Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 123 of 133
Found at i:23677604 original size:2 final size:2
Alignment explanation
Indices: 23677599--23677631 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23677589 TTTTTTTACT
*
23677599 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23677632 TAAATCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23679724 original size:3 final size:3
Alignment explanation
Indices: 23679716--23679775 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
23679706 GAAGGATGAA
23679716 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23679764 AAT AAT AAT AAT
1 AAT AAT AAT AAT
23679776 CTGATGATTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23681988 original size:3 final size:3
Alignment explanation
Indices: 23681980--23682011 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23681970 TTGGATAGTG
23681980 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
23682012 GGTGAGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23682438 original size:2 final size:2
Alignment explanation
Indices: 23682426--23682455 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
23682416 CCTCCTCATT
*
23682426 TA TA GA 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
23682456 CCAGCTTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:23684043 original size:2 final size:2
Alignment explanation
Indices: 23684038--23684078 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
23684028 GTATATGCAT
* *
23684038 AG AG AG AG AG AG AT AG AG AG AG AG AT AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23684079 ATTTCTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.44, T:0.05
Consensus pattern (2 bp):
AG
Found at i:23685402 original size:16 final size:16
Alignment explanation
Indices: 23685378--23685410 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23685368 TTATATTTTA
*
23685378 GAGAGCTAATAAGGAG
1 GAGAACTAATAAGGAG
23685394 GAGAACTAATAAGGAG
1 GAGAACTAATAAGGAG
23685410 G
1 G
23685411 GGAAGGAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.36, T:0.12
Consensus pattern (16 bp):
GAGAACTAATAAGGAG
Found at i:23692329 original size:14 final size:15
Alignment explanation
Indices: 23692301--23692331 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
23692291 CCAATTTGAA
23692301 TAAAATATATATAAT
1 TAAAATATATATAAT
23692316 TAAAATAT-TATAAT
1 TAAAATATATATAAT
23692330 TA
1 TA
23692332 TATAAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATATATATAAT
Found at i:23693029 original size:29 final size:30
Alignment explanation
Indices: 23692995--23693055 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
23692985 TGAGGTAAAA
*
23692995 ATAAATATTTAAGAGTTTAA-TTATGTGAT
1 ATAAATATTTAAGAGTTCAATTTATGTGAT
* *
23693024 ATAAATATTTAATAGTTCAATTTATTTGAT
1 ATAAATATTTAAGAGTTCAATTTATGTGAT
23693054 AT
1 AT
23693056 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.48
Consensus pattern (30 bp):
ATAAATATTTAAGAGTTCAATTTATGTGAT
Found at i:23693072 original size:23 final size:24
Alignment explanation
Indices: 23693028--23693072 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
23693018 TGTGATATAA
*
23693028 ATATTTAATAGTTCAATTTATTTG
1 ATATTTAATAATTCAATTTATTTG
*
23693052 ATATTTAA-AATTTAATTTATT
1 ATATTTAATAATTCAATTTATT
23693073 ACAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
ATATTTAATAATTCAATTTATTTG
Found at i:23693935 original size:1 final size:1
Alignment explanation
Indices: 23693929--23693953 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
23693919 GCTTAACCCC
23693929 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
23693954 CTTTCTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23699497 original size:11 final size:11
Alignment explanation
Indices: 23699454--23699502 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
23699444 TATGAATATA
*
23699454 TATAATTTATT
1 TATATTTTATT
23699465 TAT-TTATT-TT
1 TATATT-TTATT
*
23699475 TA-ATTGTATT
1 TATATTTTATT
23699485 TATATTTTATT
1 TATATTTTATT
23699496 TATATTT
1 TATATTT
23699503 GTTAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 1 0.03
10 11 0.35
11 19 0.61
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TATATTTTATT
Found at i:23699700 original size:15 final size:15
Alignment explanation
Indices: 23699656--23699701 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
23699646 ATTCATGAAT
*
23699656 AATAAACAAATCATA
1 AATAAACAAATCTTA
* *
23699671 ACTAAATAAAT-TTA
1 AATAAACAAATCTTA
23699685 AATAAACAAATCTTA
1 AATAAACAAATCTTA
23699700 AA
1 AA
23699702 CGAACATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAACAAATCTTA
Found at i:23699732 original size:21 final size:21
Alignment explanation
Indices: 23699686--23699726 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
23699676 ATAAATTTAA
*
23699686 ATAAACAAATCTTAAACGAAC
1 ATAAACAAATCATAAACGAAC
23699707 ATAAACAAA-CATAAACGAAC
1 ATAAACAAATCATAAACGAAC
23699727 TTTAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.61, C:0.20, G:0.05, T:0.15
Consensus pattern (21 bp):
ATAAACAAATCATAAACGAAC
Found at i:23701865 original size:22 final size:22
Alignment explanation
Indices: 23701822--23701862 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23701812 TAATTTTATT
*
23701822 AATATAATAATATATAAAATAA
1 AATAAAATAATATATAAAATAA
23701844 AATAAAATAAT-T-TAAAATA
1 AATAAAATAATATATAAAATA
23701863 TAATTATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAATAATATATAAAATAA
Found at i:23706408 original size:22 final size:22
Alignment explanation
Indices: 23706363--23706408 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23706353 TTAAAAAATC
*
23706363 TTTAATTTAATATTTTTAGGTT
1 TTTAATTTAATATTTTTAGCTT
*
23706385 TTTAA-TTATATATTTTTTGCTT
1 TTTAATTTA-ATATTTTTAGCTT
23706407 TT
1 TT
23706409 AGAAGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTAATTTAATATTTTTAGCTT
Found at i:23714083 original size:7 final size:6
Alignment explanation
Indices: 23714081--23714118 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
23714071 TAAAAAAGTA
*
23714081 AAAAAT AAAAAT -AAAAT AAAAAC AAAAAT AAAAA- AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
23714119 CCTATAACCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:23714098 original size:11 final size:10
Alignment explanation
Indices: 23714080--23714118 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
23714070 ATAAAAAAGT
23714080 AAAAAATAAA
1 AAAAAATAAA
23714090 AATAAAATAAAA
1 AA-AAAAT-AAA
23714102 ACAAAAATAAA
1 A-AAAAATAAA
23714113 AAAAAA
1 AAAAAA
23714119 CCTATAACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.27
11 9 0.35
12 9 0.35
13 1 0.04
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:23714102 original size:12 final size:12
Alignment explanation
Indices: 23714047--23714115 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 12
23714037 TGCTGCTACT
23714047 AATAATAATAATAA
1 AATAA-AATAA-AA
23714061 TAATAACACATAAAA
1 -AATAA-A-ATAAAA
*
23714076 AAGTAAAAAATAAA
1 AA-TAAAATA-AAA
23714090 AATAAAATAAAA
1 AATAAAATAAAA
23714102 ACA-AAAATAAAA
1 A-ATAAAATAAAA
23714114 AA
1 AA
23714116 AAACCTATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
11 1 0.02
12 14 0.30
13 9 0.19
14 8 0.17
15 11 0.23
16 4 0.09
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:23714107 original size:17 final size:16
Alignment explanation
Indices: 23714080--23714119 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
23714070 ATAAAAAAGT
*
23714080 AAAAAATAAAAATAAA
1 AAAAAACAAAAATAAA
23714096 ATAAAAACAAAAATAAA
1 A-AAAAACAAAAATAAA
23714113 AAAAAAC
1 AAAAAAC
23714120 CTATAACCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAAAACAAAAATAAA
Found at i:23714860 original size:15 final size:15
Alignment explanation
Indices: 23714840--23714869 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23714830 TTTGACTAAG
*
23714840 AATAAAATAATAAAA
1 AATAAAAAAATAAAA
23714855 AATAAAAAAATAAAA
1 AATAAAAAAATAAAA
23714870 CTAAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAAAAATAAAA
Found at i:23714887 original size:17 final size:18
Alignment explanation
Indices: 23714865--23714904 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
23714855 AATAAAAAAA
