCTTGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (20 bp):
TAAAGCCTCCGGGTAATTTG
Found at i:505474 original size:139 final size:141
Alignment explanation
Indices: 505215--505496 Score: 320
Period size: 139 Copynumber: 2.0 Consensus size: 141
505205 AATGGAACGG
* * * * * *
505215 ATTTTTCAGCAAAGTATAAAATCTTCAAGGAAGAGTAGTGAAGTAATCCAATGGTGAGTCTGATC
1 ATTTTTCAGCAAAATATAAAACCTTCAAGAAAGAGTAGTGAAGCAATCCAAAGGTGAGTCTGAAC
* * * **
505280 TTCATGGAAGAGTAGTGAAATTAGATTCAATTCAAGTCAATCATTCTCAGTCTCCACGGAAGAGT
66 TTCACGAAAGAGTAGTGAAATCAGATTCAATTCAAGTCAATCATTCTCAAACTCCACGGAAGAGT
505345 AGT-GAA-CAA
131 AGTGGAATCAA
* * * * * *
505354 ATTTTTCATCAAAATATTAAACCTTCATGAAATAGTAGTGAAGCAATCCAAAGCTTGGGTCTGAA
1 ATTTTTCAGCAAAATATAAAACCTTCAAGAAAGAGTAGTGAAGCAATCCAAAG-GTGAGTCTGAA
** * **
505419 CTTCACGAAAGAGTAGTGAAA-CAGATTCTGTTCAAGTCATTTGTAT-TCAAACTCCACGGAAGA
65 CTTCACGAAAGAGTAGTGAAATCAGATTCAATTCAAGTCAATCAT-TCTCAAACTCCACGGAAGA
505482 GTAGTGGAATCAA
129 GTAGTGGAATCAA
505495 AT
1 AT
505497 CAAACTGATA
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
139 81 0.69
140 31 0.26
141 5 0.04
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (141 bp):
ATTTTTCAGCAAAATATAAAACCTTCAAGAAAGAGTAGTGAAGCAATCCAAAGGTGAGTCTGAAC
TTCACGAAAGAGTAGTGAAATCAGATTCAATTCAAGTCAATCATTCTCAAACTCCACGGAAGAGT
AGTGGAATCAA
Found at i:505962 original size:20 final size:20
Alignment explanation
Indices: 505935--505981 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
505925 AGTGACGATG
*
505935 ATTATATAT-AT-ATATGTT
1 ATTATATATAATAATATATT
505953 ATTATATATAATAATATATT
1 ATTATATATAATAATATATT
505973 ATTATATAT
1 ATTATATAT
505982 TTTATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 2 0.08
20 15 0.58
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTATATATAATAATATATT
Found at i:505982 original size:10 final size:10
Alignment explanation
Indices: 505935--505990 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
505925 AGTGACGATG
505935 ATTATATA-T
1 ATTATATATT
*
505944 A-TATATGTT
1 ATTATATATT
*
505953 ATTATATATA
1 ATTATATATT
*
505963 ATAATATATT
1 ATTATATATT
505973 ATTATATATT
1 ATTATATATT
505983 -TTAT-TATT
1 ATTATATATT
505991 TATATAGCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 9 0.23
9 7 0.18
10 23 0.59
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTATATATT
Found at i:526399 original size:61 final size:60
Alignment explanation
Indices: 526274--526404 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 60
526264 AAGGACACTA
* * *
526274 AGTGCAGGTGGTGGGCACGACCTTATGTGTCATATCCGGATTATCACTAGAGTGTAAACCT
1 AGTGCAGGTGGTGGACACGACCTCATGTG-CATATCCGGATTAGCACTAGAGTGTAAACCT
* * *
526335 AGTGTAGGTGGTGGACACGACTCTACATGTG-ATATCCGGATTAGCACTAGA-TCGTAAGCTT
1 AGTGCAGGTGGTGGACACGAC-CT-CATGTGCATATCCGGATTAGCACTAGAGT-GTAAACCT
526396 AGTGCAGGT
1 AGTGCAGGT
526405 TTAACACTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 1 0.02
61 52 0.87
62 2 0.03
63 5 0.08
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (60 bp):
AGTGCAGGTGGTGGACACGACCTCATGTGCATATCCGGATTAGCACTAGAGTGTAAACCT
Found at i:529208 original size:55 final size:55
Alignment explanation
Indices: 529135--529407 Score: 406
Period size: 55 Copynumber: 5.0 Consensus size: 55
529125 ATTACCAAAT
* *
529135 GGCACTATGTGTGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
529190 GGAACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATCTG
1 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
** *
529245 GGCACTTTGTGTTCAAAACTAAGAAATTCATTATAAGTTTATGAATTT-CGTATG
1 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* **
529299 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
529354 GGCACTTTGTGT-ATAAAACTAAGAAATTCATAATAAGTATATGAATTTTCGTAT
1 GGCACTTTGTGTGA-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
529408 TGTTAGTGGG
Statistics
Matches: 199, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
54 50 0.25
55 149 0.75
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (55 bp):
GGCACTTTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:529339 original size:109 final size:109
Alignment explanation
Indices: 529135--529407 Score: 422
Period size: 109 Copynumber: 2.5 Consensus size: 109
529125 ATTACCAAAT
* *
529135 GGCACTATGTGTGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTTTGT
1 GGCACTTTGTGTATAAAACTAAGAAATTCATAATAAGTTTATGAATTT-CGTATGGGAACTTTGT
*
529200 GTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATCTG
65 GTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATG
* *
529245 GGCACTTTGTGT-TCAAAACTAAGAAATTCATTATAAGTTTATGAATTTCGTATGGGCACTTTGT
1 GGCACTTTGTGTAT-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGGAACTTTGT
* ***
529309 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
65 GTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATG
*
529354 GGCACTTTGTGTATAAAACTAAGAAATTCATAATAAGTATATGAATTTTCGTAT
1 GGCACTTTGTGTATAAAACTAAGAAATTCATAATAAGTTTATGAA-TTTCGTAT
529408 TGTTAGTGGG
Statistics
Matches: 150, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
109 97 0.65
110 53 0.35
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (109 bp):
GGCACTTTGTGTATAAAACTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGGAACTTTGTG
TGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATG
Found at i:536301 original size:15 final size:16
Alignment explanation
Indices: 536278--536311 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
536268 TATTAAGGTT
*
536278 TTAATTATGAA-TTAA
1 TTAAATATGAATTTAA
536293 TTAAATATGAATTTAA
1 TTAAATATGAATTTAA
536309 TTA
1 TTA
536312 TTTCGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTAAATATGAATTTAA
Found at i:540121 original size:15 final size:15
Alignment explanation
Indices: 540101--540129 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
540091 TGTGAACAAA
540101 AGGAGGTCGTTGTTG
1 AGGAGGTCGTTGTTG
540116 AGGAGGTCGTTGTT
1 AGGAGGTCGTTGTT
540130 CATTGATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.45, T:0.34
Consensus pattern (15 bp):
AGGAGGTCGTTGTTG
Found at i:552610 original size:9 final size:9
Alignment explanation
Indices: 552598--552637 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
552588 TTTTTTGAAA
552598 TTTTGGCTT
1 TTTTGGCTT
552607 TTTTGGCTT
1 TTTTGGCTT
* *
552616 TTTTTGTTT
1 TTTTGGCTT
*
552625 TTTTGCCTT
1 TTTTGGCTT
552634 TTTT
1 TTTT
552638 TTGAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.10, G:0.15, T:0.75
Consensus pattern (9 bp):
TTTTGGCTT
Found at i:552618 original size:10 final size:10
Alignment explanation
Indices: 552598--552638 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
552588 TTTTTTGAAA
552598 TTTTGGC-TT
1 TTTTGGCTTT
552607 TTTTGGCTTT
1 TTTTGGCTTT
552617 TTTT-G-TTT
1 TTTTGGCTTT
*
552625 TTTTGCCTTT
1 TTTTGGCTTT
552635 TTTT
1 TTTT
552639 TGAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 7 0.25
9 8 0.29
10 13 0.46
ACGTcount: A:0.00, C:0.10, G:0.15, T:0.76
Consensus pattern (10 bp):
TTTTGGCTTT
Found at i:558767 original size:20 final size:20
Alignment explanation
Indices: 558720--558772 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
558710 GTTGTTGTCT
558720 TGAGGTCACTATTCCTTTAC
1 TGAGGTCACTATTCCTTTAC
*
558740 TGAAGTCACTATTCCTTTAC
1 TGAGGTCACTATTCCTTTAC
**
558760 TTCGGTCACTATT
1 TGAGGTCACTATT
558773 TTTTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.42
Consensus pattern (20 bp):
TGAGGTCACTATTCCTTTAC
Found at i:561276 original size:21 final size:21
Alignment explanation
Indices: 561250--561291 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
561240 CCAGAATTGG
*
561250 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
561271 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
561292 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:561443 original size:21 final size:21
Alignment explanation
Indices: 561419--561459 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
561409 ATCTATTCCC
561419 GGGGAATC-GATACCCCCTGGG
1 GGGGAATCTG-TACCCCCTGGG
561440 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
561460 AAAATCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:561656 original size:81 final size:81
Alignment explanation
Indices: 561521--561690 Score: 313
Period size: 81 Copynumber: 2.1 Consensus size: 81
561511 TTAAGGCTCG
561521 AAATACTTTGTAAAATTGTTTTAAAATAGTTTAAGTATAAAACAAAATTTTACACTTTAGTAAGG
