Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 34 of 160
Found at i:8342218 original size:15 final size:16
Alignment explanation
Indices: 8342198--8342230 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8342188 AAAATATGAT
*
8342198 AATACAATATA-AAAA
1 AATACAAAATACAAAA
8342213 AATACAAAATACAAAA
1 AATACAAAATACAAAA
8342229 AA
1 AA
8342231 ATAACATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AATACAAAATACAAAA
Found at i:8343189 original size:31 final size:31
Alignment explanation
Indices: 8343121--8343192 Score: 117
Period size: 32 Copynumber: 2.3 Consensus size: 31
8343111 ATTTTTAAAA
* *
8343121 ATTTATGTGTTTGGTTATTTTTTATTAGTAT
1 ATTTATGTGTTTGATTATTTTTTATTAATAT
8343152 ATTTTATGTGTTTGATTATTTTTTATTAATAT
1 A-TTTATGTGTTTGATTATTTTTTATTAATAT
8343184 ATTTATGTG
1 ATTTATGTG
8343193 ATAAAAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 9 0.24
32 29 0.76
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.64
Consensus pattern (31 bp):
ATTTATGTGTTTGATTATTTTTTATTAATAT
Found at i:8343856 original size:272 final size:276
Alignment explanation
Indices: 8343530--8344045 Score: 781
Period size: 272 Copynumber: 1.9 Consensus size: 276
8343520 TAAATTAAAT
* * * *
8343530 AATAAAAAAAGTATTAACACACTTTCACTTTAGTCATCTTGACTAAATTATTATACAAAATATGA
1 AATAAAAAAAGTATTAACACACTTTCACTTTAATAATCTTGACTAAACTATTATACAAAATATAA
* * * *
8343595 AAAATGTTAGAAATTATGTGCAAAAAG-AAAAA-AAA-TTAAAAAAAATTATTTTTCATAAGAGT
66 AAAATGTTAAAAAATATGTGAAAAAAGAAAAAATAAATTTAAAAAAAA-TATTTTTCATAAGAAT
** * * *
8343657 GAAGCTATAATAACAATAAAATATACCTTAGAAAAAATTTATAAAC-AAAAAATAAATAAATTGC
130 GAAAATATAATAACAATAAAATATACCTTAGAAAAAATTTATAAACAAAAAAAAAAACAAATCGC
*
8343721 AATAGTAATAAAATATACC-TTAAAAAAGTTACTGAAAAAATAAAAAAATTTGATGTGTAATATA
195 AATAGTAATAAAATATACCTTTAAAAAAGTTACTGAAAAAAGAAAAAAATTTGATGTGTAATATA
8343785 TTACATTTGTAATCTTA
260 TTACATTTGTAATCTTA
* *
8343802 AATAAAAGAAGTATTAACACACTTTCACTTTAATAATCTTGATTAAACTATTATACAAAATATAA
1 AATAAAAAAAGTATTAACACACTTTCACTTTAATAATCTTGACTAAACTATTATACAAAATATAA
*
8343867 AAAATGTTAAAAAATATGTGAAAAAAGAAAAAATAAATTTTAAAAAAATATTTTTCATAAGAATG
66 AAAATGTTAAAAAATATGTGAAAAAAGAAAAAATAAATTTAAAAAAAATATTTTTCATAAGAATG
* * * *
8343932 AAAATGTAATAACAATAAAATATATCTTAGAAAATATTTATAAACAAAAAAAAAAAACAAATCGT
131 AAAATATAATAACAATAAAATATACCTTAGAAAAAATTTATAAAC-AAAAAAAAAAACAAATCGC
*
8343997 AATAGTAATAGAATATACCTTTAAAAAAGTTACTGAAAAAAGAAAAAAA
195 AATAGTAATAAAATATACCTTTAAAAAAGTTACTGAAAAAAGAAAAAAA
8344046 AATTGATATA
Statistics
Matches: 216, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
272 83 0.38
273 5 0.02
274 59 0.27
275 9 0.04
276 32 0.15
277 28 0.13
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (276 bp):
AATAAAAAAAGTATTAACACACTTTCACTTTAATAATCTTGACTAAACTATTATACAAAATATAA
AAAATGTTAAAAAATATGTGAAAAAAGAAAAAATAAATTTAAAAAAAATATTTTTCATAAGAATG
AAAATATAATAACAATAAAATATACCTTAGAAAAAATTTATAAACAAAAAAAAAAACAAATCGCA
ATAGTAATAAAATATACCTTTAAAAAAGTTACTGAAAAAAGAAAAAAATTTGATGTGTAATATAT
TACATTTGTAATCTTA
Found at i:8345591 original size:21 final size:21
Alignment explanation
Indices: 8345565--8345604 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8345555 AGTTGATATT
8345565 TCATTTTTTAAATTAAAATCC
1 TCATTTTTTAAATTAAAATCC
*
8345586 TCATTTTTTAAGTTAAAAT
1 TCATTTTTTAAATTAAAAT
8345605 TATGGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (21 bp):
TCATTTTTTAAATTAAAATCC
Found at i:8356404 original size:13 final size:13
Alignment explanation
Indices: 8356386--8356411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8356376 ATTGAATTGA
8356386 ATAATCATAAAAT
1 ATAATCATAAAAT
8356399 ATAATCATAAAAT
1 ATAATCATAAAAT
8356412 TGTAACTATT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATCATAAAAT
Found at i:8357600 original size:36 final size:36
Alignment explanation
Indices: 8357553--8357625 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
8357543 GTAACAGGCC
*
8357553 CTTTCGTGCTATTTCCACGACTAACTAATAATAAAT
1 CTTTCATGCTATTTCCACGACTAACTAATAATAAAT
* *
8357589 CTTTCATGCTATTTTCACGACTAATTAATAATAAAT
1 CTTTCATGCTATTTCCACGACTAACTAATAATAAAT
8357625 C
1 C
8357626 ATTTTGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (36 bp):
CTTTCATGCTATTTCCACGACTAACTAATAATAAAT
Found at i:8357977 original size:43 final size:43
Alignment explanation
Indices: 8357929--8358010 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
8357919 GCCCTCGTCA
*
8357929 CGGAGACTAATCATCCTG-CTTACCTCCCTTGAGGTACTTGAGG
1 CGGAGACTAATCACCCTGTC-TACCTCCCTTGAGGTACTTGAGG
* *
8357972 CGGAGACTGATCACCCTGTCTACTTCCCTTGAGGTACTT
1 CGGAGACTAATCACCCTGTCTACCTCCCTTGAGGTACTT
8358011 AAGGTGGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (43 bp):
CGGAGACTAATCACCCTGTCTACCTCCCTTGAGGTACTTGAGG
Found at i:8358216 original size:13 final size:13
Alignment explanation
Indices: 8358198--8358231 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
8358188 ACGATTTTAT
8358198 CCTACAAAAGGTG
1 CCTACAAAAGGTG
8358211 CCTACAAAAGGTG
1 CCTACAAAAGGTG
8358224 CCTCACAA
1 CCT-ACAA
8358232 GACGGAGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (13 bp):
CCTACAAAAGGTG
Found at i:8364545 original size:2 final size:2
Alignment explanation
Indices: 8364540--8364566 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8364530 TACACACGTG
8364540 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 T
8364567 CAAATGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8366356 original size:15 final size:17
Alignment explanation
Indices: 8366326--8366357 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8366316 ATATCCTAAC
8366326 AAAATATATAAAATTTT
1 AAAATATATAAAATTTT
8366343 AAAAT-TAT-AAATTTT
1 AAAATATATAAAATTTT
8366358 GTCGATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATATAAAATTTT
Found at i:8368931 original size:17 final size:17
Alignment explanation
Indices: 8368883--8368932 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
8368873 GATTTGTTTA
8368883 TTTAACATAATTAAAATT
1 TTTAA-ATAATTAAAATT
8368901 TTTAAAT-ATATAAAATT
1 TTTAAATAAT-TAAAATT
**
8368918 TTTATTTAATTAAAA
1 TTTAAATAATTAAAA
8368933 AATAGTATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 19 0.68
18 7 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAAATAATTAAAATT
Found at i:8369387 original size:2 final size:2
Alignment explanation
Indices: 8369382--8369420 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8369372 TTTACTATTC
* *
8369382 AT AT AT AT AT AT AT AG AA AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8369421 TTAGAAGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8373576 original size:30 final size:29
Alignment explanation
Indices: 8373526--8373613 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 29
8373516 AATGTGCATC
*
8373526 AACTAAATTCCTTAAAAAATAATATTATAA
1 AACTAAATTTCTT-AAAAATAATATTATAA
* *
8373556 GAACTAAATTTCTTAAAAATAATAGTACAA
1 -AACTAAATTTCTTAAAAATAATATTATAA
**
8373586 AGACTAAA-TTCTTTTAAATAATATTATA
1 A-ACTAAATTTCTTAAAAATAATATTATA
8373614 GGGAATAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
29 17 0.35
30 20 0.41
31 12 0.24
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.35
Consensus pattern (29 bp):
AACTAAATTTCTTAAAAATAATATTATAA
Found at i:8377071 original size:19 final size:19
Alignment explanation
Indices: 8377044--8377081 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8377034 AAAGAACAAA
*
8377044 CATGGTTATATAATAAAGT
1 CATGATTATATAATAAAGT
*
8377063 CATGATTATATAATGAAGT
1 CATGATTATATAATAAAGT
8377082 TTTACTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (19 bp):
CATGATTATATAATAAAGT
Found at i:8385297 original size:33 final size:33
Alignment explanation
Indices: 8385255--8385319 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
8385245 GGGTGATGTT
8385255 CAGTGAACTTGTTCTTATAACAAACACCTATAA
1 CAGTGAACTTGTTCTTATAACAAACACCTATAA
8385288 CAGTGAACTTGTTCTTATAACAAACACCTATA
1 CAGTGAACTTGTTCTTATAACAAACACCTATA
8385320 TGTTAGCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (33 bp):
CAGTGAACTTGTTCTTATAACAAACACCTATAA
Found at i:8385742 original size:16 final size:16
Alignment explanation
Indices: 8385691--8385744 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
8385681 AATACCAATA
*
8385691 AGTTGTTCTATGAAAT
1 AGTTATTCTATGAAAT
* *
8385707 AATTA-TCCATG-AAT
1 AGTTATTCTATGAAAT
*
8385721 AGTTATTCTATGAAAG
1 AGTTATTCTATGAAAT
8385737 AGTTATTC
1 AGTTATTC
8385745 CATAAACAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 7 0.23
15 10 0.33
16 13 0.43
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (16 bp):
AGTTATTCTATGAAAT
Found at i:8390237 original size:31 final size:29
Alignment explanation
Indices: 8390202--8390292 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 29
8390192 AAGTGTTTCA
* **
8390202 ATGAACAATTGTTCTATGAAGATGGTATTCC
1 ATGAA-AATTGTTCTATGAACA-ACTATTCC
*
8390233 ATGAAGGAATTGTTCCATGAACAACTATTCC
1 ATGAA--AATTGTTCTATGAACAACTATTCC
