Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
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: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 11
Found at i:615051 original size:21 final size:21
Alignment explanation
Indices: 615025--615065 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
615015 GTCAACCTTG
615025 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
615046 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
615066 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:616726 original size:13 final size:13
Alignment explanation
Indices: 616708--616732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
616698 ACTGAAGCAA
616708 TGTATCGATACAT
1 TGTATCGATACAT
616721 TGTATCGATACA
1 TGTATCGATACA
616733 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:619740 original size:433 final size:433
Alignment explanation
Indices: 618934--619804 Score: 1715
Period size: 433 Copynumber: 2.0 Consensus size: 433
618924 AGGAGACTCG
618934 GTTGTACTCGCTTGGGCCGAGAGCACAAAACAACGTGTGCATTGCCTTCGCATTGAGTTGTGCCA
1 GTTGTACTCGCTTGGGCCGAGAGCACAAAACAACGTGTGCATTGCCTTCGCATTGAGTTGTGCCA
618999 TCTTCATGTCTTGCTCGTTCCATTCTTCTTCTTCTTTTGGCACAACAACATCACCAACTCTCTTT
66 TCTTCATGTCTTGCTCGTTCCATTCTTCTTCTTCTTTTGGCACAACAACATCACCAACTCTCTTT
619064 GAGGGGATTCGAGGTCCATTGACAATGATCTTCCAAACTTCATAATCATTGGCTTGTATGAACAA
131 GAGGGGATTCGAGGTCCATTGACAATGATCTTCCAAACTTCATAATCATTGGCTTGTATGAACAA
619129 TCTCATTCTTGTTCTCCAATATGAATAATTTTCACCATTGAAGAGTGGAGGTCTCAAGGTGGAGT
196 TCTCATTCTTGTTCTCCAATATGAATAATTTTCACCATTGAAGAGTGGAGGTCTCAAGGTGGAGT
619194 GGCCCTCTACACCAATGGCATTTGAATGAGTCTCGAAGGCCATGAGACATACTTCTTCTTGGCTC
261 GGCCCTCTACACCAATGGCATTTGAATGAGTCTCGAAGGCCATGAGACATACTTCTTCTTGGCTC
619259 GCCATTTGTTGTGAAGCTTTAACCATTGCTACATTTTCCATTTTTGAGCTGAGAAAGATCGTCTC
326 GCCATTTGTTGTGAAGCTTTAACCATTGCTACATTTTCCATTTTTGAGCTGAGAAAGATCGTCTC
619324 TTCCGGGTGTTAATCCGATGAAGGAGGTTAGGCTCTGATACCA
391 TTCCGGGTGTTAATCCGATGAAGGAGGTTAGGCTCTGATACCA
*
619367 GTTGTACTCGCTTGGGCCGAGAGCACAAAACAACGTGTGCATTGCCTTCGCGTTGAGTTGTGCCA
1 GTTGTACTCGCTTGGGCCGAGAGCACAAAACAACGTGTGCATTGCCTTCGCATTGAGTTGTGCCA
619432 TCTTCATGTCTTGCTCGTTCCATTCTTCTTCTTCTTTTGGCACAACAACATCACCAACTCTCTTT
66 TCTTCATGTCTTGCTCGTTCCATTCTTCTTCTTCTTTTGGCACAACAACATCACCAACTCTCTTT
619497 GAGGGGATTCGAGGTCCATTGACAATGATCTTCCAAACTTCATAATCATTGGCTTGTATGAACAA
131 GAGGGGATTCGAGGTCCATTGACAATGATCTTCCAAACTTCATAATCATTGGCTTGTATGAACAA
619562 TCTCATTCTTGTTCTCCAATATGAATAATTTTCACCATTGAAGAGTGGAGGTCTCAAGGTGGAGT
196 TCTCATTCTTGTTCTCCAATATGAATAATTTTCACCATTGAAGAGTGGAGGTCTCAAGGTGGAGT
619627 GGCCCTCTACACCAATGGCATTTGAATGAGTCTCGAAGGCCATGAGACATACTTCTTCTTGGCTC
261 GGCCCTCTACACCAATGGCATTTGAATGAGTCTCGAAGGCCATGAGACATACTTCTTCTTGGCTC
*
619692 GCCATTTGTTGTGAAGCTTTAACCATTGCTACGTTTTCCATTTTTGAGCTGAGAAAGATCGTCTC
326 GCCATTTGTTGTGAAGCTTTAACCATTGCTACATTTTCCATTTTTGAGCTGAGAAAGATCGTCTC
619757 TTCCGGGTGTTAATCCGATGAAGGAGGTTAGGCTCTGATACCA
391 TTCCGGGTGTTAATCCGATGAAGGAGGTTAGGCTCTGATACCA
*
619800 ATTGT
1 GTTGT
619805 GAGCTCAAAA
Statistics
Matches: 435, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
433 435 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (433 bp):
GTTGTACTCGCTTGGGCCGAGAGCACAAAACAACGTGTGCATTGCCTTCGCATTGAGTTGTGCCA
TCTTCATGTCTTGCTCGTTCCATTCTTCTTCTTCTTTTGGCACAACAACATCACCAACTCTCTTT
GAGGGGATTCGAGGTCCATTGACAATGATCTTCCAAACTTCATAATCATTGGCTTGTATGAACAA
TCTCATTCTTGTTCTCCAATATGAATAATTTTCACCATTGAAGAGTGGAGGTCTCAAGGTGGAGT
GGCCCTCTACACCAATGGCATTTGAATGAGTCTCGAAGGCCATGAGACATACTTCTTCTTGGCTC
GCCATTTGTTGTGAAGCTTTAACCATTGCTACATTTTCCATTTTTGAGCTGAGAAAGATCGTCTC
TTCCGGGTGTTAATCCGATGAAGGAGGTTAGGCTCTGATACCA
Found at i:620089 original size:34 final size:35
Alignment explanation
Indices: 620051--620117 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
620041 CCTTACAACA
620051 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
620085 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
620118 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:620606 original size:13 final size:13
Alignment explanation
Indices: 620587--620625 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
620577 ACTATTTATG
620587 ATGTATCGATACA
1 ATGTATCGATACA
*
620600 CTGTATCGATACA
1 ATGTATCGATACA
*
620613 ATGTAGCGATACA
1 ATGTATCGATACA
620626 TAAATAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:620715 original size:21 final size:21
Alignment explanation
Indices: 620689--620729 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
620679 AGTGTGAACA
620689 GTGATGTATCGATACATGAAG
1 GTGATGTATCGATACATGAAG
620710 GTGATGTATCGATACATGAA
1 GTGATGTATCGATACATGAA
620730 CAGTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (21 bp):
GTGATGTATCGATACATGAAG
Found at i:620744 original size:10 final size:10
Alignment explanation
Indices: 620725--620755 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
620715 GTATCGATAC
*
620725 ATGAACAGTG
1 ATGAATAGTG
620735 ATGAATAGTG
1 ATGAATAGTG
620745 ATGAATAGTG
1 ATGAATAGTG
620755 A
1 A
620756 AAATGAGATT
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:0.29, T:0.26
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:620843 original size:53 final size:53
Alignment explanation
Indices: 620779--620915 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
620769 CTACTACCAA
620779 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
620832 TGTATCGATACATATTGTGTGTAGCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
620885 TCTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
620916 TATGCAATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 65 0.84
54 12 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:620948 original size:20 final size:20
Alignment explanation
Indices: 620903--620956 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
620893 TACATATTTG
*
620903 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
620923 TCTGTATCGATAC-ATTTAAA
1 TGTGTATCGATACTA-TGAAA
620943 TGTGTATCGATACT
1 TGTGTATCGATACT
620957 TTTCAGGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:621021 original size:21 final size:21
Alignment explanation
Indices: 620995--621035 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
620985 GTCAACCTTG
620995 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
621016 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
621036 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:623355 original size:20 final size:19
Alignment explanation
Indices: 623313--623386 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
623303 TTTTACCTAG
* **
623313 ATGTATTGATACATTAAAAA
1 ATGTATCGATACATT-ATGA
623333 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
* * *
623353 ATGTATCAATACATTTTTA
1 ATGTATCGATACATTATGA
*
623372 ATGTATTGATACATT
1 ATGTATCGATACATT
623387 CTGTTTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 28 0.62
21 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:626572 original size:20 final size:19
Alignment explanation
Indices: 626526--626581 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
626516 AAAACCCTTA
**
626526 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
626546 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
626566 AATGTATCGATACATG
1 AATGTATCGATACATG
626582 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:626658 original size:13 final size:13
Alignment explanation
Indices: 626640--626665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
626630 TACAGCAAGT
626640 ATGTATCGATACA
1 ATGTATCGATACA
626653 ATGTATCGATACA
1 ATGTATCGATACA
626666 CAAAAAAATT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:627205 original size:20 final size:20
Alignment explanation
Indices: 627180--627220 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
627170 TACGAGTTGT
627180 AAGGTTATACCTTTGCCTTA
1 AAGGTTATACCTTTGCCTTA
*
627200 AAGGTTATACCTTTGTCTTA
1 AAGGTTATACCTTTGCCTTA
627220 A
1 A
627221 GCATAACCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
AAGGTTATACCTTTGCCTTA
Found at i:630507 original size:13 final size:13
Alignment explanation
Indices: 630489--630514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
630479 ACATTTTTTT
630489 TTGTATCGATACA
1 TTGTATCGATACA
630502 TTGTATCGATACA
1 TTGTATCGATACA
630515 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:633074 original size:13 final size:13
Alignment explanation
Indices: 633056--633081 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
633046 TACAGCAAGT
633056 ATGTATCGATACA
1 ATGTATCGATACA
633069 ATGTATCGATACA
1 ATGTATCGATACA
633082 CAAAAAAATT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:645243 original size:30 final size:31
Alignment explanation
Indices: 645185--645260 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
645175 TACATTGAAA
645185 AATGTATCGATACATCTAAGTAAAAAAATAG
1 AATGTATCGATACATCTAAGTAAAAAAATAG
* **
645216 AATTTATCGATACATCTGGGT-AAAAAATAG
1 AATGTATCGATACATCTAAGTAAAAAAATAG
*
645246 AATGTATCAATACAT
1 AATGTATCGATACAT
645261 ATACTGTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 22 0.55
31 18 0.45
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (31 bp):
AATGTATCGATACATCTAAGTAAAAAAATAG
Found at i:646294 original size:33 final size:33
Alignment explanation
Indices: 646249--646376 Score: 208
Period size: 33 Copynumber: 4.0 Consensus size: 33