1 AAATACTTTGTAAAATTGTTTTAAAATAGTTTAAGTATAAAACAAAATTTTACACTTTAGTAAGG
561586 ATTAAAATGAACTTTA
66 ATTAAAATGAACTTTA
*
561602 AAATACTTTGTAAAATTGTTTTAAAATAGTTTAAGTATAAAACACAATTTTACACTTTAGTAAGG
1 AAATACTTTGTAAAATTGTTTTAAAATAGTTTAAGTATAAAACAAAATTTTACACTTTAGTAAGG
*
561667 ATTAAAATGAACTTTG
66 ATTAAAATGAACTTTA
*
561683 AAAGACTT
1 AAATACTT
561691 GGAGTAATAT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (81 bp):
AAATACTTTGTAAAATTGTTTTAAAATAGTTTAAGTATAAAACAAAATTTTACACTTTAGTAAGG
ATTAAAATGAACTTTA
Found at i:568927 original size:2 final size:2
Alignment explanation
Indices: 568916--568954 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
568906 TAAAGGCGAT
568916 TA TA -A TA 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
568955 CACACACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:577339 original size:19 final size:20
Alignment explanation
Indices: 577298--577349 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
577288 TTTAGGAAGA
577298 GAGTATCGATACTCATCAGG
1 GAGTATCGATACTCATCAGG
* *
577318 GAGTATCCATAC-CATTAGG
1 GAGTATCGATACTCATCAGG
577337 GAGTATCGATACT
1 GAGTATCGATACT
577350 GTAGATTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (20 bp):
GAGTATCGATACTCATCAGG
Found at i:585997 original size:30 final size:30
Alignment explanation
Indices: 585962--586030 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
585952 TTGACCCATG
* * *
585962 AATTTTAGACAGAACACTAATTTGACCTTA
1 AATTTTACACAAAACACTAATTTAACCTTA
* * *
585992 AATTTTACATAAAATATTAATTTAACCTTA
1 AATTTTACACAAAACACTAATTTAACCTTA
586022 AATTGTTAC
1 AATT-TTAC
586031 GGACTTTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (30 bp):
AATTTTACACAAAACACTAATTTAACCTTA
Found at i:587211 original size:20 final size:20
Alignment explanation
Indices: 587169--587211 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
587159 TTACAGAACT
*
587169 TTCTATGATGTTCTAAAATC
1 TTCTATGATGTTCTAAAACC
*
587189 TTCTTTGATGTTCCT-AAACC
1 TTCTATGATGTT-CTAAAACC
587209 TTC
1 TTC
587212 CCCAATGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (20 bp):
TTCTATGATGTTCTAAAACC
Found at i:587699 original size:18 final size:18
Alignment explanation
Indices: 587635--587700 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
587625 CCCTATATAT
*
587635 TATTATTTTTAATTAAATCCT
1 TATTATTTTTAA-TAAAT--A
*
587656 TATTTTTATTTAATAAA-A
1 TATTATT-TTTAATAAATA
*
587674 GTAATATTTTTAATAAATA
1 -TATTATTTTTAATAAATA
587693 TATTATTT
1 TATTATTT
587701 CGGATTGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
18 16 0.43
19 6 0.16
21 10 0.27
22 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTTTTAATAAATA
Found at i:592310 original size:15 final size:14
Alignment explanation
Indices: 592286--592335 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
592276 TAAAATGTTC
*
592286 AAAAAATTAAATAT
1 AAAAAATTAAAAAT
592300 AAAAAATTTAAAAAT
1 AAAAAA-TTAAAAAT
592315 -AAAAATTAAATTAAT
1 AAAAAATTAAA--AAT
592330 AAAAAA
1 AAAAAA
592336 AATTAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 5 0.16
14 11 0.35
15 10 0.32
16 5 0.16
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATTAAAAAT
Found at i:592345 original size:15 final size:14
Alignment explanation
Indices: 592286--592342 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 14
592276 TAAAATGTTC
592286 AAAAAATTAAATATA
1 AAAAAATTAAATA-A
*
592301 AAAAATTTAAAAATAA
1 AAAAAATT--AAATAA
592317 AAATTAAATT-AATAA
1 AAA--AAATTAAATAA
592332 AAAAAATTAAA
1 AAAAAATTAAA
592343 ATACATTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
13 5 0.14
14 2 0.06
15 15 0.43
16 4 0.11
17 5 0.14
18 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATTAAATAA
Found at i:592932 original size:22 final size:22
Alignment explanation
Indices: 592899--592951 Score: 90
Period size: 21 Copynumber: 2.4 Consensus size: 22
592889 ATATATAAAT
592899 TTTTATATTTTTTAGTAATTTAA
1 TTTT-TATTTTTTAGTAATTTAA
592922 TTTTTA-TTTTTAGTAATTTAA
1 TTTTTATTTTTTAGTAATTTAA
592943 TTTTTATTT
1 TTTTTATTT
592952 ATTTTTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 21 0.72
22 4 0.14
23 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTATTTTTTAGTAATTTAA
Found at i:596679 original size:12 final size:12
Alignment explanation
Indices: 596658--596691 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
596648 GGTAGCTTGA
*
596658 AGTAGCTGAGAG
1 AGTAGATGAGAG
596670 AGTAGATGAGAG
1 AGTAGATGAGAG
*
596682 AGTAGTTGAG
1 AGTAGATGAG
596692 TATCTGAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.03, G:0.41, T:0.21
Consensus pattern (12 bp):
AGTAGATGAGAG
Found at i:597085 original size:19 final size:19
Alignment explanation
Indices: 597061--597097 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
597051 CGTCCAAGAG
597061 CATGTATCTTCATTAAAAT
1 CATGTATCTTCATTAAAAT
*
597080 CATGTATTTTCATTAAAA
1 CATGTATCTTCATTAAAA
597098 ATAATGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (19 bp):
CATGTATCTTCATTAAAAT
Found at i:597104 original size:20 final size:19
Alignment explanation
Indices: 597062--597111 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
597052 GTCCAAGAGC
* *
597062 ATGTATCTTCATTAAAATC
1 ATGTATTTTCATTAAAATA
597081 ATGTATTTTCATTAAAAATA
1 ATGTATTTTCATT-AAAATA
*
597101 ATGTAATTTCA
1 ATGTATTTTCA
597112 AAGGGGTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (19 bp):
ATGTATTTTCATTAAAATA
Found at i:601295 original size:19 final size:20
Alignment explanation
Indices: 601271--601315 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
601261 CGGCCAAGAG
601271 CATGTATCTTCATT-AAAAT
1 CATGTATCTTCATTAAAAAT
*
601290 CATGTATTTTCATTAAAAAT
1 CATGTATCTTCATTAAAAAT
601310 CATGTA
1 CATGTA
601316 ATTTCAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (20 bp):
CATGTATCTTCATTAAAAAT
Found at i:601310 original size:20 final size:19
Alignment explanation
Indices: 601271--601321 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
601261 CGGCCAAGAG
*
601271 CATGTATCTTCATTAAAAT
1 CATGTATTTTCATTAAAAT
601290 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATT-AAAAT
*
601310 CATGTAATTTCA
1 CATGTATTTTCA
601322 AAGGGGCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:603053 original size:28 final size:28
Alignment explanation
Indices: 603013--603068 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
603003 AATTTACGTG
603013 TAGTGGAAGCTCACATCCGAACCTAGTC
1 TAGTGGAAGCTCACATCCGAACCTAGTC
603041 TAGTGGAAGCTCACATCCGAACCTAGTC
1 TAGTGGAAGCTCACATCCGAACCTAGTC
603069 AAGCATAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (28 bp):
TAGTGGAAGCTCACATCCGAACCTAGTC
Found at i:610279 original size:21 final size:21
Alignment explanation
Indices: 610255--610302 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
610245 CCATTGTTTC
610255 ATCAACCAAAACCATAACCAA
1 ATCAACCAAAACCATAACCAA
* *
610276 ATCAACCAAAATCATAATCAA
1 ATCAACCAAAACCATAACCAA
610297 ATCAAC
1 ATCAAC
610303 ATCCTTCCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (21 bp):
ATCAACCAAAACCATAACCAA
Found at i:610631 original size:22 final size:22
Alignment explanation
Indices: 610584--610631 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
610574 AAAGAAAATC
**
610584 AAAGCACTCAAAAAAGAAGTTG
1 AAAGCACTCAAAAAAGAAGTAA
610606 AAAGCACTCAAAAAATGAAG-AA
1 AAAGCACTCAAAAAA-GAAGTAA
610628 AAAG
1 AAAG
610632 AATAGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (22 bp):
AAAGCACTCAAAAAAGAAGTAA
Found at i:610644 original size:16 final size:15
Alignment explanation
Indices: 610623--610654 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
610613 TCAAAAAATG
610623 AAGAAAAAGAATAGAA
1 AAGAAAAAGAA-AGAA
610639 AAGAAAAAGAAAGAA
1 AAGAAAAAGAAAGAA
610654 A
1 A
610655 GTTGAAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAAAGAAAGAA
Found at i:611539 original size:11 final size:10
Alignment explanation
Indices: 611519--611552 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
611509 TTTCTTCAAC
611519 TTTCTTTCTT
1 TTTCTTTCTT
611529 TTTCTTTTCTT
1 TTTC-TTTCTT
611540 TTTCTTTCTT
1 TTTCTTTCTT
611550 TTT
1 TTT
611553 GAGTGTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:611591 original size:23 final size:24
Alignment explanation
Indices: 611534--611593 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
611524 TTCTTTTTCT
* *
611534 TTTCTTTTTCTTTCTTTTTGAGTGT
1 TTTCATTTTC-TTCTTTTTGAGTGC