8390264 ATGAAATAGTTGTTCTATGAACAACTATT
1 ATGAAA-A-TTGTTCTATGAACAACTATT
8390293 TTATGAAGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 1 0.02
30 1 0.02
31 35 0.69
32 14 0.27
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (29 bp):
ATGAAAATTGTTCTATGAACAACTATTCC
Found at i:8390299 original size:31 final size:30
Alignment explanation
Indices: 8390227--8390307 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
8390217 ATGAAGATGG
*
8390227 TATTCCATGAAGGAATTGTTCCATGAACAAC
1 TATTCCATGAA-GAGTTGTTCCATGAACAAC
* *
8390258 TATTCCATGAAATAGTTGTTCTATGAACAAC
1 TATTCCATG-AAGAGTTGTTCCATGAACAAC
**
8390289 TATTTTATGAAGAGTTGTT
1 TATTCCATGAAGAGTTGTT
8390308 ATGTGAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
30 9 0.21
31 32 0.74
32 2 0.05
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (30 bp):
TATTCCATGAAGAGTTGTTCCATGAACAAC
Found at i:8391115 original size:21 final size:20
Alignment explanation
Indices: 8391086--8391124 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8391076 ATTACTTAGA
*
8391086 TTTTTCTTTTCTTTTTTTTT
1 TTTTTCTTTTCTCTTTTTTT
8391106 TTTTGTCTTTTCTCTTTTT
1 TTTT-TCTTTTCTCTTTTT
8391125 GGTTGATCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTTCTTTTCTCTTTTTTT
Found at i:8391676 original size:13 final size:14
Alignment explanation
Indices: 8391654--8391694 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
8391644 ATCGATTAAA
*
8391654 GAAAAGTTAAAATT
1 GAAAAATTAAAATT
8391668 -AAAAATTAAAATT
1 GAAAAATTAAAATT
*
8391681 GATAAATTAAAATT
1 GAAAAATTAAAATT
8391695 TTTTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (14 bp):
GAAAAATTAAAATT
Found at i:8392411 original size:21 final size:19
Alignment explanation
Indices: 8392386--8392428 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8392376 TTAATTAAAC
*
8392386 TAATCAGTTATCCGTAATTTA
1 TAATCA-TT-TCCATAATTTA
*
8392407 TAATCATTTTCATAATTTA
1 TAATCATTTCCATAATTTA
8392426 TAA
1 TAA
8392429 CTTAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (19 bp):
TAATCATTTCCATAATTTA
Found at i:8408211 original size:21 final size:21
Alignment explanation
Indices: 8408186--8408249 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
8408176 ATATTATAGG
*
8408186 ATGATTGGATATAAAAATAAT
1 ATGATTTGATATAAAAATAAT
*
8408207 ATGATTTGAAATTAAAAATATAT
1 ATGATTTGATA-TAAAAATA-AT
* *
8408230 ATAATTTGATAAAAAAATAA
1 ATGATTTGATATAAAAATAA
8408250 AAAATATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 10 0.28
22 15 0.42
23 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (21 bp):
ATGATTTGATATAAAAATAAT
Found at i:8411704 original size:9 final size:8
Alignment explanation
Indices: 8411657--8411709 Score: 61
Period size: 8 Copynumber: 6.2 Consensus size: 8
8411647 TTAAAAAACA
8411657 TTTTTGTT
1 TTTTTGTT
*
8411665 TTTTTTTT
1 TTTTTGTT
*
8411673 TTTTTTTT
1 TTTTTGTT
8411681 TTTTTAGATT
1 TTTTT-G-TT
8411691 TTTTTGTT
1 TTTTTGTT
8411699 TGTTTTGTT
1 T-TTTTGTT
8411708 TT
1 TT
8411710 GTTTTGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 24 0.60
9 9 0.22
10 7 0.17
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (8 bp):
TTTTTGTT
Found at i:8411704 original size:10 final size:9
Alignment explanation
Indices: 8411657--8411716 Score: 70
Period size: 9 Copynumber: 6.8 Consensus size: 9
8411647 TTAAAAAACA
8411657 TTTTTGTTT
1 TTTTTGTTT
8411666 TTTTT-TTT
1 TTTTTGTTT
8411674 TTTTT-TTT
1 TTTTTGTTT
* *
8411682 TTTTAGATT
1 TTTTTGTTT
8411691 TTTTTGTTT
1 TTTTTGTTT
*
8411700 GTTTTGTTT
1 TTTTTGTTT
8411709 TGTTTTGT
1 T-TTTTGT
8411717 ATTATACACA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
8 15 0.35
9 22 0.51
10 6 0.14
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:8411707 original size:5 final size:5
Alignment explanation
Indices: 8411658--8411716 Score: 52
Period size: 5 Copynumber: 12.2 Consensus size: 5
8411648 TAAAAAACAT
* * * *
8411658 TTTTG TTTT- TTTTT TTTTT TTTTT TTTTAG ATTT- TTTTG -TTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT-G TTTTG TTTTG TTTTG TTTTG
8411706 TTTTG TTTTG T
1 TTTTG TTTTG T
8411717 ATTATACACA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
4 11 0.23
5 33 0.70
6 3 0.06
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:8412973 original size:193 final size:195
Alignment explanation
Indices: 8412643--8413031 Score: 622
Period size: 193 Copynumber: 2.0 Consensus size: 195
8412633 TGATTTTTAT
* * *
8412643 TTAAAAAAAATTATTCTTGAGAAAAATAAATCAAAACCTTTTTTTTTGAAATAATTCTTAAAATG
1 TTAAAAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTTATTAAAATAATTCTTAAAATG
* * *
8412708 TTCCAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTTTTAAAGCATCTCTAC
66 TTCCAGTACATTGATAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTAC
* * *
8412773 TCGAAATACTTTTAGAATCTCATCTTTGGAG-GCTCGAATTTACTTTTCGTAAGAAA-ATGTCAT
131 TCGAAATACTTTTAAAATCTCATCTTTGGAGATCT-AAATTTACTTTTCGTAAGAAATATGTCAT
8412836 G
195 G
* *
8412837 TTAAAAAAATTTATTCTCGAGAAAAATAAATTAAAACC-TTTTTATTAAAATAATTCTTAAAATG
1 TTAAAAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTTATTAAAATAATTCTTAAAATG
*
8412901 TTTCAGTACATTGATAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTAC
66 TTCCAGTACATTGATAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTAC
*
8412966 TCGAAATACTTTTAAAATCTCATCTTTGGAGATCTAAATTTATTTTTCGTAAGAAATTATGTCAT
131 TCGAAATACTTTTAAAATCTCATCTTTGGAGATCTAAATTTACTTTTCGTAAGAAA-TATGTCAT
8413031 G
195 G
8413032 CATGCCATGC
Statistics
Matches: 179, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
193 134 0.75
194 37 0.21
195 8 0.04
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (195 bp):
TTAAAAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTTATTAAAATAATTCTTAAAATG
TTCCAGTACATTGATAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTAC
TCGAAATACTTTTAAAATCTCATCTTTGGAGATCTAAATTTACTTTTCGTAAGAAATATGTCATG
Found at i:8413103 original size:12 final size:12
Alignment explanation
Indices: 8413086--8413114 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8413076 TCATTCAAAA
8413086 ATTTTATTAATT
1 ATTTTATTAATT
8413098 ATTTTATTAATT
1 ATTTTATTAATT
8413110 -TTTTA
1 ATTTTA
8413115 ATTTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:8413654 original size:16 final size:17
Alignment explanation
Indices: 8413624--8413656 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8413614 AATCTAACAA
8413624 ATATAAATATTTTAATAT
1 ATATAAATA-TTTAATAT
8413642 ATATAAATA-TTAATA
1 ATATAAATATTTAATA
8413657 AAATAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAAATATTTAATAT
Found at i:8414662 original size:21 final size:20
Alignment explanation
Indices: 8414632--8414676 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
8414622 AAATGGGAAG
*
8414632 AAAA-AAAAATTTTAATAATA
1 AAAATAAAAATTTTAA-AAAA
8414652 AAAATAAAAATTTTAAAAAA
1 AAAATAAAAATTTTAAAAAA
8414672 AAAAT
1 AAAAT
8414677 GGTGTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATAAAAATTTTAAAAAA
Found at i:8417787 original size:2 final size:2
Alignment explanation
Indices: 8417776--8417805 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8417766 TGTATGTTGT
8417776 TA TA TA -A 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 T
8417806 TAGATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8419100 original size:15 final size:15
Alignment explanation
Indices: 8419077--8419107 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8419067 GATGCGATTA
*
8419077 ATTTCAAATTAAATT
1 ATTTAAAATTAAATT
8419092 ATTTAAAATTAAATT
1 ATTTAAAATTAAATT
8419107 A
1 A
8419108 ATCAAATTAT
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:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAAAATTAAATT
Found at i:8420471 original size:33 final size:28
Alignment explanation
Indices: 8420404--8420457 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
8420394 CATAAAATTC
8420404 TTTA-AATAATTGATTTATTTAACATTT
1 TTTATAATAATTGATTTATTTAACATTT
*
8420431 TTTATAATATATTTATTTATTTAACAT
1 TTTATAATA-ATTGATTTATTTAACAT
8420458 GTAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.17
28 4 0.17
29 16 0.67
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTATAATAATTGATTTATTTAACATTT
Found at i:8420518 original size:41 final size:41
Alignment explanation
Indices: 8420473--8420586 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
8420463 TTTTATAATT
*
8420473 TCTATTATGATAATAGATGACATTTACCTTCTCAAACATCA
1 TCTATTATGATAATAGATGACATTTACTTTCTCAAACATCA
* * *
8420514 TCTATTATGATAAGAGATGACATTTA-TTTGTTCGAACATCA
1 TCTATTATGATAATAGATGACATTTACTTT-CTCAAACATCA
* * *
8420555 TCTATTATGATGATAAACGACATTTACTTTCT
1 TCTATTATGATAATAGATGACATTTACTTTCT
8420587 TAAATGCCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.03
41 57 0.92
42 3 0.05
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (41 bp):
TCTATTATGATAATAGATGACATTTACTTTCTCAAACATCA
Found at i:8420618 original size:12 final size:13
Alignment explanation