*
23714865 TAAAACTAAAAT-TAAAT
1 TAAAACTAAAATCGAAAT
23714882 TAAAACTAAAATCGAAAT
1 TAAAACTAAAATCGAAAT
23714900 TAAAA
1 TAAAA
23714905 TTTTCGAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (18 bp):
TAAAACTAAAATCGAAAT
Found at i:23716501 original size:21 final size:21
Alignment explanation
Indices: 23716463--23716502 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23716453 TGTTCCTTTT
*
23716463 CTTTCTCTTCTTTCTCCTCAG
1 CTTTCTCTTCTTGCTCCTCAG
23716484 CTTTCTC-TCTTGCTTCCTC
1 CTTTCTCTTCTTGC-TCCTC
23716503 CTTTGCAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.03, C:0.40, G:0.05, T:0.53
Consensus pattern (21 bp):
CTTTCTCTTCTTGCTCCTCAG
Found at i:23718038 original size:30 final size:30
Alignment explanation
Indices: 23718004--23718064 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
23717994 GGAAGAGAAG
*
23718004 ATTGTTTATAACTTGGTGATAAAGTTTACA
1 ATTGTTTATAACTTCGTGATAAAGTTTACA
23718034 ATTGTTTATAACTTCGTGATAAAGTTTACA
1 ATTGTTTATAACTTCGTGATAAAGTTTACA
23718064 A
1 A
23718065 CTTTCCCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
ATTGTTTATAACTTCGTGATAAAGTTTACA
Found at i:23718272 original size:21 final size:23
Alignment explanation
Indices: 23718248--23718290 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
23718238 CGAATTTGAA
23718248 TTAA-TTT-TATGATTTAATTTT
1 TTAAGTTTATATGATTTAATTTT
23718269 TTAAGTTTAATATGATTTAATT
1 TTAAGTTT-ATATGATTTAATT
23718291 CGTAAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
24 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
TTAAGTTTATATGATTTAATTTT
Found at i:23718362 original size:6 final size:6
Alignment explanation
Indices: 23718351--23718425 Score: 57
Period size: 6 Copynumber: 12.3 Consensus size: 6
23718341 ATATTATTTT
* *
23718351 TAAATA TAAATA TAAATA TAAA-A TTAAATA -AAATA TATATA TATATAA
1 TAAATA TAAATA TAAATA TAAATA -TAAATA TAAATA TAAATA TAAAT-A
* *
23718399 TTAA-A TAAATAA TAAAAA TAATATA TA
1 TAAATA TAAAT-A TAAATA TAA-ATA TA
23718426 TTAAATCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
5 10 0.18
6 33 0.59
7 13 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:23718388 original size:25 final size:25
Alignment explanation
Indices: 23718350--23718419 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
23718340 AATATTATTT
*
23718350 TTAAATATAA-ATATAAATATAAAA
1 TTAAATAAAATATATAAATATAAAA
* *
23718374 TTAAATAAAATATATATATATATAA
1 TTAAATAAAATATATAAATATAAAA
*
23718399 TTAAAT-AAATA-ATAAAAATAA
1 TTAAATAAAATATATAAATATAA
23718420 TATATATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.18
24 14 0.36
25 18 0.46
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TTAAATAAAATATATAAATATAAAA
Found at i:23718392 original size:29 final size:29
Alignment explanation
Indices: 23718352--23718410 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
23718342 TATTATTTTT
23718352 AAATATAAATATAAAT-ATAAAATTAAATA
1 AAATATAAATATAAATAATAAAA-TAAATA
* * *
23718381 AAATATATATATATATAATTAAATAAATA
1 AAATATAAATATAAATAATAAAATAAATA
23718410 A
1 A
23718411 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AAATATAAATATAAATAATAAAATAAATA
Found at i:23719083 original size:22 final size:21
Alignment explanation
Indices: 23719050--23719098 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
23719040 ATAAAATAAA
23719050 AAAATATAATTTAAAATTTTAAT
1 AAAATATAATTT-AAA-TTTAAT
*
23719073 AAAAT-TAATTTGAATTTAAT
1 AAAATATAATTTAAATTTAAT
23719093 AAAATA
1 AAAATA
23719099 AAAATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 2 0.08
22 6 0.25
23 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAATATAATTTAAATTTAAT
Found at i:23719795 original size:36 final size:36
Alignment explanation
Indices: 23719753--23719871 Score: 211
Period size: 36 Copynumber: 3.3 Consensus size: 36
23719743 TAATATCCGA
*
23719753 ATCCGATCCGATCTAACAATATGTAAATTGTATCTG
1 ATCCGATCCGATCTAACAATATGTAAATCGTATCTG
23719789 ATCCGATCCGATCTAACAATATGTAAATCGTATCTG
1 ATCCGATCCGATCTAACAATATGTAAATCGTATCTG
*
23719825 ATCCGATCCGATCTAACAATATATAAATCGTATCTG
1 ATCCGATCCGATCTAACAATATGTAAATCGTATCTG
*
23719861 ATCTGATCCGA
1 ATCCGATCCGA
23719872 CCCAAAATTA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 80 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (36 bp):
ATCCGATCCGATCTAACAATATGTAAATCGTATCTG
Found at i:23719918 original size:20 final size:21
Alignment explanation
Indices: 23719882--23719933 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
23719872 CCCAAAATTA
23719882 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
23719904 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
23719925 AT-AAATATT
1 ATAAAATATT
23719934 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:23719924 original size:21 final size:22
Alignment explanation
Indices: 23719882--23719933 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
23719872 CCCAAAATTA
23719882 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
23719904 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
23719925 AT-AAATATT
1 ATAAAATATT
23719934 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:23719941 original size:30 final size:30
Alignment explanation
Indices: 23719906--23719962 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23719896 TTTAAAATAT
* * *
23719906 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
23719936 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
23719963 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:23720701 original size:8 final size:8
Alignment explanation
Indices: 23720688--23720716 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
23720678 AATTAATCTA
23720688 TTTAAAAT
1 TTTAAAAT
23720696 TTTAAAAT
1 TTTAAAAT
23720704 TTTAAAAT
1 TTTAAAAT
23720712 TTTAA
1 TTTAA
23720717 TTCTAAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAAAAT
Found at i:23723733 original size:13 final size:13
Alignment explanation
Indices: 23723715--23723748 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23723705 CTTACTTTCA
23723715 AAAATAAATAAAT
1 AAAATAAATAAAT
*
23723728 AAAATAAATATAT
1 AAAATAAATAAAT
*
23723741 AAGATAAA
1 AAAATAAA
23723749 ATTTATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:23723742 original size:17 final size:18
Alignment explanation
Indices: 23723716--23723750 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23723706 TTACTTTCAA
23723716 AAATAAATAA-ATAAAAT
1 AAATAAATAAGATAAAAT
*
23723733 AAATATATAAGATAAAAT
1 AAATAAATAAGATAAAAT
23723751 TTATTACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATAAATAAGATAAAAT
Found at i:23725710 original size:55 final size:54
Alignment explanation
Indices: 23725644--23725944 Score: 300
Period size: 55 Copynumber: 5.3 Consensus size: 54
23725634 TGAAGAAATG
* * *
23725644 TTGAAAGTATCAATTTTTTTTAAAAATAAAATTTCAAAAAACATTTTAGTAAAAA
1 TTGAAAGTATCAATTTTCTTTAAAAATAAAATTTC-AAAAATATTTTAGGAAAAA
* ** * *
23725699 TTGAAAGTATCAATTTTCTTTGAAAATAAAATTTTC--AAATGCTTTAAGAAAAGG
1 TTGAAAGTATCAATTTTCTTTAAAAATAAAA-TTTCAAAAATATTTTAGGAAAA-A
* *
23725753 TTGAAAGTATCAATTTTCTTTAAAAATAAAATTTTTAAAAATATTTTAGGAAAAG
1 TTGAAAGTATCAATTTTCTTTAAAAATAAAA-TTTCAAAAATATTTTAGGAAAAA
* * *
23725808 TTGAAAGTATCAATTTTCTTAAAAAATAAAGTTGTTAATATATATATATATTCTTAGGAAAAAA
1 TTGAAAGTATCAATTTTCTTTAAAAATAAA-AT-TT--CA-A-A-A-ATATT-TTAGG-AAAAA
* * *
23725872 TTTGAAAGTATCAATTTTCCTTAAGAATAAAACTTTCAAAAATATTTTAGGAAAAT
1 -TTGAAAGTATCAATTTTCTTTAAAAATAAAA-TTTCAAAAATATTTTAGGAAAAA
23725928 TTGAAAGTATCAATTTT
1 TTGAAAGTATCAATTTT
23725945 TCTTATATAA
Statistics
Matches: 208, Mismatches: 22, Indels: 32
0.79 0.08 0.12
Matches are distributed among these distances:
53 11 0.05
54 34 0.16
55 77 0.37
56 23 0.11
57 5 0.02
58 7 0.03
59 2 0.01
60 2 0.01
61 2 0.01
62 6 0.03
63 5 0.02
64 6 0.03
65 28 0.13
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (54 bp):
TTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAATATTTTAGGAAAAA
Found at i:23727081 original size:22 final size:22
Alignment explanation
Indices: 23726959--23727190 Score: 84
Period size: 22 Copynumber: 10.6 Consensus size: 22
23726949 AATATAGTTG
*
23726959 TAAATGTA-TAATAACATAATAA
1 TAAAT-TAGTAATAACTTAATAA
* * *
23726981 TAAATCAAG-AAAAACTTAACAA
1 TAAAT-TAGTAATAACTTAATAA
* * * *