*
611559 TTTCAATTTCTTC-TTTTGAGTGC
1 TTTCATTTTCTTCTTTTTGAGTGC
*
611582 TTTGATTTTCTT
1 TTTCATTTTCTT
611594 TGCTGGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 19 0.63
24 3 0.10
25 8 0.27
ACGTcount: A:0.08, C:0.13, G:0.12, T:0.67
Consensus pattern (24 bp):
TTTCATTTTCTTCTTTTTGAGTGC
Found at i:617823 original size:16 final size:16
Alignment explanation
Indices: 617802--617833 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
617792 TCTTCCACCA
617802 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
617818 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
617834 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:619946 original size:5 final size:5
Alignment explanation
Indices: 619933--620006 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
619923 GAACTTCTCT
*
619933 TTTTC TTTTA TTTTC TTTTC TTCTTC TTTTC --TTC TTTTC TGATTT-
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC T--TTTC
*
619978 TTCTC TTATT- TTTGTC TTTTC -TTTC TTTT
1 TTTTC TT-TTC TTT-TC TTTTC TTTTC TTTT
620007 TGCACTCCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
3 3 0.05
4 7 0.13
5 32 0.58
6 10 0.18
7 3 0.05
ACGTcount: A:0.04, C:0.18, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:619951 original size:16 final size:17
Alignment explanation
Indices: 619930--619978 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
619920 TTTGAACTTC
619930 TCTTTTTCTT-TTATTT
1 TCTTTTTCTTCTTATTT
*
619946 TC-TTTTCTTCTTCTTT
1 TCTTTTTCTTCTTATTT
* *
619962 TCTTCTT-TTCTGATTT
1 TCTTTTTCTTCTTATTT
619978 T
1 T
619979 TCTCTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 7 0.26
16 17 0.63
17 3 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (17 bp):
TCTTTTTCTTCTTATTT
Found at i:619959 original size:11 final size:11
Alignment explanation
Indices: 619930--619968 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
619920 TTTGAACTTC
*
619930 TCTTTTTCTTT
1 TCTTCTTCTTT
*
619941 TATT-TTCTTT
1 TCTTCTTCTTT
619951 TCTTCTTCTTT
1 TCTTCTTCTTT
619962 TCTTCTT
1 TCTTCTT
619969 TTCTGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTCTTCTTT
Found at i:620006 original size:27 final size:28
Alignment explanation
Indices: 619935--620006 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 28
619925 ACTTCTCTTT
* *
619935 TTCTTTTATTTTCTTTTCTTCTTCTTTTC
1 TTCTTTT-CTTTCTTTTCTTCTTATTTTC
*
619964 TTCTTTTCTGAT-TTTTC-TCTTATTTT-
1 TTCTTTTCT-TTCTTTTCTTCTTATTTTC
619990 TGTCTTTTCTTTCTTTT
1 T-TCTTTTCTTTCTTTT
620007 TGCACTCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 6 0.17
29 8 0.22
ACGTcount: A:0.04, C:0.18, G:0.03, T:0.75
Consensus pattern (28 bp):
TTCTTTTCTTTCTTTTCTTCTTATTTTC
Found at i:621418 original size:16 final size:16
Alignment explanation
Indices: 621397--621428 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
621387 TCTTCCACCA
621397 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
621413 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
621429 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:624409 original size:21 final size:22
Alignment explanation
Indices: 624385--624445 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 22
624375 GAAAAGGAAG
624385 ATGATTAATAAAGAAG-AAT-AA
1 ATGA-TAATAAAGAAGAAATGAA
624406 ATGAAATAATAAAGATAAGAAATGAA
1 ATG--ATAATAAAG--AAGAAATGAA
624432 ATGA-AATAAAGAAG
1 ATGATAATAAAGAAG
624446 GGATATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
21 6 0.18
22 8 0.24
23 8 0.24
24 4 0.12
25 3 0.09
26 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (22 bp):
ATGATAATAAAGAAGAAATGAA
Found at i:637111 original size:24 final size:23
Alignment explanation
Indices: 637084--637135 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
637074 AGCTGAGGAG
*
637084 TTGAGAAGACCAAAGCTAACTAGC
1 TTGAGAACACC-AAGCTAACTAGC
** *
637108 TTGAGTTCATCAAGCTAACTAGC
1 TTGAGAACACCAAGCTAACTAGC
637131 TTGAG
1 TTGAG
637136 TTCATCAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (23 bp):
TTGAGAACACCAAGCTAACTAGC
Found at i:637122 original size:23 final size:23
Alignment explanation
Indices: 637096--637147 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
637086 GAGAAGACCA
637096 AAGCTAACTAGCTTGAGTTCATC
1 AAGCTAACTAGCTTGAGTTCATC
637119 AAGCTAACTAGCTTGAGTTCATC
1 AAGCTAACTAGCTTGAGTTCATC
637142 AAGCTA
1 AAGCTA
637148 TAACTCACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (23 bp):
AAGCTAACTAGCTTGAGTTCATC
Found at i:638418 original size:19 final size:20
Alignment explanation
Indices: 638394--638436 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
638384 AGCATTTATC
*
638394 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
638413 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
638433 TTCA
1 TTCA
638437 AAGGGGTTTC
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:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:638869 original size:19 final size:20
Alignment explanation
Indices: 638845--638886 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
638835 TATCCTTTCT
638845 TTATTTC-ATTTCATTCTTA
1 TTATTTCTATTTCATTCTTA
* *
638864 TTATTTCTTTTTCATTTTTA
1 TTATTTCTATTTCATTCTTA
638884 TTA
1 TTA
638887 ATTCCATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTCTATTTCATTCTTA
Found at i:639165 original size:13 final size:12
Alignment explanation
Indices: 639128--639181 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
639118 GTGTAAAAAG
639128 AAAGAAAAAGACAA
1 AAAG-AAAAGA-AA
*
639142 AAAGAAGAGAAA
1 AAAGAAAAGAAA
*
639154 ATCAGAAAAGAAGA
1 A-AAGAAAAGAA-A
639168 AAAGAAAAGAAA
1 AAAGAAAAGAAA
639180 AA
1 AA
639182 GAATTCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 6 0.18
13 22 0.65
14 6 0.18
ACGTcount: A:0.76, C:0.04, G:0.19, T:0.02
Consensus pattern (12 bp):
AAAGAAAAGAAA
Found at i:643597 original size:30 final size:31
Alignment explanation
Indices: 643561--643620 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
643551 CTTAGCTTTA
**
643561 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
643591 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
643621 GGTAGCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:644940 original size:19 final size:21
Alignment explanation
Indices: 644916--644956 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
644906 TATCCTTTCT
644916 TTATTTC-ATTTCATT-CTTA
1 TTATTTCTATTTCATTACTTA
*
644935 TTATTTCTTTTTCATTACTTA
1 TTATTTCTATTTCATTACTTA
644956 T
1 T
644957 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATTTCTATTTCATTACTTA
Found at i:650003 original size:675 final size:675
Alignment explanation
Indices: 648713--650060 Score: 2430
Period size: 675 Copynumber: 2.0 Consensus size: 675
648703 TTAGCTTTGG
*
648713 TGATACATGCACCAGAGTCCAGAATACATGCTTCTTTGGACTAATGTTTCTACTCGAACCTATTA
1 TGATACATGCACCAGAGTCCAGAATACATGCTTCTTTGGACTAATGTTTCTACTCGAACCTAGTA
648778 GAAGAACAAAGTCTCGAAGATTCAAAGCATATCTACTCGGTAAGAATAATGTGAATGAATCATTA
66 GAAGAACAAAGTCTCGAAGATTCAAAGCATATCTACTCGGTAAGAATAATGTGAATGAATCATTA
648843 AACGATTCTAATGTTGCTCCCTATAATGTTTCAGATTCGAGGTCGAATCTTTTTGAAGAAAGGGA
131 AACGATTCTAATGTTGCTCCCTATAATGTTTCAGATTCGAGGTCGAATCTTTTTGAAGAAAGGGA
648908 GGATGATACATGCATCACAAGGCTCACATCAAAGGAAGAAGTAATAACTCTTCCAAATGATCCAC
196 GGATGATACATGCATCACAAGGCTCACATCAAAGGAAGAAGTAATAACTCTTCCAAATGATCCAC
* *
648973 TCGTCCAAGCATTGGAAAAGAAGACCAGAACAATAGCAGACTTGAGATGACTTTTTGAATGGGAT
261 TCGTCCAAGCATTGGAAAAGAAGACCAGAACAACAGCAGACTTGAGACGACTTTTTGAATGGGAT
* * *
649038 TCTGATCTTATTTGGTCAACATGTCTTCTATACATACAACCGTCTGTCTCTTATCTTTTCAACGG
326 CCTGATATTATTTGGTCAACATGTCTTCTAGACATACAACCGTCTGTCTCTTATCTTTTCAACGG
* * *
649103 TTCTTGAATCGCAACAATTCGATATCGGGAACTCAAGATATGACCATTTTACTGAAGATGGTGTA
391 TTCTTGAATCGCAACAATCCGATATCGGGAACTCAAGATATGACCATTTTACTGAAGACGGTGCA
649168 TGCAGGAAATCCTATACGGGATTAATACGTTATTTTGTAAATATTACGAATTTTCAATATTTATA
456 TGCAGGAAATCCTATACGGGATTAATACGTTATTTTGTAAATATTACGAATTTTCAATATTTATA
649233 TTGATTATTTGTAATATAATTTAATATAGGATGATTAATTATCTTTTAGGATCAGATTTATTATT
521 TTGATTATTTGTAATATAATTTAATATAGGATGATTAATTATCTTTTAGGATCAGATTTATTATT
649298 TTATTAGGAATTAAGGTTGGGTTAAAACAATATTTTTAGTTATTATTATTTTATTAGGAATTAGA
586 TTATTAGGAATTAAGGTTGGGTTAAAACAATATTTTTAGTTATTATTATTTTATTAGGAATTAGA
649363 GTTAAAACATGTTTAGTTTATTATT
651 GTTAAAACATGTTTAGTTTATTATT
*
649388 TGATACATGCACCAGAGTCCATAATACATGCTTCTTTGGACTAATGTTTCTACTCGAACCTAGTA
