Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 14 of 221
Found at i:4360957 original size:23 final size:24
Alignment explanation
Indices: 4360927--4360980 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
4360917 AAATAAAAAT
*
4360927 ATTTTTAAAAAATTAT-ATTTTTA
1 ATTTTTAAAAAATTATAATTTTAA
* *
4360950 ATTTTTAAACAATTTTAATTTTAA
1 ATTTTTAAAAAATTATAATTTTAA
4360974 ATTTTTA
1 ATTTTTA
4360981 TACTTTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTAAAAAATTATAATTTTAA
Found at i:4360988 original size:33 final size:31
Alignment explanation
Indices: 4360943--4361007 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 31
4360933 AAAAAATTAT
4360943 ATTTTTAATTTTTAAACAATTTT-AATTTTAA
1 ATTTTTAATTTTTAAA-AATTTTAAATTTTAA
*
4360974 ATTTTTATACTTTTTGAAAATTTTAAATTTTAA
1 ATTTTTA-A-TTTTTAAAAATTTTAAATTTTAA
4361007 A
1 A
4361008 AAATTAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 7 0.23
32 7 0.23
33 16 0.53
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (31 bp):
ATTTTTAATTTTTAAAAATTTTAAATTTTAA
Found at i:4361010 original size:17 final size:17
Alignment explanation
Indices: 4360945--4361012 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 17
4360935 AAAATTATAT
* *
4360945 TTTTAATTTTTAAACAA
1 TTTTAAATTTTAAAAAA
*
4360962 TTTT-AATTTT--AAAT
1 TTTTAAATTTTAAAAAA
* **
4360976 TTTTATACTTTTTGAAAA
1 TTTTA-AATTTTAAAAAA
4360994 TTTTAAATTTTAAAAAA
1 TTTTAAATTTTAAAAAA
4361011 TT
1 TT
4361013 AATTAATTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
14 6 0.15
16 10 0.26
17 15 0.38
18 8 0.21
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTTAAATTTTAAAAAA
Found at i:4361636 original size:18 final size:19
Alignment explanation
Indices: 4361613--4361658 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4361603 CTGCTATCAG
4361613 TAAAATCAAA-TTGATAG-A
1 TAAAATCAAAGTTGA-AGTA
*
4361631 TAAAATTAAAGTTGAAGTA
1 TAAAATCAAAGTTGAAGTA
*
4361650 CAAAATCAA
1 TAAAATCAA
4361659 CAATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.26
Consensus pattern (19 bp):
TAAAATCAAAGTTGAAGTA
Found at i:4366396 original size:5 final size:5
Alignment explanation
Indices: 4366386--4366414 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4366376 ATTTTTTGAC
4366386 TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
4366415 AAAAATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (5 bp):
TCGAT
Found at i:4368364 original size:16 final size:15
Alignment explanation
Indices: 4368343--4368390 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4368333 GATGGGAATA
4368343 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
4368359 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
4368374 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
4368390 A
1 A
4368391 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:4368373 original size:8 final size:8
Alignment explanation
Indices: 4368339--4368390 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4368329 CAATGATGGG
*
4368339 AATAATAA
1 AATATTAA
4368347 AATATATAA
1 AATAT-TAA
4368356 AATA-TAA
1 AATATTAA
4368363 AATATTAA
1 AATATTAA
*
4368371 AATATCAA
1 AATATTAA
*
4368379 AATATTAG
1 AATATTAA
4368387 AATA
1 AATA
4368391 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:4368390 original size:24 final size:24
Alignment explanation
Indices: 4368338--4368394 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4368328 ACAATGATGG
*
4368338 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
4368362 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
4368386 GAATAATAA
1 GAATAATAA
4368395 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:4368556 original size:23 final size:22
Alignment explanation
Indices: 4368505--4368558 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
4368495 ATACTACATC
4368505 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
4368524 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
4368547 AATATGTACATA
1 AATATGTACATA
4368559 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:4368605 original size:22 final size:24
Alignment explanation
Indices: 4368521--4368606 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
4368511 TACATATATA
* *
4368521 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
4368544 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
4368569 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
4368592 -AAGATATATACATAA
1 AAAAATATATACATAA
4368607 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:4368651 original size:16 final size:16
Alignment explanation
Indices: 4368622--4368684 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
4368612 CATGTAGAAA
4368622 AAAT-ATATATATATAT
1 AAATAATATA-ATATAT
4368638 AAATAATATAATAT-T
1 AAATAATATAATATAT
*
4368653 AAAGATATATAA-ATA-
1 AAATA-ATATAATATAT
* *
4368668 AAATAGTATAAAATAT
1 AAATAATATAATATAT
4368684 A
1 A
4368685 TATATACGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 15 0.38
17 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATAATATAATATAT
Found at i:4368661 original size:25 final size:25
Alignment explanation
Indices: 4368632--4368765 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
4368622 AAATATATAT
4368632 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
4368657 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
4368682 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