23727003 -AAATAAGTAATAGCTTAGTAG
1 TAAATTAGTAATAACTTAATAA
* * * *
23727024 TTAATTATTGATAACTTAGTAA
1 TAAATTAGTAATAACTTAATAA
* * *
23727046 TAAATCAATGATAACTTAATAA
1 TAAATTAGTAATAACTTAATAA
* * *
23727068 TAAATTAGTAATAATTTAACAG
1 TAAATTAGTAATAACTTAATAA
* ** *
23727090 TAAATTAGT-TTCATTTTAATAG
1 TAAATTAGTAAT-AACTTAATAA
* * *
23727112 TAAATCA-TCTATAACATAATAA
1 TAAATTAGT-AATAACTTAATAA
* * *
23727134 TTACTTAGTGATAA-TGTAATAA
1 TAAATTAGTAATAACT-TAATAA
* *
23727156 TAAATCA-TACATAATTTAAT-A
1 TAAATTAGTA-ATAACTTAATAA
23727177 TAAATTAGTAATAA
1 TAAATTAGTAATAA
23727191 TTTACTCAGG
Statistics
Matches: 154, Mismatches: 45, Indels: 23
0.69 0.20 0.10
Matches are distributed among these distances:
20 3 0.02
21 26 0.17
22 122 0.79
23 3 0.02
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
TAAATTAGTAATAACTTAATAA
Found at i:23727341 original size:19 final size:19
Alignment explanation
Indices: 23727303--23727383 Score: 63
Period size: 22 Copynumber: 3.9 Consensus size: 19
23727293 TATAAAAGTA
23727303 TAATAGTAAATTATTGATAATT
1 TAATAGTAAATTA---ATAATT
* *
23727325 TAGTAGTAAATTAATAACT
1 TAATAGTAAATTAATAATT
* *
23727344 TAACAGTAAATCACTAATAATG
1 TAATAGTAAAT---TAATAATT
*
23727366 TAATAGTAAATTACTAAT
1 TAATAGTAAATTAATAAT
23727384 AACTTAATTG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
19 20 0.42
22 28 0.58
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (19 bp):
TAATAGTAAATTAATAATT
Found at i:23727361 original size:22 final size:22
Alignment explanation
Indices: 23727336--23727420 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 22
23727326 AGTAGTAAAT
23727336 TAATAACTTAACAGTAAATCAC
1 TAATAACTTAACAGTAAATCAC
* *
23727358 TAATAA-TGTAATAGTAAATTAC
1 TAATAACT-TAACAGTAAATCAC
** *
23727380 TAATAACTTAATTGTAAATCAA
1 TAATAACTTAACAGTAAATCAC
* *
23727402 TAATAATTTAGCAGTAAAT
1 TAATAACTTAACAGTAAAT
23727421 TAGTTAATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 1 0.02
22 50 0.96
23 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.34
Consensus pattern (22 bp):
TAATAACTTAACAGTAAATCAC
Found at i:23727388 original size:44 final size:44
Alignment explanation
Indices: 23727336--23727422 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
23727326 AGTAGTAAAT
* *
23727336 TAATAACTTAACAGTAAATCACTAATAATGTAATAGTAAATTAC
1 TAATAACTTAACAGTAAATCAATAATAATGTAACAGTAAATTAC
** * *
23727380 TAATAACTTAATTGTAAATCAATAATAATTTAGCAGTAAATTA
1 TAATAACTTAACAGTAAATCAATAATAATGTAACAGTAAATTA
23727423 GTTAATTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.34
Consensus pattern (44 bp):
TAATAACTTAACAGTAAATCAATAATAATGTAACAGTAAATTAC
Found at i:23727552 original size:21 final size:22
Alignment explanation
Indices: 23727528--23727574 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23727518 CACTAATAAT
*
23727528 TTAAT-AGAAATCATTTTTGAC
1 TTAATGAGAAATCATTTTTAAC
*
23727549 TTAATGATAAATCATTTTTAAC
1 TTAATGAGAAATCATTTTTAAC
23727571 TTAA
1 TTAA
23727575 CAGCAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (22 bp):
TTAATGAGAAATCATTTTTAAC
Found at i:23727582 original size:22 final size:22
Alignment explanation
Indices: 23727535--23727582 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
23727525 AATTTAATAG
* * *
23727535 AAATCATTTTTGACTTAATGAT
1 AAATCATTTTTAACTTAAAGAC
23727557 AAATCATTTTTAACTTAACAG-C
1 AAATCATTTTTAACTTAA-AGAC
23727579 AAAT
1 AAAT
23727583 TATTCATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (22 bp):
AAATCATTTTTAACTTAAAGAC
Found at i:23727613 original size:22 final size:21
Alignment explanation
Indices: 23727579--23727657 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
23727569 ACTTAACAGC
* *
23727579 AAATTATTCATAAATTAGAATT
1 AAATCATTGATAAATTAGAA-T
* *
23727601 AAATCATTGATAATTTAGTAGT
1 AAATCATTGATAAATTAG-AAT
* * *
23727623 AAATCTTTGATAACTTAGTAAC
1 AAATCATTGATAAATTAG-AAT
*
23727645 AAATAATTGATAA
1 AAATCATTGATAA
23727658 CTTAATTGTT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
22 45 0.98
23 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (21 bp):
AAATCATTGATAAATTAGAAT
Found at i:23727658 original size:22 final size:22
Alignment explanation
Indices: 23727601--23727661 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
23727591 AATTAGAATT
* **
23727601 AAATCATTGATAATTTAGTAGT
1 AAATCATTGATAACTTAGTAAC
*
23727623 AAATCTTTGATAACTTAGTAAC
1 AAATCATTGATAACTTAGTAAC
*
23727645 AAATAATTGATAACTTA
1 AAATCATTGATAACTTA
23727662 ATTGTTAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (22 bp):
AAATCATTGATAACTTAGTAAC
Found at i:23727970 original size:22 final size:22
Alignment explanation
Indices: 23727945--23728330 Score: 67
Period size: 22 Copynumber: 17.5 Consensus size: 22
23727935 TTTAGTTGTT
23727945 AATCATTGATAACTTAATAATA
1 AATCATTGATAACTTAATAATA
* * * *
23727967 AATCAATAATAATTTAATAGTA
1 AATCATTGATAACTTAATAATA
* ** * *
23727989 AATTAATT--TCAGTTTAGTAGTA
1 AA-TCATTGAT-AACTTAATAATA
* * *
23728011 ATTAATTGATAAACTTAGTAATA
1 AATCATTGAT-AACTTAATAATA
* ** * *
23728034 AATTATAAATAATTTAATAGTA
1 AATCATTGATAACTTAATAATA
* * * *
23728056 AATCAATGATAATTTAGTAATT
1 AATCATTGATAACTTAATAATA
* *
23728078 AATTATT-AAAACTTAA-AAGTA
1 AATCATTGATAACTTAATAA-TA
* * *
23728099 AATTAAT-ATAACTTAGTAGTAATT
1 AATCATTGATAACTTA--A-TAATA
** *
23728123 AATCATCAATAACTTAATAGTA
1 AATCATTGATAACTTAATAATA
** * *
23728145 AATTGTAGATAATTTAAT-ATA
1 AATCATTGATAACTTAATAATA
* * * * *
23728166 AATTAGTGATAACTTGACAATG
1 AATCATTGATAACTTAATAATA
* * * * *
23728188 AATTATGGATAATTTAGTAATT
1 AATCATTGATAACTTAATAATA
* *
23728210 AATC-TGTGATAA-TGTTATAGTA
1 AATCAT-TGATAACT-TAATAATA
* * *
23728232 AATAATCGAAAAC-TAAGTAATA
1 AATCATTGATAACTTAA-TAATA
* * *
23728254 AATCAATGATAA-TATAACATTA
1 AATCATTGATAACT-TAATAATA
* * * *
23728276 GATGCA-TAATAACATAATAGTA
1 AAT-CATTGATAACTTAATAATA
* *
23728298 AATCATTGATAAGTTAATATTA
1 AATCATTGATAACTTAATAATA
23728320 AATCA-TGATAA
1 AATCATTGATAA
23728331 TTTAGTAGTA
Statistics
Matches: 255, Mismatches: 88, Indels: 43
0.66 0.23 0.11
Matches are distributed among these distances:
20 2 0.01
21 52 0.20
22 159 0.62
23 27 0.11
24 5 0.02
25 10 0.04
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
AATCATTGATAACTTAATAATA
Found at i:23727985 original size:11 final size:11
Alignment explanation
Indices: 23727953--23727995 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
23727943 TTAATCATTG
*
23727953 ATAACTTAATA
1 ATAAATTAATA
*
23727964 ATAAATCAATA
1 ATAAATTAATA
*
23727975 ATAATTTAATA
1 ATAAATTAATA
*
23727986 GTAAATTAAT
1 ATAAATTAAT
23727996 TTCAGTTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:23728055 original size:45 final size:43
Alignment explanation
Indices: 23728001--23728116 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
23727991 TTAATTTCAG
*
23728001 TTTAGTAGT-AATTAATTGATAAACTTAGTAATAAATTATAAATAA
1 TTTAATAGTAAATTAA-TGAT-AACTTAGTAATAAATTATAAA-AA
* * * *
23728046 TTTAATAGTAAATCAATGATAATTTAGTAATTAATTATTAAAA
1 TTTAATAGTAAATTAATGATAACTTAGTAATAAATTATAAAAA
* *
23728089 CTTAAAAGTAAATTAAT-ATAACTTAGTA
1 TTTAATAGTAAATTAATGATAACTTAGTA
23728117 GTAATTAATC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 10 0.16
43 16 0.26
44 18 0.30
45 12 0.20
46 5 0.08
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (43 bp):
TTTAATAGTAAATTAATGATAACTTAGTAATAAATTATAAAAA
Found at i:23728072 original size:67 final size:65
Alignment explanation
Indices: 23727931--23728120 Score: 174
Period size: 67 Copynumber: 2.9 Consensus size: 65
23727921 AAAACAAGTA
* * *
23727931 ATAATTTAGTTGTTAATCATTGATAACTTAATAATAAATCAATAATAATTTAATAGTAAATTAAT
1 ATAATTTAGTAGTTAATAATTGATAACTTAATAATAAATCAATAATAATTTAATAGTAAATCAAT
* * * *
23727996 TTCAGTTTAGTAG-TAATTAATTGATAAACTTAGTAATAAAT-TATAAATAATTTAATAGTAAAT
1 AT-AATTTAGTAGTTAA-TAATTGAT-AACTTAATAATAAATCAAT-AATAATTTAATAGTAAAT
23728059 CAAT
62 CAAT
* * * * * *
23728063 GATAATTTAGTAATTAATTATT-AAAACTTAA-AAGTAAATTAAT-ATAACTTAGTAGTAA
1 -ATAATTTAGTAGTTAATAATTGATAACTTAATAA-TAAATCAATAATAATTTAATAGTAA
23728121 TTAATCATCA
Statistics
Matches: 101, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
64 15 0.15
65 15 0.15
66 20 0.20
67 47 0.47
68 4 0.04
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (65 bp):
ATAATTTAGTAGTTAATAATTGATAACTTAATAATAAATCAATAATAATTTAATAGTAAATCAAT