Indices: 8420595--8420624 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
8420585 CTTAAATGCC
8420595 ATTTATTATATAT
1 ATTTATTATATAT
8420608 ATTTA-TATATAT
1 ATTTATTATATAT
8420620 ATTTA
1 ATTTA
8420625 ACTTGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATTATATAT
Found at i:8422494 original size:15 final size:15
Alignment explanation
Indices: 8422413--8422514 Score: 64
Period size: 15 Copynumber: 6.3 Consensus size: 15
8422403 TTTTGGTATT
8422413 TTTATTT-TTATTTTA
1 TTTATTTGTTA-TTTA
8422428 TTTACGTTTAGTTATTTA
1 TTTA--TTT-GTTATTTA
*
8422446 TTTATGTATTTTCCATTTA
1 TTTAT-T-TGTT--ATTTA
*
8422465 TTT-TTTATTATTTTA
1 TTTATTTGTTA-TTTA
*
8422480 TTTATTTGTTCTTTA
1 TTTATTTGTTATTTA
* *
8422495 GTTATTTGTTATTCA
1 TTTATTTGTTATTTA
8422510 TTTAT
1 TTTAT
8422515 CTATAAATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
14 1 0.01
15 31 0.45
16 9 0.13
17 7 0.10
18 10 0.14
19 11 0.16
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTATTTGTTATTTA
Found at i:8422865 original size:17 final size:17
Alignment explanation
Indices: 8422821--8422865 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
8422811 TTTATTAACT
*
8422821 TTTTTATAAAAAATAAA
1 TTTTAATAAAAAATAAA
*
8422838 TTTTAAGAAAAAA-AAA
1 TTTTAATAAAAAATAAA
8422854 TTTTCAATAAAA
1 TTTT-AATAAAA
8422866 CCTTACCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
TTTTAATAAAAAATAAA
Found at i:8431739 original size:22 final size:23
Alignment explanation
Indices: 8431714--8431760 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8431704 AAAATAGAGA
8431714 AAAAAAACAAAGAAAA-AAAAAG
1 AAAAAAACAAAGAAAACAAAAAG
** *
8431736 AAAAAATGAATGAAAACAAAAAG
1 AAAAAAACAAAGAAAACAAAAAG
8431759 AA
1 AA
8431761 TACTCATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.81, C:0.04, G:0.11, T:0.04
Consensus pattern (23 bp):
AAAAAAACAAAGAAAACAAAAAG
Found at i:8432918 original size:39 final size:38
Alignment explanation
Indices: 8432864--8433029 Score: 165
Period size: 39 Copynumber: 4.3 Consensus size: 38
8432854 AATGTTATAC
*
8432864 TTTATTTTTAAAGTTATATGCCTCTATTTATGAGAAGTT
1 TTTATTTTTAAAGTTATATGCCTCTATTTATGAG-AGCT
* * *
8432903 TTTATTTTTAAAGTTATGTGCGTTTATTTATGAGGAGCT
1 TTTATTTTTAAAGTTATATGCCTCTATTTATGA-GAGCT
* * * **
8432942 TTTATTTTTAAAGTTGTTTGCCTTTA-TTAAAATGAGCT
1 TTTATTTTTAAAGTTATATGCCTCTATTTATGA-GAGCT
* * *
8432980 TTTATTTTTAAAGTTGTATGCCTCTA-TCATGGATGGGCT
1 TTTATTTTTAAAGTTATATGCCTCTATTTAT-GA-GAGCT
8433019 TTTATTTTTAA
1 TTTATTTTTAA
8433030 GTCATGTGTT
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
38 35 0.32
39 73 0.67
40 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.52
Consensus pattern (38 bp):
TTTATTTTTAAAGTTATATGCCTCTATTTATGAGAGCT
Found at i:8434321 original size:18 final size:16
Alignment explanation
Indices: 8434282--8434378 Score: 76
Period size: 16 Copynumber: 5.8 Consensus size: 16
8434272 ATTCTTTTGG
8434282 TATTT-TTTATTTTAT
1 TATTTATTTATTTTAT
8434297 TATTTTATTTATGTTTAGT
1 TA-TTTATTTAT-TTTA-T
8434316 TATTTATTTATATGTT-T
1 TATTTATTTAT-T-TTAT
*
8434333 TCCATTTATGT-TTTTAT
1 T--ATTTATTTATTTTAT
*
8434350 TATTTTATTTA-TTTGT
1 TA-TTTATTTATTTTAT
8434366 TATTTATTTATTT
1 TATTTATTTATTT
8434379 AATTTTCATT
Statistics
Matches: 67, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
15 11 0.16
16 19 0.28
17 10 0.15
18 15 0.22
19 12 0.18
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (16 bp):
TATTTATTTATTTTAT
Found at i:8434323 original size:31 final size:29
Alignment explanation
Indices: 8434287--8434372 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 29
8434277 TTTGGTATTT
8434287 TTTATTTTATTATTTTATTTATGTTTAGTTA
1 TTTATTTTATTATTTTATTTATGTTT--TTA
*
8434318 TTTATTTATATGT-TTTCCATTTATGTTTTTA
1 TTTATTT-TAT-TATTT-TATTTATGTTTTTA
8434349 -TTATTTTATTTATTTGTTATTTAT
1 TTTATTTTA-TTA-TT-TTATTTAT
8434373 TTATTTAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
29 3 0.07
30 7 0.15
31 18 0.39
32 7 0.15
33 11 0.24
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (29 bp):
TTTATTTTATTATTTTATTTATGTTTTTA
Found at i:8434373 original size:15 final size:15
Alignment explanation
Indices: 8434277--8434378 Score: 55
Period size: 15 Copynumber: 6.2 Consensus size: 15
8434267 ACGCTATTCT
*
8434277 TTTGGTATTT-TTTA
1 TTTGTTATTTATTTA
*
8434291 TTTTATTATTTTATTTA
1 -TTTGTTA-TTTATTTA
8434308 TGTTTAGTTATTTATTTA
1 --TTT-GTTATTTATTTA
*
8434326 TATGTTTTCCATTTATGTT-
1 T-T-TGTT--ATTTAT-TTA
*
8434345 TTTATTATTTTATTTA
1 TTTGTTA-TTTATTTA
8434361 TTTGTTATTTATTTA
1 TTTGTTATTTATTTA
8434376 TTT
1 TTT
8434379 AATTTTCATT
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
15 19 0.28
16 15 0.22
17 10 0.14
18 13 0.19
19 10 0.14
20 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTGTTATTTATTTA
Found at i:8434389 original size:50 final size:52
Alignment explanation
Indices: 8434291--8434389 Score: 141
Period size: 50 Copynumber: 1.9 Consensus size: 52
8434281 GTATTTTTTA
*
8434291 TTTTATTATTTTATTTATGTTTAGTTATTTATTTATATGTTTTCCATTTATGT
1 TTTTATTATTTTATTTA-GTTTAGTTATTTATTTATATATTTTCCATTTATGT
*
8434344 TTTTATTATTTTATTTA-TTT-GTTATTTATTTATTTAATTTT-CATTT
1 TTTTATTATTTTATTTAGTTTAGTTATTTATTTATAT-ATTTTCCATTT
8434390 TTCTATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 19 0.44
51 7 0.16
53 17 0.40
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (52 bp):
TTTTATTATTTTATTTAGTTTAGTTATTTATTTATATATTTTCCATTTATGT
Found at i:8434432 original size:17 final size:17
Alignment explanation
Indices: 8434396--8434433 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8434386 ATTTTTCTAT
*
8434396 AAATATTTTTGTTAAAA
1 AAATATTTTTGTAAAAA
8434413 AAATATTTTT-TAAAATA
1 AAATATTTTTGTAAAA-A
8434430 AAAT
1 AAAT
8434434 TAAAAGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATATTTTTGTAAAAA
Found at i:8434599 original size:59 final size:61
Alignment explanation
Indices: 8434483--8434609 Score: 134
Period size: 59 Copynumber: 2.1 Consensus size: 61
8434473 TAAAAAAATA
* ***
8434483 AAAAAATATATCTTTTCAAATAAAAATGAACCTTAACAATATAATAAGGGTTCAAATTTCT
1 AAAAAATAAATCTTTTCAAATAAAAATGAACCTTAACAATATAATAAAAATTCAAATTTCT
* * * * *
8434544 AAAAAATAAAT-TTTT-AAATAAAAA-GAATCTTATCAATATATTAAAAAATTTAAATTTTT
1 AAAAAATAAATCTTTTCAAATAAAAATGAACCTTAACAATATAAT-AAAAATTCAAATTTCT
*
8434603 AATAAAT
1 AAAAAAT
8434610 TGTTTTAATA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 15 0.27
59 26 0.47
60 4 0.07
61 10 0.18
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (61 bp):
AAAAAATAAATCTTTTCAAATAAAAATGAACCTTAACAATATAATAAAAATTCAAATTTCT
Found at i:8434854 original size:18 final size:20
Alignment explanation
Indices: 8434818--8434856 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
8434808 AATCTTATAA
*
8434818 TTTTTAAATATAAATTAATT
1 TTTTTAAATATAAAATAATT
8434838 TTTTTAAA-A-AAAATAATT
1 TTTTTAAATATAAAATAATT
8434856 T
1 T
8434857 ACATAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 1 0.06
20 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTTAAATATAAAATAATT
Found at i:8437216 original size:21 final size:19
Alignment explanation
Indices: 8437170--8437245 Score: 57
Period size: 21 Copynumber: 3.9 Consensus size: 19
8437160 TTTGTTAATT
*
8437170 TAATAA-AATTAATAAAATA
1 TAATAATAAATAATAAAA-A
* *
8437189 TGATAATTATATAATAAAAA
1 TAATAA-TAAATAATAAAAA
8437209 TAATTAATAAATAATTAAAAA
1 TAA-TAATAAATAA-TAAAAA
* *
8437230 TTA-AATAAATACTAAA
1 TAATAATAAATAATAAA
8437246 TCTTATAATC
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 4 0.09
19 13 0.28
20 9 0.20
21 20 0.43
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
TAATAATAAATAATAAAAA
Found at i:8437453 original size:21 final size:21
Alignment explanation
Indices: 8437429--8437480 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8437419 AATTTTAATC
*
8437429 TTATCATTATAAT-ATTAAAAT
1 TTATCATTAAAATAATT-AAAT
* *
8437450 TTATCACTAAAATAATTAATT
1 TTATCATTAAAATAATTAAAT
8437471 TTATCATTAA
1 TTATCATTAA
8437481 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (21 bp):
TTATCATTAAAATAATTAAAT
Found at i:8437892 original size:19 final size:17
Alignment explanation
Indices: 8437850--8437892 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
8437840 TTGATTAATT
8437850 AAATTTAAAATTATATA
1 AAATTTAAAATTATATA
* *
8437867 TATTTTAAAATGTTATATA
1 AAATTTAAAA--TTATATA
8437886 AAATTTA
1 AAATTTA
8437893 CACTTATAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
AAATTTAAAATTATATA
Found at i:8439692 original size:2 final size:2
Alignment explanation
Indices: 8439681--8439715 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8439671 ATATATGTAA
*
8439681 TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8439716 TTATCTCGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:8446796 original size:184 final size:184
Alignment explanation
Indices: 8446479--8446847 Score: 560
Period size: 184 Copynumber: 2.0 Consensus size: 184
8446469 CATAAATTTC
* * *