1 TGATACATGCACCAGAGTCCAGAATACATGCTTCTTTGGACTAATGTTTCTACTCGAACCTAGTA
* * *
649453 GAAGAACAAAGTCTCGAAGATTCAAAGCATATCTATTCGGTAAGCATAATGTGAATGAATTATTA
66 GAAGAACAAAGTCTCGAAGATTCAAAGCATATCTACTCGGTAAGAATAATGTGAATGAATCATTA
* *
649518 AACTATTCTAATGTTGCTCCCTTTAATGTTTCAGATTCGAGGTCGAATCTTTTTGAAGAAAGGGA
131 AACGATTCTAATGTTGCTCCCTATAATGTTTCAGATTCGAGGTCGAATCTTTTTGAAGAAAGGGA
*
649583 GGATGATACATGCATCACAAGGTTCACATCAAAGGAAGAAGTAATAACTCTTCCAAATGATCCAC
196 GGATGATACATGCATCACAAGGCTCACATCAAAGGAAGAAGTAATAACTCTTCCAAATGATCCAC
* * *
649648 TCGTCCAAGCTTTGGAAAAGAAGATCAGAACAGCAGC-GCACTTGAGACGACTTTTTGAATGGGA
261 TCGTCCAAGCATTGGAAAAGAAGACCAGAACAACAGCAG-ACTTGAGACGACTTTTTGAATGGGA
* * *
649712 TCCTGATATTATTTGGTCGACATGTCTTCTGGAGATACAACCGTCTGTCTCTTATC-TTTCTAAC
325 TCCTGATATTATTTGGTCAACATGTCTTCTAGACATACAACCGTCTGTCTCTTATCTTTTC-AAC
* **
649776 GGTTCTTGAATCGCATCAATCCGATATCGGGAACTCAAGATATGGTCATTTTACTGAAGACGGTG
389 GGTTCTTGAATCGCAACAATCCGATATCGGGAACTCAAGATATGACCATTTTACTGAAGACGGTG
649841 CATGCAGGAAATCCTATACGGGATTAATACGTTATTTTGTAAATATTACGAATTTTCAATATTTA
454 CATGCAGGAAATCCTATACGGGATTAATACGTTATTTTGTAAATATTACGAATTTTCAATATTTA
649906 TATTGATTATTTGTAATATAATTTAATATAGGATGATTAATTATCTTTTAGGATCAGATTTATTA
519 TATTGATTATTTGTAATATAATTTAATATAGGATGATTAATTATCTTTTAGGATCAGATTTATTA
649971 TTTTATTAGGAATTAAGGTTGGGTTAAAACAATATTTTTAGTTATTATTATTTTATTAGGAATTA
584 TTTTATTAGGAATTAAGGTTGGGTTAAAACAATATTTTTAGTTATTATTATTTTATTAGGAATTA
*
650036 GGGTTAAAACATGTTTAGTTTATTA
649 GAGTTAAAACATGTTTAGTTTATTA
650061 ATATTTTATT
Statistics
Matches: 645, Mismatches: 26, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
674 5 0.01
675 640 0.99
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (675 bp):
TGATACATGCACCAGAGTCCAGAATACATGCTTCTTTGGACTAATGTTTCTACTCGAACCTAGTA
GAAGAACAAAGTCTCGAAGATTCAAAGCATATCTACTCGGTAAGAATAATGTGAATGAATCATTA
AACGATTCTAATGTTGCTCCCTATAATGTTTCAGATTCGAGGTCGAATCTTTTTGAAGAAAGGGA
GGATGATACATGCATCACAAGGCTCACATCAAAGGAAGAAGTAATAACTCTTCCAAATGATCCAC
TCGTCCAAGCATTGGAAAAGAAGACCAGAACAACAGCAGACTTGAGACGACTTTTTGAATGGGAT
CCTGATATTATTTGGTCAACATGTCTTCTAGACATACAACCGTCTGTCTCTTATCTTTTCAACGG
TTCTTGAATCGCAACAATCCGATATCGGGAACTCAAGATATGACCATTTTACTGAAGACGGTGCA
TGCAGGAAATCCTATACGGGATTAATACGTTATTTTGTAAATATTACGAATTTTCAATATTTATA
TTGATTATTTGTAATATAATTTAATATAGGATGATTAATTATCTTTTAGGATCAGATTTATTATT
TTATTAGGAATTAAGGTTGGGTTAAAACAATATTTTTAGTTATTATTATTTTATTAGGAATTAGA
GTTAAAACATGTTTAGTTTATTATT
Found at i:650473 original size:15 final size:16
Alignment explanation
Indices: 650446--650482 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
650436 CTTTATTATC
650446 TTATTTCATCTTTCAT
1 TTATTTCATCTTTCAT
*
650462 TTATTT-ATCTTTTAT
1 TTATTTCATCTTTCAT
650477 TTATTT
1 TTATTT
650483 TATTCTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTTCAT
Found at i:650484 original size:16 final size:16
Alignment explanation
Indices: 650441--650485 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
650431 GATTTCTTTA
*
650441 TTATCTTATTTCATCTT
1 TTAT-TTATTTTATCTT
*
650458 TCATTTA-TTTATCTT
1 TTATTTATTTTATCTT
650473 TTATTTATTTTAT
1 TTATTTATTTTAT
650486 TCTTATCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 13 0.54
16 8 0.33
17 3 0.12
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATTTTATCTT
Found at i:650840 original size:11 final size:11
Alignment explanation
Indices: 650824--650880 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
650814 ATTTTTTTTC
650824 AAAAAAACAAA
1 AAAAAAACAAA
650835 AAAAAAAC--A
1 AAAAAAACAAA
**
650844 AAAAAGGCAAA
1 AAAAAAACAAA
*
650855 AAAAAAGGC-AA
1 AAAAAA-ACAAA
650866 AAAAAAACAAA
1 AAAAAAACAAA
650877 AAAA
1 AAAA
650881 GAGCCAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.18
10 1 0.03
11 28 0.74
12 2 0.05
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:650858 original size:12 final size:12
Alignment explanation
Indices: 650843--650891 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
650833 AAAAAAAAAC
650843 AAAAAAGGCAAA
1 AAAAAAGGCAAA
650855 AAAAAAGGCAAA
1 AAAAAAGGCAAA
650867 AAAAAA--CAAA
1 AAAAAAGGCAAA
* *
650877 AAAAGAGCCAAA
1 AAAAAAGGCAAA
650889 AAA
1 AAA
650892 GCCAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.26
12 25 0.74
ACGTcount: A:0.78, C:0.10, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAGGCAAA
Found at i:650890 original size:31 final size:30
Alignment explanation
Indices: 650824--650898 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
650814 ATTTTTTTTC
*
650824 AAAAAAA-CAAAAAAAAAACAAAAAAGGCAA
1 AAAAAAAGCCAAAAAAAAACAAAAAAGGC-A
*
650854 AAAAAAAGGCAAAAAAAAACAAAAAAAGAGC-
1 AAAAAAAGCCAAAAAAAAAC-AAAAAAG-GCA
*
650885 CAAAAAAGCCAAAA
1 AAAAAAAGCCAAAA
650899 TTTCAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 7 0.18
31 22 0.58
32 7 0.18
33 2 0.05
ACGTcount: A:0.79, C:0.12, G:0.09, T:0.00
Consensus pattern (30 bp):
AAAAAAAGCCAAAAAAAAACAAAAAAGGCA
Found at i:650897 original size:21 final size:22
Alignment explanation
Indices: 650823--650898 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
650813 TATTTTTTTT
*
650823 CAAAAAA-ACAAAAAAAAA--A
1 CAAAAAAGACAAAAAAAAAGGC
*
650842 CAAAAAAGGCAAAAAAAAAGGC
1 CAAAAAAGACAAAAAAAAAGGC
* * *
650864 AAAAAAAAACAAAAAAAGA-GC
1 CAAAAAAGACAAAAAAAAAGGC
*
650885 CAAAAAAGCCAAAA
1 CAAAAAAGACAAAA
650899 TTTCAAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 7 0.16
20 10 0.22
21 13 0.29
22 15 0.33
ACGTcount: A:0.78, C:0.13, G:0.09, T:0.00
Consensus pattern (22 bp):
CAAAAAAGACAAAAAAAAAGGC
Found at i:655993 original size:12 final size:12
Alignment explanation
Indices: 655976--656037 Score: 92
Period size: 11 Copynumber: 5.2 Consensus size: 12
655966 GCTATTTTTT
*
655976 AAAAAAAA-AAC
1 AAAAAAAACAAA
655987 AAAAAAAAC-AA
1 AAAAAAAACAAA
655998 AAAAAAAACAAAA
1 AAAAAAAAC-AAA
656011 AAAAAAAACAAA
1 AAAAAAAACAAA
656023 AAAAAAAACAAA
1 AAAAAAAACAAA
656035 AAA
1 AAA
656038 GCCAAAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
11 18 0.38
12 18 0.38
13 11 0.23
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:656001 original size:20 final size:19
Alignment explanation
Indices: 655976--656037 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
655966 GCTATTTTTT
655976 AAAAAAAAAACAAAAAAAA
1 AAAAAAAAAACAAAAAAAA
655995 CAAAAAAAAAACAAAAAAAA
1 -AAAAAAAAAACAAAAAAAA
656015 AAAACAAAAAA-AAAAACAAA
1 AAAA-AAAAAACAAAAA-AAA
656035 AAA
1 AAA
656038 GCCAAAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.22
20 31 0.77
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAA
Found at i:656054 original size:1 final size:1
Alignment explanation
Indices: 655976--656037 Score: 79
Period size: 1 Copynumber: 62.0 Consensus size: 1
655966 GCTATTTTTT
* * * * *
655976 AAAAAAAAAACAAAAAAAACAAAAAAAAAACAAAAAAAAAAAACAAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
656038 GCCAAAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:658162 original size:33 final size:33
Alignment explanation
Indices: 658120--658188 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
658110 GTTGATGAAT
*
658120 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
658153 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
658186 GAA
1 GAA
658189 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:658229 original size:36 final size:36
Alignment explanation
Indices: 658159--658260 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
658149 AATGGAAGGA
* * *
658159 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
*
658194 TGATGATATAGGCGTGATAATAGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
*
658230 TGATGATATAAGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
658261 AGATTGTATC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 16 0.27
36 44 0.73
ACGTcount: A:0.28, C:0.05, G:0.34, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:662568 original size:33 final size:33
Alignment explanation
Indices: 662526--662594 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
662516 ATTGATGAAT
*
662526 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
662559 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
662592 GAA
1 GAA
662595 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:662599 original size:13 final size:12
Alignment explanation
Indices: 662580--662665 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
662570 TTATTGGCGT
662580 GATATGGTGATG
1 GATATGGTGATG