Found at i:23728169 original size:21 final size:22
Alignment explanation
Indices: 23728131--23728180 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
23728121 TTAATCATCA
23728131 ATAACTTAATAGTAAATT-GTAG
1 ATAACTTAATAGTAAATTAGT-G
*
23728153 ATAATTTAATA-TAAATTAGTG
1 ATAACTTAATAGTAAATTAGTG
23728174 ATAACTT
1 ATAACTT
23728181 GACAATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAGTG
Found at i:23728330 original size:21 final size:22
Alignment explanation
Indices: 23728290--23728343 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
23728280 CATAATAACA
23728290 TAATAGTAAATCATTGATAAGT
1 TAATAGTAAATCATTGATAAGT
* *
23728312 TAATATTAAATCA-TGATAATT
1 TAATAGTAAATCATTGATAAGT
*
23728333 TAGTAGTAAAT
1 TAATAGTAAAT
23728344 TAGTTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (22 bp):
TAATAGTAAATCATTGATAAGT
Found at i:23728359 original size:30 final size:30
Alignment explanation
Indices: 23728317--23728373 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
23728307 TAAGTTAATA
23728317 TTAAATCATGATA-ATTTAGTAGTAAATTAG
1 TTAAATCATGATAGATTT-GTAGTAAATTAG
*
23728347 TTAAAT-ATTGATAGCTTTGTAGTAAAT
1 TTAAATCA-TGATAGATTTGTAGTAAAT
23728374 GATTGATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 1 0.04
30 20 0.83
31 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (30 bp):
TTAAATCATGATAGATTTGTAGTAAATTAG
Found at i:23728439 original size:22 final size:22
Alignment explanation
Indices: 23728414--23728539 Score: 96
Period size: 22 Copynumber: 5.8 Consensus size: 22
23728404 ACTTTATAAC
* *
23728414 AAATTATGAATAACTTAGTAGT
1 AAATCATGAATAATTTAGTAGT
* * * *
23728436 AAATTATTAACAATTTAATAGT
1 AAATCATGAATAATTTAGTAGT
* *
23728458 AAATCATGCATAA-TTAGTATT
1 AAATCATGAATAATTTAGTAGT
** * *
23728479 AAATCATTCATAAATTAATAGT
1 AAATCATGAATAATTTAGTAGT
*
23728501 AAATCAATG-ATAATTTAGTATT
1 AAATC-ATGAATAATTTAGTAGT
23728523 AAATCATTG-ATAATTTA
1 AAATCA-TGAATAATTTA
23728540 ATAAATTATC
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
21 19 0.23
22 63 0.75
23 2 0.02
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (22 bp):
AAATCATGAATAATTTAGTAGT
Found at i:23728541 original size:44 final size:44
Alignment explanation
Indices: 23728423--23728626 Score: 166
Period size: 44 Copynumber: 4.7 Consensus size: 44
23728413 CAAATTATGA
* * * *
23728423 ATAACTTAGTAGTAAATTATTAACAATTTAATAGTAAATC-ATG
1 ATAACTTAGTATTAAATCATTGATAATTTAATAGTAAATCAATG
* *
23728466 CATAA-TTAGTATTAAATCATTCATAAATTAATAGTAAATCAATG
1 -ATAACTTAGTATTAAATCATTGATAATTTAATAGTAAATCAATG
* *
23728510 ATAATTTAGTATTAAATCATTGATAATTTAATA--AATTATCATTG
1 ATAACTTAGTATTAAATCATTGATAATTTAATAGTAA--ATCAATG
* * *** ** *
23728554 ATAGCTTAGTAATAAATCGCAGATAACATAATAATAAATCAATG
1 ATAACTTAGTATTAAATCATTGATAATTTAATAGTAAATCAATG
* * *
23728598 ATAATTTAAT-TGTCAATCATTGATAATTT
1 ATAACTTAGTAT-TAAATCATTGATAATTT
23728627 TTTTCATATT
Statistics
Matches: 126, Mismatches: 27, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
42 2 0.02
43 34 0.27
44 88 0.70
46 2 0.02
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (44 bp):
ATAACTTAGTATTAAATCATTGATAATTTAATAGTAAATCAATG
Found at i:23728600 original size:22 final size:22
Alignment explanation
Indices: 23728450--23728607 Score: 90
Period size: 22 Copynumber: 7.2 Consensus size: 22
23728440 TATTAACAAT
*
23728450 TTAATAGTAAATC-ATGCATAA-
1 TTAATAATAAATCAATG-ATAAC
* * * * *
23728471 TTAGTATTAAATCATTCATAAA
1 TTAATAATAAATCAATGATAAC
* *
23728493 TTAATAGTAAATCAATGATAAT
1 TTAATAATAAATCAATGATAAC
* * * *
23728515 TTAGTATTAAATCATTGATAAT
1 TTAATAATAAATCAATGATAAC
* * *
23728537 TTAATAA-ATTATCATTGATAGC
1 TTAATAATA-AATCAATGATAAC
* *
23728559 TTAGTAATAAATCGCA-GATAAC
1 TTAATAATAAATC-AATGATAAC
* *
23728581 ATAATAATAAATCAATGATAAT
1 TTAATAATAAATCAATGATAAC
23728603 TTAAT
1 TTAAT
23728608 TGTCAATCAT
Statistics
Matches: 104, Mismatches: 27, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
21 17 0.16
22 86 0.83
23 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (22 bp):
TTAATAATAAATCAATGATAAC
Found at i:23728966 original size:21 final size:20
Alignment explanation
Indices: 23728935--23728997 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
23728925 ACATTAAGAG
*
23728935 GTTATCAAAATTTTATC-AAT
1 GTTA-CAAAATTTTATCAAAA
*
23728955 GATTAGCAAAATTGTATCAAAA
1 G-TTA-CAAAATTTTATCAAAA
23728977 GTTACTAAAATTTTATCAAAA
1 GTTAC-AAAATTTTATCAAAA
23728998 ATTATCAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.06
21 31 0.86
22 3 0.08
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (20 bp):
GTTACAAAATTTTATCAAAA
Found at i:23729104 original size:48 final size:47
Alignment explanation
Indices: 23729001--23729111 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 47
23728991 ATCAAAAATT
* * * *
23729001 ATCAGAATCAAAATTATATAAAAATTATCAAATTTTACTTATATTAT
1 ATCAAAATCAAAATTATATAAAAATTATCAAAATTTACTCATATTAC
* *
23729048 ATTAAAATCAAAATTATATCAAAAGTTATCAAAATTTACTCATTATT-C
1 ATCAAAATCAAAATTATAT-AAAAATTATCAAAATTTACTCA-TATTAC
*
23729096 ATCGAAATCAAAATTA
1 ATCAAAATCAAAATTA
23729112 AATTATTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
47 17 0.31
48 33 0.61
49 4 0.07
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (47 bp):
ATCAAAATCAAAATTATATAAAAATTATCAAAATTTACTCATATTAC
Found at i:23731832 original size:30 final size:30
Alignment explanation
Indices: 23731796--23731969 Score: 244
Period size: 30 Copynumber: 5.8 Consensus size: 30
23731786 TTAATGGATG
*
23731796 ACACCATTTTCTTTAACTTCTTTGGCTGCA
1 ACACCATTTTCTTTCACTTCTTTGGCTGCA
* *
23731826 ACACCATTTTCCTTCACCTCTTTGGCTGCA
1 ACACCATTTTCTTTCACTTCTTTGGCTGCA
23731856 ACACCATTTTCTTTCACTTCTTCT-GCTGCA
1 ACACCATTTTCTTTCACTTCTT-TGGCTGCA
* *
23731886 ACACCATTTTCCTTCACTTCTTTTGCTGCA
1 ACACCATTTTCTTTCACTTCTTTGGCTGCA
* *
23731916 ACACCATTTTCTTTCACTTCTTCGGCTGCC
1 ACACCATTTTCTTTCACTTCTTTGGCTGCA
*
23731946 ACACCATTCTCTTTCAAC-TCTTTG
1 ACACCATTTTCTTTC-ACTTCTTTG
23731970 ACATCTTTAG
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
29 1 0.01
30 125 0.97
31 3 0.02
ACGTcount: A:0.17, C:0.33, G:0.08, T:0.41
Consensus pattern (30 bp):
ACACCATTTTCTTTCACTTCTTTGGCTGCA
Found at i:23735609 original size:28 final size:24
Alignment explanation
Indices: 23735545--23735609 Score: 58
Period size: 27 Copynumber: 2.4 Consensus size: 24
23735535 TCCTGAGGGT
*
23735545 TTCTAATCAAATTCTAAATTCTTG
1 TTCTAATCAAATTCTAAATCCTTG
23735569 TTCTTGAGATCAAATTCTGAAATCCCAATTG
1 TTC-T-A-ATCAAATTCT-AAAT-CC--TTG
23735600 TTCTAATCAA
1 TTCTAATCAA
23735610 GCTTTCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 1 0.03
27 10 0.30
28 9 0.27
29 2 0.06
30 1 0.03
31 6 0.18
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (24 bp):
TTCTAATCAAATTCTAAATCCTTG
Found at i:23744172 original size:30 final size:30
Alignment explanation
Indices: 23744127--23744210 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
23744117 TTATTGTAAT
* *
23744127 TAATTAAGTCTTTAAATATTTATTTTTATCA
1 TAATTGAGTCTTTAAATATTTATTTTCAT-A
23744158 -AATTGATGT-TTTAAATATCTT-TTTTCATA
1 TAATTGA-GTCTTTAAATAT-TTATTTTCATA
*
23744187 TAATTGAGTCTTTAAATATCTATT
1 TAATTGAGTCTTTAAATATTTATT
23744211 ATTACCCAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
29 4 0.09
30 37 0.82
31 4 0.09
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (30 bp):
TAATTGAGTCTTTAAATATTTATTTTCATA
Found at i:23752303 original size:22 final size:22
Alignment explanation
Indices: 23752262--23752303 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23752252 CTTAGTCATT
*
23752262 AAAATTAAAATTAAATCTAAAA
1 AAAATTAAAACTAAATCTAAAA
23752284 AAAATTAAAAACTAAA-CTAA
1 AAAATT-AAAACTAAATCTAA
23752304 TCCAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATTAAAACTAAATCTAAAA
Found at i:23758442 original size:18 final size:18
Alignment explanation
Indices: 23758419--23758453 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23758409 ATCCTTAGTG
23758419 CTTAATCATGGAATAATT
1 CTTAATCATGGAATAATT
23758437 CTTAATCATGGAATAAT
1 CTTAATCATGGAATAAT
23758454 CCCTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
CTTAATCATGGAATAATT
Found at i:23759360 original size:12 final size:12
Alignment explanation
Indices: 23759345--23759369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23759335 AGTAATGGAC