4368708 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
4368730 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
4368753 AAATAT-AATAATA
1 ATATATAAATAATA
4368766 ACAAAAAAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:4370222 original size:16 final size:15
Alignment explanation
Indices: 4370201--4370248 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4370191 GATGAGAATA
4370201 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
4370217 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
4370232 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
4370248 A
1 A
4370249 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:4370231 original size:8 final size:8
Alignment explanation
Indices: 4370197--4370248 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4370187 CAATGATGAG
*
4370197 AATAATAA
1 AATATTAA
4370205 AATATATAA
1 AATAT-TAA
4370214 AATA-TAA
1 AATATTAA
4370221 AATATTAA
1 AATATTAA
*
4370229 AATATCAA
1 AATATTAA
*
4370237 AATATTAG
1 AATATTAA
4370245 AATA
1 AATA
4370249 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:4370248 original size:24 final size:24
Alignment explanation
Indices: 4370195--4370252 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
4370185 AACAATGATG
*
4370195 AGAATAATAAAATATATAAAATAT
1 AGAATAATAAAATATACAAAATAT
* *
4370219 AAAATATTAAAATAT-CAAAATATT
1 AGAATAATAAAATATACAAAATA-T
4370243 AGAATAATAA
1 AGAATAATAA
4370253 TAATTAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (24 bp):
AGAATAATAAAATATACAAAATAT
Found at i:4370412 original size:23 final size:22
Alignment explanation
Indices: 4370361--4370414 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
4370351 ATACTACATC
4370361 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
4370380 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
4370403 AATATGTACATA
1 AATATGTACATA
4370415 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:4370461 original size:22 final size:24
Alignment explanation
Indices: 4370377--4370462 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
4370367 TACATATATA
* *
4370377 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
4370400 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
4370425 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
4370448 -AAGATATATACATAA
1 AAAAATATATACATAA
4370463 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:4370517 original size:25 final size:25
Alignment explanation
Indices: 4370488--4370621 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
4370478 AAAAATATAT
4370488 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
4370513 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
4370538 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
4370564 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
4370586 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
4370609 AAATAT-AATAATA
1 ATATATAAATAATA
4370622 ACAAAAAAGA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:4371179 original size:30 final size:30
Alignment explanation
Indices: 4371101--4371233 Score: 171
Period size: 30 Copynumber: 4.4 Consensus size: 30
4371091 TAGGTACAAG
* *
4371101 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
4371131 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
4371161 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
4371191 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
4371221 TGGTGGTGGAAAA
1 TGGTGGTGGAAAA
4371234 AGCTAAGATT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 2 0.02
30 90 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:4372140 original size:13 final size:14
Alignment explanation
Indices: 4372092--4372154 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
4372082 GAGTTGATTT
* *
4372092 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
*
4372106 TTGGAAAAACTGAAA
1 TT-GAAAAACAGAAA
*
4372121 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
4372135 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
4372148 TTGAAAA
1 TTGAAAA
4372155 GACCTCAGCG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 11 0.28
14 18 0.45
15 11 0.28
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:4372210 original size:117 final size:118
Alignment explanation
Indices: 4372019--4372244 Score: 305
Period size: 117 Copynumber: 1.9 Consensus size: 118
4372009 ACTTAATTTG
* * * *
4372019 AAAAACAGATTTTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCGATATGA
1 AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCGCAATATGA
* * * *
4372084 GTTGA-TTTTTGAAAAATATAAATTGGAAAAACTGAAATTGAAAAGCAGAAATT
66 GTTGATTTTTTGAAAAACAGAAATT-GAAAAACAGAAATGGAAAAGCAGAAATT
* * * *
4372137 AAAAACAGAATTTGAAAAGACCTC-AGCGTGTG-GCCCGAGACTCAACTCACCTCTCGCAATATG
1 AAAAACAGAATTTGAAAAGACCTCGA-CATGTGAACCCAAGACTCAACTCACATCTCGCAATATG
4372200 AGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAA
65 AGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAA
4372245 CACCTCAGCG
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
117 50 0.53
118 44 0.47
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (118 bp):
AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCGCAATATGA
GTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATGGAAAAGCAGAAATT
Found at i:4372246 original size:13 final size:14
Alignment explanation