646239 CATTAGTTTT
*
646249 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAG
*
646282 AGAAAGTTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAG
646315 AG-AAGGTTGCCACCAACTTGTGTGGGCTTTA-
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAG
*
646346 A-AAAGGTTACCACCAACTTGTGTGGGCTTTA
1 AGAAAGGTTGCCACCAACTTGTGTGGGCTTTA
646377 AAAGATACCA
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
31 29 0.32
32 28 0.31
33 33 0.37
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (33 bp):
AGAAAGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:646396 original size:29 final size:31
Alignment explanation
Indices: 646259--646387 Score: 154
Period size: 31 Copynumber: 4.1 Consensus size: 31
646249 AGAAGGGTTG
** *
646259 CCACCAACTTGTGTGGGCTTTAGAGAAAGTTTG
1 CCACCAACTTGTGTGGGCTTTA-A-AAAGGATA
* * *
646292 CCACCAACTTGTGTGGGCTTTAGAGAAGGTTG
1 CCACCAACTTGTGTGGGCTTTA-AAAAGGATA
*
646324 CCACCAACTTGTGTGGGCTTTAAAAAGGTTA
1 CCACCAACTTGTGTGGGCTTTAAAAAGGATA
646355 CCACCAACTTGTGTGGGCTTT-AAAA-GATA
1 CCACCAACTTGTGTGGGCTTTAAAAAGGATA
646384 CCAC
1 CCAC
646388 TGATTTGTGG
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
29 7 0.08
30 4 0.04
31 28 0.31
32 28 0.31
33 24 0.26
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (31 bp):
CCACCAACTTGTGTGGGCTTTAAAAAGGATA
Found at i:646484 original size:28 final size:28
Alignment explanation
Indices: 646303--647077 Score: 383
Period size: 28 Copynumber: 26.5 Consensus size: 28
646293 CACCAACTTG
* *
646303 TGTGGGCTTTAGAGAAGGTTGCCACCAACTT
1 TGTGGGCTTT-GA-AAGGGTGCCACTAAC-T
* * * *
646334 GTGTGGGCTTTAAAAAGGTTACCACCAACTT
1 -TGTGGGCTTT-GAAAGGGTGCCACTAAC-T
* * * * *
646365 GTGTGGGCTTT-AAAAGATACCACTGATT
1 -TGTGGGCTTTGAAAGGGTGCCACTAACT
* ** * *
646393 TGTGGGCTTCGAAAGAATGTCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
** * *
646421 TGTGACCTTTGAATGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
646449 TTTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
646477 TGTAGGCTTTGAGAGAGGTTGTCACCAACTT
1 TGTGGGCTTTGA-A-AGGGTGCCACTAAC-T
* *
646508 GTGTGGGCTTT-AAAAGGCGCCACTAACT
1 -TGTGGGCTTTGAAAGGGTGCCACTAACT
* * **
646536 TGTGGGCTTTGAGAGAGGTTACCACCGACT
1 TGTGGGCTTTGA-A-AGGGTGCCACTAACT
* *
646566 TGTTGGGCTTTGAAAGGATGCCACTGACT
1 TG-TGGGCTTTGAAAGGGTGCCACTAACT
* * ** * *
646595 TGTGGGCTTTAAGAAGGATGAGAATAATGCCAA
1 TGTGGGCTTTGA-AAGGGTGCCACTAA---C-T
* * * *
646628 TGTGCTGATTT--AA--G-GCCAGC-GACA
1 TGTG-GGCTTTGAAAGGGTGCCA-CTAACT
*
646652 T-TGGG-TTT-AGAAGGGTTGCCACCAACT
1 TGTGGGCTTTGA-AAGGG-TGCCACTAACT
* *
646679 TGTGTAGGCTTTAGAAAAGGGTTGCCACCAAGT
1 TGTG--GGCTTT-G-AAAGGG-TGCCACTAACT
* * *
646712 TGTGTGGCCTTTATAGAAGGTTGCCACCAACCT
1 TGTG-GG-CTTT-GA-AAGGGTGCCACTAA-CT
*
646745 GTGTGGGCTTT-AATAGGGTTGCCACTGACT
1 -TGTGGGCTTTGAA-AGGG-TGCCACTAACT
* * * * *
646775 TGTATGGGCTTTAAAAGGATACCACTGATT
1 TG--TGGGCTTTGAAAGGGTGCCACTAACT
* *
646805 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
646833 TGTGGGCTTTGAGAA-GGTGCCACTAACT
1 TGTGGGCTTTGA-AAGGGTGCCACTAACT
646861 TGTGGGCTTTGAGAA-GGTGCCACTAACT
1 TGTGGGCTTTGA-AAGGGTGCCACTAACT
* * *
646889 TGTGTGCTTTGAGAGAGGTTGCCACTGACT
1 TGTGGGCTTTGA-A-AGGGTGCCACTAACT
646919 TGTGTGTGCTTT-AAAGGGTGCCACTAACT
1 TGTG-G-GCTTTGAAAGGGTGCCACTAACT
* *
646948 TGTGGGCTTTGAGAGAGGTTGCCACCAACTT
1 TGTGGGCTTTGA-A-AGGGTGCCACTAAC-T
* *
646979 GTGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
647008 TGTGGGCTTTGAAAAGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
647036 TGTGGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
647064 TATGGGCTTTGAAA
1 TGTGGGCTTTGAAA
647078 AGAGGTCGTA
Statistics
Matches: 592, Mismatches: 102, Indels: 102
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.01
22 1 0.00
23 4 0.01
24 2 0.00
25 2 0.00
26 1 0.00
27 31 0.05
28 228 0.39
29 71 0.12
30 82 0.14
31 65 0.11
32 57 0.10
33 36 0.06
34 9 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:646538 original size:59 final size:59
Alignment explanation
Indices: 646254--647075 Score: 463
Period size: 59 Copynumber: 13.9 Consensus size: 59
646244 GTTTTAGAAG
* *
646254 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAAGTTTGCCACCAACTTGTGTGGGCTTT-AGAGA
1 GGTTGCCACCAACTTGTGTGGGCTTT--A-AAAG-GTGCCACTAAC-T-TGTGGGCTTTGAGAG-
646318 A
59 A
* *
646319 GGTTGCCACCAACTTGTGTGGGCTTTAAAAAGGTTACCACCAACTTGTGTGGGCTTT-A-A-A
1 GGTTGCCACCAACTTGTGTGGGCTTT-AAAAGG-TGCCACTAAC-T-TGTGGGCTTTGAGAGA
* * * ** ** * * * **
646379 AGATACCACTGA-TT-TGTGGGCTTCGAAAGAATGTCACTAATTTGTGACCTTTGA-ATG-
1 GGTTGCCACCAACTTGTGTGGGCTTTAAAAG-GTGCCACTAACTTGTGGGCTTTGAGA-GA
** * *
646436 GG-TGCCACTGACTT-T-TGGGCTTTGAAAGGGTGCCACTAACTTGTAGGCTTTGAGAGA
1 GGTTGCCACCAACTTGTGTGGGCTTT-AAAAGGTGCCACTAACTTGTGGGCTTTGAGAGA
* *
646493 GGTTGTCACCAACTTGTGTGGGCTTTAAAAGGCGCCACTAACTTGTGGGCTTTGAGAGA
1 GGTTGCCACCAACTTGTGTGGGCTTTAAAAGGTGCCACTAACTTGTGGGCTTTGAGAGA
* * * * *
646552 GGTTACCACCGACTTGT-TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAGA-A
1 GGTTGCCACCAACTTGTGTGGGCTTTAAAAGG-TGCCACTAACTTGTGGGCTTTGAGAGA
* ** ** *** * * * *
646610 GGATGAGAATAATGCCAATGTGCTGATTT--AA-G-GCCAGC-GACAT-TGGG-TTT-AGA-A
1 GGTTGCCACCAA--CTTGTGTG-GGCTTTAAAAGGTGCCA-CTAACTTGTGGGCTTTGAGAGA
* * * *
646664 GGGTTGCCACCAACTTGTGTAGGCTTTAGAAAAGGGTTGCCACCAAGTTGTGTGGCCTTT-ATAG
1 -GGTTGCCACCAACTTGTGTGGGCTTT--AAAA-GG-TGCCACTAACTTGTG-GG-CTTTGAGAG
646728 AA
59 -A
* * * *
646730 GGTTGCCACCAACCTGTGTGGGCTTTAATAGGGTTGCCACTGACTTGTATGGGCTTT-A-AAA
1 GGTTGCCACCAACTTGTGTGGGCTTTAA-AAGG-TGCCACTAACTTG--TGGGCTTTGAGAGA
* * ** * * *
646791 GGATACCACTGA-TT-TGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAGA-A
1 GGTTGCCACCAACTTGTGTGGGCTT-TAAAAGGTGCCACTAACTTGTGGGCTTTGAGAGA
* * *
646848 GG-TGCCACTAAC-T-TGTGGGCTTTGAGAAGGTGCCACTAACTTGTGTGCTTTGAGAGA
1 GGTTGCCACCAACTTGTGTGGGCTTT-AAAAGGTGCCACTAACTTGTGGGCTTTGAGAGA
** * *
646905 GGTTGCCACTGACTTGTGTGTGCTTTAAAGGGTGCCACTAACTTGTGGGCTTTGAGAGA
1 GGTTGCCACCAACTTGTGTGGGCTTTAAAAGGTGCCACTAACTTGTGGGCTTTGAGAGA
* * *
646964 GGTTGCCACCAACTTGTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAA
1 GGTTGCCACCAACTTGTGTGGGCTTTAAAAGG-TGCCACTAACTTGTGGGCTTTGAGAGA
** * * *
647023 GG-TGCCACTGA-TT-TGTGGGTTTTGAAAGGATGCCACTAACTTATGGGCTTTGA
1 GGTTGCCACCAACTTGTGTGGGCTTTAAAAGG-TGCCACTAACTTGTGGGCTTTGA
647076 AAAGAGGTCG
Statistics
Matches: 604, Mismatches: 106, Indels: 103
0.74 0.13 0.13
Matches are distributed among these distances:
52 4 0.01
53 4 0.01
54 4 0.01
55 18 0.03
56 132 0.22
57 37 0.06
58 69 0.11
59 146 0.24
60 60 0.10
61 13 0.02
62 8 0.01
63 47 0.08
64 9 0.01
65 52 0.09
66 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (59 bp):
GGTTGCCACCAACTTGTGTGGGCTTTAAAAGGTGCCACTAACTTGTGGGCTTTGAGAGA
Found at i:647359 original size:26 final size:26
Alignment explanation
Indices: 647321--647377 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
647311 TATAAAAATA
** * *
647321 ATGATGTTTAATGGTATTATGAATGC
1 ATGATGTGGAATGCTATCATGAATGC
**
647347 ATGATGTGGAATGCTATCATGGTTGC
1 ATGATGTGGAATGCTATCATGAATGC
647373 ATGAT
1 ATGAT
647378 ACAAAGTCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (26 bp):
ATGATGTGGAATGCTATCATGAATGC
Found at i:648359 original size:12 final size:13
Alignment explanation
Indices: 648334--648366 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
648324 AGACCCTCCC
*
648334 TTTTTTGTGTGTT
1 TTTTTTTTGTGTT
648347 TTTTTTTTG-GTT
1 TTTTTTTTGTGTT
648359 TTTTTTTT
1 TTTTTTTT
648367 TAAGAAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:648365 original size:13 final size:15
Alignment explanation
Indices: 648334--648367 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
648324 AGACCCTCCC
648334 TTTTTTGTGTGTTTT
1 TTTTTTGTGTGTTTT
648349 TTTTTTG-GT-TTTT
1 TTTTTTGTGTGTTTT
648362 TTTTTT
1 TTTTTT
648368 AAGAAAGACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 2 0.11
15 7 0.37
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (15 bp):
TTTTTTGTGTGTTTT
Found at i:660483 original size:20 final size:20
Alignment explanation
Indices: 660439--660492 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
660429 TTTCACGACT
*
660439 TGTATCGATACAATTAGTGAA
1 TGTATCGATAC-ATAAGTGAA
*
660460 TGTATCGATACATAAGTTAA
1 TGTATCGATACATAAGTGAA
*
660480 TGTATCAATACAT
1 TGTATCGATACAT
660493 GTCTCAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:660588 original size:22 final size:20
Alignment explanation
Indices: 660540--660615 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 20
660530 GTCGAGGAAA
*** *
660540 TGTATCGATACATTAGAAAA
1 TGTATCGATACATTTCTAAT
660560 TGTATCGATACATGCTTAC-AAT
1 TGTATCGATACAT--TT-CTAAT
*
660582 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTAAT
660602 TGTATCGATACATT
1 TGTATCGATACATT
660616 CTGGGTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.02
20 31 0.65
22 16 0.33
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:666603 original size:13 final size:13
Alignment explanation
Indices: 666585--666612 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
666575 TTTTTACCAA
666585 GTATCGATACAAT
1 GTATCGATACAAT
666598 GTATCGATACAAT
1 GTATCGATACAAT
666611 GT
1 GT
666613 CCCATGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:666703 original size:19 final size:19
Alignment explanation
Indices: 666657--666712 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
666647 CTGCTAATTT