23759345 ATAGTTTAAAGT
1 ATAGTTTAAAGT
23759357 ATAGTTTAAAGT
1 ATAGTTTAAAGT
23759369 A
1 A
23759370 AACCTTGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATAGTTTAAAGT
Found at i:23768887 original size:17 final size:16
Alignment explanation
Indices: 23768850--23768879 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23768840 TGATCCTCTG
23768850 CTTTC-CCTTTCTTTC
1 CTTTCTCCTTTCTTTC
23768865 CTTTCTCCTTTCTTT
1 CTTTCTCCTTTCTTT
23768880 TCACTTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (16 bp):
CTTTCTCCTTTCTTTC
Found at i:23776539 original size:15 final size:15
Alignment explanation
Indices: 23776516--23776550 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
23776506 TTTGTTTGCT
*
23776516 TCCATTATGATGGAA
1 TCCAATATGATGGAA
23776531 TCCAATATGATGGAA
1 TCCAATATGATGGAA
23776546 TCCAA
1 TCCAA
23776551 ATGTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (15 bp):
TCCAATATGATGGAA
Found at i:23780919 original size:12 final size:13
Alignment explanation
Indices: 23780902--23780930 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23780892 TGCTCACAAG
23780902 ACCTCCTTCAAA-
1 ACCTCCTTCAAAT
23780914 ACCTCCTTCAAAT
1 ACCTCCTTCAAAT
23780927 ACCT
1 ACCT
23780931 TGCAGGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28
Consensus pattern (13 bp):
ACCTCCTTCAAAT
Found at i:23782266 original size:21 final size:21
Alignment explanation
Indices: 23782242--23782291 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
23782232 ACTCATAATG
23782242 ATGAGTCATCGTACCATAGTA
1 ATGAGTCATCGTACCATAGTA
* *
23782263 ATGAGTCATTGTACCATAGTT
1 ATGAGTCATCGTACCATAGTA
23782284 ATGAGTCA
1 ATGAGTCA
23782292 CCATCTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (21 bp):
ATGAGTCATCGTACCATAGTA
Found at i:23783778 original size:21 final size:21
Alignment explanation
Indices: 23783730--23783782 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
23783720 TTAAAAGACT
*
23783730 GTGACTCATAACTATAGTACA
1 GTGACTCATAACTATAATACA
* * * *
23783751 ATAACTCATTACTATAATACG
1 GTGACTCATAACTATAATACA
23783772 GTGACTCATAA
1 GTGACTCATAA
23783783 TAGTGACTCA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (21 bp):
GTGACTCATAACTATAATACA
Found at i:23783811 original size:21 final size:21
Alignment explanation
Indices: 23783786--23783839 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
23783776 CTCATAATAG
* * *
23783786 TGACTCATTACTATGGTATAA
1 TGACTCATCACTAGGGTACAA
*
23783807 TGACTCATCATTAGGGTACAA
1 TGACTCATCACTAGGGTACAA
23783828 TGACTCATCACT
1 TGACTCATCACT
23783840 TATTTGATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (21 bp):
TGACTCATCACTAGGGTACAA
Found at i:23788636 original size:237 final size:237
Alignment explanation
Indices: 23788221--23788931 Score: 1422
Period size: 237 Copynumber: 3.0 Consensus size: 237
23788211 ATCATCTGAA
23788221 ACTTTAACTGTAGGTTCTGTCATGAAAATCTGAGGGAGCATCATTTCATCTGAGTCATCAGTATC
1 ACTTTAACTGTAGGTTCTGTCATGAAAATCTGAGGGAGCATCATTTCATCTGAGTCATCAGTATC
23788286 ATCTGCTTCAACTGATTCATCTGAGTTGACAGTATCCATGTGGGATTCAGTCTCAAAGGTAGAAG
66 ATCTGCTTCAACTGATTCATCTGAGTTGACAGTATCCATGTGGGATTCAGTCTCAAAGGTAGAAG
23788351 GAAAAATATCCTCAAAGGAGAATTGAGGGAGGTTGTTTTGTGCCATATGGTGAAGTATTTCTGGA
131 GAAAAATATCCTCAAAGGAGAATTGAGGGAGGTTGTTTTGTGCCATATGGTGAAGTATTTCTGGA
23788416 AGGGTTTGTGTAGGAGAAATCATAAGTTGTACAGGTTTTTGG
196 AGGGTTTGTGTAGGAGAAATCATAAGTTGTACAGGTTTTTGG
23788458 ACTTTAACTGTAGGTTCTGTCATGAAAATCTGAGGGAGCATCATTTCATCTGAGTCATCAGTATC
1 ACTTTAACTGTAGGTTCTGTCATGAAAATCTGAGGGAGCATCATTTCATCTGAGTCATCAGTATC
23788523 ATCTGCTTCAACTGATTCATCTGAGTTGACAGTATCCATGTGGGATTCAGTCTCAAAGGTAGAAG
66 ATCTGCTTCAACTGATTCATCTGAGTTGACAGTATCCATGTGGGATTCAGTCTCAAAGGTAGAAG
23788588 GAAAAATATCCTCAAAGGAGAATTGAGGGAGGTTGTTTTGTGCCATATGGTGAAGTATTTCTGGA
131 GAAAAATATCCTCAAAGGAGAATTGAGGGAGGTTGTTTTGTGCCATATGGTGAAGTATTTCTGGA
23788653 AGGGTTTGTGTAGGAGAAATCATAAGTTGTACAGGTTTTTGG
196 AGGGTTTGTGTAGGAGAAATCATAAGTTGTACAGGTTTTTGG
23788695 ACTTTAACTGTAGGTTCTGTCATGAAAATCTGAGGGAGCATCATTTCATCTGAGTCATCAGTATC
1 ACTTTAACTGTAGGTTCTGTCATGAAAATCTGAGGGAGCATCATTTCATCTGAGTCATCAGTATC
23788760 ATCTGCTTCAACTGATTCATCTGAGTTGACAGTATCCATGTGGGATTCAGTCTCAAAGGTAGAAG
66 ATCTGCTTCAACTGATTCATCTGAGTTGACAGTATCCATGTGGGATTCAGTCTCAAAGGTAGAAG
23788825 GAAAAATATCCTCAAAGGAGAATTGAGGGAGGTTGTTTTGTGCCATATGGTGAAGTATTTCTGGA
131 GAAAAATATCCTCAAAGGAGAATTGAGGGAGGTTGTTTTGTGCCATATGGTGAAGTATTTCTGGA
23788890 AGGGTTTGTGTAGGAGAAATCATAAGTTGTACAGGTTTTTGG
196 AGGGTTTGTGTAGGAGAAATCATAAGTTGTACAGGTTTTTGG
23788932 TTTGGTTGTG
Statistics
Matches: 474, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 474 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (237 bp):
ACTTTAACTGTAGGTTCTGTCATGAAAATCTGAGGGAGCATCATTTCATCTGAGTCATCAGTATC
ATCTGCTTCAACTGATTCATCTGAGTTGACAGTATCCATGTGGGATTCAGTCTCAAAGGTAGAAG
GAAAAATATCCTCAAAGGAGAATTGAGGGAGGTTGTTTTGTGCCATATGGTGAAGTATTTCTGGA
AGGGTTTGTGTAGGAGAAATCATAAGTTGTACAGGTTTTTGG
Found at i:23791491 original size:25 final size:25
Alignment explanation
Indices: 23791462--23791511 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
23791452 CAGACTAATC
23791462 AAAGCCCCTTTACTCCTACTAAACT
1 AAAGCCCCTTTACTCCTACTAAACT
* *
23791487 AAAGCCCCTTTACTCTTATTAAACT
1 AAAGCCCCTTTACTCCTACTAAACT
23791512 GTCAATTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAGCCCCTTTACTCCTACTAAACT
Found at i:23792447 original size:111 final size:114
Alignment explanation
Indices: 23792269--23792518 Score: 337
Period size: 111 Copynumber: 2.2 Consensus size: 114
23792259 TAAAAAGTGT
* * * *
23792269 AGTCTTTGTTAAAAATATGAAAAAATTATTTTTTCAAAATTTAATAAATACGACATTTTTTAGAT
1 AGTCTTTGTTGAAAATATGAAAAAATTATTTTTTCAAAATTTAACAAAGACGACATTTTTAAGAT
** * * *
23792334 AAAAATGTAATTTTTGTTGAAAAAAATGA-GTTTCT-AAGATAAAAACGC
66 AAAAATACAAGTTTTGTTAAAAAAAATGATGTTT-TAAAAATAAAAACGC
* * * *
23792382 TGT-TTTGTTGAAAATATGAAAAAATTATTTTTT-AGAATTTAACAAAGACGGCATTTTTAATAT
1 AGTCTTTGTTGAAAATATGAAAAAATTATTTTTTCAAAATTTAACAAAGACGACATTTTTAAGAT
*
23792445 AAAAATACAAGTTTTGTTAAAAAAAATGATGTTTTAAAAATAAAAATGC
66 AAAAATACAAGTTTTGTTAAAAAAAATGATGTTTTAAAAATAAAAACGC
23792494 AGTCTTTGTTGAAAATATGAAAAAA
1 AGTCTTTGTTGAAAATATGAAAAAA
23792519 AATTTAATAA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
111 50 0.42
112 46 0.39
113 23 0.19
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (114 bp):
AGTCTTTGTTGAAAATATGAAAAAATTATTTTTTCAAAATTTAACAAAGACGACATTTTTAAGAT
AAAAATACAAGTTTTGTTAAAAAAAATGATGTTTTAAAAATAAAAACGC
Found at i:23793405 original size:34 final size:34
Alignment explanation
Indices: 23793367--23793445 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
23793357 GGATTCTTGG
* * *
23793367 ATATCTATTTTCAAGAAGCCTTAAGTTTTCTCGA
1 ATATCTATTTTCAAAAAACCTTAAGTCTTCTCGA
* *
23793401 ATATCCATTTTCAAAAAATCTTAAGTCTTCTCGA
1 ATATCTATTTTCAAAAAACCTTAAGTCTTCTCGA
*
23793435 AAATCTATTTT
1 ATATCTATTTT
23793446 AGATAAGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.42
Consensus pattern (34 bp):
ATATCTATTTTCAAAAAACCTTAAGTCTTCTCGA
Found at i:23795047 original size:111 final size:112
Alignment explanation
Indices: 23794794--23795068 Score: 252
Period size: 111 Copynumber: 2.5 Consensus size: 112
23794784 AAATATAGTT
* * ** *
23794794 TTTGTTGAAAAAACAGTGTTTCTAAGATAAAAATGCAATCTTTATTGAAAATATAAAAAAATTAT
1 TTTGTTGAAAAAATAATGTTTCTAAGATAAAAACACAATATTTATTGAAAATATAAAAAAATTAT
23794859 TTTTTAGAATTTAACAAAAAAGATGTTTTTAAGAAAAAAATGCAGTCC
66 TTTTTAGAATTTAACAAAAAAGATGTTTTTAAGAAAAAAATGCAG-CC
* * * ** * * * * * ** *
23794907 -TTATTAAAAAAATGACATTTCAAATATAAAAACACAATATTTGTTGACAATAT-AGAATTTTTT
1 TTTGTTGAAAAAATAATGTTTCTAAGATAAAAACACAATATTTATTGAAAATATAAAAAAATTAT
* * * *
23794970 TTTTTAGAATTTAATAAAGATGGTGTTTTTAA-AATAAAAATGCCA-CC
66 TTTTTAGAATTTAACAAAAAAGATGTTTTTAAGAA-AAAAATG-CAGCC
* *** *
23795017 TTTGTTGAAAAGATAATGTTTCTAAGATAAAAATGTAATTTTTATTGAAAAT
1 TTTGTTGAAAAAATAATGTTTCTAAGATAAAAACACAATATTTATTGAAAAT
23795069 GCTTTTTTAA
Statistics
Matches: 123, Mismatches: 36, Indels: 8
0.74 0.22 0.05
Matches are distributed among these distances:
110 4 0.03
111 78 0.63
112 41 0.33
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (112 bp):
TTTGTTGAAAAAATAATGTTTCTAAGATAAAAACACAATATTTATTGAAAATATAAAAAAATTAT
TTTTTAGAATTTAACAAAAAAGATGTTTTTAAGAAAAAAATGCAGCC