Indices: 4372210--4372244 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4372200 AGTTGATTTT
4372210 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
4372224 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
4372238 TGGAAAA
1 TTGAAAA
4372245 CACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.06, G:0.17, T:0.14
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:4372428 original size:14 final size:14
Alignment explanation
Indices: 4372409--4372471 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
4372399 GAGTTGATTT
*
4372409 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
4372423 TTGAAAAAATAGAAA
1 TTG-AAAAATAGAAA
**
4372438 TTGAAAAGCAGAAA
1 TTGAAAAATAGAAA
* *
4372452 TT-AAAAACAGAAT
1 TTGAAAAATAGAAA
4372465 TTGAAAA
1 TTGAAAA
4372472 GACCTCAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 18 0.43
15 13 0.31
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.22
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:4372432 original size:15 final size:15
Alignment explanation
Indices: 4372412--4372444 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4372402 TTGATTTTTG
*
4372412 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
4372427 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
4372442 AAA
1 AAA
4372445 GCAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:4372444 original size:13 final size:13
Alignment explanation
Indices: 4372428--4372471 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4372418 ATAAATTGAA
*
4372428 AAAATAGAAATTG
1 AAAACAGAAATTG
*
4372441 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
4372455 AAAACAGAATTTG
1 AAAACAGAAATTG
4372468 AAAA
1 AAAA
4372472 GACCTCAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.18
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:4372582 original size:75 final size:75
Alignment explanation
Indices: 4372454--4373159 Score: 402
Period size: 75 Copynumber: 9.1 Consensus size: 75
4372444 AGCAGAAATT
* * * * *
4372454 AAAAACAGAATTTGAAAA-GACCTCAGTGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATAA
1 AAAAGCAGAAATTGAAAATG-CCTCAGCGTGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGA
4372518 GTTGA-TTTTTG
64 GTTGATTTTTTG
4372529 AAAAGCAGAAATTGAAAATGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAGCAGAAATTGAAAATGCCTCAGCGTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAG
4372594 TTGATTCTTTTG
65 TTGATT-TTTTG
* *
4372606 AAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAGCAGAAATTGAAAATGCCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
4372671 TGATTCTTTTG
66 TGATT-TTTTG
* *** *** * * * * * *
4372682 AAAAGTAGAAATTGAAAA-G-AAGAAATTGAAAATACCTCAGTGTGTCCCGAGGCTCAACTCAC-
1 AAAAGCAGAAATTGAAAATGCCTCAGCGTG----TGCC-C-GAG-G-CTC-A-ACTCACCTCTCG
* *
4372744 C--TCTCGCAATGTGAGTTGATTTTTTTG
56 CAATAT-G-AGT-TGA--T--TTTT--TG
** * *
4372771 ATAAAAATAGAATTTGAAAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGA
1 --AAAAGCAGAAATTGAAAATGCCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGA
4372835 GTTGATGTTTTTG
64 GTTGAT-TTTTTG
* *** * * ** *
4372848 AAAAACAGAAATTGAAGAACAAAAATGGAAAACA-CCTCAGCGTCTTGAGGTTCAACTCACCTCT
1 AAAAGCAGAAATT---G----AAAAT-G-CCTCAGCGT--GTG-CCCGAGGCTCAACTCACCTCT
*
4372912 CGCAATATGAGCTGATTTTTTTG
54 CGCAATATGAGTTGA-TTTTTTG
* ** ** * *
4372935 -AAAGACAGAAATTGAAAATACCTCAATGTGT-CTTGAGGCTCAACTTATCTCTCGCAATATGAG
1 AAAAG-CAGAAATTGAAAATGCCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
4372998 TTGA-TTTTTG
65 TTGATTTTTTG
* * * ** * *
4373008 ACAAA-CAAAAATTGAAATTACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTTGCAATATGAG
1 A-AAAGCAGAAATTGAAAATGCCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
4373069 CTGATTTTTTT
65 TTGATTTTTTG
* * *
4373080 AAAAGACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAG-CAGAAATTGAAAATGCCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
4373144 TTGAATTTTTTG
65 TTG-ATTTTTTG
4373156 AAAA
1 AAAA
4373160 TTGATACTAC
Statistics
Matches: 497, Mismatches: 80, Indels: 107
0.73 0.12 0.16
Matches are distributed among these distances:
71 36 0.07
72 6 0.01
73 45 0.09
74 4 0.01
75 140 0.28
76 73 0.15
77 39 0.08
78 5 0.01
79 6 0.01
80 8 0.02
81 3 0.01
82 19 0.04
83 10 0.02
84 17 0.03
85 4 0.01
86 6 0.01
87 50 0.10
88 4 0.01
89 3 0.01
91 16 0.03
93 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (75 bp):
AAAAGCAGAAATTGAAAATGCCTCAGCGTGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTG
Found at i:4372623 original size:317 final size:307
Alignment explanation
Indices: 4372030--4372595 Score: 838
Period size: 317 Copynumber: 1.8 Consensus size: 307
4372020 AAAACAGATT
*
4372030 TTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCGATATGAGTTGATTTTTG
1 TTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG
*
4372095 AAAAATATAAATTGGAAAAACTGAAATTGAAAAGCAGAAATTAAAAACAGAATTTGAAAAGACCT
66 AAAAATATAAATTGGAAAAAATGAAATTGAAAAGCAGAAATTAAAAACAGAATTTGAAAAGACCT
*
4372160 CAGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
131 CAGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAAT
** *
4372225 TGAAAAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTT
196 TG----A-AGAAATGG-----ACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
****
4372290 TTTTTTTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAG
251 TTTTTTGAAATTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAG
*