666657 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
666677 TATATATCGATACAATGAG
1 CATGTATCGATACAATGAG
666696 CATGTATCGATACAATG
1 CATGTATCGATACAATG
666713 TATCAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:666873 original size:22 final size:22
Alignment explanation
Indices: 666848--666901 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
666838 TTTATTTTTA
* *
666848 CTTGAAAACGTTCGATTTAAGG
1 CTTGAAAACATTCAATTTAAGG
666870 CTTGAAAACATTCAATTTAAGG
1 CTTGAAAACATTCAATTTAAGG
666892 CTTGAAAACA
1 CTTGAAAACA
666902 CTTATATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (22 bp):
CTTGAAAACATTCAATTTAAGG
Found at i:667467 original size:15 final size:16
Alignment explanation
Indices: 667441--667472 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
667431 AATGATTTTC
667441 TCCCCTTTTTTGTTAT
1 TCCCCTTTTTTGTTAT
667457 TCCCC-TTTTTGTTAT
1 TCCCCTTTTTTGTTAT
667472 T
1 T
667473 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.06, C:0.25, G:0.06, T:0.62
Consensus pattern (16 bp):
TCCCCTTTTTTGTTAT
Found at i:675603 original size:19 final size:19
Alignment explanation
Indices: 675560--675615 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
675550 CTGCCAATTT
*
675560 CATGTATCGATACAATTGAG
1 CATGTATCGATA-AAATGAG
* *
675580 TATGTATCGATATAATGAG
1 CATGTATCGATAAAATGAG
675599 CATGTATCGATAAAATG
1 CATGTATCGATAAAATG
675616 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (19 bp):
CATGTATCGATAAAATGAG
Found at i:676428 original size:25 final size:25
Alignment explanation
Indices: 676398--676445 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
676388 ATTAAAGTTT
* *
676398 TATTTAAATATAAATAAATAAATAA
1 TATTTAAAAATAAACAAATAAATAA
*
676423 TATTTAAAAATAAACATATAAAT
1 TATTTAAAAATAAACAAATAAAT
676446 TATAACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAAATAAACAAATAAATAA
Found at i:681620 original size:13 final size:13
Alignment explanation
Indices: 681602--681640 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
681592 ATAATACCCC
*
681602 TGTATCGATACAG
1 TGTATCGATACAA
681615 TGTATCGATACAA
1 TGTATCGATACAA
681628 TGTATCGATACAA
1 TGTATCGATACAA
681641 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:687848 original size:13 final size:13
Alignment explanation
Indices: 687830--687854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
687820 TACAAGCCAA
687830 TGTATCGATACAT
1 TGTATCGATACAT
687843 TGTATCGATACA
1 TGTATCGATACA
687855 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:688321 original size:22 final size:22
Alignment explanation
Indices: 688294--688335 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
688284 ATATAAAGAT
688294 TATTTTCAT-ATTAAGATTTATA
1 TATTTTCATAATTAA-ATTTATA
*
688316 TATTTTTATAATTAAATTTA
1 TATTTTCATAATTAAATTTA
688336 AATAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTCATAATTAAATTTATA
Found at i:689566 original size:14 final size:13
Alignment explanation
Indices: 689543--689572 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
689533 AATTTGAAGG
689543 TAATAAAATAAAA
1 TAATAAAATAAAA
689556 TAATAAAAATAAAA
1 TAAT-AAAATAAAA
689570 TAA
1 TAA
689573 GGTGACTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAATAAAATAAAA
Found at i:693794 original size:13 final size:13
Alignment explanation
Indices: 693776--693801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
693766 ATAATCACCT
693776 TGTATCGATACAA
1 TGTATCGATACAA
693789 TGTATCGATACAA
1 TGTATCGATACAA
693802 AGAAAAATGT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:697751 original size:21 final size:21
Alignment explanation
Indices: 697705--697749 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
697695 AAGTTTTCAT
697705 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
697725 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
697747 TTT
1 TTT
697750 CAACTTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:699984 original size:13 final size:13
Alignment explanation
Indices: 699966--699991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
699956 CAATTTTTTG
699966 TGTATCGATACAT
1 TGTATCGATACAT
699979 TGTATCGATACAT
1 TGTATCGATACAT
699992 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:700094 original size:20 final size:20
Alignment explanation
Indices: 700050--700105 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
700040 ACATCTTTTT
*
700050 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
700070 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
* *
700089 TTATGTATCAATACTTT
1 -CATGTATCGATACTTT
700106 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:701048 original size:13 final size:14
Alignment explanation
Indices: 701029--701061 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
701019 TATCTCAGTC
701029 AAAAACAC-CAACA
1 AAAAACACTCAACA
*
701042 CAAAACACTCAACA
1 AAAAACACTCAACA
701056 AAAAAC
1 AAAAAC
701062 TATTCCCGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAACACTCAACA
Found at i:704851 original size:19 final size:18
Alignment explanation
Indices: 704826--704890 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
704816 ATTTCAACGA
704826 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
704844 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
704860 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
704876 TTTTGTATCGATACA
1 -TTTGTATCGATACA
704891 ATGTATCACT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:704864 original size:32 final size:32
Alignment explanation
Indices: 704828--704897 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
704818 TTCAACGATT
704828 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
704860 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
704892 TGTATC
1 TGTATC
704898 ACTACGAAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:704865 original size:13 final size:13
Alignment explanation
Indices: 704847--704871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
704837 ACATAAGTGT
704847 TGTATCGATACAA
1 TGTATCGATACAA
704860 TGTATCGATACA
1 TGTATCGATACA
704872 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:718875 original size:24 final size:22
Alignment explanation
Indices: 718843--718955 Score: 124
Period size: 23 Copynumber: 5.0 Consensus size: 22
718833 GTCCTCTACA
718843 AAAAAAAAACAAACAAACAAAACC
1 AAAAAAAAACAAACAAA-AAAA-C
718867 AAAAAAAAACAAACAAAAAAAC
1 AAAAAAAAACAAACAAAAAAAC
*
718889 AAAAACAAAAAAAACAAAAAAA-
1 AAAAA-AAAACAAACAAAAAAAC
*
718911 AACAAACACAAACAAAC-AAAAAAG
1 AA-AAA-A-AAACAAACAAAAAAAC
718935 AAAAAAAAAC-AACAACAAAAA
1 AAAAAAAAACAAACAA-AAAAA
718956 GGGTTCGGAT
Statistics
Matches: 81, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
20 3 0.04
21 5 0.06
22 14 0.17
23 33 0.41
24 26 0.32
ACGTcount: A:0.83, C:0.16, G:0.01, T:0.00
Consensus pattern (22 bp):
AAAAAAAAACAAACAAAAAAAC
Found at i:718892 original size:47 final size:48
Alignment explanation
Indices: 718840--718955 Score: 150
Period size: 47 Copynumber: 2.5 Consensus size: 48
718830 GGCGTCCTCT
* *
718840 ACAAAAAAAAAACAAACAAACAAAACCAAAAAAAAACAAACAAAAAA-
1 ACAAAAAAAAAACAAACAAAAAAAAACAAAAAAAAACAAACAAAAAAG
* *
718887 ACAAAAACAAAAA-AAACAAAAAAAAACAAACACAAACAAACAAAAAAG
1 ACAAAAA-AAAAACAAACAAAAAAAAACAAAAAAAAACAAACAAAAAAG
718935 A-AAAAAAAACAAC-AACAAAAA
1 ACAAAAAAAA-AACAAACAAAAA
718956 GGGTTCGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
46 3 0.05
47 52 0.85
48 6 0.10
ACGTcount: A:0.83, C:0.16, G:0.01, T:0.00
Consensus pattern (48 bp):
ACAAAAAAAAAACAAACAAAAAAAAACAAAAAAAAACAAACAAAAAAG
Found at i:718955 original size:1 final size:1
Alignment explanation
Indices: 718842--718943 Score: 60
Period size: 1 Copynumber: 102.0 Consensus size: 1
718832 CGTCCTCTAC
* * * ** * * * * *
718842 AAAAAAAAAACAAACAAACAAAACCAAAAAAAAACAAACAAAAAAACAAAAACAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
718907 AAAAAACAAACACAAACAAACAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
718944 CAACAACAAA
Statistics
Matches: 71, Mismatches: 30, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.84, C:0.15, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:720438 original size:34 final size:34
Alignment explanation
Indices: 720393--720631 Score: 293
Period size: 34 Copynumber: 7.0 Consensus size: 34
720383 ACATTCCTCA
* *
720393 CCCTTTTAAAGCCCACAACCCCGTGGCACCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTT
* * ***
720427 -TCTTTTCAAAGCCCACAACTCTGTGGCATCTCCA
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTT
* *
720461 CCCTTTTAAAGGCCACAACTCCGTGGCACCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTT
*
720495 -TCTTTTCAAAGCCCACAACTCCGTGGCATCTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTT
* * *
720529 CCCTTTTTAAGCCCACAACTTCATGGCATCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTT
*
720563 CCCTTTTTAAGCCCACAACTCCGTGGCATCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTT
* * *
720597 CCCTTTTAAAGCCCACAAGTCAGTGGTATCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTT
720631 C
1 C
720632 AAAAGCCCAC
Statistics
Matches: 174, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
33 10 0.06
34 154 0.89
35 10 0.06
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTT
Found at i:720736 original size:58 final size:58
Alignment explanation
Indices: 720604--720799 Score: 322