8446479 ATTGATGACTATTTTTATGAATGAATAAGGGAAAATTGAAAACATGAAATATATGAATACAAACA
1 ATTGATGACTATTTTTATGAATGAATAAGGGAAAATTGAAAACATGAAATACACGAACACAAACA
** * * *
8446544 TGTAAATGTTATAGTAAAAATGAAGGTGGCATATCAAAGGTGAAGTACAATTTTATACTTACATA
66 TGTAAATGTTATAGTAAAAACAAAAGTGACATATCAAAGGTGAAGAACAATTTTATACTTACATA
* *
8446609 TAATTGTGATTTGACAAGATGTACTAATTTATTAACATTGCTTTAGTTGAACAA
131 TAATTGTAATTTAACAAGATGTACTAATTTATTAACATTGCTTTAGTTGAACAA
* * *
8446663 ATTGATGACTATTTTTATTAATGAATTAGGGAAAATTGAAAACAT-AGAATACACGGACACAAAC
1 ATTGATGACTATTTTTATGAATGAATAAGGGAAAATTGAAAACATGA-AATACACGAACACAAAC
* **
8446727 ATGTAAATGTTATAGTAAAAACAAAAGTGACATATCAAAGGTGAAGAACAGTTTTATACTTGTAT
65 ATGTAAATGTTATAGTAAAAACAAAAGTGACATATCAAAGGTGAAGAACAATTTTATACTTACAT
* *
8446792 ATAATTGTAATTTAACAAGATGTACTAATTTATTTATATTGCTTTAGTTGAACAA
130 ATAATTGTAATTTAACAAGATGTACTAATTTATTAACATTGCTTTAGTTGAACAA
8446847 A
1 A
8446848 ACTACATATA
Statistics
Matches: 166, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
183 1 0.01
184 165 0.99
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (184 bp):
ATTGATGACTATTTTTATGAATGAATAAGGGAAAATTGAAAACATGAAATACACGAACACAAACA
TGTAAATGTTATAGTAAAAACAAAAGTGACATATCAAAGGTGAAGAACAATTTTATACTTACATA
TAATTGTAATTTAACAAGATGTACTAATTTATTAACATTGCTTTAGTTGAACAA
Found at i:8450340 original size:22 final size:22
Alignment explanation
Indices: 8450298--8450340 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8450288 TTCTCATATT
*
8450298 ATCTCTTATTATTTATACTTAC
1 ATCTCTTATTATCTATACTTAC
*
8450320 ATCTTTTATTAGTCTAT-CTTA
1 ATCTCTTATTA-TCTATACTTA
8450341 TATATATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.26, C:0.16, G:0.02, T:0.56
Consensus pattern (22 bp):
ATCTCTTATTATCTATACTTAC
Found at i:8452148 original size:23 final size:22
Alignment explanation
Indices: 8452114--8452157 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8452104 TAAATTTTAT
* *
8452114 TTTTAAATTTAAAATTTAAAATA
1 TTTTAAAATT-AAATATAAAATA
8452137 TTTTAAAATTAAATATAAAAT
1 TTTTAAAATTAAATATAAAAT
8452158 TAAATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTAAAATTAAATATAAAATA
Found at i:8453001 original size:18 final size:17
Alignment explanation
Indices: 8452969--8453003 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8452959 TTTTATTTTA
*
8452969 TAAAATTTAAAAAATAT
1 TAAAATTAAAAAAATAT
8452986 TAAAATTAATAAAAATAT
1 TAAAATTAA-AAAAATAT
8453004 ATAATTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTAAAAAAATAT
Found at i:8453381 original size:20 final size:21
Alignment explanation
Indices: 8453345--8453396 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
8453335 TCCGAAATTA
8453345 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
8453367 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
8453388 AT-AAATATT
1 ATAAAATATT
8453397 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:8453387 original size:21 final size:22
Alignment explanation
Indices: 8453345--8453396 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
8453335 TCCGAAATTA
8453345 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
8453367 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
8453388 AT-AAATATT
1 ATAAAATATT
8453397 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:8453404 original size:30 final size:30
Alignment explanation
Indices: 8453361--8453434 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
8453351 TATTATTTTT
* * *
8453361 TAAA-ATAT-AAAATATTATTTTTTAAATA
1 TAAATATATAAAAATATCATTATATAAATA
*
8453389 TAAATATTTAAAAATATCATTATATAAATA
1 TAAATATATAAAAATATCATTATATAAATA
* *
8453419 TATATATATATAAATA
1 TAAATATATAAAAATA
8453435 ATTAAATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 4 0.11
29 3 0.08
30 30 0.81
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAATATATAAAAATATCATTATATAAATA
Found at i:8453405 original size:16 final size:16
Alignment explanation
Indices: 8453384--8453442 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
8453374 ATTATTTTTT
*
8453384 AAATATAAATATTTAA
1 AAATATAAATATATAA
* *
8453400 AAATATCATTATATAA
1 AAATATAAATATATAA
* *
8453416 ATATATATATATATAA
1 AAATATAAATATATAA
8453432 ATAAT-TAAATA
1 A-AATATAAATA
8453443 ATTAATTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
16 31 0.94
17 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:8453420 original size:8 final size:8
Alignment explanation
Indices: 8453386--8453434 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
8453376 TATTTTTTAA
8453386 ATATAAAT
1 ATATAAAT
* *
8453394 ATTTAAAA
1 ATATAAAT
* *
8453402 ATATCATT
1 ATATAAAT
8453410 ATATAAAT
1 ATATAAAT
*
8453418 ATATATAT
1 ATATAAAT
8453426 ATATAAAT
1 ATATAAAT
8453434 A
1 A
8453435 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:8455457 original size:13 final size:13
Alignment explanation
Indices: 8455424--8455448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8455414 TAGCTATCTC
8455424 ATGATTATGTGTA
1 ATGATTATGTGTA
8455437 ATGATTATGTGT
1 ATGATTATGTGT
8455449 GAGAATTATC
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:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (13 bp):
ATGATTATGTGTA
Found at i:8455519 original size:11 final size:11
Alignment explanation
Indices: 8455503--8455527 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8455493 TTTCAACTAC
8455503 AATCATATTTT
1 AATCATATTTT
8455514 AATCATATTTT
1 AATCATATTTT
8455525 AAT
1 AAT
8455528 AAAATAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
AATCATATTTT
Found at i:8456554 original size:22 final size:22
Alignment explanation
Indices: 8456529--8456597 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
8456519 CAAAAGGTAG
8456529 TATACATATTTATTTATTTATT
1 TATACATATTTATTTATTTATT
* * *
8456551 TATATATACTAATTTATTTATT
1 TATACATATTTATTTATTTATT
* * *
8456573 TATACATATATATGTATTAATT
1 TATACATATTTATTTATTTATT
8456595 TAT
1 TAT
8456598 TTATTTTGAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (22 bp):
TATACATATTTATTTATTTATT
Found at i:8456558 original size:26 final size:25
Alignment explanation
Indices: 8456529--8456603 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
8456519 CAAAAGGTAG
8456529 TATACATATTTATTTATTTATTTATA
1 TATAC-TATTTATTTATTTATTTATA
**
8456555 TATACTAATTTATTTATTTATACATA
1 TATACT-ATTTATTTATTTATTTATA
* *
8456581 TATATGTATTAATTTATTTATTT
1 TATA-CTATTTATTTATTTATTT
8456604 TGATATTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.02
26 39 0.95
27 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (25 bp):
TATACTATTTATTTATTTATTTATA
Found at i:8456571 original size:30 final size:30
Alignment explanation
Indices: 8456535--8456603 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
8456525 GTAGTATACA
** *
8456535 TATTTATTTATTTATTTATATATACTAATT
1 TATTTATTTATACATATATATATACTAATT
* *
8456565 TATTTATTTATACATATATATGTATTAATT
1 TATTTATTTATACATATATATATACTAATT
8456595 TATTTATTT
1 TATTTATTT
8456604 TGATATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
TATTTATTTATACATATATATATACTAATT
Found at i:8457165 original size:13 final size:14
Alignment explanation
Indices: 8457138--8457166 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8457128 AAAAACTTTG
8457138 TTATTTTGTTTCTT
1 TTATTTTGTTTCTT
8457152 TTATTTTG-TTCTT
1 TTATTTTGTTTCTT
8457165 TT
1 TT
8457167 CAAAGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTATTTTGTTTCTT
Found at i:8461000 original size:19 final size:20
Alignment explanation
Indices: 8460976--8461015 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8460966 TCTTGTTTAC
8460976 TTTATTTTATGT-TTTTATT
1 TTTATTTTATGTGTTTTATT
*
8460995 TTTATTTTATTTGTTTTATT
1 TTTATTTTATGTGTTTTATT
8461015 T
1 T
8461016 ATTTAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTATTTTATGTGTTTTATT
Found at i:8461047 original size:3 final size:3
Alignment explanation
Indices: 8461039--8461082 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
8461029 ATATATCCTC
8461039 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8461083 CTTAAATTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8468860 original size:20 final size:22
Alignment explanation
Indices: 8468797--8468892 Score: 89
Period size: 21 Copynumber: 4.6 Consensus size: 22
8468787 GCTTTTTACA
* *
8468797 AGTGGCTAA-ATACCCTGAA-TT
1 AGTGGCTAATATACTCT-AAGTG
*
8468818 AGTGACTAA-ATACTCTAAGTG
1 AGTGGCTAATATACTCTAAGTG
8468839 AGTGGCTAATAT-CT-TGAA-TG
1 AGTGGCTAATATACTCT-AAGTG
*
8468859 AGTGACTAA-ATACTCTAAGTG
1 AGTGGCTAATATACTCTAAGTG
8468880 AGTGGCTAATATA
1 AGTGGCTAATATA
8468893 GTATTTGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.03
20 17 0.27
21 38 0.61
22 5 0.08
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (22 bp):
AGTGGCTAATATACTCTAAGTG
Found at i:8468863 original size:41 final size:41
Alignment explanation
Indices: 8468797--8468891 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
8468787 GCTTTTTACA
* *
8468797 AGTGGCTAAATACCCTGAATTAGTGACTAAATACTCTAAGTG