4372347 TTGAAAATACCTCGACCTGTGAACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG
1 TTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG
4372412 AAAAATATAAATT-GAAAAAATAGAAATTGAAAAGCAGAAATTAAAAACAGAATTTGAAAAGACC
66 AAAAATATAAATTGGAAAAAAT-GAAATTGAAAAGCAGAAATTAAAAACAGAATTTGAAAAGACC
* *
4372476 TCAGTGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTGAAAAGCAGAAA
130 TCAGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAA
4372540 TTG-A-AAAT-G-CCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
195 TTGAAGAAATGGACCTCAGC--GT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
4372596 GATTCTTTTG
Statistics
Matches: 235, Mismatches: 9, Indels: 21
0.89 0.03 0.08
Matches are distributed among these distances:
302 7 0.03
304 2 0.01
306 31 0.13
308 1 0.00
309 4 0.02
310 1 0.00
316 26 0.11
317 163 0.69
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (307 bp):
TTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG
AAAAATATAAATTGGAAAAAATGAAATTGAAAAGCAGAAATTAAAAACAGAATTTGAAAAGACCT
CAGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAAACAGAAAT
TGAAGAAATGGACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTGAAA
TTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAG
Found at i:4372698 original size:14 final size:14
Alignment explanation
Indices: 4372679--4372713 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4372669 GTTGATTCTT
*
4372679 TTGAAAAGTAGAAA
1 TTGAAAAGAAGAAA
4372693 TTGAAAAGAAGAAA
1 TTGAAAAGAAGAAA
4372707 TTGAAAA
1 TTGAAAA
4372714 TACCTCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:4372759 original size:89 final size:91
Alignment explanation
Indices: 4372603--4372790 Score: 272
Period size: 89 Copynumber: 2.1 Consensus size: 91
4372593 GTTGATTCTT
* *
4372603 TTGAAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGAAGAAATTGAAAACACCTCAGCGTGTGACCGAGGCTCAACTCACCTCTCGCAATATG
*
4372668 AGTTGATTCTTTTG-AAAAGTAGAAA
66 AGTTGATTCTTTTGAAAAAATAGAAA
* * * *
4372693 TTGAAAAGAAGAAATTGAAAATACCTCAGTGTGT-CCCGAGGCTCAACTCACCTCTCGCAATGTG
1 TTGAAAAGAAGAAATTGAAAACACCTCAGCGTGTGACCGAGGCTCAACTCACCTCTCGCAATATG
* *
4372757 AGTTGATTTTTTTGATAAAAATAGAAT
66 AGTTGATTCTTTTGA-AAAAATAGAAA
4372784 TTGAAAA
1 TTGAAAA
4372791 TACCTCAGCG
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
89 41 0.47
90 30 0.34
91 16 0.18
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (91 bp):
TTGAAAAGAAGAAATTGAAAACACCTCAGCGTGTGACCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTCTTTTGAAAAAATAGAAA
Found at i:4373133 original size:146 final size:147
Alignment explanation
Indices: 4372865--4373153 Score: 472
Period size: 146 Copynumber: 2.0 Consensus size: 147
4372855 GAAATTGAAG
4372865 AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
* * * * *
4372930 TTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTTATCTCTCGCAATAT
66 TTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
4372995 GAGTTG-ATTTTTGACA
131 GAGTTGAATTTTTGACA
* ** *
4373011 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTTGCAATATGAGCTGATTT
1 AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
* *
4373076 TTTTAAAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
4373141 GAGTTGAATTTTT
131 GAGTTGAATTTTT
4373154 TGAAAATTGA
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
146 125 0.95
147 6 0.05
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (147 bp):
AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGAATTTTTGACA
Found at i:4373321 original size:74 final size:74
Alignment explanation
Indices: 4373200--4373926 Score: 908
Period size: 74 Copynumber: 9.9 Consensus size: 74
4373190 ATTTGAAAAA
* * * **
4373200 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
4373265 TGACAACAG
66 TGACAACAG
4373274 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
* * *
4373339 TTGAAAAATAT
65 TTG-ACAACAG
* * * * * ** *
4373350 AAATTGAAAATATCTCAACGTGTCTTGAGTCTCAACTCATTTCTCGCAATATGAGTTGA--ATTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
4373413 TGAAAACAG
66 TGACAACAG
* * **
4373422 AAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAATTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
4373487 TGAAAACAG
66 TGACAACAG
* ** *
4373496 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
4373561 TTAACAACAG
65 TTGACAACAG
*
4373571 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
4373635 TGAAAGACAA
66 TGACA-ACAG
* * * ** * *
4373645 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTTAATTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
4373710 TGACAACAG
66 TGACAACAG
* *
4373719 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-ATTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
4373783 TGACAATAG
66 TGACAACAG
* ** *
4373792 AAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATTA
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
** *
4373856 AAAC-ACAA
66 TGACAACAG
* * * * *
4373864 AAATTGAAAATACCTCAGCGTGACCTGAGGTTCGACTCACCTCTAGCAATATGAGTTGATTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
4373927 GAAAAACAAA
Statistics
Matches: 571, Mismatches: 74, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
72 112 0.20
73 88 0.15
74 230 0.40
75 86 0.15
76 55 0.10
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (74 bp):
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGACAACAG
Found at i:4373733 original size:297 final size:292
Alignment explanation