Period size: 57 Copynumber: 3.4 Consensus size: 58
720594 TTTCCCTTTT
* *
720604 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCA-TGGCACCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCC
*
720661 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCC
*
720719 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCA-CCTTTTCC
*
720779 AAAGCCCACAAGTTAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
720800 ACCTTCAAAA
Statistics
Matches: 130, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
57 42 0.32
58 33 0.25
59 28 0.22
60 27 0.21
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCC
Found at i:720748 original size:30 final size:29
Alignment explanation
Indices: 720604--720804 Score: 314
Period size: 29 Copynumber: 6.9 Consensus size: 29
720594 TTTCCCTTTT
* * *
720604 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCC
720633 AAAGCCCACAAGTCA-TGGCACCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCC
*
720661 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCC
*
720690 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCC
720719 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCC
720749 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCC
*
720779 AAAGCCCACAAGTTAGTGGCAACCTT
1 AAAGCCCACAAGTCAGTGGC-ACCTT
720805 CAAAAGCACA
Statistics
Matches: 163, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
28 25 0.15
29 77 0.47
30 60 0.37
31 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCC
Found at i:720845 original size:29 final size:29
Alignment explanation
Indices: 720604--720845 Score: 292
Period size: 29 Copynumber: 8.3 Consensus size: 29
720594 TTTCCCTTTT
* * * *
720604 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCC
*
720633 AAAGCCCACAAGTCA-TGGCACCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCC
* *
720661 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCC
* *
720690 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCC
720719 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCC-TTTCC
720749 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCC-TTTCC
* * *
720779 AAAGCCCACAAGTTAGTGGCAACC-TTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCC
* ** *
720807 AAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGC-ACCCTTTCC
720836 AAAGCCCACA
1 AAAGCCCACA
720846 CAAGTTGGTG
Statistics
Matches: 196, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
27 2 0.01
28 46 0.23
29 91 0.46
30 57 0.29
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCC
Found at i:720849 original size:31 final size:30
Alignment explanation
Indices: 720714--720855 Score: 102
Period size: 30 Copynumber: 4.8 Consensus size: 30
720704 AGTGGCATCT
* **
720714 TTTCCAAAGCC-CACAAGTCAGTGGC-ACCC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACCC
* **
720743 TTTTCCAAAGCC-CACAAGTCAGTGGC-ACCC
1 -TTTCAAAAGCCACACAAGTTGGT-GCAACCC
* *
720773 TTTTCCAAAGCC-CACAAGTTAGTGGCAA-CC
1 -TTTCAAAAGCCACACAAGTTGGT-GCAACCC
720803 -TTCAAAAG-CACACAAGTTGGTGCAACCC
1 TTTCAAAAGCCACACAAGTTGGTGCAACCC
720831 TTTCAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG-CCACACAAGTTGGTG
720856 GCATCTTCTT
Statistics
Matches: 103, Mismatches: 3, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
27 5 0.05
28 19 0.18
29 8 0.08
30 56 0.54
31 15 0.15
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (30 bp):
TTTCAAAAGCCACACAAGTTGGTGCAACCC
Found at i:720935 original size:48 final size:51
Alignment explanation
Indices: 720865--721104 Score: 198
Period size: 53 Copynumber: 4.6 Consensus size: 51
720855 GGCATCTTCT
**
720865 TTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGC-CC-T-TCATC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTCATC
* *
720913 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCGTCATC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTC-TCATC
** * * *
720965 TTTAAAACCCAATGTTGTTGGCCTTGAACCAGCACATTGGCATTCTTCTCATC
1 TTT-AAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CCTTCTCATC
* ** * ** * *
721018 TTCAAGTTTAATGTCGCTAACCGTGAATCAGCACATTGACATCCTTTTTCTCATC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CC---TTCTCATC
** * * *
721073 TTTAAACCCAATATCGTTGGTCGTGAATCAGC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGC
721105 GTATTGGTCT
Statistics
Matches: 149, Mismatches: 34, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
48 36 0.24
49 2 0.01
50 1 0.01
52 37 0.25
53 39 0.26
54 4 0.03
55 30 0.20
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (51 bp):
TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTCATC
Found at i:721791 original size:19 final size:19
Alignment explanation
Indices: 721767--721849 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
721757 TTTCAACGAT
721767 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
721786 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
721800 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
721818 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
721837 TTGTATCGATACA
1 TTGTATCGATACA
721850 ATGTATCGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
13 10 0.18
15 2 0.04
17 2 0.04
19 41 0.75
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:721809 original size:32 final size:32
Alignment explanation
Indices: 721768--721830 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
721758 TTCAACGATT
*
721768 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
721800 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
721831 TAAGTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:727871 original size:20 final size:20
Alignment explanation
Indices: 727814--727871 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
727804 CTAATACAAC
* *
727814 AAGTGAATTTATCGATACAT
1 AAGTGAATATATCGATATAT
727834 AAGTGAATATATCGATATAT
1 AAGTGAATATATCGATATAT
*
727854 AAGTGAATGTATCGATAT
1 AAGTGAATATATCGATAT
727872 TGGACCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (20 bp):
AAGTGAATATATCGATATAT
Found at i:728042 original size:51 final size:50
Alignment explanation
Indices: 727910--728049 Score: 210
Period size: 50 Copynumber: 2.8 Consensus size: 50
727900 GAAAGAAAAT
* *
727910 GTATCGATACATTTTGGGTTTTGATCCAAATGTGTCGATACATTCTTCATC
1 GTATTGATACA-TTTGGGTTTTGATCCAAATGTATCGATACATTCTTCATC
* *
727961 -TATTGATACATTTAGGGTTTTAATCTAAATGTATCGATACATTCTTCATC
1 GTATTGATACATTT-GGGTTTTGATCCAAATGTATCGATACATTCTTCATC
728011 GTATTGATACATTCTGGGTTTTGATCCAAATGTATCGAT
1 GTATTGATACATT-TGGGTTTTGATCCAAATGTATCGAT
728050 GTTATTCTAG
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
49 3 0.04
50 42 0.52
51 34 0.43
52 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (50 bp):
GTATTGATACATTTGGGTTTTGATCCAAATGTATCGATACATTCTTCATC
Found at i:728063 original size:32 final size:33
Alignment explanation
Indices: 728021--728083 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
728011 GTATTGATAC
* *
728021 ATTCT-GGGTTTTGATCC-AAATGTATCGATGTT
1 ATTCTAGGTTTTTGA-CCTAAATCTATCGATGTT
728053 ATTCTAGGTTTTTGACCTAAATCTATCGATG
1 ATTCTAGGTTTTTGACCTAAATCTATCGATG
728084 CATCTAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (33 bp):
ATTCTAGGTTTTTGACCTAAATCTATCGATGTT
Found at i:730318 original size:27 final size:27
Alignment explanation
Indices: 730256--730322 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
730246 ATTCATTGTG
*
730256 GATACTCCAACCCCATTCTTCCAAGAG
1 GATACTCCAACCCCATTCTTCCAAGAA
* ** * *
730283 GTTGTTCCATCCCCATTCTTCCGAGAA
1 GATACTCCAACCCCATTCTTCCAAGAA
730310 GATACTCCAACCC
1 GATACTCCAACCC
730323 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.12, T:0.25
Consensus pattern (27 bp):
GATACTCCAACCCCATTCTTCCAAGAA
Found at i:732107 original size:58 final size:59
Alignment explanation
Indices: 732039--732149 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
732029 ATTTATTCAT
* *
732039 TTTAGGGTCATTTA-GATCA-TTGTCCATGATCTAATGA-CTTTTATGCAATTTCATGCAC
1 TTTAGGGTCATTCAGGAT-ATTTGTCCATGATCTAA-GAGCTCTTATGCAATTTCATGCAC
*
732097 TTTAGGGTCATTCAGGATATTTTTCCATGATCTAAGAGCTCTTATGCAATTTC
1 TTTAGGGTCATTCAGGATATTTGTCCATGATCTAAGAGCTCTTATGCAATTTC
732150 GTGCGTGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
58 16 0.34
59 31 0.66
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (59 bp):
TTTAGGGTCATTCAGGATATTTGTCCATGATCTAAGAGCTCTTATGCAATTTCATGCAC
Found at i:734865 original size:47 final size:47
Alignment explanation
Indices: 734796--734891 Score: 158
Period size: 47 Copynumber: 2.0 Consensus size: 47
734786 AATCCAGTGT
* *
734796 CTTTACTGTTTGCATAAAAGTGGCATAAAC-AGTTTGCCTCTAAATGC
1 CTTTACCGTCTGCATAAAAGTGGCATAAACAAG-TTGCCTCTAAATGC
734843 CTTTACCGTCTGCATAAAAGTGGCATAAACAAGTTGCCTCTAAATGC
1 CTTTACCGTCTGCATAAAAGTGGCATAAACAAGTTGCCTCTAAATGC
734890 CT
1 CT
734892 GCAGCAACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (47 bp):
CTTTACCGTCTGCATAAAAGTGGCATAAACAAGTTGCCTCTAAATGC
Found at i:738034 original size:2 final size:2
Alignment explanation
Indices: 738027--738063 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
738017 ACTGAAACCA
738027 AT AT AT AT AT 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 AT AT AT AT AT A
738064 ACAGTTGTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:739780 original size:2 final size:2
Alignment explanation