662592 GAATATGGTGAT-
1 G-ATATGGTGATG
*
662604 GATATAGGCG-T-
1 GATAT-GGTGATG
662615 GATAATGGTGATG
1 GAT-ATGGTGATG
662628 GACTATGGTGAT-
1 GA-TATGGTGATG
*
662640 GATATAGGCG-T-
1 GATAT-GGTGATG
662651 GATAATGGTGATG
1 GAT-ATGGTGATG
662664 GA
1 GA
662666 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:662635 original size:36 final size:36
Alignment explanation
Indices: 662565--662666 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
662555 AATGGAAGGA
* * *
662565 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
662600 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
662636 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
662667 AGATTGTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 16 0.25
36 47 0.75
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:664235 original size:24 final size:21
Alignment explanation
Indices: 664200--664242 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
664190 GGCTCATTCT
*
664200 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
664223 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
664243 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:664822 original size:22 final size:22
Alignment explanation
Indices: 664814--664869 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
664804 TGAAGATGAT
664814 TAATAAAGAAGAATAAATGAAA
1 TAATAAAGAAGAATAAATGAAA
* *
664836 TAATAAAG-ATAAGAAATGAAA
1 TAATAAAGAAGAATAAATGAAA
664857 TGAAATAAAGAAG
1 T--AATAAAGAAG
664870 GGATAGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 12 0.43
22 8 0.29
23 7 0.25
24 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (22 bp):
TAATAAAGAAGAATAAATGAAA
Found at i:664833 original size:21 final size:22
Alignment explanation
Indices: 664801--664869 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 22
664791 AAAGATAAGA
664801 AAATGAAGATGATTAATAAAGAAG
1 AAATGAA-ATGA-TAATAAAGAAG
664825 -AAT-AAATGAAATAATAAAGATAAG
1 AAATGAAATG--ATAATAAAG--AAG
664849 AAATGAAATGA-AATAAAGAAG
1 AAATGAAATGATAATAAAGAAG
664870 GGATAGAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
21 6 0.15
22 10 0.26
23 11 0.28
24 4 0.10
25 3 0.08
26 5 0.13
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (22 bp):
AAATGAAATGATAATAAAGAAG
Found at i:666689 original size:19 final size:19
Alignment explanation
Indices: 666661--666699 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
666651 ATGATATAAT
*
666661 TAGCTTATGCCTTCAAACA
1 TAGCTCATGCCTTCAAACA
*
666680 TAGCTCATGCCTTCATACA
1 TAGCTCATGCCTTCAAACA
666699 T
1 T
666700 GGCAGCAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (19 bp):
TAGCTCATGCCTTCAAACA
Found at i:667868 original size:16 final size:16
Alignment explanation
Indices: 667835--667883 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
667825 TAAGGTAAAG
667835 GAATAAGAATAGATGAAA
1 GAATAAGAA-A-ATGAAA
667853 GAATAAGAAAATGAAA
1 GAATAAGAAAATGAAA
* * *
667869 TAGTAAGAAAGTGAA
1 GAATAAGAAAATGAA
667884 GATAACTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.16
Consensus pattern (16 bp):
GAATAAGAAAATGAAA
Found at i:673681 original size:15 final size:15
Alignment explanation
Indices: 673646--673674 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
673636 GTGCTTCAAC
673646 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
673660 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
673675 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:675547 original size:13 final size:13
Alignment explanation
Indices: 675529--675567 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
675519 TGTAGGAGTC
675529 TTTTCTTTTTGTT
1 TTTTCTTTTTGTT
*
675542 TTTTCTTCTTT-CT
1 TTTTCTT-TTTGTT
675555 TTTTCTTTTTGTT
1 TTTTCTTTTTGTT
675568 GCTTTTGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTGTT
Found at i:676360 original size:22 final size:21
Alignment explanation
Indices: 676326--676369 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
676316 GGCTACGGAA
* *
676326 TTGATGGTCTTGATAGATGAAG
1 TTGATGATCTTGAT-GATAAAG
*
676348 TTGATGATGTTGATGATAAAG
1 TTGATGATCTTGATGATAAAG
676369 T
1 T
676370 GGAGATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.39
Consensus pattern (21 bp):
TTGATGATCTTGATGATAAAG
Found at i:676763 original size:19 final size:20
Alignment explanation
Indices: 676722--676772 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
676712 GAAACCCCTT
*
676722 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
676742 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
676761 TGAAGATACATG
1 TGAAAATACATG
676773 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:681293 original size:15 final size:15
Alignment explanation
Indices: 681282--681310 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
681272 ACTCAAAAAG
681282 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
681297 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
681311 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:687345 original size:23 final size:25
Alignment explanation
Indices: 687292--687345 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
687282 CTTTTTGAAC
* *
687292 TTCTTTTTCTTTTCTTTTTTTCTGA
1 TTCTTTTTCTCTTCTTTTTGTCTGA
*
687317 AT-TTTTTC-CTTCTTTTTGTCT-A
1 TTCTTTTTCTCTTCTTTTTGTCTGA
687339 TTCTTTT
1 TTCTTTT
687346 CTTTTTGCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 15 0.62
24 6 0.25
25 1 0.04
ACGTcount: A:0.06, C:0.17, G:0.04, T:0.74
Consensus pattern (25 bp):
TTCTTTTTCTCTTCTTTTTGTCTGA
Found at i:687691 original size:22 final size:21
Alignment explanation
Indices: 687665--687708 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
687655 GGTTACGGAA
*
687665 TTGATGGTCTTGATGGATGAAG
1 TTGATGATCTTGAT-GATGAAG
*
687687 TTGATGATGTTGATGATGAAG
1 TTGATGATCTTGATGATGAAG
687708 T
1 T
687709 GGAGATGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.25, C:0.02, G:0.34, T:0.39
Consensus pattern (21 bp):
TTGATGATCTTGATGATGAAG
Found at i:688102 original size:19 final size:20
Alignment explanation
Indices: 688061--688111 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
688051 GAAACCCCTT
*
688061 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
688081 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
688100 TGAAGATACATG
1 TGAAAATACATG
688112 CTCTTGGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:689049 original size:30 final size:31
Alignment explanation
Indices: 689010--689069 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
689000 ACATGCTGCC
* **
689010 ATGATATCTATATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
689041 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
689070 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:692833 original size:5 final size:5
Alignment explanation
Indices: 692820--692862 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
692810 TTCCAGCACT
* *
692820 AAAAA AAAAG AAAAG CAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
692863 GAAGTTAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:710476 original size:23 final size:24
Alignment explanation
Indices: 710448--710501 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
710438 AAATTCAGCA
*
710448 AAGAAAATCAAAGCACTCAAAA-G
1 AAGAAAATCAAAGCACCCAAAAGG
* *
710471 AAGAAATTTAAAGCACCCAAAATGG
1 AAGAAAATCAAAGCACCCAAAA-GG
710496 AAGAAA
1 AAGAAA
710502 GAGAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 19 0.73
25 7 0.27
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (24 bp):
AAGAAAATCAAAGCACCCAAAAGG
Found at i:712839 original size:6 final size:6
Alignment explanation
Indices: 712825--712859 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
712815 TGTAGGAGTC
*
712825 TTTTCT TTTTAT TTTTCT TCTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTT
712860 GTTGCTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:712854 original size:13 final size:12
Alignment explanation
Indices: 712825--712859 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
712815 TGTAGGAGTC
712825 TTTTCTTTTTAT
1 TTTTCTTTTTAT
*
712837 TTTTCTTCTTTCT
1 TTTTCTT-TTTAT
712850 TTTTCTTTTT
1 TTTTCTTTTT
712860 GTTGCTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTAT
Found at i:717506 original size:16 final size:16
Alignment explanation
Indices: 717467--717507 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