Found at i:23795443 original size:24 final size:24
Alignment explanation
Indices: 23795410--23795468 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
23795400 AACATGTTAT
23795410 TCAGATATTATATGTTATTCACATA
1 TCAG-TATTATATGTTATTCACATA
** * *
23795435 TCAGTATTACGTGTTATTCATATG
1 TCAGTATTATATGTTATTCACATA
*
23795459 TCAATATTAT
1 TCAGTATTAT
23795469 GAATATCACA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (24 bp):
TCAGTATTATATGTTATTCACATA
Found at i:23798668 original size:31 final size:31
Alignment explanation
Indices: 23798627--23798687 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
23798617 AGAAAATAAG
*
23798627 ATATATAATTTACAGCCTAAACTTTTAAATA
1 ATATACAATTTACAGCCTAAACTTTTAAATA
* ***
23798658 ATATACAATTTGCATTTTAAACTTTTAAAT
1 ATATACAATTTACAGCCTAAACTTTTAAAT
23798688 TATGTATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (31 bp):
ATATACAATTTACAGCCTAAACTTTTAAATA
Found at i:23799617 original size:88 final size:89
Alignment explanation
Indices: 23799485--23799654 Score: 263
Period size: 88 Copynumber: 1.9 Consensus size: 89
23799475 CCAAACACTC
* ** *
23799485 TTTTTCTTTTCAATTGCATTGCGAGATGCATTTGGGTAACACTTGAATTATATAGTTGATCGCAT
1 TTTTTCTTTTCAATTGCATTGAGAGATGCATTTGAATAACACTTGAATTATATAGTTGATCACAT
*
23799550 GGAAAATTCGATGGAATCTAAGCA
66 GGAAAATGCGATGGAATCTAAGCA
*
23799574 TTTTT-TTTTCAATT-CTATTGAGAGATGCATTTGAATAATACTTGAATTATATAGTTGATCACA
1 TTTTTCTTTTCAATTGC-ATTGAGAGATGCATTTGAATAACACTTGAATTATATAGTTGATCACA
23799637 TGGAAAATGCGATGGAAT
65 TGGAAAATGCGATGGAAT
23799655 TAAAATATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
87 1 0.01
88 68 0.92
89 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (89 bp):
TTTTTCTTTTCAATTGCATTGAGAGATGCATTTGAATAACACTTGAATTATATAGTTGATCACAT
GGAAAATGCGATGGAATCTAAGCA
Found at i:23804273 original size:18 final size:19
Alignment explanation
Indices: 23804234--23804275 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
23804224 ATATAAATAA
* *
23804234 ATAATTATTCATAAAGGTC
1 ATAATTATACATAAAAGTC
23804253 ATAATTATACA-AAAAGTC
1 ATAATTATACATAAAAGTC
23804271 ATAAT
1 ATAAT
23804276 CATCTGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (19 bp):
ATAATTATACATAAAAGTC
Found at i:23804807 original size:12 final size:12
Alignment explanation
Indices: 23804790--23804838 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
23804780 ACATGAATAA
23804790 AATATTTAATTT
1 AATATTTAATTT
23804802 AATATTTAAATTTT
1 AATATTT-AA-TTT
23804816 AAAATATTTAATTT
1 --AATATTTAATTT
*
23804830 ATTATTTAA
1 AATATTTAA
23804839 ATTATAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 15 0.47
13 2 0.06
14 6 0.19
15 2 0.06
16 7 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
AATATTTAATTT
Found at i:23804856 original size:28 final size:28
Alignment explanation
Indices: 23804786--23804846 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
23804776 AATCACATGA
23804786 ATAAAATATTTAATTTAATATTTAAATT
1 ATAAAATATTTAATTTAATATTTAAATT
* *
23804814 TTAAAATATTTAATTTATTATTTAAATT
1 ATAAAATATTTAATTTAATATTTAAATT
23804842 ATAAA
1 ATAAA
23804847 TTTATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATAAAATATTTAATTTAATATTTAAATT
Found at i:23810254 original size:32 final size:31
Alignment explanation
Indices: 23810214--23810289 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
23810204 AAATTATTAC
23810214 ATATAATTTTCATATAAAATATGATATAAAT
1 ATATAATTTTCATATAAAATATGATATAAAT
* ***
23810245 ATATAAATTTTAATATTTTATATGATATAAAT
1 ATAT-AATTTTCATATAAAATATGATATAAAT
*
23810277 ATATGAATCTTCA
1 ATAT-AATTTTCA
23810290 AATTTACGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (31 bp):
ATATAATTTTCATATAAAATATGATATAAAT
Found at i:23810939 original size:7 final size:7
Alignment explanation
Indices: 23810927--23810961 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
23810917 GGCCCACTAG
23810927 TCTGCAC
1 TCTGCAC
23810934 TCTGCAC
1 TCTGCAC
23810941 TCTGCAC
1 TCTGCAC
23810948 TCTGCAC
1 TCTGCAC
23810955 TCTGCAC
1 TCTGCAC
23810962 GCCAAGCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.43, G:0.14, T:0.29
Consensus pattern (7 bp):
TCTGCAC
Found at i:23815387 original size:13 final size:13
Alignment explanation
Indices: 23815369--23815425 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
23815359 AAAAATTATT
23815369 TTTAATTATTTTA
1 TTTAATTATTTTA
23815382 TTTAATTATATTT-
1 TTTAATTAT-TTTA
23815395 TTT-A-TA-TTTA
1 TTTAATTATTTTA
*
23815405 TTTAATT-TTATA
1 TTTAATTATTTTA
23815417 TTTACATTA
1 TTTA-ATTA
23815426 AAAATATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
9 3 0.08
10 3 0.08
11 3 0.08
12 9 0.25
13 15 0.42
14 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAATTATTTTA
Found at i:23815395 original size:25 final size:24
Alignment explanation
Indices: 23815365--23815425 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
23815355 ATATAAAAAT
23815365 TATTTTTAATTATTTTATTTAATTA
1 TATTTTTAATTA-TTTATTTAATTA
* *
23815390 TATTTTTTA-TATTTATTTAATTT
1 TATTTTTAATTATTTATTTAATTA
*
23815413 TATATTTACATTA
1 TATTTTTA-ATTA
23815426 AAAATATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 17 0.57
24 3 0.10
25 10 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTTTAATTATTTATTTAATTA
Found at i:23815459 original size:21 final size:23
Alignment explanation
Indices: 23815423--23815488 Score: 95
Period size: 21 Copynumber: 3.0 Consensus size: 23
23815413 TATATTTACA
23815423 TTAAAAATATTATTTTATTAATT
1 TTAAAAATATTATTTTATTAATT
23815446 TTAAAAA-A-TATTTTA-T-ATT
1 TTAAAAATATTATTTTATTAATT
*
23815465 TAAAAAATATTATTTTATTAATT
1 TTAAAAATATTATTTTATTAATT
23815488 T
1 T
23815489 CAATTTGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 9 0.24
20 2 0.05
21 14 0.37
22 2 0.05
23 11 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAAAAATATTATTTTATTAATT
Found at i:23819104 original size:30 final size:30
Alignment explanation
Indices: 23819048--23819106 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
23819038 GACACAGATA
**
23819048 GAAGTCATGAAATCCATGAATCCAAGATTG
1 GAAGTCATGAAATCCACCAATCCAAGATTG
*
23819078 GAAGTCATGAAATCCACCAATGCAAGATT
1 GAAGTCATGAAATCCACCAATCCAAGATT
23819107 TTTTGACCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (30 bp):
GAAGTCATGAAATCCACCAATCCAAGATTG
Found at i:23822268 original size:131 final size:132
Alignment explanation
Indices: 23822105--23822379 Score: 408
Period size: 131 Copynumber: 2.1 Consensus size: 132
23822095 ACACACTTAA
* * *
23822105 AATACAAAAATTATTGAATTATAATTTGTGTCGACACATCAAAAATAAAATAACTTTTTATTTTT
1 AATAAAAAAATTATTGAATTACAATTCGTGTCGACACATCAAAAATAAAATAACTTTTTATTTTT
** * *
23822170 ATTAAATTTATGCACGTGTTTTATTAAAATTTTAAAATATATCATTTTCATATATATATATATAT
66 ATTAAATTTACACACGTGTTTTACTAAAATTTTAAAACATATCATTTTCATATATATATATATAT
23822235 -T
131 AT
* **
23822236 AATAAAAAAATTATTGAATTACAATTCGTGTCGACACATTAAAAATAAAATATTTTTTTATTTTT
1 AATAAAAAAATTATTGAATTACAATTCGTGTCGACACATCAAAAATAAAATAACTTTTTATTTTT
* * *
23822301 ATTAAATTTACACATGTTTTTTACTAAAATTTTAAAACATATCATTTTTATATATATATATATAT
66 ATTAAATTTACACACGTGTTTTACTAAAATTTTAAAACATATCATTTTCATATATATATATATAT
23822366 AT
131 AT
*
23822368 TATAAGAAAAAT
1 AATAA-AAAAAT
23822380 CCGGAATTAG
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 117 0.91
132 5 0.04
133 6 0.05
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (132 bp):
AATAAAAAAATTATTGAATTACAATTCGTGTCGACACATCAAAAATAAAATAACTTTTTATTTTT
ATTAAATTTACACACGTGTTTTACTAAAATTTTAAAACATATCATTTTCATATATATATATATAT
AT
Found at i:23830385 original size:2 final size:2
Alignment explanation
Indices: 23830376--23830407 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23830366 CTTTTTTGTG
23830376 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23830408 TCAAATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23838538 original size:81 final size:81
Alignment explanation
Indices: 23838438--23838595 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
23838428 AACCATATGT
23838438 ATATTTATATAAAATTGATCAAAATGTAAAACTTTATA-AAGGTT-TGTGACTTTAATTTTGTAA
1 ATATTTATATAAAATTGATCAAAATGT-AAACTTT-TACAAGGTTATGTGACTTTAATTTTGTAA
*
23838501 TTAATTGACTTGCTATAA
64 TTAATGGACTTGCTATAA
* * ** *
23838519 ATATTTATATCAAATTGATCAAAATGTGAACTTTTACAATTTTATGTGACTTTAATTTTGTAGTT
1 ATATTTATATAAAATTGATCAAAATGTAAACTTTTACAAGGTTATGTGACTTTAATTTTGTAATT