Indices: 739773--739816 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
739763 TCTACAAATT
739773 TA TA TA TA 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 TA
739815 TA
1 TA
739817 AGATGACAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:740539 original size:2 final size:2
Alignment explanation
Indices: 740532--740586 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
740522 AGATTAAATT
* * * *
740532 TA TA TA TA TA GA TA GA TA TA TA TA TA TA TA TA TA AA TA CA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
740573 AA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
740587 AATACAAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (2 bp):
TA
Found at i:740579 original size:21 final size:21
Alignment explanation
Indices: 740553--740594 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
740543 ATAGATATAT
740553 ATATATATATATAAATACAAA
1 ATATATATATATAAATACAAA
740574 ATATATATATATAAATACAAA
1 ATATATATATATAAATACAAA
740595 CACCTAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATATATATATAAATACAAA
Found at i:744352 original size:152 final size:148
Alignment explanation
Indices: 744165--744466 Score: 374
Period size: 150 Copynumber: 2.0 Consensus size: 148
744155 ACCCTCGGCA
* * * *
744165 TAGAAACAACCCGGTAGTTTCACAGGACTAGGTTTCGAGAAAAAATACTGAAAAGGTCTTTGAGG
1 TAGAAACAACCCGGTAGTTTCACAGAACTAGGTTTCGAG-AAAAAT-CTGAAAAGATCCTTAAGG
* ** * *
744230 TCTACTATTGACTTAGAAGTGCTCGGTGATCTT-AGAGGACTTGAAAAAGATAAAAATAAACCTA
64 TCTACCATCAACTTAGAAGTGCCCGGTGATCTTAAG-GGACTTGAAAAAGA-AAAAATAAACATA
*
744294 CTT-CTAATTCATACCTTTGGTG
127 -TTCCTAATTCATACCTTCGGTG
* * * *
744316 TAGAAACATACCCGGTAGTTTCATAGAACTAGGTTTCGAGAAAAATGTTAAAATATCCTTAAGGT
1 TAGAAACA-ACCCGGTAGTTTCACAGAACTAGGTTTCGAGAAAAATCTGAAAAGATCCTTAAGGT
* * * *
744381 TTACCATCAACTTAGAAGTGCCCGGTGATCTTAAGGGATTTGAAAAAGAAAAAGTGAACATATTC
65 CTACCATCAACTTAGAAGTGCCCGGTGATCTTAAGGGACTTGAAAAAGAAAAAATAAACATATTC
744446 CTAATTCATACCTTCGGTG
130 CTAATTCATACCTTCGGTG
744465 TA
1 TA
744467 AAAGCGGACT
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
148 2 0.02
149 30 0.23
150 53 0.41
151 16 0.12
152 29 0.22
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (148 bp):
TAGAAACAACCCGGTAGTTTCACAGAACTAGGTTTCGAGAAAAATCTGAAAAGATCCTTAAGGTC
TACCATCAACTTAGAAGTGCCCGGTGATCTTAAGGGACTTGAAAAAGAAAAAATAAACATATTCC
TAATTCATACCTTCGGTG
Found at i:744658 original size:235 final size:234
Alignment explanation
Indices: 744239--744661 Score: 582
Period size: 235 Copynumber: 1.8 Consensus size: 234
744229 GTCTACTATT
* * *
744239 GACTTAGAAGTGCTCGGTGATCTTAGAGGACTTGAAAAAGATAAAAATAAACCTACTTCTAATTC
1 GACTTAGAAGCGCTCGGTGATCTTAGAGGACTTGAAAAAGAAAAAAATAAACCTACTCCTAATTC
* * * *
744304 ATACCTTTGGTGTAGAAACATACCCGGTAGTTTCATAGAACTAGGTTTCGAGAAAAATGTTAAAA
66 ATACCTTTCGTGTAGAAACATACCCGGTAATTTCATAAAACTAGGTTTCGAGAAAAATGCTAAAA
* * * *
744369 TATCCTTAAGGTTTACCATCAACTTAGAAGTGCCCGGTGATCTTAAGGGATTTGAAAAAGAAAAA
131 TATCCCTAAGGTTTACCATCAACTTAGAAGTGCCCAGTGATCCTAAGAGATTTGAAAAAGAAAAA
744434 GTGAACATATTCCTAATTCATACCTTCGGTGTAAAAGCG
196 GTGAACATATTCCTAATTCATACCTTCGGTGTAAAAGCG
* *
744473 GACTTAGTAGCGCTCTGTGATCTTA-AGGAACTTGAAAAAGAAAAAAAATAAACCTACTCCTAAT
1 GACTTAGAAGCGCTCGGTGATCTTAGAGG-ACTTGAAAAAG-AAAAAAATAAACCTACTCCTAAT
* * * *
744537 TCATACC-TTCGTCGTAGAAGCGA-ACCCGGTAATTTTATAAAACTAGGTTTCGGGAAAAGTGCT
64 TCATACCTTTCGT-GTAGAAAC-ATACCCGGTAATTTCATAAAACTAGGTTTCGAGAAAAATGCT
* * * ** *
744600 AAAATATCCCTAAGGTTTGCTATCGACTTAGAAGTGCTTAGTGATCCTATGAGATTTGAAAA
127 AAAATATCCCTAAGGTTTACCATCAACTTAGAAGTGCCCAGTGATCCTAAGAGATTTGAAAA
744662 GATTGCAAAG
Statistics
Matches: 162, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
233 3 0.02
234 37 0.23
235 121 0.75
236 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (234 bp):
GACTTAGAAGCGCTCGGTGATCTTAGAGGACTTGAAAAAGAAAAAAATAAACCTACTCCTAATTC
ATACCTTTCGTGTAGAAACATACCCGGTAATTTCATAAAACTAGGTTTCGAGAAAAATGCTAAAA
TATCCCTAAGGTTTACCATCAACTTAGAAGTGCCCAGTGATCCTAAGAGATTTGAAAAAGAAAAA
GTGAACATATTCCTAATTCATACCTTCGGTGTAAAAGCG
Found at i:745860 original size:103 final size:102
Alignment explanation
Indices: 745720--745995 Score: 308
Period size: 102 Copynumber: 2.7 Consensus size: 102
745710 TGTTGATGAT
* * *
745720 AAATAATCTTGACAAAGGAAGAGTTCAAACCTTGATAAATTTTGATGAGCAGGGTTAGAGTATCC
1 AAATAAT-TTGACAAA-GAAGAGTTCAAATCTAGATAAATTTTGAAGAGCAGGGTTAGAGTATCC
* *
745785 TCTCGAAAA-GATAGGATTGGAGTATCCCCGTGAATAAC
64 TCTCGAAAAGGATAGGATTGGAGTATCCCCATAAATAAC
* * * *
745823 AAATAATTTAGACAAAGTAAGAATTCAAATCTAGATAAATTTTGAAGA-AAGGGGTTGGAGCAT-
1 AAATAATTT-GACAAAG-AAGAGTTCAAATCTAGATAAATTTTGAAGAGCA-GGGTTAGAGTATC
* * *
745886 CTCTC-AAAAGGTTAGGATTGGAGTATTCCCATAAATAAG
63 CTCTCGAAAAGGATAGGATTGGAGTATCCCCATAAATAAC
* * * *
745925 AAATAATTTTGACAACAGAGGAGTTCAAATCTAGATAAATTTTGAAGTGCGGGGCTAGAGTATCC
1 AAATAA-TTTGACAA-AGAAGAGTTCAAATCTAGATAAATTTTGAAGAGCAGGGTTAGAGTATCC
*
745990 CCTCGA
64 TCTCGA
745996 CAGGTCAGAG
Statistics
Matches: 143, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
101 4 0.03
102 80 0.56
103 58 0.41
104 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (102 bp):
AAATAATTTGACAAAGAAGAGTTCAAATCTAGATAAATTTTGAAGAGCAGGGTTAGAGTATCCTC
TCGAAAAGGATAGGATTGGAGTATCCCCATAAATAAC
Found at i:746006 original size:21 final size:21
Alignment explanation
Indices: 745981--746024 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
745971 GTGCGGGGCT
745981 AGAGTATCCCCTCGACAGGTC
1 AGAGTATCCCCTCGACAGGTC
746002 AGAGTATCCCCTCGACAGGTC
1 AGAGTATCCCCTCGACAGGTC
746023 AG
1 AG
746025 GGTTAGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (21 bp):
AGAGTATCCCCTCGACAGGTC
Found at i:747506 original size:20 final size:21
Alignment explanation
Indices: 747460--747509 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
747450 GAATGGACAT
*
747460 GTTAAAATGTATGAAATATGG
1 GTTAAAATGCATGAAATATGG
** *
747481 CATAAAATGCATG-CATATGG
1 GTTAAAATGCATGAAATATGG
747501 GTTAAAATG
1 GTTAAAATG
747510 ATAAAGATGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (21 bp):
GTTAAAATGCATGAAATATGG
Found at i:748731 original size:17 final size:18
Alignment explanation
Indices: 748695--748732 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
748685 TAGCCAAACT
748695 TGTATCGATACACAAAGTA
1 TGTATCGATA-ACAAAGTA
*
748714 TGTATCGAT-ACAATGTA
1 TGTATCGATAACAAAGTA
748731 TG
1 TG
748733 GATACACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (18 bp):
TGTATCGATAACAAAGTA
Found at i:748737 original size:32 final size:33
Alignment explanation
Indices: 748695--748758 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
748685 TAGCCAAACT
**
748695 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
748727 TGTATGGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
748759 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:754345 original size:13 final size:13
Alignment explanation
Indices: 754327--754352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
754317 ACATTTTTCT
754327 TTGTATCGATACA
1 TTGTATCGATACA
754340 TTGTATCGATACA
1 TTGTATCGATACA
754353 GGGGGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:756798 original size:13 final size:13
Alignment explanation
Indices: 756780--756805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
756770 TACAGCAAGT
756780 ATGTATCGATACA
1 ATGTATCGATACA
756793 ATGTATCGATACA
1 ATGTATCGATACA
756806 CAAAAAATTA
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:757091 original size:66 final size:66
Alignment explanation
Indices: 756999--757134 Score: 272
Period size: 66 Copynumber: 2.1 Consensus size: 66
756989 GCCTATAAAT
756999 AAGAGCTTCCAGCAGCAAAAGAAAGAGAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTC
1 AAGAGCTTCCAGCAGCAAAAGAAAGAGAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTC
757064 A
66 A
757065 AAGAGCTTCCAGCAGCAAAAGAAAGAGAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTC
1 AAGAGCTTCCAGCAGCAAAAGAAAGAGAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTC
757130 A
66 A
757131 AAGA
1 AAGA
757135 TCAAAGCGTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.49, C:0.18, G:0.23, T:0.10
Consensus pattern (66 bp):
AAGAGCTTCCAGCAGCAAAAGAAAGAGAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTC
A
Found at i:759122 original size:21 final size:21
Alignment explanation
Indices: 759089--759133 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
759079 TTGCAAGTTG
*
759089 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
759111 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
759131 AAA
1 AAA
759134 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:760957 original size:15 final size:15
Alignment explanation
Indices: 760937--760967 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
760927 TAAAAATGTC
*
760937 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
760952 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
760967 C
1 C
760968 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:763055 original size:13 final size:13
Alignment explanation
Indices: 763037--763075 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
763027 ACATTTTTCT
763037 TTGTATCGATACA
1 TTGTATCGATACA
763050 TTGTATCGATACA
1 TTGTATCGATACA
*
763063 CTGTATCGATACA
1 TTGTATCGATACA
763076 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:765615 original size:13 final size:13