717457 TAAGAAATTA
717467 AAAGTGAATGAAATTGG
1 AAAG-GAATGAAATTGG
717484 AAA-GAATAGAAA-TGG
1 AAAGGAAT-GAAATTGG
717499 AAAGGAATG
1 AAAGGAATG
717508 TTATCAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.50
16 8 0.36
17 3 0.14
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (16 bp):
AAAGGAATGAAATTGG
Found at i:724018 original size:193 final size:193
Alignment explanation
Indices: 723608--723991 Score: 644
Period size: 193 Copynumber: 2.0 Consensus size: 193
723598 ATTATATTAC
* *
723608 AAATAATCAATATAAATATTAAAAATTCGTAATATTTACAAAATCACGTATTAATCCCGTATAGG
1 AAATAATCAATATAAATATTGAAAATTCGTAATATTTACAAAATCACGTATTAATCCAGTATAGG
* *
723673 ATTTTCTGCATGCACCGTCTTCAGTAAAATGGTCATATATTGAGTTCCTAATATCAGATTGATGT
66 ATTTTCTGCATGCACCATCTTCAGTAAAATGGTCATATATTGAGTTCCTAATATCAGATTGATGC
*
723738 AATTAAATAACCGTTAAAAACATAAGAGACATACGGTTGTATCTCTAGAAGACATGTTGACAA
131 AATTAAATAACCGTTAAAAACATAAGAGACAGACGGTTGTATCTCTAGAAGACATGTTGACAA
*
723801 AAATAATCAATATAAATATTGAAAATTCGTAATATTTACAAAATCACGTATTAATCTAGTATAGG
1 AAATAATCAATATAAATATTGAAAATTCGTAATATTTACAAAATCACGTATTAATCCAGTATAGG
* **
723866 ATTTTTTGCATGCACCATCTTCAGTAAAATGGTCATATATTGAGTTACC-AATATTGGATTGATG
66 ATTTTCTGCATGCACCATCTTCAGTAAAATGGTCATATATTGAGTT-CCTAATATCAGATTGATG
** *
723930 CAATTAAATAATTGTTAAAAACATAAGAGACAGACGGTTGTATCTTTAGAAGACATGTTGAC
130 CAATTAAATAACCGTTAAAAACATAAGAGACAGACGGTTGTATCTCTAGAAGACATGTTGAC
723992 CAAATAAGAT
Statistics
Matches: 178, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
193 176 0.99
194 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (193 bp):
AAATAATCAATATAAATATTGAAAATTCGTAATATTTACAAAATCACGTATTAATCCAGTATAGG
ATTTTCTGCATGCACCATCTTCAGTAAAATGGTCATATATTGAGTTCCTAATATCAGATTGATGC
AATTAAATAACCGTTAAAAACATAAGAGACAGACGGTTGTATCTCTAGAAGACATGTTGACAA
Found at i:724946 original size:35 final size:36
Alignment explanation
Indices: 724903--724986 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 36
724893 TGGTTAAGGA
724903 ATGGTGATGATATAAGCAT-TA-AATGGTGATAGAAG
1 ATGGTGATGATATAAG-ATGTACAATGGTGATAGAAG
* *
724938 ATGGTGATGATAT-AGGTGTACAATGGTGATGGAAG
1 ATGGTGATGATATAAGATGTACAATGGTGATAGAAG
* *
724973 ATAGTGATGTTATA
1 ATGGTGATGATATA
724987 GGCGTGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 1 0.02
34 4 0.10
35 37 0.88
ACGTcount: A:0.36, C:0.02, G:0.31, T:0.31
Consensus pattern (36 bp):
ATGGTGATGATATAAGATGTACAATGGTGATAGAAG
Found at i:724987 original size:35 final size:36
Alignment explanation
Indices: 724923--725018 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 36
724913 TATAAGCATT
* * * *
724923 AAATGGTGATAGAAGATGGTGATGATATAGGTGT-A
1 AAATGGTGATGGAAGATAGTGATGTTATAGGCGTGA
*
724958 CAATGGTGATGGAAGATAGTGATGTTATAGGCGTGA
1 AAATGGTGATGGAAGATAGTGATGTTATAGGCGTGA
* *
724994 AAATAGTGATGGAATATAGTGATGT
1 AAATGGTGATGGAAGATAGTGATGT
725019 GATCCTACCG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 29 0.56
36 23 0.44
ACGTcount: A:0.35, C:0.02, G:0.33, T:0.29
Consensus pattern (36 bp):
AAATGGTGATGGAAGATAGTGATGTTATAGGCGTGA
Found at i:725307 original size:16 final size:16
Alignment explanation
Indices: 725286--725317 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
725276 TAGTTAGCTC
725286 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
725302 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
725318 TGGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:728642 original size:35 final size:35
Alignment explanation
Indices: 728594--728707 Score: 149
Period size: 35 Copynumber: 3.2 Consensus size: 35
728584 TGGTTAAGGA
* * *
728594 ATGGTAATGATATAGGCGTGAAATGGTGATAGAAG
1 ATGGTGATTATATAGGCGTGAAATGGTGATGGAAG
*
728629 ATGGTGATTATATAGGCGTGCAATGGTGATGGAAG
1 ATGGTGATTATATAGGCGTGAAATGGTGATGGAAG
* *
728664 ATGGTGATGT-TTTAGGCGTGAAAATGGTGATGGAAA
1 ATGGTGAT-TATATAGGCGTG-AAATGGTGATGGAAG
728700 ATGGTGAT
1 ATGGTGAT
728708 GAACATATAG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
35 48 0.69
36 22 0.31
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.29
Consensus pattern (35 bp):
ATGGTGATTATATAGGCGTGAAATGGTGATGGAAG
Found at i:728701 original size:13 final size:13
Alignment explanation
Indices: 728683--728708 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
728673 TTTTAGGCGT
728683 GAAAATGGTGATG
1 GAAAATGGTGATG
728696 GAAAATGGTGATG
1 GAAAATGGTGATG
728709 AACATATAGT
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:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (13 bp):
GAAAATGGTGATG
Found at i:730987 original size:15 final size:15
Alignment explanation
Indices: 730956--730997 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
730946 GGATAATTAA
730956 GAAAGGAAATAGAAATG
1 GAAA-GAAAT-GAAATG
730973 GAAAGAAATGAAATG
1 GAAAGAAATGAAATG
730988 GAAAGAAATG
1 GAAAGAAATG
730998 TTATCAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 16 0.64
16 5 0.20
17 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.12
Consensus pattern (15 bp):
GAAAGAAATGAAATG
Found at i:731234 original size:36 final size:35
Alignment explanation
Indices: 731144--731250 Score: 142
Period size: 35 Copynumber: 3.0 Consensus size: 35
731134 ATTGGTGGTT
* * *
731144 ATATAGGCGTGAAATGGTGATAGAAGTTGGTGATG
1 ATATAGGCGTGAAATGGTGATGGAAGATGGTAATG
* *
731179 ATATAGGCATGCAATGGTGATGGAAGATGGTAATG
1 ATATAGGCGTGAAATGGTGATGGAAGATGGTAATG
* *
731214 TTATAGGCGTGAAAATGGTGATGGAAGATGGTGATG
1 ATATAGGCGTG-AAATGGTGATGGAAGATGGTAATG
731250 A
1 A
731251 ACAGATAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 39 0.64
36 22 0.36
ACGTcount: A:0.33, C:0.04, G:0.36, T:0.27
Consensus pattern (35 bp):
ATATAGGCGTGAAATGGTGATGGAAGATGGTAATG
Found at i:733085 original size:36 final size:35
Alignment explanation
Indices: 733012--733116 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 35
733002 ATTTATAAGT
* *
733012 TGGTGATAATATAGGCGTGATATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATATGGTGATGGACTA
733047 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGAT-ATGGTGATGGACTA
*
733083 TGGCGATGATATAGGCGTGATGATGGTGATGGAC
1 TGGTGATGATATAGGCGTGAT-ATGGTGATGGAC
733117 AGATTGTATC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 20 0.31
36 45 0.69
ACGTcount: A:0.28, C:0.06, G:0.37, T:0.30
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATATGGTGATGGACTA
Found at i:737014 original size:36 final size:35
Alignment explanation
Indices: 736944--737041 Score: 151
Period size: 36 Copynumber: 2.7 Consensus size: 35
736934 TATAAGTTGA
*
736944 TGATAATATAGGCGTGATATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATATGGTGATGGAATATGG
*
736979 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGAT-ATGGTGATGGAATATGG
*
737015 CGATGATATAGGCGTGATGATGGTGAT
1 TGATGATATAGGCGTGAT-ATGGTGAT
737042 TGACAGATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 17 0.29
36 41 0.71
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.31
Consensus pattern (35 bp):
TGATGATATAGGCGTGATATGGTGATGGAATATGG
Found at i:742258 original size:7 final size:6
Alignment explanation
Indices: 742213--742255 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
742203 GATGTAGGAG
742213 TCTTTT TC-TTT TCTTTT TCTTTT TCTTTT TCTTCTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT T
742256 TCTCTTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.14
6 24 0.69
7 6 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:742683 original size:35 final size:35
Alignment explanation
Indices: 742644--742779 Score: 191
Period size: 35 Copynumber: 3.9 Consensus size: 35
742634 TGGTAAGGGA
* *
742644 TTGGTGGTTATATAGGCGTGAAATGGTGATAGAAG
1 TTGGTGATGATATAGGCGTGAAATGGTGATAGAAG
*
742679 TTGGTGATGATATAGGCGTGCAATGGTGATAGAAG
1 TTGGTGATGATATAGGCGTGAAATGGTGATAGAAG
* *
742714 TTGGTGATGATATAGGCGTGCAATGGTGATGGAAG
1 TTGGTGATGATATAGGCGTGAAATGGTGATAGAAG
* * *
742749 ATGGTGATGTTATAGGTGTGAAAATGGTGAT
1 TTGGTGATGATATAGGCGTG-AAATGGTGAT
742780 GAACAAATAG
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
35 83 0.90
36 9 0.10
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (35 bp):
TTGGTGATGATATAGGCGTGAAATGGTGATAGAAG
Found at i:746019 original size:11 final size:12
Alignment explanation
Indices: 746002--746047 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
745992 TTTATTTGCA
746002 ATTCTTTATCTT
1 ATTCTTTATCTT
746014 -TTCTTTATCTT
1 ATTCTTTATCTT
* *
746025 GTT-TTAATCTT
1 ATTCTTTATCTT