Indices: 4373191--4373939 Score: 1076
Period size: 297 Copynumber: 2.6 Consensus size: 292
4373181 TCGAATATGA
*
4373191 TTTGAAAAA-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTTGAAAAAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
4373255 TTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 TTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* * * * *
4373320 CAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAATATCTCAACGTGTCTTGAGTCTCAA
131 CAATATGAGTTG-A-TTTTTTGAAAAACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAA
4373385 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGA
194 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGA
* ** *
4373450 GGCTCAATTCATTTCTCGCAATATGAGTTGATTTT
259 GGCTCAACTCACCTCTCGCAATATGAGTTGA-ATT
* *
4373485 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTTGAAAA-AGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
4373550 GTTGATTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 GTTGA-TTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* * *
4373615 CGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAA
129 CGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAA
* * *
4373680 CTCATTTCTCGCAATATGAGTTTAATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCT
194 CTCATTTCTCGCAATATGAGTTGAA--TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCC
*
4373745 GAGGCTCAACTCACCTCTTGCAATATGAGTTGAATT
257 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
* * * **
4373781 TTTGACAATAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTTGA-AAAAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
** ** * * * * * *
4373846 GTTGA-AATTAAAAC-ACAAAAATTGAAAATACCTCAGCGTGACCTGAGGTTCGACTCACCTCTA
65 GTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
4373909 GCAATATGAGTTGA--TTTTGAAAAACAAAAAT
130 GCAATATGAGTTGATTTTTTGAAAAACAAAAAT
4373940 AAAAATGCTT
Statistics
Matches: 411, Mismatches: 38, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
291 16 0.04
293 56 0.14
294 13 0.03
295 68 0.17
296 120 0.29
297 138 0.34
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (292 bp):
TTTGAAAAAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACT
CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGG
CTCAACTCACCTCTCGCAATATGAGTTGAATT
Found at i:4374100 original size:71 final size:71
Alignment explanation
Indices: 4373979--4374113 Score: 200
Period size: 71 Copynumber: 1.9 Consensus size: 71
4373969 GAGTCAATTT
*
4373979 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
1 AAAACTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
4374044 AAAAAA
66 AAAAAA
* * ** *
4374050 AAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATTAGTTGATTTT
1 AAAACTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
4374114 CCTTGGAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (71 bp):
AAAACTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
AAAAAA
Found at i:4385438 original size:70 final size:70
Alignment explanation
Indices: 4385325--4385918 Score: 711
Period size: 70 Copynumber: 8.2 Consensus size: 70
4385315 NNNNNNNNNN
*
4385325 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACTGAGG
1 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACTGAGG
4385390 TATTT
66 TATTT
*
4385395 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
1 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC--TGA
*
4385460 GGTAATT
64 GGTATTT
*
4385467 TCAATTTCTTCTTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTT
1 TCAATTTC-T-GTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC--T
*
4385532 GAGGTAATT
62 GAGGTATTT
4385541 TCAATTTCTGTTTTCAAAATTCAACTCATATTGC--GAG-TGAGTTGAGCCTCAAGACACGTTGA
1 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC--TGA
*
4385603 GGTAATT
64 GGTATTT
*
4385610 TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACTGAG
1 TCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACTGAG
4385675 GTATTT
65 GTATTT
* *
4385681 TCAATTTCTG-TTTCAAAA-TCAACTCATATT--GAGAGGTGAGTTGA-CCTCAAGACGCTGAGT
1 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACTGAG-
4385741 GTTTATGTTT
65 G--TA--TTT
* * *
4385751 TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTG
1 TCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACA--CTG
4385815 AGGTATTT
63 AGGTATTT
* * * * * * *
4385823 TCAAATTCTATTTTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TC-AATT-T-CTGTTT-TC--AAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTC--AAGA
4385888 CACTGAGGTATTT
58 CACTGAGGTATTT
*
4385901 TCAATTTCTTCTTTTCAA
1 TCAATTTC-TGTTTTCAA
4385919 TTTCTACTTT
Statistics
Matches: 476, Mismatches: 17, Indels: 59
0.86 0.03 0.11
Matches are distributed among these distances:
65 14 0.03
66 14 0.03
68 14 0.03
69 50 0.11
70 99 0.21
71 19 0.04
72 57 0.12
73 40 0.08
74 75 0.16
75 22 0.05
76 10 0.02
77 46 0.10
78 13 0.03
80 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (70 bp):
TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACTGAGG
TATTT
Found at i:4385846 original size:216 final size:210
Alignment explanation
Indices: 4385325--4386152 Score: 740
Period size: 216 Copynumber: 3.7 Consensus size: 210
4385315 NNNNNNNNNN
*
4385325 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA--CTGA
1 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAAGACACGCTGA
* * * *
4385388 GGTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
65 GGTATTTTCAATTTTTTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGAC
* *
4385453 ACGTTGAGGTAATTTCAATTTCTTCTTTTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAG
130 AC--TGAGGTATTTTCAA--T-TTCTGTTTCAAAATTCAACTCATATT-CGAGAGATGAGTTGAG
*
4385518 CCTCAAGACACGTTGAGGTAATT
189 CCTCAAGA-ACGCTGAGGTAATT
*
4385541 TCAATTTCTGTTTTCAAAATTCAACTCATATTGC--GAGTGAGTTGAGCCTCAAGACACGTTGAG
1 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGTGAGTTGAGCCTCAAGACACGCTGAG
* *
4385604 GTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGAC
66 GTATTTTCAATTT-TTTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGAC
*
4385669 ACTGAGGTATTTTCAATTTCTGTTTCAAAA-TCAACTCATATT-GAGAGGTGAGTTGA-CCTCAA
130 ACTGAGGTATTTTCAATTTCTGTTTCAAAATTCAACTCATATTCGAGAGATGAGTTGAGCCTCAA
*
4385731 G-ACGCTGAGTGTTTATGTTT
195 GAACGCTGAG-G--TA--ATT
* *
4385751 TCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTG
1 TCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAAGACACGCTG
* *
4385815 AGGTATTTTCAAATTCTATTTTTTATCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCC
64 AGGTATTTTC-AATT-T-TTTTTT-TC--AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCC
* * * *
4385880 TCGGGACACACTGAGGTATTTTCAATTTCTTCTTTTCAATTTCTACTTTTCAAAAGAATCAACTC
123 TC--AAGACACTGAGG-----T--A-------TTTTCAATTTCT--GTTTC-AAA-ATTCAACTC
* ** ***
4385945 ATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGCGTTT
168 ATATT-CGAGAGATGAGTTGAGCCTCAAG--A-ACGCTGAGGTAATT
* **
4385992 TCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACG
1 TCAATTTCTG-TTTTCAAA-ATTCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAAG--ACACG
* ** * * *
4386057 CTGAGGCATTTTCAATTTCTGCTTTTC-AAAATCAACTTATATTGCGAGAGGTGAGTTGAGTCTG
61 CTGAGGTATTTTCAATTT-TTTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT-
* * * *
4386121 GCCACACACTGAGGTCTTTTCAAATTCTGTTT
124 -CAAGACACTGAGGTATTTTCAATTTCTGTTT
4386153 TTAATTTCTG
Statistics
Matches: 521, Mismatches: 40, Indels: 95
0.79 0.06 0.14
Matches are distributed among these distances:
205 7 0.01
206 1 0.00
207 7 0.01
208 15 0.03
210 24 0.05
211 35 0.07
212 1 0.00
213 39 0.07
214 32 0.06
215 22 0.04
216 84 0.16
218 36 0.07
220 10 0.02
223 3 0.01
225 12 0.02
227 1 0.00
234 13 0.02
236 4 0.01
237 3 0.01
238 1 0.00
239 56 0.11
241 36 0.07
242 42 0.08
243 7 0.01
244 4 0.01
245 18 0.03
246 8 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (210 bp):
TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGTGAGTTGAGCCTCAAGACACGCTGAG
GTATTTTCAATTTTTTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACA
CTGAGGTATTTTCAATTTCTGTTTCAAAATTCAACTCATATTCGAGAGATGAGTTGAGCCTCAAG
AACGCTGAGGTAATT
Found at i:4385917 original size:14 final size:14
Alignment explanation
Indices: 4385898--4385932 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4385888 CACTGAGGTA
*
4385898 TTTTCAATTTCTTC
1 TTTTCAATTTCTAC
4385912 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
4385926 TTTTCAA
1 TTTTCAA
4385933 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:4385979 original size:89 final size:90
Alignment explanation
Indices: 4385840--4386009 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 90
4385830 CTATTTTTTA
*
4385840 TCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACA-CTGAGGTATTTTCA
1 TCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACACCTGAGGCATTTTCA
*
4385904 ATTTCTTCTTTTCAATTTCTACTTT
66 ATTTCTGCTTTTCAATTTCTACTTT
* * * *
4385929 TCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGCGTTTTC
1 TCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACAC-CTGAGGCATTTTC
4385994 AATTTCTGCTTTTCAA
65 AATTTCTGCTTTTCAA
4386010 AGAATCAACT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 47 0.64
91 26 0.36
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (90 bp):
TCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGGACACACCTGAGGCATTTTCA
ATTTCTGCTTTTCAATTTCTACTTT
Found at i:4386039 original size:76 final size:75
Alignment explanation
Indices: 4385911--4386154 Score: 361
Period size: 76 Copynumber: 3.3 Consensus size: 75
4385901 TCAATTTCTT
*
4385911 CTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 CTTTTCAATTTCTGCTTTTC-AAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
4385976 ACACGCTGAGG
65 ACACGCTGAGG
4385987 CGTTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 C-TTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
4386052 ACACGCTGAGG
65 ACACGCTGAGG
* * *
4386063 CATTTTCAATTTCTGCTTTTC-AA-AATCAACTTATATTGCGAGAGGTGAGTTGAG--TCTGGCC
1 C-TTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
4386124 ACACACTGAGG
65 ACACGCTGAGG
* *
4386135 TCTTTTCAAATTCTGTTTTT
1 -CTTTTCAATTTCTGCTTTT
4386155 AATTTCTGCT
Statistics
Matches: 158, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
72 31 0.20
73 1 0.01
74 30 0.19
75 2 0.01
76 76 0.48
77 18 0.11
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (75 bp):
CTTTTCAATTTCTGCTTTTCAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
CACGCTGAGG
Found at i:4386167 original size:14 final size:13
Alignment explanation
Indices: 4386137--4386180 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4386127 CACTGAGGTC
*
4386137 TTTTCAAATTCTG
1 TTTTCAATTTCTG
*
4386150 TTTTTAATTTCTG
1 TTTTCAATTTCTG
*
4386163 CTTTTCAATTTCTA
1 -TTTTCAATTTCTG
4386177 TTTT
1 TTTT
4386181 TTCAATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.18, C:0.14, G:0.05, T:0.64