Alignment explanation
Indices: 765597--765621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
765587 ATAGCAAGTA
765597 TGTATCGATACAG
1 TGTATCGATACAG
765610 TGTATCGATACA
1 TGTATCGATACA
765622 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:771965 original size:13 final size:13
Alignment explanation
Indices: 771947--771972 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
771937 ACATTTTTCT
771947 TTGTATCGATACA
1 TTGTATCGATACA
771960 TTGTATCGATACA
1 TTGTATCGATACA
771973 GGGGGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:772127 original size:20 final size:20
Alignment explanation
Indices: 772084--772129 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
772074 AAATCTTTTG
772084 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
772105 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
772125 CAAAA
1 CAAAA
772130 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:774015 original size:13 final size:13
Alignment explanation
Indices: 773997--774022 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
773987 TACACAAAGT
773997 ATGTATCGATACA
1 ATGTATCGATACA
774010 ATGTATCGATACA
1 ATGTATCGATACA
774023 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:774020 original size:32 final size:33
Alignment explanation
Indices: 773979--774042 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
773969 TAGCCAAACT
**
773979 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
774011 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
774043 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:774906 original size:55 final size:55
Alignment explanation
Indices: 774838--774958 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 55
774828 AAATTACCTG
* * *
774838 AATGTATCAATACATACATATGGGTTAAAAACCAGAATGTATTGATACAATGAAA
1 AATGTATCAATACATACATATGGGTCAAAAACCAAAATGTATCGATACAATGAAA
* * *
774893 AATGTATC----GATACATATGGGTCAAAACCCAAAATGTATCGATACGATGAAA
1 AATGTATCAATACATACATATGGGTCAAAAACCAAAATGTATCGATACAATGAAA
*
774944 AATGTATCTATACAT
1 AATGTATCAATACAT
774959 TTCCTTATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
51 45 0.82
55 10 0.18
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (55 bp):
AATGTATCAATACATACATATGGGTCAAAAACCAAAATGTATCGATACAATGAAA
Found at i:774928 original size:51 final size:51
Alignment explanation
Indices: 774851--774958 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
774841 GTATCAATAC
* * *
774851 ATACATATGGGTTAAAAACCAGAATGTATTGATACAATGAAAAATGTATCG
1 ATACATATGGGTCAAAAACCAAAATGTATCGATACAATGAAAAATGTATCG
* * *
774902 ATACATATGGGTCAAAACCCAAAATGTATCGATACGATGAAAAATGTATCT
1 ATACATATGGGTCAAAAACCAAAATGTATCGATACAATGAAAAATGTATCG
774953 ATACAT
1 ATACAT
774959 TTCCTTATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (51 bp):
ATACATATGGGTCAAAAACCAAAATGTATCGATACAATGAAAAATGTATCG
Found at i:775046 original size:20 final size:21
Alignment explanation
Indices: 775019--775069 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
775009 TTCAAACATC
775019 TATCGATACATTCACTTA-TG
1 TATCGATACATTCACTTATTG
*
775039 TATTGATACATTCACTTATTG
1 TATCGATACATTCACTTATTG
775060 TATCGATACA
1 TATCGATACA
775070 AATTTGTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (21 bp):
TATCGATACATTCACTTATTG
Found at i:776105 original size:154 final size:156
Alignment explanation
Indices: 775924--776318 Score: 431
Period size: 166 Copynumber: 2.5 Consensus size: 156
775914 TTTTTTATAA
* * *
775924 TTTTTAATTTTTAAAATTCATTAAATATTATCATTTATTTCAAATTAATTTAATTTTTAAAAATT
1 TTTTAAATTTTTAAAATTCATCAAATATTATCATTTATTTCAAATTAATTCAATTTTTAAAAATT
* *
775989 CATTCATTTTT-ATTTTTTCCTT-AAAATTCTCA-TTTTTACGAAATACAGTGTTTTCTACTCTG
66 CATTCATTTTTGATTTTTTCCTTGAAAATT-TCATTTTTTACGAAATACAGTATTTTCTACTCTA
*
776051 TAAATTTTTT-TGAGGGATTTTTCTCGG
130 TAAATTTTTTCAG-GGGATTTTTCTCGG
* * * *
776078 TTTTCAATTTTTTAAATTCCTCAAATATTATCATTTATTTCATATTAATTCAATTTTTAAAAATT
1 TTTTAAATTTTTAAAATTCATCAAATATTATCATTTATTTCAAATTAATTCAATTTTT---AA--
* ** *
776143 AATTCATTTTCATTCATTTTTGATTTTTTCCTTGAAACTTTCATTTTTTTTGAAATACGGTATTT
61 AA---A--TTCATTCATTTTTGATTTTTTCCTTGAAAATTTCATTTTTTACGAAATACAGTATTT
*
776208 TCTACTCTATAAATTTTTTCAGGGGATTTTTCTTGG
121 TCTACTCTATAAATTTTTTCAGGGGATTTTTCTCGG
* * * * * *
776244 TTTTAAATTTTTAAAATTCATCAAACATCATTATTTGA-TTCACATTAATTCAGTTTTAAAAAAT
1 TTTTAAATTTTTAAAATTCATCAAATATTATCATTT-ATTTCAAATTAATTCAATTTTTAAAAAT
* *
776308 TAATTTATTTT
65 TCATTCATTTT
776319 CATAAATTTT
Statistics
Matches: 201, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
154 52 0.26
156 10 0.05
157 2 0.01
158 1 0.00
159 2 0.01
161 2 0.01
162 1 0.00
163 2 0.01
164 13 0.06
165 14 0.07
166 100 0.50
167 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (156 bp):
TTTTAAATTTTTAAAATTCATCAAATATTATCATTTATTTCAAATTAATTCAATTTTTAAAAATT
CATTCATTTTTGATTTTTTCCTTGAAAATTTCATTTTTTACGAAATACAGTATTTTCTACTCTAT
AAATTTTTTCAGGGGATTTTTCTCGG
Found at i:776223 original size:166 final size:165
Alignment explanation
Indices: 775987--776358 Score: 464
Period size: 166 Copynumber: 2.3 Consensus size: 165
775977 TTTTTAAAAA
* ** *
775987 TTCATTCATTTTT-ATTTTTTCCTTAAAATTCTCA-TTTTTACGAAATACAGTGTTTTCTACTCT
1 TTCATTCATTTTTGATTTTTTCCTTGAAATT-TCATTTTTTTTGAAATACAGTATTTTCTACTCT
* * * * * * *
776050 GTAAATTTTTT-TGAGGGATTTTTCTCGGTTTTCAATTTTTTAAATTCCTCAAATATTATCATTT
65 ATAAATTTTTTCAG-GGGATTTTTCTCGGTTTTAAATTTTTAAAATTCATCAAACATCATCATTT
* *
776114 -ATTTCATATTAATTCAATTTTTAAAAATTAATTCATT
129 GA-TTCACATTAATTCAATTTTAAAAAATTAATTCATT
*
776151 TTCATTCATTTTTGATTTTTTCCTTGAAACTTTCATTTTTTTTGAAATACGGTATTTTCTACTCT
1 TTCATTCATTTTTGATTTTTTCCTTGAAA-TTTCATTTTTTTTGAAATACAGTATTTTCTACTCT
* *
776216 ATAAATTTTTTCAGGGGATTTTTCTTGGTTTTAAATTTTTAAAATTCATCAAACATCATTATTTG
65 ATAAATTTTTTCAGGGGATTTTTCTCGGTTTTAAATTTTTAAAATTCATCAAACATCATCATTTG
* *
776281 ATTCACATTAATTCAGTTTTAAAAAATTAATTTATT
130 ATTCACATTAATTCAATTTTAAAAAATTAATTCATT
** * * * *
776317 TTCATAAATTTTGGATTTTTTCTTTGAAATCTCTTTTTTTTT
1 TTCATTCATTTTTGATTTTTTCCTTGAAATTTCATTTTTTTT
776359 TTTCCAAAAA
Statistics
Matches: 179, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
164 13 0.07
165 28 0.16
166 136 0.76
167 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (165 bp):
TTCATTCATTTTTGATTTTTTCCTTGAAATTTCATTTTTTTTGAAATACAGTATTTTCTACTCTA
TAAATTTTTTCAGGGGATTTTTCTCGGTTTTAAATTTTTAAAATTCATCAAACATCATCATTTGA
TTCACATTAATTCAATTTTAAAAAATTAATTCATT
Found at i:777541 original size:37 final size:37
Alignment explanation
Indices: 777491--777566 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
777481 GGGGAATTTC
777491 AGCCTTGTTCATGAAACCTAGTCCGACTAGATTACCA
1 AGCCTTGTTCATGAAACCTAGTCCGACTAGATTACCA
*
777528 AGCCTTGTTCATGAAACCTAGTCTGACTAGATTACCA
1 AGCCTTGTTCATGAAACCTAGTCCGACTAGATTACCA
777565 AG
1 AG
777567 TCTAGTGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (37 bp):
AGCCTTGTTCATGAAACCTAGTCCGACTAGATTACCA
Found at i:783424 original size:20 final size:20
Alignment explanation
Indices: 783401--783454 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
783391 AAGTACCCAG
*
783401 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCATCA
*
783421 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCATCA
783441 ATGTATCGATACAT
1 ATGTATCGATACAT
783455 CTAGTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCATCA
Found at i:793061 original size:51 final size:52
Alignment explanation
Indices: 792954--793104 Score: 200
Period size: 52 Copynumber: 2.9 Consensus size: 52
792944 AAAAATTTTG
* * * *
792954 AATGACAATGCTTGGA-CAAAAACTCAAAAAGGTGTTCAAGTAAGAAAAAATG
1 AATGACAATGCTTGGATGAAAAAC-CAAAAGGGCGTTCAAGTAAGAAAAAATA
793006 AATGACAATGCTTGGATGAAAAACCAAAAGGGCGTTCAAGTAAGAAAAAA-A
1 AATGACAATGCTTGGATGAAAAACCAAAAGGGCGTTCAAGTAAGAAAAAATA
* * * *
793057 AATGACAATGCTTGGATGAAAACCCGAAAGGGCATTCAGGTAA-AAAAA
1 AATGACAATGCTTGGATGAAAAACCAAAAGGGCGTTCAAGTAAGAAAAA
793105 TCGAATGAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
50 5 0.06
51 39 0.43
52 40 0.44
53 6 0.07
ACGTcount: A:0.49, C:0.13, G:0.21, T:0.17
Consensus pattern (52 bp):
AATGACAATGCTTGGATGAAAAACCAAAAGGGCGTTCAAGTAAGAAAAAATA
Found at i:793112 original size:51 final size:50
Alignment explanation
Indices: 792952--793112 Score: 187
Period size: 51 Copynumber: 3.1 Consensus size: 50
792942 AAAAAAATTT
** * * *
792952 TGAATGACAATGCTTGGACAAAAACTCAAAAAGGTGTTCAAGTAAGAAAAAA
1 TGAATGACAATGCTTGGATGAAAACCCAAAAGGGCGTTCAAGT-A-AAAAAA
*
793004 TGAATGACAATGCTTGGATGAAAAACCAAAAGGGCGTTCAAGTAAGAAAAA
1 TGAATGACAATGCTTGGATGAAAACCCAAAAGGGCGTTCAAGTAA-AAAAA
** * * *
793055 AAAATGACAATGCTTGGATGAAAACCCGAAAGGGCATTCAGGTAAAAAAA
1 TGAATGACAATGCTTGGATGAAAACCCAAAAGGGCGTTCAAGTAAAAAAA
793105 TCGAATGA
1 T-GAATGA
793113 AAACCTAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
50 6 0.06
51 50 0.54
52 37 0.40
ACGTcount: A:0.48, C:0.12, G:0.22, T:0.18
Consensus pattern (50 bp):
TGAATGACAATGCTTGGATGAAAACCCAAAAGGGCGTTCAAGTAAAAAAA
Found at i:793937 original size:78 final size:77
Alignment explanation
Indices: 793784--793962 Score: 189
Period size: 78 Copynumber: 2.3 Consensus size: 77
793774 TCCAGATGCT
** * * *
793784 AGATGATATTGGTGCATCACAAAGCCAAAGAGGGTGCTTCCCACACATTCCTAATCATATCTTTC
1 AGATGATATT-GTGCATCACATGGCCAAAGAGGATGCTTCCCACACATTCCCAATCATATCTCTC
793849 ATCCCCAAACACC
65 ATCCCCAAACACC
* * *
793862 AGATGATATTAGTGCATCACATGGCC-AAGAAGGATGTTTCCCATACATTCCCAATCGTATCTCT