*
746036 ATTTTTTATCTT
1 ATTCTTTATCTT
746048 GTTTCCAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.70
Consensus pattern (12 bp):
ATTCTTTATCTT
Found at i:746046 original size:23 final size:22
Alignment explanation
Indices: 746009--746051 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
745999 GCAATTCTTT
746009 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
*
746031 ATCTTATTTTTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
746052 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:747467 original size:19 final size:20
Alignment explanation
Indices: 747425--747473 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
747415 GAAACCCCTT
* *
747425 TGAAAATACTTGATTTTTTGA
1 TGAAAATACATGA-TTTTTAA
747446 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
747465 TGAAGATAC
1 TGAAAATAC
747474 GTGCTCTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 13 0.52
21 12 0.48
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:748406 original size:30 final size:31
Alignment explanation
Indices: 748366--748425 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
748356 ACATGCTGCC
**
748366 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
748397 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
748426 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:750867 original size:8 final size:8
Alignment explanation
Indices: 750837--750888 Score: 70
Period size: 8 Copynumber: 6.2 Consensus size: 8
750827 TCTTTTTGAA
750837 CTTCTCTTT
1 CTTCT-TTT
750846 -TTCTTTT
1 CTTCTTTT
750853 CTTTTCTTTT
1 C--TTCTTTT
750863 CTTCTTTT
1 CTTCTTTT
750871 CTTCTTTT
1 CTTCTTTT
750879 CTTCTTTT
1 CTTCTTTT
750887 CT
1 CT
750889 GATTTTTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.08
8 29 0.73
10 8 0.20
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
CTTCTTTT
Found at i:750888 original size:5 final size:5
Alignment explanation
Indices: 750844--750881 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
750834 GAACTTCTCT
750844 TTTTC TTTTC TTTTC TTTTC TTCTT- TTCTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC TT
750882 CTTTTCTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:750888 original size:13 final size:13
Alignment explanation
Indices: 750846--750881 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
750836 ACTTCTCTTT
750846 TTCTTTTCTTTTC
1 TTCTTTTCTTTTC
750859 TT-TTCTTCTTTTC
1 TTCTT-TTCTTTTC
750872 TTCTTTTCTT
1 TTCTTTTCTT
750882 CTTTTCTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.10
13 17 0.81
14 2 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTTCTTTTC
Found at i:750894 original size:16 final size:16
Alignment explanation
Indices: 750859--750894 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
750849 TTTTCTTTTC
**
750859 TTTTCTTCTTTTCTTC
1 TTTTCTTCTTTTCTGA
750875 TTTTCTTCTTTTCTGA
1 TTTTCTTCTTTTCTGA
750891 TTTT
1 TTTT
750895 TCTCTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTCTTCTTTTCTGA
Found at i:751343 original size:19 final size:20
Alignment explanation
Indices: 751301--751352 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
751291 GAAACCCCTT
* *
751301 TGAAAATACTTGATTTTTTGA
1 TGAAAATACATGA-TTTTTAA
751322 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
751341 TGAAGATACATG
1 TGAAAATACATG
751353 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:757276 original size:23 final size:22
Alignment explanation
Indices: 757237--757284 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
757227 TATTTGCAAT
*
757237 TTTTTATCTTTTCTTTATCTTG
1 TTTTAATCTTTTCTTTATCTTG
*
757259 TTTTAATCTTATTTTTTATCTTG
1 TTTTAATCTT-TTCTTTATCTTG
757282 TTT
1 TTT
757285 CCAGCACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTAATCTTTTCTTTATCTTG
Found at i:760330 original size:36 final size:36
Alignment explanation
Indices: 760256--760357 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
760246 AATGGAAGGA
* * *
760256 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATAG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATAG
*
760291 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATAG
*
760327 TGATGATATAGGCATGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
760358 AGATTGTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 16 0.26
36 45 0.74
ACGTcount: A:0.28, C:0.05, G:0.34, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATAG
Found at i:764679 original size:33 final size:33
Alignment explanation
Indices: 764637--764705 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
764627 GTTGATGAAT
764637 GAAGGATGAT-TTAATGGAGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGAG-TGAAATGGTAATG
* * * *
764670 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGAGTGAAATGGTAATG
764703 GAA
1 GAA
764706 TATAGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.29
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGAGTGAAATGGTAATG
Found at i:764750 original size:36 final size:37
Alignment explanation
Indices: 764676--764781 Score: 155
Period size: 36 Copynumber: 2.9 Consensus size: 37
764666 AATGGAAGGA
* *
764676 TGATGTTATTGGCGTGAT-ATGGTGATGGA-ATATAG
1 TGATGATATAGGCGTGATAATGGTGATGGACATATAG
*
764711 TGATGATATAGGCGTGATAATGGTGATGGACA-ATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACATATAG
*
764747 TGATGATATAGGTGTGATAATGGTGATGGACATAT
1 TGATGATATAGGCGTGATAATGGTGATGGACATAT
764782 TGTATCTTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
35 16 0.25
36 45 0.70
37 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.34, T:0.33
Consensus pattern (37 bp):
TGATGATATAGGCGTGATAATGGTGATGGACATATAG
Found at i:769220 original size:138 final size:139
Alignment explanation
Indices: 769054--769399 Score: 436
Period size: 139 Copynumber: 2.5 Consensus size: 139
769044 GACTAAACCC
* * * *
769054 AAAATGTAGGCTCTAA-TATTAAAACCTAATAAATTTTAGCAAATTATTAAATCGACTAATT-AA
1 AAAATGAAGGCTCTAATTATT-AATCCTAATAAATTTTAACAAATTATTAAATCGAATAATTAAA
* *
769117 ATGGAACCTTGGGCATAAAAGCAATGACCCAACCAAAAATTCTCCTAAATTAAAGAAATAAAGTG
65 ATGGAACCTTGGGCATAAAAGCAACGACCAAACCAAAAATTCTCCTAAATTAAAGAAATAAAGTG
769182 AAATTAAACT
130 AAATTAAACT
* * ** *
769192 AAAATGAAGACTCTAATTATTAATCCTAA-ACAATTTTATCAAATTAGCAGATCGAATAATTAAA
1 AAAATGAAGGCTCTAATTATTAATCCTAATA-AATTTTAACAAATTATTAAATCGAATAATTAAA
* * ** * *
769256 ATAGAACCTTGGGCATAAAAGCAACGATCAAATTAAAAATTCTCCTAAATTAAAGGACTAAAGTG
65 ATGGAACCTTGGGCATAAAAGCAACGACCAAACCAAAAATTCTCCTAAATTAAAGAAATAAAGTG
769321 AAATTAAACT
130 AAATTAAACT
* * * *
769331 -AAATTAAGGCTCTAATTATTAAT-C--GTCAATTTTAACAAATTATTGAATCGAATAATTAAAA
1 AAAATGAAGGCTCTAATTATTAATCCTAATAAATTTTAACAAATTATTAAATCGAATAATTAAAA
769392 TGGAACCT
66 TGGAACCT
769400 CAAGCATAAA
Statistics
Matches: 178, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
135 36 0.20
137 2 0.01
138 67 0.38
139 73 0.41
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.29
Consensus pattern (139 bp):
AAAATGAAGGCTCTAATTATTAATCCTAATAAATTTTAACAAATTATTAAATCGAATAATTAAAA
TGGAACCTTGGGCATAAAAGCAACGACCAAACCAAAAATTCTCCTAAATTAAAGAAATAAAGTGA
AATTAAACT
Found at i:769420 original size:135 final size:136
Alignment explanation
Indices: 769151--769444 Score: 364
Period size: 135 Copynumber: 2.1 Consensus size: 136
769141 TGACCCAACC
769151 AAAAATTCTCCTAAATTAAAGAAATAAAGTGAAATTAAACTAAAATGAAGACTCTAATTATTAAT
1 AAAAATTCTCCTAAATTAAAGAAATAAAGTGAAATTAAACTAAAATGAAGACTCTAATTATTAAT
* ***
769216 CCTAAACAATTTTATCAAATTAGCAGATCGAATAATTAAAATAGAACCTTGGGCATAAAAGCAAC
66 CCT--ACAATTTTAACAAATTAGCAGATCGAATAATTAAAATAGAACCTCAAGCATAAAAG-AAC
*
769281 GATCAAATT
128 GATCAAATA
* * * *
769290 AAAAATTCTCCTAAATTAAAGGACTAAAGTGAAATTAAACT-AAATTAAGGCTCTAATTATTAAT
1 AAAAATTCTCCTAAATTAAAGAAATAAAGTGAAATTAAACTAAAATGAAGACTCTAATTATTAAT
* *
769354 CGT-CAATTTTAACAAATTATTG-A-ATCGAATAATTAAAATGGAACCTCAAGCATAAATATG-A
66 CCTACAATTTTAACAAATTA--GCAGATCGAATAATTAAAATAGAACCTCAAGCATAAA-A-GAA
*
769415 GGATCAAATA
127 CGATCAAATA
* *
769425 AAAAAATCACCTAAATTAAA
1 AAAAATTCTCCTAAATTAAA
769445 AAGGTTAGGG
Statistics
Matches: 137, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
135 71 0.52
136 2 0.01
137 2 0.01
138 23 0.17
139 39 0.28
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.28
Consensus pattern (136 bp):
AAAAATTCTCCTAAATTAAAGAAATAAAGTGAAATTAAACTAAAATGAAGACTCTAATTATTAAT
CCTACAATTTTAACAAATTAGCAGATCGAATAATTAAAATAGAACCTCAAGCATAAAAGAACGAT