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:4386181 original size:14 final size:14
Alignment explanation
Indices: 4386137--4386199 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
4386127 CACTGAGGTC
* *
4386137 TTTTCAAATTCTGT
1 TTTTCAATTTCTAT
**
4386151 TTTT-AATTTCTGC
1 TTTTCAATTTCTAT
4386164 TTTTCAATTTCTATT
1 TTTTCAATTTCTA-T
*
4386179 TTTTCAATTTATAT
1 TTTTCAATTTCTAT
4386193 TTTTCAA
1 TTTTCAA
4386200 AAATCAACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.22, C:0.13, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTCAATTTCTAT
Found at i:4386184 original size:15 final size:15
Alignment explanation
Indices: 4386164--4386196 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4386154 TAATTTCTGC
*
4386164 TTTTCAATTTCTATT
1 TTTTCAATTTATATT
4386179 TTTTCAATTTATATT
1 TTTTCAATTTATATT
4386194 TTT
1 TTT
4386197 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:4386387 original size:14 final size:14
Alignment explanation
Indices: 4386364--4386398 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4386354 CGCTGAGGTG
*
4386364 TTTTCCATTTCTGT
1 TTTTCAATTTCTGT
4386378 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
4386392 TTTTCAA
1 TTTTCAA
4386399 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:4386483 original size:14 final size:13
Alignment explanation
Indices: 4386453--4386496 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4386443 CGCTGAGGTC
*
4386453 TTTTCAAATTCTG
1 TTTTCAATTTCTG
*
4386466 TTTTTAATTTCTG
1 TTTTCAATTTCTG
*
4386479 CTTTTCAATTTCAG
1 -TTTTCAATTTCTG
4386493 TTTT
1 TTTT
4386497 TCCAATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:4386497 original size:14 final size:14
Alignment explanation
Indices: 4386453--4386515 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
4386443 CGCTGAGGTC
*
4386453 TTTTCAAATTCTGT
1 TTTTCAATTTCTGT
*
4386467 TTTT-AATTTCTGC
1 TTTTCAATTTCTGT
*
4386480 TTTTCAATTTCAGT
1 TTTTCAATTTCTGT
* *
4386494 TTTTCCAATTTATAT
1 TTTT-CAATTTCTGT
4386509 TTTTCAA
1 TTTTCAA
4386516 AAATCAACTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 11 0.28
14 18 0.45
15 11 0.28
ACGTcount: A:0.22, C:0.14, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:4386602 original size:117 final size:115
Alignment explanation
Indices: 4386365--4386603 Score: 284
Period size: 117 Copynumber: 2.1 Consensus size: 115
4386355 GCTGAGGTGT
* * * * *
4386365 TTTCCATTTCTGTTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTCAATTTCAGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGA
* * * * **
4386430 GTCTCGGGCCACACGCTGAGGTCTTTTCAAATTCTGTTTTTAATTTCTGC
66 GCCTCGGGCCACACGCTGAGGTATTTTCAAAATCTGTTTTTAAATTAAGC
*
4386480 TTTTCAATTTCAGTTTTTCCAATTTATATTTTTCAAAAATCAACTCATATCGCGAGATGTGAGTT
1 -TTTCAATTTCAGTTTTT-CAATTTATATTTTTCAAAAATCAACTCATATCGCGAGAGGTGAGTT
* * *
4386545 GAGCCTTGGGTTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAG-
64 GAGCCTCGGG-CCACACGCT-GAGGTATTTTCAAAATCTGTTTTT-AAATTAAGC
4386598 TTTCAA
1 TTTCAA
4386604 AAAAACCAAC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
116 15 0.14
117 57 0.55
118 27 0.26
119 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (115 bp):
TTTCAATTTCAGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGA
GCCTCGGGCCACACGCTGAGGTATTTTCAAAATCTGTTTTTAAATTAAGC
Found at i:4387403 original size:18 final size:18
Alignment explanation
Indices: 4387382--4387434 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
4387372 CCACCACCAC
4387382 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
4387400 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
4387412 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
4387430 TCCAC
1 TCCAC
4387435 CACCAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 6 0.22
13 3 0.11
14 1 0.04
15 2 0.07
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:4387414 original size:30 final size:30
Alignment explanation
Indices: 4387368--4387455 Score: 160
Period size: 30 Copynumber: 3.0 Consensus size: 30
4387358 AATCTTAGCT
4387368 TTTTCCACCACC-ACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
4387397 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
*
4387427 TTTTCCACCACCAAATCCACTAGCCACAC
1 TTTTCCACCACCAACTCCACTAGCCACAC
4387456 TTGCTCCATT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 12 0.21
30 45 0.79
ACGTcount: A:0.27, C:0.49, G:0.03, T:0.20
Consensus pattern (30 bp):
TTTTCCACCACCAACTCCACTAGCCACACC
Found at i:4387483 original size:59 final size:59
Alignment explanation
Indices: 4387368--4387498 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 59
4387358 AATCTTAGCT
* * *
4387368 TTTTCCACCACC-ACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAACCACA-C
** *
4387427 TTTTCCACCACCAAATCCACTAGCCACA-CTTGCTCCATTACCTACT-CACTAACCACAC
1 TTTTCCACCACCAAATCCACTAGCCACACCTT-CTCCACCACCAACTCCACTAACCACAC
*
4387485 TTGCTCCACCACCA
1 TT-TTCCACCACCA
4387499 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
58 3 0.05
59 35 0.56
60 24 0.39
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (59 bp):
TTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAACCACAC
Found at i:4388074 original size:14 final size:13
Alignment explanation
Indices: 4388055--4388113 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 13
4388045 CGTATATATA
4388055 TATTTATACTATTT
1 TATTTATA-TATTT
4388069 TATTTATATATCTT
1 TATTTATATAT-TT