1 AGTGGCT-AATATCCTGAATGAGTGACTAAATACTCTAAGTG
*
8468839 AGTGGCTAATATCTTGAATGAGTGACTAAATACTCTAAGTG
1 AGTGGCTAATATCCTGAATGAGTGACTAAATACTCTAAGTG
8468880 AGTGGCTAATAT
1 AGTGGCTAATAT
8468892 AGTATTTGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
41 43 0.86
42 7 0.14
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (41 bp):
AGTGGCTAATATCCTGAATGAGTGACTAAATACTCTAAGTG
Found at i:8472775 original size:43 final size:43
Alignment explanation
Indices: 8472714--8472830 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
8472704 TAGAGGATTG
* * *
8472714 TCATTTTAAAGTTATTTAGCCTTTGTTTAGAAGAGCCCATTTC
1 TCATTTTAAAGTTGTTTAGCCTCTGTTTAGAAGAACCCATTTC
** * * *
8472757 TCATTTTAAAGTTGTTTAGCCTCAATTTAGAGGAACCTATTTT
1 TCATTTTAAAGTTGTTTAGCCTCTGTTTAGAAGAACCCATTTC
*
8472800 TCATTTCAAAGTTGTTTAGCCTCTGTTTAGA
1 TCATTTTAAAGTTGTTTAGCCTCTGTTTAGA
8472831 TGAGTTCTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (43 bp):
TCATTTTAAAGTTGTTTAGCCTCTGTTTAGAAGAACCCATTTC
Found at i:8473953 original size:3 final size:3
Alignment explanation
Indices: 8473945--8474014 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
8473935 TTATGTTTTC
8473945 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8473993 ATT ATT ATT ATT -TT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
8474015 CCTAAACTGT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8474259 original size:47 final size:47
Alignment explanation
Indices: 8474130--8474259 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 47
8474120 AAATTTTAAA
* * *
8474130 TTAAA-TTCATGAATCCTACCAAAATATTGAAGAATTTTTCATGAAT
1 TTAAATTTCATGAATCCTACTAAACTATTGAAAAATTTTTCATGAAT
*
8474176 TTAAATTTCAT--ATCCTACTAAACTA-T-AAAAGGATTTTTTATGAAT
1 TTAAATTTCATGAATCCTACTAAACTATTGAAAA--ATTTTTCATGAAT
* *
8474221 TTAAATTTTATGAATTCTACTAAACTATTGAAAAATTTT
1 TTAAATTTCATGAATCCTACTAAACTATTGAAAAATTTT
8474260 ATAAATTAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 34 0.48
46 5 0.07
47 23 0.32
48 1 0.01
49 4 0.06
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.42
Consensus pattern (47 bp):
TTAAATTTCATGAATCCTACTAAACTATTGAAAAATTTTTCATGAAT
Found at i:8474260 original size:45 final size:45
Alignment explanation
Indices: 8474118--8474266 Score: 134
Period size: 45 Copynumber: 3.4 Consensus size: 45
8474108 AAAAATGATA
* *
8474118 AAAAATTTTA--AA-TTAAA-TTCATGAATCCTACCAAAATATTG
1 AAAAATTTTATGAATTTAAATTTCATGAATCCTACTAAACTATTG
*
8474159 AAGAATTTTTCATGAATTTAAATTTCAT--ATCCTACTAAACTA-T-
1 AA-AAATTTT-ATGAATTTAAATTTCATGAATCCTACTAAACTATTG
* *
8474202 AAAAGGATTTTTTATGAATTTAAATTTTATGAATTCTACTAAACTATTG
1 AAAA--A--TTTTATGAATTTAAATTTCATGAATCCTACTAAACTATTG
*
8474251 AAAAATTTTATAAATT
1 AAAAATTTTATGAATT
8474267 AATTTTTTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
41 2 0.02
42 8 0.09
43 3 0.03
44 1 0.01
45 40 0.46
46 9 0.10
47 19 0.22
48 1 0.01
49 4 0.05
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (45 bp):
AAAAATTTTATGAATTTAAATTTCATGAATCCTACTAAACTATTG
Found at i:8477360 original size:22 final size:22
Alignment explanation
Indices: 8477302--8477379 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
8477292 TACTTTTTAT
* *
8477302 TTATAATAATAATTTTTTAC-T
1 TTATAATAATAATTATTTACAA
*
8477323 TTATCAAT-TTAATTATTTACCAA
1 TTAT-AATAATAATTATTTA-CAA
*
8477346 TT-TAATAATAATTATTTACAT
1 TTATAATAATAATTATTTACAA
8477367 TTATAATAATAAT
1 TTATAATAATAAT
8477380 AATATGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 20 0.43
22 25 0.53
23 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATAATAATAATTATTTACAA
Found at i:8477570 original size:21 final size:21
Alignment explanation
Indices: 8477539--8477609 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 21
8477529 TGATTGAATA
8477539 TTTTTAT-TTATAATAATAAT
1 TTTTTATATTATAATAATAAT
8477559 TTTTTATATTATCAACT--TAAT
1 TTTTTATATTAT-AA-TAATAAT
* * * *
8477580 TATTTATGTTAAAATAA-CAT
1 TTTTTATATTATAATAATAAT
8477600 TTTTTATATT
1 TTTTTATATT
8477610 TCATTATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 1 0.03
20 19 0.47
21 17 0.43
22 2 0.05
23 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (21 bp):
TTTTTATATTATAATAATAAT
Found at i:8477833 original size:20 final size:20
Alignment explanation
Indices: 8477810--8477877 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
8477800 TTAGAATTAT
8477810 TTTTTTATTTATAATAATAA
1 TTTTTTATTTATAATAATAA
* *
8477830 TTTTTATATTGT-CAAT-TTAA
1 TTTTT-TATT-TATAATAATAA
*
8477850 TTATTTATGTTATAATAA-AA
1 TTTTTTAT-TTATAATAATAA
*
8477870 TTTGTTAT
1 TTTTTTAT
8477878 GCTTGTTCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.11
20 24 0.67
21 7 0.19
22 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTTATTTATAATAATAA
Found at i:8478225 original size:23 final size:22
Alignment explanation
Indices: 8478194--8478250 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
8478184 TTTTTGTTTA
* *
8478194 AATTATTTTTTATTTG-TAA-T
1 AATTTTTTTTTATTTGCCAATT
*
8478214 AATAATTTTTTTATATTGCCAATT
1 AAT-TTTTTTTTAT-TTGCCAATT
8478238 AATTTTTTTTTAT
1 AATTTTTTTTTAT
8478251 AATAATATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.10
21 8 0.28
22 3 0.10
23 11 0.38
24 4 0.14
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (22 bp):
AATTTTTTTTTATTTGCCAATT
Found at i:8478463 original size:21 final size:19
Alignment explanation
Indices: 8478414--8478463 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
8478404 GGTTTAGAAT
*
8478414 TATTATTTATTTGTAATAA
1 TATTATTTATTTGTAAAAA
*
8478433 TAATTTTTTATATTGTCAAAAA
1 T-ATTATTTAT-TTGT-AAAAA
8478455 TATTATTTA
1 TATTATTTA
8478464 GGTTATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 8 0.32
21 11 0.44
22 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TATTATTTATTTGTAAAAA
Found at i:8478946 original size:16 final size:17
Alignment explanation
Indices: 8478914--8478947 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8478904 TTATTTATAA
*
8478914 TACTAATATTTTTACAT
1 TACTAATATTATTACAT
8478931 TACTAAT-TTATTACAT
1 TACTAATATTATTACAT
8478947 T
1 T
8478948 TCAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (17 bp):
TACTAATATTATTACAT
Found at i:8479279 original size:214 final size:213
Alignment explanation
Indices: 8478994--8479397 Score: 483
Period size: 214 Copynumber: 1.9 Consensus size: 213
8478984 TAAGTTTAGA
* * * **
8478994 ATTATTACAATTTTTTCTTAAGGTGTAATGATATTTCTAACTATTTTACATTAAATAATATCAAA
1 ATTATTACAATTTTTTCTTAAGGTATAATGACACTTCTAACTATTTTACACCAAATAATATCAAA
** * * *
8479059 TTTATGATTATTCTCAC-CGTTTTATGTTAACTCTTAACTTTTTAT-TTTAAAATAATT-TTTGT
66 TTTATGATTATTCTCACACGTTTTATACTAACACTT-ACTTTTTATGTTTAAAATAATTAGTTAT
* * ** *
8479121 TTGCAATAATAATTTTTTTATATTGTC-AACTTAATTATTTATGTTATAATAATATTTTTATACA
130 TTGCAATAACAATTTTTTTACATTGTCAAAAAT-ATTATTTATGTTACAATAAT-TTTTTATACA
8479185 TTTGTTATTGCTTTTCATTAT
193 TTTGTTATTGCTTTTCATTAT
* * * **
8479206 ATTATTATAACTTTTTTCTTAAAGGTATTATGACACTTCTTACTATTTTATGCCAAATAATATCA
1 ATTATTACAA-TTTTTTCTT-AAGGTATAATGACACTTCTAACTATTTTACACCAAATAATATCA
* * ** * * *
8479271 ATTTTATGATTATTCTTACATTTTTTATACTAACACTTATTTTTTTTGTTTAAAATTATTAGTTA
64 AATTTATGATTATTCTCACACGTTTTATACTAACACTTACTTTTTATGTTTAAAATAATTAGTTA
*
8479336 TTTGTAATAACAATTTTTTTACATTGTCAAAAATATTATTTATGTTACAATAATTTTTTATA
129 TTTGCAATAACAATTTTTTTACATTGTCAAAAATATTATTTATGTTACAATAATTTTTTATA
8479398 GTTGTTCTTA
Statistics
Matches: 158, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
212 9 0.06
213 9 0.06
214 59 0.37
215 32 0.20
216 46 0.29
217 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (213 bp):
ATTATTACAATTTTTTCTTAAGGTATAATGACACTTCTAACTATTTTACACCAAATAATATCAAA
TTTATGATTATTCTCACACGTTTTATACTAACACTTACTTTTTATGTTTAAAATAATTAGTTATT
TGCAATAACAATTTTTTTACATTGTCAAAAATATTATTTATGTTACAATAATTTTTTATACATTT
GTTATTGCTTTTCATTAT
Found at i:8479850 original size:913 final size:901
Alignment explanation
Indices: 8478153--8480263 Score: 1906
Period size: 929 Copynumber: 2.3 Consensus size: 901
8478143 AAATTTTACA
* * *
8478153 ATTATTCTCACCGTTTTTATGTTAACTTCTTTTTTTGTTTAAATTATTTTTTATTTGTAATAATA
1 ATTATTCTCACCGTTTTTATGTTAACTTCTTTTTTTGTTTAAAATAATTTTTATTTGCAATAATA
*
8478218 ATTTTTTTATATTGCCAATTAATTTTTTTTTATAATAATATCTTTTTACATTTGTTATTACCTTT
66 ATTTTTTTATATTGCCAATTAATTTTTTGTTATAATAATATCTTTTTACATTTGTTATTACCTTT
* * *
8478283 CATTATATTTAAGATTATCATAAGTTTTTCTTAAAGGTGTTCGATACTTCTATCCATTTTATGTC
131 CATTATATTT-A-ATTATCATAAGTTTTTCTTAAAGGTATTCGACACTTCTATCCATTTTATGCC
* * * *
8478348 AAATGATATAAATTTTATGATTACTTTCACTTTTTTTACACTAGCACTTATTTTTTGGTTTAGAA
194 AAATAATATAAATTTTATGATTACTTTCACATTTTTTACACTAACACTTATTTTTTGGTTTAAAA
* * * *
8478413 TTATTATTTATTTGTAATAATAATTTTTTATATTGTCAAAAATATTATTTAGGTTATAATAATTT
259 TTATTAGTTATTTGTAATAACAATTTTTTACATTGTCAAAAATATTATTTAGGTTACAATAA-TT
* * * * * * **
8478478 TTTTTATATTTTTTCTTACTTTTTATTATGTTTAGAATTATTCAACTTTTTGTTAAGATGTTACA
323 TTTTTATAGTTGTTCTTACCTTTTATTATATTTAGAATTATACAACTCTTCATTAAGATGTTACA