*
23838584 AATGGATTTGCT
66 AATGGACTTGCT
23838596 TCAACTACGA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.03
80 10 0.15
81 56 0.82
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (81 bp):
ATATTTATATAAAATTGATCAAAATGTAAACTTTTACAAGGTTATGTGACTTTAATTTTGTAATT
AATGGACTTGCTATAA
Found at i:23845852 original size:39 final size:39
Alignment explanation
Indices: 23845798--23845872 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
23845788 TAAAAAACCC
*
23845798 CTCATAACTACCTTTGATCGTTACTTATCACATAGGCCA
1 CTCATAACTACCTTTGATAGTTACTTATCACATAGGCCA
*
23845837 CTCATAACTACCTTTGATAGTTATTTATCACATAGG
1 CTCATAACTACCTTTGATAGTTACTTATCACATAGG
23845873 ATTTTGCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (39 bp):
CTCATAACTACCTTTGATAGTTACTTATCACATAGGCCA
Found at i:23847026 original size:28 final size:28
Alignment explanation
Indices: 23846986--23847090 Score: 165
Period size: 28 Copynumber: 3.8 Consensus size: 28
23846976 TGATGAATAA
* *
23846986 TTAGATGTGTGTTAATGGTTTATGAAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
23847014 TTAGATGTGTGTTAGTGGTTTATGGAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
* *
23847042 TTAGATGTTTGTTAGTAGTTTATGGAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
*
23847070 TTAGGTGTGTGTTAGTGGTTT
1 TTAGATGTGTGTTAGTGGTTT
23847091 TTGTTTATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (28 bp):
TTAGATGTGTGTTAGTGGTTTATGGAAG
Found at i:23851359 original size:28 final size:28
Alignment explanation
Indices: 23851319--23851395 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 28
23851309 TGATAAATAA
*
23851319 TTAGATGTGTGTTAGTTGTTTATGGAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
23851347 TTAGATGTGTGTTAGTGGTTTATGGAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
*
23851375 TTAGGTGTGTGTTAGTGGTTT
1 TTAGATGTGTGTTAGTGGTTT
23851396 TTGTTTATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (28 bp):
TTAGATGTGTGTTAGTGGTTTATGGAAG
Found at i:23856508 original size:27 final size:28
Alignment explanation
Indices: 23856462--23856515 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
23856452 ACGAGATTGG
* *
23856462 TGGTAAAAGGATATGCTCAAGAAGAGGA
1 TGGTAAAAGCATATGCTCAAAAAGAGGA
*
23856490 TGGTAAAA-CATATGTTCAAAAAGAGG
1 TGGTAAAAGCATATGCTCAAAAAGAGG
23856516 CATTGACTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.20
Consensus pattern (28 bp):
TGGTAAAAGCATATGCTCAAAAAGAGGA
Found at i:23857198 original size:133 final size:133
Alignment explanation
Indices: 23856957--23857206 Score: 313
Period size: 133 Copynumber: 1.9 Consensus size: 133
23856947 TGAAGGAGTC
* ** * * *
23856957 GACTGCATCATTCAATTTATTTTTTTGCATCTTTCGGCTCCTTTCAAATCAGAAACTTCAAGCTT
1 GACTGCATCATTCAATCTATTTTTTCACAGCTTTCGACTCCTTTCAAATCAGAAACTTCAAGCCT
* * * * *
23857022 CTACATGTTTCTTTATCTTTTGGCCGAACTGGCCTTCTTTCATTTATGAAAGAAGGGAGTTTGAC
66 CTACATGTTTCTGTATCATTTGGCCGAAATGGCCTTCTGTCATTTACGAAAGAAGGGAGTTTGAC
23857087 AAG
131 AAG
* * * * *
23857090 GACTGCATCATTCAATCTATTTTTTCACGGCTTTTGATTCCTTTCAAAGT-TGAACCTTCAAGCC
1 GACTGCATCATTCAATCTATTTTTTCACAGCTTTCGACTCCTTTCAAA-TCAGAAACTTCAAGCC
* * *
23857154 TCTGCATGTTTCTGTCTCATTTGGCCGAAATGGTCTTCTGTCATTTACGAAAG
65 TCTACATGTTTCTGTATCATTTGGCCGAAATGGCCTTCTGTCATTTACGAAAG
23857207 GTTTGTAATA
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
133 96 0.99
134 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (133 bp):
GACTGCATCATTCAATCTATTTTTTCACAGCTTTCGACTCCTTTCAAATCAGAAACTTCAAGCCT
CTACATGTTTCTGTATCATTTGGCCGAAATGGCCTTCTGTCATTTACGAAAGAAGGGAGTTTGAC
AAG
Found at i:23866388 original size:17 final size:19
Alignment explanation
Indices: 23866344--23866388 Score: 67
Period size: 17 Copynumber: 2.4 Consensus size: 19
23866334 AATCGTAAGA
23866344 TTTTTTTTTTCTTTGCTTTG
1 TTTTTTTTTTCTTT-CTTTG
23866364 TTTTTTTTTT-TTT-TTTG
1 TTTTTTTTTTCTTTCTTTG
23866381 TTTTTTTT
1 TTTTTTTT
23866389 AATCTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.48
19 3 0.12
20 10 0.40
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (19 bp):
TTTTTTTTTTCTTTCTTTG
Found at i:23866786 original size:18 final size:18
Alignment explanation
Indices: 23866699--23866792 Score: 107
Period size: 18 Copynumber: 5.1 Consensus size: 18
23866689 CCAAATGTCG
*
23866699 GGTGGAGGTGGAGGTGGA
1 GGTGGAGGGGGAGGTGGA
*
23866717 GGTGGAGGTGGAGGTGGA
1 GGTGGAGGGGGAGGTGGA
*
23866735 GGTGGAGGTGGAGGTGGA
1 GGTGGAGGGGGAGGTGGA
*
23866753 GGTGGAGGAGGAGGAGGAGGA
1 GGTGGA-G-GG-GGAGGTGGA
* *
23866774 GGGGGAGGGGGAGGCGGA
1 GGTGGAGGGGGAGGTGGA
23866792 G
1 G
23866793 TAACAGGGGG
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
18 51 0.74
19 3 0.04
20 2 0.03
21 13 0.19
ACGTcount: A:0.19, C:0.01, G:0.69, T:0.11
Consensus pattern (18 bp):
GGTGGAGGGGGAGGTGGA
Found at i:23866792 original size:6 final size:6
Alignment explanation
Indices: 23866699--23866772 Score: 130
Period size: 6 Copynumber: 12.3 Consensus size: 6
23866689 CCAAATGTCG
23866699 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
* *
23866747 GGTGGA GGTGGA GGAGGA GGAGGA GG
1 GGTGGA GGTGGA GGTGGA GGTGGA GG
23866773 AGGGGGAGGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.19, C:0.00, G:0.68, T:0.14
Consensus pattern (6 bp):
GGTGGA
Found at i:23877867 original size:12 final size:12
Alignment explanation
Indices: 23877850--23877874 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23877840 AACCAACTGT
23877850 TGGATTATCACA
1 TGGATTATCACA
23877862 TGGATTATCACA
1 TGGATTATCACA
23877874 T
1 T
23877875 TGGCAGACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TGGATTATCACA
Found at i:23883894 original size:25 final size:24
Alignment explanation
Indices: 23883835--23883901 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
23883825 TAAACCTAAT
* * *
23883835 AATATTAAATATAA-TTTAAAAAT
1 AATATTAATTAAAATTTTAAAAAA
23883858 AATA-TAATTTAAAATTTTAATAAAA
1 AATATTAA-TTAAAATTTTAA-AAAA
*
23883883 AATATTAATTAAATTTTTA
1 AATATTAATTAAAATTTTA
23883902 TATCAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 3 0.08
23 8 0.22
24 5 0.14
25 17 0.47
26 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATATTAATTAAAATTTTAAAAAA
Found at i:23883912 original size:30 final size:31
Alignment explanation
Indices: 23883876--23883935 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
23883866 TTAAAATTTT
*
23883876 AATAAAAAATATTAATTA-AATTTTTATATC
1 AATAAAAAATATGAATTATAATTTTTATATC
* *
23883906 AATAAAAATTATGATTTATAATTTTTATAT
1 AATAAAAAATATGAATTATAATTTTTATAT
23883936 AAAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
AATAAAAAATATGAATTATAATTTTTATATC
Found at i:23888256 original size:24 final size:24
Alignment explanation
Indices: 23888210--23888287 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
23888200 CGACGATATG
* *
23888210 ATATAAAAATAATATAAAT-TAAAA
1 ATATAATAATAATAT-TATATAAAA
23888234 ATATAATAATAATATTATATAAAA
1 ATATAATAATAATATTATATAAAA
* *
23888258 TTTTAATAA-AA-ATTATA-AATAA
1 ATATAATAATAATATTATATAA-AA
*
23888280 ATTTAATA
1 ATATAATA
23888288 CAATTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
21 2 0.04
22 15 0.32
23 4 0.09
24 26 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAATAATAATATTATATAAAA
Found at i:23888284 original size:22 final size:24
Alignment explanation
Indices: 23888229--23888287 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 24
23888219 TAATATAAAT
*
23888229 TAAAAATATAATAATAATATTATA
1 TAAAAATTTAATAATAATATTATA
*
23888253 TAAAATTTTAATAA-AA-ATTATA
1 TAAAAATTTAATAATAATATTATA
23888275 -AATAAATTTAATA
1 TAA-AAATTTAATA
23888288 CAATTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 2 0.06
24 12 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAAAATTTAATAATAATATTATA
Found at i:23890776 original size:17 final size:16
Alignment explanation
Indices: 23890749--23890781 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
23890739 TTTAATTTTA
23890749 TATTTATTTATTAATT
1 TATTTATTTATTAATT
23890765 TATTTAATTTATTAATT
1 TATTT-ATTTATTAATT
23890782 AAATATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTATTTATTAATT
Found at i:23891596 original size:28 final size:31
Alignment explanation
Indices: 23891548--23891633 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 31