CAAATA
Found at i:771130 original size:29 final size:29
Alignment explanation
Indices: 771088--771144 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
771078 AGTGTTGGCC
771088 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
*
771117 GTAGGTCGTCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
771145 ACCCTTGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.33, G:0.32, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:771248 original size:29 final size:29
Alignment explanation
Indices: 771215--771270 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
771205 TCCCAACACA
771215 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
771244 TAGGTCGCCATGCCCTCCGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
771271 ACCCTCGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.11, C:0.39, G:0.30, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:771311 original size:33 final size:33
Alignment explanation
Indices: 771274--771341 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
771264 GCGACCTACC
*
771274 CTCGCTCTGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTC-GCTTGCCCTCGGATGCCCTCGCATAG
*
771307 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGCTTGCCCTCGGATGCCCTCGCATAG
771340 CT
1 CT
771342 AGTTCGGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.09, C:0.41, G:0.22, T:0.28
Consensus pattern (33 bp):
CTCGCTCGCTTGCCCTCGGATGCCCTCGCATAG
Found at i:771330 original size:10 final size:10
Alignment explanation
Indices: 771286--771378 Score: 51
Period size: 10 Copynumber: 8.7 Consensus size: 10
771276 CGCTCTGCTT
*
771286 CCCTCGGATT
1 CCCTCGGATG
*
771296 CCCTCGCATAG
1 CCCTCGGAT-G
*
771307 CTCGCTCGGTTG
1 C-C-CTCGGATG
771319 CCCTCGGATG
1 CCCTCGGATG
*
771329 CCCTCGCATAG
1 CCCTCGGAT-G
**
771340 CTAGTTCGGATG
1 C--CCTCGGATG
*
771352 GCCTCGGATG
1 CCCTCGGATG
*
771362 CTCTCGGATG
1 CCCTCGGATG
*
771372 GCCTCGG
1 CCCTCGG
771379 TCGGATGGCC
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
10 43 0.70
11 4 0.07
12 4 0.07
13 10 0.16
ACGTcount: A:0.11, C:0.35, G:0.29, T:0.25
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:771357 original size:33 final size:33
Alignment explanation
Indices: 771287--771391 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
771277 GCTCTGCTTC
* * *
771287 CCTCGGATTCCCTCGCATAGCTCGCTCGGTTGC
1 CCTCGGATGCCCTCGCATAGCTCGCTCGGATGG
* *
771320 CCTCGGATGCCCTCGCATAGCTAGTTCGGATGG
1 CCTCGGATGCCCTCGCATAGCTCGCTCGGATGG
* * * *
771353 CCTCGGATGCTCTCGGATGGCCTCGGTCGGATGG
1 CCTCGGATGCCCTCGCATAG-CTCGCTCGGATGG
771387 CCTCG
1 CCTCG
771392 AACCGGGAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 45 0.74
34 16 0.26
ACGTcount: A:0.10, C:0.34, G:0.30, T:0.25
Consensus pattern (33 bp):
CCTCGGATGCCCTCGCATAGCTCGCTCGGATGG
Found at i:771384 original size:14 final size:14
Alignment explanation
Indices: 771365--771391 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
771355 TCGGATGCTC
771365 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
771379 TCGGATGGCCTCG
1 TCGGATGGCCTCG
771392 AACCGGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.41, T:0.22
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:783894 original size:140 final size:139
Alignment explanation
Indices: 783524--784084 Score: 551
Period size: 138 Copynumber: 4.0 Consensus size: 139
783514 GTTTTAGGTG
* * *
783524 AATTTGGAGACAACGCGGTTCCTACGTGATGAGAAAATCTGG-TATCTAAAGGGCGACACTGCTC
1 AATTTGGAGACAACACGGTTCCTACGTGATGAGGAAATCTGGTTATCT-AAGGGTGACACTGCTC
* * * * *
783588 CTACGTGATGAGGAGATCTGGTCATTGGATGACATTGTTTCTACATGATGAGGACGTCTGGCCAT
65 CTACGTGATAAGGAGATCTGGTCAGTGGATGACACTGTTCCTACATGATGAGGACATCTGGCCAT
783653 CTTTAGGGAT
130 CTTTAGGGAT
* * * ** * * *
783663 AA-ATGGAGATAACATGGTTCCTACGCAATGA-GAAAGTCTGGCTATCTAAGGATGACCCTGCTC
1 AATTTGGAGACAACACGGTTCCTACGTGATGAGGAAA-TCTGGTTATCTAAGGGTGACACTGCTC
* * * *
783726 CTACGTGATGAA-GATATATGGT-ATGTGGATGACACTGTTCCTACATGATGACGACATCTAGCC
65 CTACGTGAT-AAGGAGATCTGGTCA-GTGGATGACACTGTTCCTACATGATGAGGACATCTGGCC
*
783789 ATCGTTAGGGAT
128 ATCTTTAGGGAT
** * * *
783801 AATTTGAGAGACAACACTATTCCTATGTGATGAGGAAATATGGTTATCTAAGGGTGACACTACTC
1 AATTTG-GAGACAACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACACTGCTC
* * * * * *
783866 CTATGTGATAAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATAAGGACATCTGGTCAT
65 CTACGTGATAAGGAGATCTGGTCAGTGGATGACACTGTTCCTACATGATGAGGACATCTGGCCAT
783931 CTTTAGGGAT
130 CTTTAGGGAT
* * * * ** ** * * *
783941 AAATT-GAGATAACACGGTTCCTACGTGATGAGGAAGTCTGGTTATATGTGAATGACGCGGCTCT
1 AATTTGGAGACAACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACACTGCTCC
* * * * ** * **
784005 TACGTGATGAGGAGATCTGGTCGGTGGATGGCA-TCATTATTACGTGATGAGGATGTCTGGCCAT
66 TACGTGATAAGGAGATCTGGTCAGTGGATGACACT-GTTCCTACATGATGAGGACATCTGGCCAT
784069 CTTTAGGGAT
130 CTTTAGGGAT
784079 AATTTG
1 AATTTG
784085 TTTCAAGAGA
Statistics
Matches: 339, Mismatches: 72, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
137 5 0.01
138 213 0.63
139 12 0.04
140 105 0.31
141 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (139 bp):
AATTTGGAGACAACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACACTGCTCC
TACGTGATAAGGAGATCTGGTCAGTGGATGACACTGTTCCTACATGATGAGGACATCTGGCCATC
TTTAGGGAT
Found at i:784077 original size:278 final size:277
Alignment explanation
Indices: 783492--784084 Score: 665
Period size: 278 Copynumber: 2.1 Consensus size: 277
783482 ACACTGCTCA
* * * *
783492 TACGTGATGAAGAGGTCTGGCCGT-TTTA-GG-TGAATTTGGAGACAACGCGGTTCCTACGTGAT
1 TACGTGATGAAGACGTCTGGCCATCTTTAGGGAT-AATTTGGAGACAACACGATTCCTACGTGAT
* * * * *
783554 GAGAAAATCTGGTATCTAAAGGGCGACACTGCTCCTACGTGATGAGGAGATCTGGTCATTGGATG
65 GAGAAAATATGGTATCTAAAGGGCGACACTACTCCTACGTGATAAGGAGATCTGATCAGTGGATG
* * * * *
783619 ACATTGTTTCTACATGATGAGGACGTCTGGCCATCTTTAGGGATAAATGGAGATAACATGGTTCC
130 ACACTGTTCCTACATGATAAGGACATCTGGCCATCTTTAGGGATAAATGGAGATAACACGGTTCC
* * * *
783684 TACGCAATGAGAAAGTCTGGCTATCTAAGGATGACCCTGCTCCTACGTGATGAAGATATATGGTA
195 TACGCAATGAGAAAGTCTGGCTATATAAGAATGACCCGGCTCCTACGTGATGAAGAGATATGGTA
* * *
783749 TGTGGATGACACTGTTCC
260 GGTGGATGACACTATTAC
* * * * * * *
783767 TACATGATGACGACATCTAGCCATCGTTAGGGATAATTTGAGAGACAACACTATTCCTATGTGAT
1 TACGTGATGAAGACGTCTGGCCATCTTTAGGGATAATTTG-GAGACAACACGATTCCTACGTGAT
* * * *
783832 GAGGAAATATGGTTATCT-AAGGGTGACACTACTCCTATGTGATAAGGAGATCTGATCGGTGGAT
65 GAGAAAATATGG-TATCTAAAGGGCGACACTACTCCTACGTGATAAGGAGATCTGATCAGTGGAT
* * *
783896 GACACTGTTCCTACGTGATAAGGACATCTGGTCATCTTTAGGGATAAATTGAGATAACACGGTTC
129 GACACTGTTCCTACATGATAAGGACATCTGGCCATCTTTAGGGATAAATGGAGATAACACGGTTC
** * * ** * * * *
783961 CTACGTGATGAGGAAGTCTGGTTATATGTGAATGACGCGGCTCTTACGTGATGAGGAGATCTGGT
194 CTACGCAATGAGAAAGTCTGGCTATATAAGAATGACCCGGCTCCTACGTGATGAAGAGATATGGT
* * *
784026 CGGTGGATGGCA-TCATTAT
259 AGGTGGATGACACT-ATTAC
* *
784045 TACGTGATGAGGATGTCTGGCCATCTTTAGGGATAATTTG
1 TACGTGATGAAGACGTCTGGCCATCTTTAGGGATAATTTG
784085 TTTCAAGAGA
Statistics
Matches: 258, Mismatches: 54, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
275 18 0.07
276 3 0.01
277 9 0.03
278 223 0.86
279 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (277 bp):
TACGTGATGAAGACGTCTGGCCATCTTTAGGGATAATTTGGAGACAACACGATTCCTACGTGATG
AGAAAATATGGTATCTAAAGGGCGACACTACTCCTACGTGATAAGGAGATCTGATCAGTGGATGA
CACTGTTCCTACATGATAAGGACATCTGGCCATCTTTAGGGATAAATGGAGATAACACGGTTCCT
ACGCAATGAGAAAGTCTGGCTATATAAGAATGACCCGGCTCCTACGTGATGAAGAGATATGGTAG
GTGGATGACACTATTAC
Found at i:784191 original size:67 final size:67
Alignment explanation
Indices: 784083--784283 Score: 296
Period size: 67 Copynumber: 3.0 Consensus size: 67
784073 AGGGATAATT
* * * * * *
784083 TGTTTCAAGAGAAACTGTCTCAAGTGAGATAAAATTTGTTTCAAGGGAAACAATCTCAATGTTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGAGAAACAATCTCAAAGGTTT
784148 TA
66 TA
* * * *
784150 TGTTTCAAGACAAACTTTCTCAAGAGAGACAAAAATCGTTTCAAGAGAAATAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGAGAAACAATCTCAAAGGTTT
784215 TA
66 TA
*
784217 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAACTTGTTTCAAGAGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGAGAAACAATCTCAAAGGTTT
784281 TA
66 TA
784283 T
1 T
784284 CAATTTTGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 34 0.29
67 85 0.71
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTGTTTCAAGAGAAACAATCTCAAAGGTTT
TA
Done.