* **
8478543 ATAATTATAATTCAATTTATGTTAAATGATACTGATTTTACAACTATTCTTATCCTTTTATGCTA
388 ATAATTATAATTCAATTTATGTTAAATGACACCAATTTTACAACTATTCTTATCCTTTTATGCTA
* * * *
8478608 TAAAATTATAACATATTTTACACAAAATAATTCAAAATTTTTAATTATTCTCACCTTAACATGTA
453 TAAAATTATAACACACTATACACAAAATAATTCAAAATTTTTAATTACTCTCACCTTAACATGTA
* *
8478673 TTTTTTTGTTTAGAATTATTTTTATTTATAATAATAATATTTTTATGTTGCCAACTTATATTTAC
518 TTTTTTTGTTTAGAATTATTTTTATATATAATAATAATATTTTTATATTGCCAACTTATATTTAC
* * *
8478738 GTTATAATAAAATTTTGTACGCTTATTCTTTTATTGTTTTTAGAATTGTCACGAGTTTTACTTAA
583 GTTATAATAAAATTTTGTACGCTTATTCTTTTATTGTTTTTAAAATTATCACAAGTTTTACTTAA
* * * * *
8478803 AGTATTACTACACCTTTAATATATTTTACGCTAAATAATATCAATTTTACTATTATTATCACATT
648 AGTATTACTACACCTTTAACACATTTTACACTAAATAATACCAATTTGACTATTATTATCACATT
*
8478868 TTTATATTAAAACTTATTTTTTAATTGAATTATTTTTTATTTATAATACTAATATTTTTACATTA
713 TTTATATTAAAACTTATTTTTTAATAGAATTA---TTTATTTATAATA-T-ATA---TTACATTA
8478933 CTAATTTATTACATTTCAATAATATCTTTTTACTTTGTTATTACTTTTCATTAAGTTTAGAATTA
770 CTAATTTATTACATTTCAATAATATCTTTTTACTTTGTTATTACTTTTCATTAAGTTTAGAATTA
8478998 TTACAATTTTTTCTTAAGGTGTAATGATATTTCTAACTATTTTACATTAAATAATATCAAATTTA
835 TTACAATTTTTTCTTAAGGTGTAATGATATTTCTAACTATTTTACATTAAATAATATCAAATTTA
8479063 TG
900 TG
* *
8479065 ATTATTCTCACCG-TTTTATGTTAAC-TCTTAACTTTTTATTTTAAAATAATTTTTGTTTGCAAT
1 ATTATTCTCACCGTTTTTATGTTAACTTCTT---TTTTT-GTTTAAAATAATTTTTATTTGCAAT
*
8479128 AATAATTTTTTTATATTGTCAACTTAATTATTTATGTTATAATAATAT-TTTTATACATTTGTTA
62 AATAATTTTTTTATATTGCCAA-TTAATT-TTT-TGTTATAATAATATCTTTT-TACATTTGTTA
* * ** * *
8479192 TTGCTTTTCATTATA-TT-ATTAT-A-ACTTTTTTCTTAAAGGTATTATGACACTTCT-TACTAT
123 TTACCTTTCATTATATTTAATTATCATAAGTTTTTCTTAAAGGTATT-CGACACTTCTAT-CCAT
* * *
8479252 TTTATGCCAAATAATATCAATTTTATGATTA-TTCTTACATTTTTTATACTAACACTTATTTTTT
186 TTTATGCCAAATAATATAAATTTTATGATTACTT-TCACATTTTTTACACTAACACTTA-TTTTT
* *
8479316 TTGTTTAAAATTATTAGTTATTTGTAATAACAATTTTTTTACATTGTCAAAAATATTATTTATGT
249 TGGTTTAAAATTATTAGTTATTTGTAATAACAA-TTTTTTACATTGTCAAAAATATTATTTAGGT
8479381 TACAATAA-TTTTTTATAGTTGTTCTTACCTTTTATTATATTTA-AATTTATCACAACTCTTCAT
313 TACAATAATTTTTTTATAGTTGTTCTTACCTTTTATTATATTTAGAA-TTAT-ACAACTCTTCAT
* *
8479444 T-AGAGTGTTACAATAATTCTAATAT-AATTTATGTTAAATGACACCAATTTTATAACTATTCTT
376 TAAGA-TGTTACAATAATTATAAT-TCAATTTATGTTAAATGACACCAATTTTACAACTATTCTT
* * * * * * * *
8479507 A-CTTTTTTATGTTATGACACTTCTAGCACACTATACGTC-AAATAATT-ATAATTTTATAATTA
439 ATC-CTTTTATGCTAT-AAAATTATAACACACTATAC-ACAAAATAATTCAAAATTTT-TAATTA
* * *** *
8479569 CTCTTACTTTTTTATGTTATCAATTTTTTTTTGTTTAGAATTGTTTTTTATATATAATAATAAAT
500 CTCTCACCTTAACATG---T--A--TTTTTTTGTTTAGAATT-ATTTTTATATATAATAAT-AAT
* * * * * *
8479634 TTTTTTATATTGTCAACTTA-ATTATTATGTTATAATAATATCTTT-TACGTTTGTTCTTATT-T
556 ATTTTTATATTGCCAACTTATA-T-TTACGTTATAATAAAAT-TTTGTACGCTTATTCTT-TTAT
* * * * * * * *
8479696 TTTAATACGTTTAAAATTATTATAATTTTTTCTTAAGGTATTA-TGATA-TTTCTAACACATTTT
617 TGT--T---TTTAAAATTATCACAAGTTTTACTTAAAGTATTACT-ACACCTT-TAACACATTTT
* * * *
8479759 ACATTAAA-ATATACCAATTTGA-TGATTATTCTTATC-TTTTTATGTTAAAA-TCTATTTTTGG
675 ACACTAAATA-ATACCAATTTGACT-ATTATTATCA-CATTTTTATATTAAAACT-TATTTTT--
* * * * * *
8479820 T-ATAGGATTATTTTTTATTTATAATACTAATTTTTTTCATTACCAATTTAATTATTTATGTTTT
734 TAATA-GA--ATTATTTATTTATAATA-T-A--TATTACATTACTAATTT-ATTA--CA--TTTC
**** * * *
8479884 AATAATAT-TTTTTA--TACCAATTACTTTTCATTATA-TTTAGAATTATTATAATATTTTATTA
787 AATAATATCTTTTTACTTTGTTATTACTTTTCATTA-AGTTTAGAATTATTACAATTTTTTCTTA
* * * * * *
8479945 AAGTGTAATGATACTTATAACTATTTT-CGTCT-AACAATA-CTAATTTTATG
851 AGGTGTAATGATATTTCTAACTATTTTACAT-TAAATAATATC-AAATTTATG
** ** * * * **
8479995 ATTATTCTCA-TTTTTTTACATTAACTTTTATTTTTTCTTTAAAATTATTTTTTATTTGTTATAA
1 ATTATTCTCACCGTTTTTATGTTAACTTCT-TTTTTTGTTTAAAA-TAATTTTTATTTGCAATAA
* * * **
8480059 T-ATTTCTTTTACATTACCAACTTAATTTTTTTTGTTATAATAATATCTTTTTATACCTGTTATT
64 TAATTT-TTTTATATTGCCAA-TTAA--TTTTTTGTTATAATAATATCTTTTTACATTTGTTATT
* * * * * * * *
8480123 ACTTTTCATTACGT-TTATAATTATCACAACTTTTTGTT-AAGATATTACGATACTTCTAACTTA
125 ACCTTTCATTA--TATT-TAATTATCATAAGTTTTTCTTAAAGGTATT-CGACACTTCTATC-CA
** * * * ** * *** *
8480186 TTTTATGATAAGTGACACCAATTTTATGAATA-TTCTCACA-TTTTTATGTTAACACTTATTTAT
185 TTTTATGCCAAATAATATAAATTTTATGATTACTT-TCACATTTTTTACACTAACACTTATTTTT
8480249 TGGTTTAAAATTATT
249 TGGTTTAAAATTATT
8480264 CTGTTGGTTT
Statistics
Matches: 978, Mismatches: 144, Indels: 133
0.78 0.11 0.11
Matches are distributed among these distances:
910 4 0.00
911 34 0.03
912 112 0.11
913 122 0.12
914 115 0.12
915 7 0.01
916 9 0.01
917 38 0.04
919 1 0.00
921 17 0.02
922 17 0.02
923 21 0.02
924 29 0.03
925 5 0.01
926 1 0.00
928 17 0.02
929 166 0.17
930 67 0.07
931 72 0.07
932 5 0.01
933 32 0.03
934 45 0.05
935 42 0.04
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.53
Consensus pattern (901 bp):
ATTATTCTCACCGTTTTTATGTTAACTTCTTTTTTTGTTTAAAATAATTTTTATTTGCAATAATA
ATTTTTTTATATTGCCAATTAATTTTTTGTTATAATAATATCTTTTTACATTTGTTATTACCTTT
CATTATATTTAATTATCATAAGTTTTTCTTAAAGGTATTCGACACTTCTATCCATTTTATGCCAA
ATAATATAAATTTTATGATTACTTTCACATTTTTTACACTAACACTTATTTTTTGGTTTAAAATT
ATTAGTTATTTGTAATAACAATTTTTTACATTGTCAAAAATATTATTTAGGTTACAATAATTTTT
TTATAGTTGTTCTTACCTTTTATTATATTTAGAATTATACAACTCTTCATTAAGATGTTACAATA
ATTATAATTCAATTTATGTTAAATGACACCAATTTTACAACTATTCTTATCCTTTTATGCTATAA
AATTATAACACACTATACACAAAATAATTCAAAATTTTTAATTACTCTCACCTTAACATGTATTT
TTTTGTTTAGAATTATTTTTATATATAATAATAATATTTTTATATTGCCAACTTATATTTACGTT
ATAATAAAATTTTGTACGCTTATTCTTTTATTGTTTTTAAAATTATCACAAGTTTTACTTAAAGT
ATTACTACACCTTTAACACATTTTACACTAAATAATACCAATTTGACTATTATTATCACATTTTT
ATATTAAAACTTATTTTTTAATAGAATTATTTATTTATAATATATATTACATTACTAATTTATTA
CATTTCAATAATATCTTTTTACTTTGTTATTACTTTTCATTAAGTTTAGAATTATTACAATTTTT
TCTTAAGGTGTAATGATATTTCTAACTATTTTACATTAAATAATATCAAATTTATG
Found at i:8480793 original size:22 final size:20
Alignment explanation
Indices: 8480768--8480807 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
8480758 TAGTTAAAAT
*
8480768 TTTATGTTACCAATAGATATTA
1 TTTACGTTA-CAATA-ATATTA
8480790 TTTACGTTACAATAATAT
1 TTTACGTTACAATAATAT
8480808 CTTCTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (20 bp):
TTTACGTTACAATAATATTA
Found at i:8483364 original size:77 final size:76
Alignment explanation
Indices: 8483160--8483375 Score: 254
Period size: 78 Copynumber: 2.8 Consensus size: 76
8483150 TTCCAAGTTT
* * * *
8483160 CAAATGAATGAAAAAAAGAAAAACTTTTTTAAAGCGTTTTTGTTGGAAAACAT-CTTTAAAAAGT
1 CAAATGAAT-AAAAAAA-AAAAGCTTTTTTAAGGTGTTTTTGTT-GAAAA-ATGCTTAAAAAAGT
8483224 TTTTCAACCAAAAAC
62 TTTTCAACCAAAAAC
* * ****
8483239 AAAATGAATAGAAAAAAAAAAGGTTTTTTAAGGTGTTTTTCAACAAAAATGCATTAAAAAAGTTT
1 CAAATGAATA-AAAAAAAAAAGCTTTTTTAAGGTGTTTTTGTTGAAAAATGC-TTAAAAAAGTTT
*
8483304 TTCAACCAAAAGC
64 TTCAACCAAAAAC
* *
8483317 CAAATGAATAAAAAAAAAAAGTTTTTTTAAGGTATTTTTGTTGAAAAATGCTTAAAAAA
1 CAAATGAATAAAAAAAAAAAGCTTTTTTAAGGTGTTTTTGTTGAAAAATGCTTAAAAAA
8483376 TACACCTTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
76 10 0.09
77 40 0.34
78 52 0.45
79 14 0.12
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (76 bp):
CAAATGAATAAAAAAAAAAAGCTTTTTTAAGGTGTTTTTGTTGAAAAATGCTTAAAAAAGTTTTT
CAACCAAAAAC
Found at i:8489011 original size:5 final size:5
Alignment explanation
Indices: 8489001--8489025 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8488991 CTGATCCTAT
8489001 CTTTG CTTTG CTTTG CTTTG CTTTG
1 CTTTG CTTTG CTTTG CTTTG CTTTG
8489026 GATACAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (5 bp):
CTTTG
Found at i:8489602 original size:22 final size:22
Alignment explanation
Indices: 8489577--8489624 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
8489567 ATGATTTCAG
* *
8489577 GAAAGGAAAAATGAATATACAT
1 GAAAAGAAAAACGAATATACAT
8489599 GAAAAGAAAAACGAATATACAT
1 GAAAAGAAAAACGAATATACAT
8489621 GAAA
1 GAAA
8489625 CAGCTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.06, G:0.17, T:0.15
Consensus pattern (22 bp):
GAAAAGAAAAACGAATATACAT
Found at i:8490340 original size:6 final size:6
Alignment explanation
Indices: 8490329--8490353 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8490319 CGGCCCACCA
8490329 TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCCT TCCCCT TCCCCT TCCCCT T
8490354 TGAGACTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCCCCT
Found at i:8497090 original size:130 final size:126
Alignment explanation
Indices: 8496911--8497144 Score: 342
Period size: 130 Copynumber: 1.8 Consensus size: 126
8496901 ATCCTATATA
* * * *
8496911 TAAAAACTATCTTAAAAAATAGTATACTGACATGTGGCAATTGCTTGCTATGTATTTTTTTTATT
1 TAAAAACTACCTTAAAAAATAGTATACTAACATATGGCAATTGCTTGCTATGTA-TATTTTTATT
* *
8496976 GTTTTTAATTTTTTAAAAAAATATTTTTAACGGTTTGTATATGAAGAACCCTTTACTTACCATG
65 GTTTTTAATTTTTT--AAAAATATTTTTAACCGTTAGTATATGAAGAACCCTTTACTTACCATG
** *
8497040 TAAAAACTACCCTTAAAGGATAGTATACTAACATATGGCAATTGTTTGCTATGTATATTTTTATT
1 TAAAAACTA-CCTTAAAAAATAGTATACTAACATATGGCAATTGCTTGCTATGTATATTTTTATT