1 AGATGATATT-GTGCATCACATGGCCAAAG-AGGATGCTTCCCACACATTCCCAATCATATCTCT
* * * *
793926 CCTTCCTAAACACT
64 CATCCCCAAACACC
* *
793940 AAATGGTATTGATGCATCACATG
1 AGATGATATTG-TGCATCACATG
793963 ACCATAAAGG
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
77 4 0.05
78 80 0.95
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (77 bp):
AGATGATATTGTGCATCACATGGCCAAAGAGGATGCTTCCCACACATTCCCAATCATATCTCTCA
TCCCCAAACACC
Found at i:794623 original size:42 final size:41
Alignment explanation
Indices: 794572--794830 Score: 193
Period size: 42 Copynumber: 6.2 Consensus size: 41
794562 TCATTTGCAT
* *
794572 GTCGACTTAGACTCGAGAGACCTCTTTATCTTTTGTCTGCTC
1 GTCGGCTTAGAC-CGAGAGACCTCTTTATCTTTTGTCTGCCC
* ** ** *
794614 GTCGGCTTAGACCTGAGAGACCCCTTTATCAATCATCTACCC
1 GTCGGCTTAGACC-GAGAGACCTCTTTATCTTTTGTCTGCCC
* * * **
794656 ATCGGCTTAGACCCGAGGGA-C-CTTCATCTTTTGTCTGCTT
1 GTCGGCTTAGA-CCGAGAGACCTCTTTATCTTTTGTCTGCCC
* * *
794696 GTCGGCTTAGATTC-AGAAGACCTCTTCATCTTTTGTCTACCC
1 GTCGGCTTAGA-CCGAG-AGACCTCTTTATCTTTTGTCTGCCC
* * *
794738 ATCGCCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCC
1 GTCGGCTTAGA-CCGAGAGACCTCTTTATCTTTTGTCTGCCC
** * * *
794780 GTTAG-TTCAGACCTAGGAGACTTCTTTAGCTTTTGTCTGCCC
1 GTCGGCTT-AGACCGA-GAGACCTCTTTATCTTTTGTCTGCCC
*
794822 ATCGGCTTA
1 GTCGGCTTA
794831 TACCCTGGAG
Statistics
Matches: 167, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
39 2 0.01
40 24 0.14
41 8 0.05
42 127 0.76
43 6 0.04
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (41 bp):
GTCGGCTTAGACCGAGAGACCTCTTTATCTTTTGTCTGCCC
Found at i:794735 original size:82 final size:83
Alignment explanation
Indices: 794577--794777 Score: 235
Period size: 82 Copynumber: 2.4 Consensus size: 83
794567 TGCATGTCGA
* * * *
794577 CTTAGACTCGAGAGACCTCTTTATCTTTTGTCTGCTCGTCGGCTTAGACCTGAGAGACCCCTTTA
1 CTTAGACCCGAGAGA-CTCTTCATCTTTTGTCTGCTCGTCGGCTTAGACCAGAGAGACCCCTTCA
*
794642 TCAATCATCTACCCATCGG
65 TCAATCATCTACCCATCGC
* * * *
794661 CTTAGACCCGAGGGAC-CTTCATCTTTTGTCTGCTTGTCGGCTTAGATTCAGA-AGACCTCTTCA
1 CTTAGACCCGAGAGACTCTTCATCTTTTGTCTGCTCGTCGGCTTAGA-CCAGAGAGACCCCTTCA
** **
794724 TCTTTTGTCTACCCATCGC
65 TCAATCATCTACCCATCGC
*
794743 CTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGC
1 CTTAGACCCGAGAGAC-TCTTCATCTTTTGTCTGC
794778 CCGTTAGTTC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
82 66 0.67
83 4 0.04
84 29 0.29
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (83 bp):
CTTAGACCCGAGAGACTCTTCATCTTTTGTCTGCTCGTCGGCTTAGACCAGAGAGACCCCTTCAT
CAATCATCTACCCATCGC
Found at i:794961 original size:42 final size:43
Alignment explanation
Indices: 794915--794998 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
794905 CGTCGGTTTA
*
794915 GACTCG-GAAGACTTTTTCATCT-TTTGTTTGCCCATCGGCTCC
1 GACTCGAG-AGACTTTTTCATCTCTTTATTTGCCCATCGGCTCC
*
794957 GACTCGAGAGACTTTTTCATCTCTTTATTTGCCCATTGGCTC
1 GACTCGAGAGACTTTTTCATCTCTTTATTTGCCCATCGGCTC
794999 AATCCTGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 20 0.53
43 18 0.47
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.39
Consensus pattern (43 bp):
GACTCGAGAGACTTTTTCATCTCTTTATTTGCCCATCGGCTCC
Found at i:799596 original size:51 final size:50
Alignment explanation
Indices: 799539--799652 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 50
799529 AATTAACTAG
*
799539 ATGTATCGATACATTGAAAAATATATCGATATATCTAGGTAAAAAAACAGA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTAGGT-AAAAAACAGA
* *
799590 ATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAAAAAACATA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTAGGTAAAAAACAGA
799640 ATGTATCGA-ACAT
1 ATGTATCGATACAT
799653 GTACTGTTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 4 0.07
50 18 0.30
51 38 0.63
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATATATCGATACATCTAGGTAAAAAACAGA
Found at i:800829 original size:12 final size:12
Alignment explanation
Indices: 800812--800841 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
800802 TGCAAGAGAG
800812 AGAAAAAAATAA
1 AGAAAAAAATAA
*
800824 AGAAAAAAATAG
1 AGAAAAAAATAA
800836 AGAAAA
1 AGAAAA
800842 TAGGTAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (12 bp):
AGAAAAAAATAA
Found at i:805707 original size:127 final size:127
Alignment explanation
Indices: 805407--805742 Score: 448
Period size: 129 Copynumber: 2.6 Consensus size: 127
805397 AATTTAAACG
* * * *
805407 AATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTGTCCGTAAGGG-TGTAAAA-AGTTTCA
1 AATATTAATC-ATTTTAATTTTTTATATTCCTATGGGTATCCGT-AGGGATATAAAAGA-TTTC-
* **
805470 AAAACTTTTCATATCTTTTCGGGTATTCATTAAGGTATGAAATGATATTCTTTCCAAACACAAAT
62 AAAACTTTTCGTATCTTTTCAAGTATTCATTAAGGTATGAAATGATATTCTTTCCAAACACAAAT
805535 A
127 A
*
805536 AATATAAATCATTCTTAATTTTTTATATTCCTATGGGTATCCGTAGGGATATAAAAGATTTCAAA
1 AATATTAATCATT-TTAATTTTTTATATTCCTATGGGTATCCGTAGGGATATAAAAGATTTCAAA
* *
805601 TACTTTTCGTATCTTTTCAAGTA-TCTATTAAGGTATGAAATGAT-TT-TTTTCAAACATAAATA
65 -ACTTTTCGTATCTTTTCAAGTATTC-ATTAAGGTATGAAATGATATTCTTTCCAAACACAAATA
805663 AATATTAATCATTTTAAATTTTTTATATTCCTATGGGTATCCGTAGGGATATTAAAAGATTTCAA
1 AATATTAATCATTTT-AATTTTTTATATTCCTATGGGTATCCGTAGGGATA-TAAAAGATTTCAA
* *
805728 AATTTTTTGTATCTT
64 AACTTTTCGTATCTT
805743 GGCGAGTTTC
Statistics
Matches: 187, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
126 2 0.01
127 73 0.39
128 27 0.14
129 84 0.45
130 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (127 bp):
AATATTAATCATTTTAATTTTTTATATTCCTATGGGTATCCGTAGGGATATAAAAGATTTCAAAA
CTTTTCGTATCTTTTCAAGTATTCATTAAGGTATGAAATGATATTCTTTCCAAACACAAATA
Found at i:805761 original size:127 final size:128
Alignment explanation
Indices: 805407--805770 Score: 452
Period size: 127 Copynumber: 2.8 Consensus size: 128
805397 AATTTAAACG
* * * * *
805407 AATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTGTCCGTAAGGG-TGTAAAAAG-TTTCA
1 AATATTAATC-ATTTTAATTTTTTATATTCCTATGGGTATCCGT-AGGGATATTAAAAGATTTC-
* *
805470 AAAACTTTTCATATCTTTTCGGGTATT-CATTAAGGTATGAAATGATATTCTTTCCAAACACAAA
63 AAAACTTTTCGTATCTTTTCGAGT-TTCCATTAAGGTATGAAATGATATTCTTTCCAAACACAAA
805534 TA
127 TA
*
805536 AATATAAATCATTCTTAATTTTTTATATTCCTATGGGTATCCGTAGGGATA-TAAAAGATTTCAA
1 AATATTAATCATT-TTAATTTTTTATATTCCTATGGGTATCCGTAGGGATATTAAAAGATTTCAA
* * * * *
805600 ATACTTTTCGTATCTTTTCAAGTATCTATTAAGGTATGAAATGAT-TT-TTTTCAAACATAAATA
65 A-ACTTTTCGTATCTTTTCGAGTTTCCATTAAGGTATGAAATGATATTCTTTCCAAACACAAATA
805663 AATATTAATCATTTTAAATTTTTTATATTCCTATGGGTATCCGTAGGGATATTAAAAGATTTCAA
1 AATATTAATCATTTT-AATTTTTTATATTCCTATGGGTATCCGTAGGGATATTAAAAGATTTCAA
* * ** * *
805728 AATTTTTTGTATCTTGGCGAGTTTCCATCAAGGTACGAAATGA
65 AACTTTTCGTATCTTTTCGAGTTTCCATTAAGGTATGAAATGA
805771 CACTTTTTGA
Statistics
Matches: 205, Mismatches: 23, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
126 2 0.01
127 94 0.46
128 31 0.15
129 78 0.38
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (128 bp):
AATATTAATCATTTTAATTTTTTATATTCCTATGGGTATCCGTAGGGATATTAAAAGATTTCAAA
ACTTTTCGTATCTTTTCGAGTTTCCATTAAGGTATGAAATGATATTCTTTCCAAACACAAATA
Found at i:809061 original size:151 final size:155
Alignment explanation
Indices: 808741--809062 Score: 367
Period size: 151 Copynumber: 2.1 Consensus size: 155
808731 CCAGCACCTT
* *
808741 TAAAAGGCTTAAAAAAGATTATAGATGGGATGAACCTATCTTAAATACCCATCTTTGACATAAAA
1 TAAAGGGCTTAAAAAAGATTATAGATGGGATGAACCTATCTTAAATACCCACCTTTGACATAAAA
* * * **
808806 GCACACTCGATGACAACATAGGACTCAATTTTAGAAAATTATGAAAATGCCCCTAGGGGATATCT
66 GCACACTCGATGACAACATAGGACTCAATTCTAGAAAATTATCAAAATGCCCATAAAGGATATCT
* * *
808871 TTGACTTAGAAGTGCCTGATACCCC
131 TTGACGTAGAAGTACCTGACACCCC
* *
808896 TAAAGGACTTAAAAAGGATTAT-GAATGGGATGAACCTAT-TCT-AA-ACCCACCTTT-AGCATA
1 TAAAGGGCTTAAAAAAGATTATAG-ATGGGATGAACCTATCT-TAAATACCCACCTTTGA-CATA
* * *
808956 AAAGCGA-ACTCGGTGACAACTTAGGACTCGATTCTA-AAAATTA-CAAAATGCCCATAAAGGAT
63 AAAGC-ACACTCGATGACAACATAGGACTCAATTCTAGAAAATTATCAAAATGCCCATAAAGGAT
*
809018 A-CTTTCGACGTAGAAGTA-CTCGGCACCCC
127 ATCTTT-GACGTAGAAGTACCT-GACACCCC
*
809047 TAAAGGGCTCAAAAAA
1 TAAAGGGCTTAAAAAA
809063 ATGAAAGAAA
Statistics
Matches: 142, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
150 6 0.04
151 45 0.32
152 8 0.06
153 43 0.30
154 5 0.04
155 35 0.25
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (155 bp):
TAAAGGGCTTAAAAAAGATTATAGATGGGATGAACCTATCTTAAATACCCACCTTTGACATAAAA
GCACACTCGATGACAACATAGGACTCAATTCTAGAAAATTATCAAAATGCCCATAAAGGATATCT
TTGACGTAGAAGTACCTGACACCCC
Found at i:809455 original size:143 final size:140
Alignment explanation
Indices: 809125--809505 Score: 512
Period size: 143 Copynumber: 2.7 Consensus size: 140
809115 ATAAATTTCG
*
809125 AAAATCTCATTTCATACCTTAATGGAGAACTAAAAAGATACGAAAAGTTTTAAAGATTTCTATAC
1 AAAAT-TCATTTCATACCTTAATGGAGAACTAAAAAGATACGAAAAGTTTTGAAGATTTCTATAC
** * *
809190 CTTTACGAAAAACCATAGGAATATAGAAATCTTGAAAAATTAAAACAATAATTTTTATTTAATTT
65 CCCTACGGAAAACCATAGGAATATAGAAATATTGAAAAATTAAAACAATAATTTTTATTTAATTT
809255 TTTAATTTCAA
130 TTTAATTTCAA
* ** *
809266 AAAATTTATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACC
1 AAAATTCATTTCATACCTTAATGGAGAACTAAAAAGATACGAAAAGTTTTGAAGATTTCTATACC
* * * * *
809331 CCTATGGAAAACCATAGGAATATTAGAGATATTGAAAAATTAAGATAATAATTTTTATTTGA-TT
66 CCTACGGAAAACCATAGGAATA-TAGAAATATTGAAAAATTAAAACAATAATTTTTATTTAATTT
809395 TTTAATTTTTTCAA
130 TTTAA---TTTCAA
* * * *