23891538 TATGATTTTT
* * *
23891548 AAATTATAATAAATATGATA-TAAAATTTTA
1 AAATTATTATTAATATGATATTAAAATTATA
*
23891578 AAATT-TT-TTAATATGATATTTAAATTATA
1 AAATTATTATTAATATGATATTAAAATTATA
*
23891607 AATTTATTAATTAATATGATATTAAAA
1 AAATTATT-ATTAATATGATATTAAAA
23891634 AAATTATTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
28 10 0.22
29 13 0.28
30 7 0.15
32 16 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
AAATTATTATTAATATGATATTAAAATTATA
Found at i:23902104 original size:20 final size:20
Alignment explanation
Indices: 23902066--23902106 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23902056 ACGAATTGAA
* **
23902066 TTATATATTTTTATTAATTT
1 TTATATATATTTAAAAATTT
23902086 TTATATATATTTAAAAATTT
1 TTATATATATTTAAAAATTT
23902106 T
1 T
23902107 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATATATATTTAAAAATTT
Found at i:23902220 original size:30 final size:31
Alignment explanation
Indices: 23902185--23902253 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 31
23902175 TGATAAACCA
* * *
23902185 AATCAAATCAATAAAATTTAATTCAAATTT-
1 AATCAAATCAAAAAAAATAAATTCAAATTTG
* * *
23902215 AATCAATTTAAAAAAAATAAATTCATATTTG
1 AATCAAATCAAAAAAAATAAATTCAAATTTG
23902246 AATCAAAT
1 AATCAAAT
23902254 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (31 bp):
AATCAAATCAAAAAAAATAAATTCAAATTTG
Found at i:23905852 original size:25 final size:26
Alignment explanation
Indices: 23905761--23905853 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 26
23905751 GAAGAGTGAG
* *
23905761 AAAGAAGGAGGAGAAGAACGG-AGGA
1 AAAGGAGGAGGAGAAGGACGGAAGGA
* *
23905786 AAGGGAGGAGAGAGTAAAGAGAGCGGAGGGA
1 AAAGGAGGAG-GAG--AAG-GA-CGGAAGGA
23905817 AAA-GAGGAGGAGAAGGA-GGAAGGA
1 AAAGGAGGAGGAGAAGGACGGAAGGA
23905841 AAAGGAGGAGGAG
1 AAAGGAGGAGGAG
23905854 GAAGACGATG
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
24 9 0.16
25 17 0.31
26 5 0.09
27 3 0.05
28 3 0.05
29 4 0.07
30 9 0.16
31 5 0.09
ACGTcount: A:0.47, C:0.02, G:0.49, T:0.01
Consensus pattern (26 bp):
AAAGGAGGAGGAGAAGGACGGAAGGA
Found at i:23915739 original size:21 final size:21
Alignment explanation
Indices: 23915705--23915752 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23915695 TCAAACTTTT
23915705 AAATTATATATCATATTAACTC
1 AAATTATATATCATATTAA-TC
* *
23915727 AAATTTTA-ATCATGTTAATC
1 AAATTATATATCATATTAATC
23915747 AAATTA
1 AAATTA
23915753 GTTCATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATTATATATCATATTAATC
Found at i:23916093 original size:21 final size:20
Alignment explanation
Indices: 23916069--23916107 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23916059 GTGTAAATTG
* *
23916069 TATATTTTATAATTTTTTAGA
1 TATAATTTA-AATATTTTAGA
23916090 TATAATTTAAATATTTTA
1 TATAATTTAAATATTTTA
23916108 TTAAAGTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TATAATTTAAATATTTTAGA
Found at i:23917887 original size:19 final size:18
Alignment explanation
Indices: 23917844--23917887 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23917834 TTTGCATGAA
23917844 AAATTTTGGATTTAATTC
1 AAATTTTGGATTTAATTC
*
23917862 AACTTTTGGATTCT-ATCTC
1 AAATTTTGGATT-TAAT-TC
23917881 AAATTTT
1 AAATTTT
23917888 AATTTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (18 bp):
AAATTTTGGATTTAATTC
Found at i:23918533 original size:33 final size:32
Alignment explanation
Indices: 23918470--23918540 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
23918460 TATTAATATT
* *
23918470 TTTATTTGTATGATTATATATTTAATTGCATG
1 TTTATTTGCATGATTACATATTTAATTGCATG
23918502 TTTATTTGCATGATTTACAT-TGTTAATTGCATG
1 TTTATTTGCATGA-TTACATAT-TTAATTGCATG
*
23918535 ATTATT
1 TTTATT
23918541 AATTTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.55
Consensus pattern (32 bp):
TTTATTTGCATGATTACATATTTAATTGCATG
Found at i:23918657 original size:25 final size:24
Alignment explanation
Indices: 23918616--23918664 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23918606 TTATTTTTGC
* *
23918616 ATGATTTTATATTTATTACATGAT
1 ATGATATTATATCTATTACATGAT
*
23918640 ATGATATTATATGCTATTGCATGAT
1 ATGATATTATAT-CTATTACATGAT
23918665 TAATACTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (24 bp):
ATGATATTATATCTATTACATGAT
Found at i:23920549 original size:17 final size:18
Alignment explanation
Indices: 23920521--23920554 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23920511 TGAGTCAGCC
*
23920521 AGTATGTTTTTTGACCTT
1 AGTATGTTTTTTAACCTT
23920539 AGTAT-TTTTTTAACCT
1 AGTATGTTTTTTAACCT
23920555 CGACCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (18 bp):
AGTATGTTTTTTAACCTT
Found at i:23922250 original size:24 final size:24
Alignment explanation
Indices: 23922219--23922268 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
23922209 TTAGCATTGT
*
23922219 TTCTTAATAGTCAAATTAGTGTTC
1 TTCTTAATAGTCAAATTAATGTTC
23922243 TTCTTAATAGTCAAATTAATGTTC
1 TTCTTAATAGTCAAATTAATGTTC
23922267 TT
1 TT
23922269 TATGGTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (24 bp):
TTCTTAATAGTCAAATTAATGTTC
Found at i:23935286 original size:13 final size:13
Alignment explanation
Indices: 23935261--23935306 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
23935251 GACGAAGTTC
23935261 TTAAAAT-AAAAA
1 TTAAAATCAAAAA
23935273 TTAAAATCAAAAA
1 TTAAAATCAAAAA
*
23935286 TCAAAATCAATAAA
1 TTAAAATCAA-AAA
23935300 TTAAAAT
1 TTAAAAT
23935307 GTTTTATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 7 0.23
13 14 0.47
14 9 0.30
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (13 bp):
TTAAAATCAAAAA
Found at i:23935354 original size:21 final size:21
Alignment explanation
Indices: 23935330--23935370 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23935320 AATCAAATGT
23935330 ATAAAATTTGAAAAAAATTTA
1 ATAAAATTTGAAAAAAATTTA
* * *
23935351 ATAAATTTTGATAAATATTT
1 ATAAAATTTGAAAAAAATTT
23935371 TTAGATAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
ATAAAATTTGAAAAAAATTTA
Found at i:23935377 original size:14 final size:14
Alignment explanation
Indices: 23935356--23935392 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23935346 ATTTAATAAA
23935356 TTTT-GATAAATAT
1 TTTTAGATAAATAT
*
23935369 TTTTAGATAGATAT
1 TTTTAGATAAATAT
23935383 TTTTAG-TAAA
1 TTTTAGATAAA
23935393 AATGTTAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (14 bp):
TTTTAGATAAATAT
Found at i:23940569 original size:8 final size:8
Alignment explanation
Indices: 23940556--23940582 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
23940546 GAGTTTTTAA
23940556 TTTAATAT
1 TTTAATAT
23940564 TTTAATAT
1 TTTAATAT
23940572 TTTAATAT
1 TTTAATAT
23940580 TTT
1 TTT
23940583 TATTGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTAATAT
Found at i:23940638 original size:13 final size:13
Alignment explanation
Indices: 23940620--23940644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23940610 CACATATGAA
23940620 AAAATAAAATTTT
1 AAAATAAAATTTT
23940633 AAAATAAAATTT
1 AAAATAAAATTT
23940645 AATCTAATAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATAAAATTTT
Found at i:23940806 original size:26 final size:26
Alignment explanation
Indices: 23940775--23940826 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
23940765 TCAAATAAAA
*
23940775 ATTTTTAATAAATTATTTAAATTGAAT
1 ATTTTGAAT-AATTATTTAAATTGAAT
*
23940802 ATTTTGGATAATTATTTAAATTGAA
1 ATTTTGAATAATTATTTAAATTGAA
23940827 ATTAAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (26 bp):
ATTTTGAATAATTATTTAAATTGAAT
Found at i:23941009 original size:39 final size:39
Alignment explanation
Indices: 23940965--23941080 Score: 98
Period size: 39 Copynumber: 3.0 Consensus size: 39
23940955 CAAATAATTC
23940965 TATTTAATAAATTATTTAAATTTAATATTTTTAGATAAT
1 TATTTAATAAATTATTTAAATTTAATATTTTTAGATAAT
* *** *
23941004 TATTTAAATTTAAA-TA--AAAATTT-ATCAAAAATT-GAAAAT
1 TATTT-AA--TAAATTATTTAAATTTAAT--ATTTTTAGATAAT
*
23941043 TATTTAATAGATTATTTAAATTTAATATTTTTAGATAA
1 TATTTAATAAATTATTTAAATTTAATATTTTTAGATAA
23941081 GTTAATGAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 20
0.64 0.13 0.23
Matches are distributed among these distances:
36 3 0.05
37 2 0.04
38 7 0.12
39 31 0.55
40 7 0.12
41 2 0.04
42 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (39 bp):
TATTTAATAAATTATTTAAATTTAATATTTTTAGATAAT
Done.