*
8497105 GTTTTTCATTTTTTAAAAATATTTTTAACCGTTAGTATAT
65 GTTTTTAATTTTTTAAAAATATTTTTAACCGTTAGTATAT
8497145 ATGTTAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
127 24 0.26
129 31 0.33
130 39 0.41
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (126 bp):
TAAAAACTACCTTAAAAAATAGTATACTAACATATGGCAATTGCTTGCTATGTATATTTTTATTG
TTTTTAATTTTTTAAAAATATTTTTAACCGTTAGTATATGAAGAACCCTTTACTTACCATG
Found at i:8497159 original size:130 final size:129
Alignment explanation
Indices: 8496911--8497177 Score: 335
Period size: 130 Copynumber: 2.0 Consensus size: 129
8496901 ATCCTATATA
* * * *
8496911 TAAAAACTATCTTAAAAAATAGTATACTGACATGTGGCAATTGCTTGCTATGTATTTTTTTTATT
1 TAAAAACTACCTTAAAAAATAGTATACTAACATATGGCAATTGCTTGCTATGTATTATTTTTATT
* * *
8496976 GTTTTTAATTTTTTAAAAAAATATTTTTAACGGTTTGTATATGAAG-AACCCTTTACTTACCATG
66 GTTTTTAATTTTTT-AAAAAATATTTTTAACCGTTTATATATGAAGAAACCTTTTACTTACCATG
** *
8497040 TAAAAACTACCCTTAAAGGATAGTATACTAACATATGGCAATTGTTTGCTATGTA-TATTTTTAT
1 TAAAAACTA-CCTTAAAAAATAGTATACTAACATATGGCAATTGCTTGCTATGTATTATTTTTAT
* *
8497104 TGTTTTTCATTTTTT-AAAAATATTTTTAACCGTTAGTATATATGTTAA-AAACCTTTTATTTAC
65 TGTTTTTAATTTTTTAAAAAATATTTTTAACCGTT--TATATATG--AAGAAACCTTTTACTTAC
8497167 CATG
126 CATG
8497171 TGAAAAA
1 T-AAAAA
8497178 TTTTAAAATA
Statistics
Matches: 119, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
127 18 0.15
129 38 0.32
130 39 0.33
131 19 0.16
132 5 0.04
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (129 bp):
TAAAAACTACCTTAAAAAATAGTATACTAACATATGGCAATTGCTTGCTATGTATTATTTTTATT
GTTTTTAATTTTTTAAAAAATATTTTTAACCGTTTATATATGAAGAAACCTTTTACTTACCATG
Found at i:8499710 original size:2 final size:2
Alignment explanation
Indices: 8499703--8499728 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8499693 ATCTAAACAA
8499703 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8499729 CAAGATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8501853 original size:12 final size:13
Alignment explanation
Indices: 8501818--8501856 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
8501808 ATTATTTAGT
8501818 AATATTTATTTAC
1 AATATTTATTTAC
*
8501831 AGTATTT-TTTA-
1 AATATTTATTTAC
8501842 AATATTTATTTAC
1 AATATTTATTTAC
8501855 AA
1 AA
8501857 AATATTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.27
12 8 0.36
13 8 0.36
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (13 bp):
AATATTTATTTAC
Found at i:8502380 original size:3 final size:3
Alignment explanation
Indices: 8502345--8502501 Score: 156
Period size: 3 Copynumber: 54.0 Consensus size: 3
8502335 TATTAAGCCA
*
8502345 ATT A-T ATT A-T ATT A-T ATT -TT ATT A-T AGT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
8502387 ATT ATC ATT ATT ATT ATT ATT ATT ATCGT A-T ATT A-T ATT A-T ACAT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT A-TT
8502432 AGTCT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8502479 ATT ATT ATT ACTT -TT ATT -TT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT
8502502 TTTTTAATTT
Statistics
Matches: 134, Mismatches: 4, Indels: 32
0.79 0.02 0.19
Matches are distributed among these distances:
2 22 0.16
3 103 0.77
4 5 0.04
5 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:8503293 original size:12 final size:12
Alignment explanation
Indices: 8503276--8503304 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8503266 GCGTAATCCA
8503276 TTGACCTGCATG
1 TTGACCTGCATG
8503288 TTGACCTGCATG
1 TTGACCTGCATG
8503300 TTGAC
1 TTGAC
8503305 TTGACCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (12 bp):
TTGACCTGCATG
Found at i:8503381 original size:19 final size:17
Alignment explanation
Indices: 8503355--8503396 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
8503345 CATTTTTTAG
8503355 TTATTTTATATTTTGATT
1 TTATTTTATATTTTG-TT
*
8503373 TTGATTTTATTTTTTGTT
1 TT-ATTTTATATTTTGTT
8503391 TTATTT
1 TTATTT
8503397 ATTTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 12 0.55
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (17 bp):
TTATTTTATATTTTGTT
Found at i:8509077 original size:66 final size:66
Alignment explanation
Indices: 8508989--8509147 Score: 185
Period size: 66 Copynumber: 2.4 Consensus size: 66
8508979 TCAATCTAGA
* * * * * *
8508989 TTATTTTTTTGACTCGCGATTTCATCTCGA-TCATTCATCTTCGATCTCGACTCAATTCTCATCG
1 TTATCTTTTAGACTCGTGATTTCATC-CGAGTCATTCATCTTCGACCTCGACTCAATCCTCATCA
8509053 CT
65 CT
* * * * *
8509055 TTATCTTTTAGACTCGTGATTTCATCCTAGTCATTCATCTTTGACCTCGACTCAGTCCTGATTAC
1 TTATCTTTTAGACTCGTGATTTCATCCGAGTCATTCATCTTCGACCTCGACTCAATCCTCATCAC
8509120 T
66 T
* *
8509121 TTATCTTTTAGACTCATGGTTTCATCC
1 TTATCTTTTAGACTCGTGATTTCATCC
8509148 TGGATATTCG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
65 2 0.03
66 77 0.97
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (66 bp):
TTATCTTTTAGACTCGTGATTTCATCCGAGTCATTCATCTTCGACCTCGACTCAATCCTCATCAC
T
Found at i:8509469 original size:121 final size:121
Alignment explanation
Indices: 8509244--8509462 Score: 271
Period size: 121 Copynumber: 1.8 Consensus size: 121
8509234 TGGTTGCTTC
* * * * *
8509244 ATTTTTTGACTCATAGTTTCTTCTCGATCATTCATCTTTGACATCAACTTAGTCCTAGTCACTTT
1 ATTTTTTGACTCATAATTTCATCCCAATCATTCATCTTTGACATCAACTTAGACCTAGTCACTTT
** * *
8509309 ATCTTTTAGACTGGTGATTTTGTCTTGATCATCCAATCTCGACTCATTCCAGATCA
66 ATCTTTTAGACTCATGATTTTATCTTCATCATCCAATCTCGACTCATTCCAGATCA
* * * * * *
8509365 ATTTTTTGACTCGTAATTTCATCCCAATCATTCATCTTTGACCTCGAC-TCGACCTTGGTCGCTT
1 ATTTTTTGACTCATAATTTCATCCCAATCATTCATCTTTGACATCAACTTAGACC-TAGTCACTT
8509429 TATCTTTTAGACTCATGATTTTAT-TTCAGTCATC
65 TATCTTTTAGACTCATGATTTTATCTTCA-TCATC
8509463 TGATCTCAGC
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
120 7 0.09
121 74 0.91
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.43
Consensus pattern (121 bp):
ATTTTTTGACTCATAATTTCATCCCAATCATTCATCTTTGACATCAACTTAGACCTAGTCACTTT
ATCTTTTAGACTCATGATTTTATCTTCATCATCCAATCTCGACTCATTCCAGATCA
Found at i:8510576 original size:5 final size:5
Alignment explanation
Indices: 8510568--8510646 Score: 63
Period size: 5 Copynumber: 14.8 Consensus size: 5
8510558 GTTTTTTCTT
*
8510568 TTTTA TTTTA TTTTA TTTTTGA TTTTA TTTTA TTTTTA TTTTTGG TTTTA
1 TTTTA TTTTA TTTTA -TTTT-A TTTTA TTTTA -TTTTA -TTTT-A TTTTA
*
8510618 -TTTA TTTCA TTTTA TTAGTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TT--TTA TTTTA TTTT
8510647 TATTGAGTGA
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
4 7 0.11
5 28 0.45
6 23 0.37
7 4 0.06
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:8510586 original size:17 final size:17
Alignment explanation
Indices: 8510561--8510633 Score: 76
Period size: 17 Copynumber: 4.1 Consensus size: 17
8510551 ATCGTAGGTT
*
8510561 TTTTCTTTTTTATTTTA
1 TTTTATTTTTTATTTTA
*
8510578 TTTTATTTTTGATTTTA
1 TTTTATTTTTTATTTTA
*
8510595 TTTTA-TTTTTATTTTTGG
1 TTTTATTTTTTA-TTTT-A
8510613 TTTTATTTATTTCATTTTA
1 TTTTATTT-TTT-ATTTTA
8510632 TT
1 TT
8510634 AGTTATTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.11
17 24 0.52
18 5 0.11
19 4 0.09
20 7 0.15
21 1 0.02
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTTATTTTA
Found at i:8510586 original size:22 final size:22
Alignment explanation
Indices: 8510568--8510630 Score: 92
Period size: 23 Copynumber: 2.9 Consensus size: 22
8510558 GTTTTTTCTT
8510568 TTTTATTTTATTTTATTTTTGA
1 TTTTATTTTATTTTATTTTTGA
*
8510590 TTTTATTTTATTTTTATTTTTGG
1 TTTTATTTTA-TTTTATTTTTGA
*
8510613 TTTTA-TTTATTTCATTTT
1 TTTTATTTTATTTTATTTT
8510631 ATTAGTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 8 0.21
22 14 0.37
23 16 0.42
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (22 bp):
TTTTATTTTATTTTATTTTTGA
Found at i:8511970 original size:14 final size:14
Alignment explanation
Indices: 8511951--8511980 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8511941 TTAAATAGAC
*
8511951 TAAAATTTAAATTT
1 TAAAATTTAAACTT
8511965 TAAAATTTAAACTT
1 TAAAATTTAAACTT
8511979 TA
1 TA
8511981 TATCTACCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATTTAAACTT
Found at i:8522052 original size:16 final size:16
Alignment explanation
Indices: 8522003--8522053 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
8521993 CTCTATTCTC
8522003 TTCTTAGTCTCTTTAA
1 TTCTTAGTCTCTTTAA
** * * *
8522019 TT-TTTCTTTGTTTTA
1 TTCTTAGTCTCTTTAA
8522034 TTCTTAGTCTCTTTAA
1 TTCTTAGTCTCTTTAA
8522050 TTCT
1 TTCT
8522054 CTCTATTCTC
Statistics
Matches: 24, Mismatches: 10, Indels: 2
0.67 0.28 0.06
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.14, C:0.16, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCTTAGTCTCTTTAA
Found at i:8528333 original size:21 final size:21
Alignment explanation
Indices: 8528292--8528334 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8528282 AATTGAAGGA
* *
8528292 AAATCTAGCTTGGCATAACAT
1 AAATCTAGCATGACATAACAT
*
8528313 AAATCTAGCATGACATGACAT
1 AAATCTAGCATGACATAACAT
8528334 A
1 A