809409 AAAATTCATTTCATACCTTAATGGAAAAATAAAAAGATATGAAAAGTTTCGAAGATTTCTATACC
1 AAAATTCATTTCATACCTTAATGGAGAACTAAAAAGATACGAAAAGTTTTGAAGATTTCTATACC
* * *
809474 CCTACAGATAACCATAAGAATAATAGAAATAT
66 CCTACGGAAAACCATAGGAAT-ATAGAAATAT
809506 AAAAATAATT
Statistics
Matches: 208, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
140 80 0.38
141 39 0.19
143 88 0.42
144 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (140 bp):
AAAATTCATTTCATACCTTAATGGAGAACTAAAAAGATACGAAAAGTTTTGAAGATTTCTATACC
CCTACGGAAAACCATAGGAATATAGAAATATTGAAAAATTAAAACAATAATTTTTATTTAATTTT
TTAATTTCAA
Found at i:810758 original size:5 final size:5
Alignment explanation
Indices: 810748--810777 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
810738 AACTAGTTAA
810748 AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
810778 TTCAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:811296 original size:166 final size:163
Alignment explanation
Indices: 810946--811329 Score: 409
Period size: 166 Copynumber: 2.3 Consensus size: 163
810936 GAAAAAATTT
* * * * * * *
810946 GAATTTCTCAAAACTGATTTAATGTGAATTTAATGATAATATTAGATGAATTTTAATAATTTTAA
1 GAATTTTTTAAAACTAATTTAAT-TGAATTAAATGATGATATTTGATGAATTTTAATAATTATAA
* * * * ***
811011 ACCAAGAAAAATTCCCCCGAAAACCTTTATGGAATAGAAAACTTGATTTTTTGGGAATAGGAAAA
65 ACCAAGAAAAATTCCCCCAAAAACATTTATGGAATAAAAAACTTGATATTTTAAAAATAGGAAAA
* *
811076 TTTTAAGAAAAATGAAAAACTCATGAAAATAAAT
130 TTTTAAGAAAAATGAAAAACTAATGAAAATAAAG
811110 GAATTTTTTAAAACTAATTTAATATGAATTAAATGATGATATTTGATGAATTCTTAA-AATTATA
1 GAATTTTTTAAAACTAATTTAAT-TGAATTAAATGATGATATTTGATGAATT-TTAATAATTATA
* * *
811174 AACCAAGAAAAATTCTCCCAAAAATATTTATAGAGTAA-AAAAAACTTCG-TATTTTAAAAATAT
64 AACCAAGAAAAATTCCCCCAAAAACATTTAT-G-G-AATAAAAAACTT-GATATTTTAAAAATAG
* * *
811237 GAAGAATTTTAAGGAAAA-GGAAAATTAATG-AAATAAAAG
125 GAA-AATTTTAAGAAAAATGAAAAACTAATGAAAAT-AAAG
* * * *
811276 GAATTTTTTGAAACTAATTTAATGGTAATTAAATGATGATATTTAAAGAATTTT
1 GAATTTTTTAAAACTAATTTAATTG-AATTAAATGATGATATTTGATGAATTTT
811330 GAAGTTACAA
Statistics
Matches: 185, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
164 78 0.42
165 12 0.06
166 79 0.43
167 16 0.09
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (163 bp):
GAATTTTTTAAAACTAATTTAATTGAATTAAATGATGATATTTGATGAATTTTAATAATTATAAA
CCAAGAAAAATTCCCCCAAAAACATTTATGGAATAAAAAACTTGATATTTTAAAAATAGGAAAAT
TTTAAGAAAAATGAAAAACTAATGAAAATAAAG
Found at i:812458 original size:158 final size:157
Alignment explanation
Indices: 812181--812480 Score: 368
Period size: 158 Copynumber: 1.9 Consensus size: 157
812171 AAAATGATCA
* ** * * *
812181 TAAATGGGATGAACTTACCGTAAATGTACACTTTTGGCATAAAAGCATCTTAGTGACAACCTAAG
1 TAAATGGGACGAACTTACCGTAAATACACACCTTCGACATAAAAGCATCTTAGTGACAACCTAAG
* * * * **
812246 ACTGGGTTCTAAGCAAATTACAAAAATACCCCTAAAGTATACCTACGACGTGAAAGTATTTCGGT
66 ACTGGATTCTAAGAAAATTACAAAAATACCCCTAAAGTATACCTACGACATGAAAATATTTCAAT
812311 AACCCTAAATAGATACTAAAATGATTGG
131 AACCCT-AATAGATACTAAAATGATTGG
* * *
812339 TAAATGGGACGAACTTATCC-TAAATACACACCTTCGACATAAAAGCATCTTGGTGACAACTTAG
1 TAAATGGGACGAACTTA-CCGTAAATACACACCTTCGACATAAAAGCATCTTAGTGACAACCTAA
* * * * * ***
812403 GACTTGATTTTATGAAAATTACGAAAATACCCCTAAGGTATACCTTTTACATGAAAATATTTCAA
65 GACTGGATTCTAAGAAAATTACAAAAATACCCCTAAAGTATACCTACGACATGAAAATATTTCAA
812468 TAACCCTAATAGA
130 TAACCCTAATAGA
812481 CATTAAATTA
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
157 6 0.05
158 110 0.93
159 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (157 bp):
TAAATGGGACGAACTTACCGTAAATACACACCTTCGACATAAAAGCATCTTAGTGACAACCTAAG
ACTGGATTCTAAGAAAATTACAAAAATACCCCTAAAGTATACCTACGACATGAAAATATTTCAAT
AACCCTAATAGATACTAAAATGATTGG
Found at i:821269 original size:13 final size:13
Alignment explanation
Indices: 821251--821276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
821241 ACACCAAAGT
821251 ATGTATCGATACA
1 ATGTATCGATACA
821264 ATGTATCGATACA
1 ATGTATCGATACA
821277 TAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:822716 original size:13 final size:13
Alignment explanation
Indices: 822698--822723 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
822688 CAATTTTTTG
822698 TGTATCGATACAT
1 TGTATCGATACAT
822711 TGTATCGATACAT
1 TGTATCGATACAT
822724 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:822788 original size:21 final size:21
Alignment explanation
Indices: 822762--822837 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
822752 CTGCCAAGAA
*
822762 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
822783 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
822803 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
822824 ATGTATCGATACAT
1 ATGTATCGATACAT
822838 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:822808 original size:20 final size:20
Alignment explanation
Indices: 822783--822855 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
822773 CATCTTTTTT
822783 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
822803 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
822824 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
822844 ATGTATCGATAC
1 ATGTATCGATAC
822856 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:822819 original size:41 final size:41
Alignment explanation
Indices: 822762--822855 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
822752 CTGCCAAGAA
*
822762 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
822803 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
822844 ATGTATCGATAC
1 ATGTATCGATAC
822856 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:825326 original size:13 final size:13
Alignment explanation
Indices: 825308--825346 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
825298 ATAATCACCC
*
825308 TGTATCGATACAG
1 TGTATCGATACAA
825321 TGTATCGATACAA
1 TGTATCGATACAA
825334 TGTATCGATACAA
1 TGTATCGATACAA
825347 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:825357 original size:20 final size:20
Alignment explanation
Indices: 825332--825410 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
825322 GTATCGATAC
825332 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
825352 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
825377 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
825397 CATGTATCGATACA
1 AATGTATCGATACA
825411 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:827445 original size:15 final size:15
Alignment explanation
Indices: 827425--827455 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
827415 ATTTCGTTTG
*
827425 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
827440 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
827455 G
1 G
827456 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:831536 original size:13 final size:13
Alignment explanation
Indices: 831518--831543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
831508 CAATTTTTTG
831518 TGTATCGATACAT
1 TGTATCGATACAT
831531 TGTATCGATACAT
1 TGTATCGATACAT
831544 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:831608 original size:21 final size:21
Alignment explanation
Indices: 831582--831657 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
831572 CTGCCAAGAA
*
831582 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
831603 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
831623 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
831644 ATGTATCGATACAT
1 ATGTATCGATACAT
831658 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:831628 original size:20 final size:20
Alignment explanation
Indices: 831603--831675 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
831593 CATCTTTTTT
831603 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
831623 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
831644 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
831664 ATGTATCGATAC
1 ATGTATCGATAC
831676 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:831639 original size:41 final size:41
Alignment explanation
Indices: 831582--831675 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
831572 CTGCCAAGAA
*
831582 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
831623 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
831664 ATGTATCGATAC
1 ATGTATCGATAC
831676 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:837466 original size:13 final size:13
Alignment explanation
Indices: 837448--837486 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
837438 ACATTTTTCT
837448 TTGTATCGATACA
1 TTGTATCGATACA
837461 TTGTATCGATACA
1 TTGTATCGATACA
*
837474 CTGTATCGATACA
1 TTGTATCGATACA
837487 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:840071 original size:13 final size:13
Alignment explanation
Indices: 840053--840078 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
840043 ACACCAAAGT
840053 ATGTATCGATACA
1 ATGTATCGATACA
840066 ATGTATCGATACA
1 ATGTATCGATACA
840079 CAAAAATTGT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:840095 original size:32 final size:33
Alignment explanation
Indices: 840034--840097 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
840024 TAGCCAAACT
* *
840034 TGTATCGATACACCAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
840067 TGTATCGATACACAAAAAT-TGTATCGATACA
1 TGTATCGATACACAAAAATATGTATCGATACA
840098 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Done.