8528335 TATGCTTACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (21 bp):
AAATCTAGCATGACATAACAT
Found at i:8534844 original size:2 final size:2
Alignment explanation
Indices: 8534837--8534881 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
8534827 TGAATCATTA
* * **
8534837 AT AT AT AT AT AT AT AT AT AT AT GT AT GT GC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8534879 AT A
1 AT A
8534882 AAAACAGTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8541822 original size:14 final size:14
Alignment explanation
Indices: 8541814--8541858 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
8541804 AATATTATTT
8541814 TTTAAATATAAATA
1 TTTAAATATAAATA
8541828 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
* *
8541844 TATAAATATATATA
1 TTTAAATATAAATA
8541858 T
1 T
8541859 AATTAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 13 0.48
15 3 0.11
16 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:8541835 original size:8 final size:8
Alignment explanation
Indices: 8541819--8541855 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
8541809 TATTTTTTAA
8541819 ATATAAAT
1 ATATAAAT
*
8541827 ATTTAAAT
1 ATATAAAT
*
8541835 ATATAATT
1 ATATAAAT
8541843 ATATAAAT
1 ATATAAAT
8541851 ATATA
1 ATATA
8541856 TATAATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:8548927 original size:24 final size:24
Alignment explanation
Indices: 8548895--8548944 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8548885 ACTATACATT
*
8548895 CAGTTTTAC-TCTTAGTTTTTCACA
1 CAGTGTTACTTCTTAGTTTTTC-CA
8548919 CAGTGTTACTTCTTAGTTTTTCCA
1 CAGTGTTACTTCTTAGTTTTTCCA
8548943 CA
1 CA
8548945 TGGTATCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.48
Consensus pattern (24 bp):
CAGTGTTACTTCTTAGTTTTTCCA
Found at i:8549056 original size:25 final size:25
Alignment explanation
Indices: 8549010--8549072 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
8549000 TGACTTCTAT
* *
8549010 TTTAGGCCTTCATTGCTGAACCCTG
1 TTTAGGCCTTCATTGCTAAACCCTA
*
8549035 TTTAGGCCTTCATT-ATCAAACCCTA
1 TTTAGGCCTTCATTGCT-AAACCCTA
*
8549060 TTAAGGCCTTCAT
1 TTTAGGCCTTCAT
8549073 AGCCATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (25 bp):
TTTAGGCCTTCATTGCTAAACCCTA
Found at i:8549596 original size:2 final size:2
Alignment explanation
Indices: 8549589--8549613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8549579 TACTAATCTG
8549589 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 A
8549614 AAACTACCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8550182 original size:21 final size:22
Alignment explanation
Indices: 8550158--8550202 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
8550148 TCCAAAATCA
8550158 ATTTGAAG-TGAAAAT-CAAGAG
1 ATTT-AAGCTGAAAATGCAAGAG
8550179 ATTTAAGTCTGAAAATGCAAGAG
1 ATTTAAG-CTGAAAATGCAAGAG
8550202 A
1 A
8550203 CTATTTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 4 0.19
22 7 0.33
23 7 0.33
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (22 bp):
ATTTAAGCTGAAAATGCAAGAG
Found at i:8555608 original size:71 final size:71
Alignment explanation
Indices: 8555515--8555657 Score: 234
Period size: 71 Copynumber: 2.0 Consensus size: 71
8555505 TACATAAACA
* * *
8555515 TTGTAGCCTTCTTTTTCACAATCC-CATACCATGATTTCTTTCTTTCCTTTATGCAATTAATCTT
1 TTGTAGCCTCCTTTTTCACAATCCTC-TACCATGATTTATTCCTTTCCTTTATGCAATTAATCTT
8555579 AATCTTT
65 AATCTTT
*
8555586 TTGTAGCCTCCTTTTTCACAATCCTCTATCATGATTTATTCCTTTCCTTTATGCAATTAATCTTA
1 TTGTAGCCTCCTTTTTCACAATCCTCTACCATGATTTATTCCTTTCCTTTATGCAATTAATCTTA
8555651 ATCTTT
66 ATCTTT
8555657 T
1 T
8555658 CTCCCAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 66 0.99
72 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.50
Consensus pattern (71 bp):
TTGTAGCCTCCTTTTTCACAATCCTCTACCATGATTTATTCCTTTCCTTTATGCAATTAATCTTA
ATCTTT
Found at i:8557157 original size:27 final size:26
Alignment explanation
Indices: 8557109--8557168 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
8557099 ATATATCGTC
8557109 AATAAATCAAATGAGGACATTTTATAA
1 AATAAATCAAATGAGGACATTTTAT-A
* * * * *
8557136 AATAAATCATATTATGATATTTTATT
1 AATAAATCAAATGAGGACATTTTATA
8557162 AATAAAT
1 AATAAAT
8557169 AATTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (26 bp):
AATAAATCAAATGAGGACATTTTATA
Found at i:8559165 original size:36 final size:36
Alignment explanation
Indices: 8559112--8559202 Score: 85
Period size: 36 Copynumber: 2.5 Consensus size: 36
8559102 AAAATTACAT
* * *
8559112 AAAACAAT-GATGGAAATGACATTGCTAATTCGATAG
1 AAAACAATAG-TGAAAATGACACTACTAATTCGATAG
* * *
8559148 GAAACAATAGTGAAAATGATACTACTAATTTGATAG
1 AAAACAATAGTGAAAATGACACTACTAATTCGATAG
** *
8559184 AAAACGTTAGTGATAATGA
1 AAAACAATAGTGAAAATGA
8559203 GGTTGATTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
36 43 0.98
37 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (36 bp):
AAAACAATAGTGAAAATGACACTACTAATTCGATAG
Found at i:8561832 original size:27 final size:27
Alignment explanation
Indices: 8561802--8561867 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 27
8561792 AATGTTGGAC
8561802 AAAGAGGTGCTGAAAATATTAGCAGAG
1 AAAGAGGTGCTGAAAATATTAGCAGAG
* * *
8561829 AAAGAAATGATGTTGAAAATATTAGTAGAG
1 AAAG--A-GGTGCTGAAAATATTAGCAGAG
*
8561859 GAAGAGGTG
1 AAAGAGGTG
8561868 ATGCTAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 7 0.23
28 1 0.03
29 1 0.03
30 22 0.71
ACGTcount: A:0.45, C:0.03, G:0.30, T:0.21
Consensus pattern (27 bp):
AAAGAGGTGCTGAAAATATTAGCAGAG
Found at i:8562209 original size:21 final size:21
Alignment explanation
Indices: 8562178--8562237 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
8562168 TATAAACTGA
*
8562178 TGTGATATATAGGCCTTTTAT
1 TGTGATGTATAGGCCTTTTAT
*
8562199 TTTGATGTATAGG---TTTA-
1 TGTGATGTATAGGCCTTTTAT
*
8562216 TGTGATGTATAAGCCTTTTAT
1 TGTGATGTATAGGCCTTTTAT
8562237 T
1 T
8562238 ATGCATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
17 11 0.35
18 4 0.13
20 4 0.13
21 12 0.39
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (21 bp):
TGTGATGTATAGGCCTTTTAT
Found at i:8565397 original size:2 final size:2
Alignment explanation
Indices: 8565390--8565421 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8565380 TTTGTTCAAT
8565390 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
8565422 CTAGATTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8566612 original size:2 final size:2
Alignment explanation
Indices: 8566607--8566636 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8566597 TGTTATAATA
8566607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8566637 GATTTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8568048 original size:50 final size:50
Alignment explanation
Indices: 8567989--8568085 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
8567979 TTCTTTTTGT
* *
8567989 CATTAATTTGTCACTTATAAATTGATTTGGTCCAATAATTAATATTTTAG
1 CATTAATTTGTCACTTATAAATTGATTTAGTCCAATAATTAAAATTTTAG
* * *
8568039 CATTTATTTGTCATTTATAAATTGATTTAGTCTAATAATTAAAATTT
1 CATTAATTTGTCACTTATAAATTGATTTAGTCCAATAATTAAAATTT
8568086 CTTGCTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (50 bp):
CATTAATTTGTCACTTATAAATTGATTTAGTCCAATAATTAAAATTTTAG
Found at i:8568588 original size:15 final size:16
Alignment explanation
Indices: 8568568--8568598 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8568558 TATAATTGTA
8568568 AAATTAT-AGTAAAAT
1 AAATTATAAGTAAAAT
8568583 AAATTATAAGTAAAAT
1 AAATTATAAGTAAAAT
8568599 GTTTCGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AAATTATAAGTAAAAT
Found at i:8581299 original size:9 final size:10
Alignment explanation
Indices: 8581280--8581325 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
8581270 TTATTTTTAT
8581280 TTTATAAAAA
1 TTTATAAAAA
8581290 TTTA-AAAAA
1 TTTATAAAAA
*
8581299 TATATAAAAA
1 TTTATAAAAA
*
8581309 TTAATAAAAA
1 TTTATAAAAA
*
8581319 TATATAA
1 TTTATAA
8581326 TTTGTTTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:8581308 original size:20 final size:20
Alignment explanation
Indices: 8581282--8581325 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8581272 ATTTTTATTT
*
8581282 TATAAAAATTTA-AAAAATA
1 TATAAAAATTAATAAAAATA
8581301 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
8581321 TATAA
1 TATAA
8581326 TTTGTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:8586444 original size:3 final size:3
Alignment explanation
Indices: 8586436--8586472 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8586426 ACTAAGCTAG
8586436 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8586473 TATTATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8586477 original size:3 final size:3
Alignment explanation
Indices: 8586471--8586507 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
8586461 AATAATAATA
8586471 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8586508 ACACAATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Done.