4388083 TAATATTATATTATTT
1 T-AT-TTATA-TATTT
*
4388099 ATATATATATATTT
1 -TATTTATATATTT
4388113 T
1 T
4388114 TTTCTACATG
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.10
14 16 0.41
15 6 0.15
16 9 0.23
17 4 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTATATATTT
Found at i:4388102 original size:25 final size:24
Alignment explanation
Indices: 4388049--4388106 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
4388039 ATATTACGTA
*
4388049 TATATATATTTATACTATTTTATT
1 TATATATATTTATACTATATTATT
* *
4388073 TATATATCTTTAATATTATATTATT
1 TATATATATTT-ATACTATATTATT
4388098 TATATATAT
1 TATATATAT
4388107 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATATATTTATACTATATTATT
Found at i:4388180 original size:24 final size:25
Alignment explanation
Indices: 4388145--4388192 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
4388135 ATATATCTTA
**
4388145 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
4388170 ACTA-ATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
4388193 TATTATCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:4389618 original size:20 final size:20
Alignment explanation
Indices: 4389581--4389619 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4389571 TATTATTATT
*
4389581 ATTTTTACACTATTATGTAC
1 ATTTTTACACTATCATGTAC
* *
4389601 ATTTTTATATTATCATGTA
1 ATTTTTACACTATCATGTA
4389620 TTTTTTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTTACACTATCATGTAC
Found at i:4389759 original size:13 final size:13
Alignment explanation
Indices: 4389741--4389788 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
4389731 TCAATATAAT
4389741 TATTATATTCTAA
1 TATTATATTCTAA
*
4389754 TATTATATTTTAA
1 TATTATATTCTAA
* *
4389767 TATTTTATTAT-A
1 TATTATATTCTAA
*
4389779 TTTTATATTC
1 TATTATATTC
4389789 CCATCATTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTCTAA
Found at i:4389775 original size:18 final size:17
Alignment explanation
Indices: 4389704--4389787 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 17
4389694 TATGTACATC
*
4389704 TTTTTTATTTCTATT-TA
1 TTTTATATTT-TATTATA
* *
4389721 TTTTTTATTTTCAATATAA
1 TTTTATATTTT-ATTAT-A
4389740 TTATTATATTCTAATATTATA
1 TT-TTATATT-T--TATTATA
4389761 TTTTAATATTTTATTATA
1 TTTT-ATATTTTATTATA
4389779 TTTTATATT
1 TTTTATATT
4389788 CCCATCATTG
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
16 1 0.02
17 17 0.30
18 12 0.21
19 3 0.05
20 9 0.16
21 9 0.16
22 4 0.07
23 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATTTTATTATA
Found at i:4391669 original size:5 final size:5
Alignment explanation
Indices: 4391659--4391687 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4391649 TTGAATTTTT
4391659 TCGAA TCGAA TCGAA TCGAA TCGAA TCGA
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGA
4391688 GTCAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (5 bp):
TCGAA
Found at i:4397070 original size:17 final size:17
Alignment explanation
Indices: 4397048--4397115 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 17
4397038 GCAATTAATT
4397048 AATTTTTTAAAATTTAA
1 AATTTTTTAAAATTTAA
** *
4397065 AATTTTCAAAAAGTATAA
1 AATTTTTTAAAA-TTTAA
*
4397083 AA--ATTTAAAA-TTAA
1 AATTTTTTAAAATTTAA
* *
4397097 AATTGTTTAAAAATTAA
1 AATTTTTTAAAATTTAA
4397114 AA
1 AA
4397116 ATATAATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
14 5 0.13
16 12 0.31
17 16 0.41
18 6 0.15
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (17 bp):
AATTTTTTAAAATTTAA
Found at i:4397093 original size:33 final size:31
Alignment explanation
Indices: 4397053--4397117 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 31
4397043 TAATTAATTT
4397053 TTTAAAATTTAAAATT-TTCAAAAAGTATAAAAA
1 TTTAAAA-TTAAAATTGTTCAAAAA-T-TAAAAA
*
4397086 TTTAAAATTAAAATTGTTTAAAAATTAAAAA
1 TTTAAAATTAAAATTGTTCAAAAATTAAAAA
4397117 T
1 T
4397118 ATAATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 7 0.23
32 9 0.30
33 14 0.47
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTAAAATTAAAATTGTTCAAAAATTAAAAA
Found at i:4397123 original size:23 final size:24
Alignment explanation
Indices: 4397080--4397134 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4397070 TCAAAAAGTA
*
4397080 TAAAAATTTAAAATTAAAA-TTGTT
1 TAAAAA-TTAAAAATAAAATTTGTT
* *
4397104 TAAAAATTAAAAATATAATTTTTT
1 TAAAAATTAAAAATAAAATTTGTT
4397128 TAAAAAT
1 TAAAAAT
4397135 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAAATTAAAAATAAAATTTGTT
Found at i:4397145 original size:16 final size:16
Alignment explanation
Indices: 4397110--4397149 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
4397100 TGTTTAAAAA
4397110 TTAAAAATATAATTTTT
1 TTAAAAATAT-ATTTTT
4397127 TTAAAAATAT-TTTTAT
1 TTAAAAATATATTTT-T
4397143 TTAAAAA
1 TTAAAAA
4397150 ATTAGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAAATATATTTTT
Found at i:4406826 original size:19 final size:19
Alignment explanation
Indices: 4406802--4406838 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4406792 GGTTTATTCG
4406802 ATCCATC-TTTCATTTTTCA
1 ATCCATCGTTTC-TTTTTCA
4406821 ATCCATCGTTTCTTTTTC
1 ATCCATCGTTTCTTTTTC
4406839 TTTATTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.16, C:0.27, G:0.03, T:0.54
Consensus pattern (19 bp):
ATCCATCGTTTCTTTTTCA
Found at i:4419141 original size:13 final size:12
Alignment explanation
Indices: 4419121--4419154 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
4419111 ATTCTCAAAG
*
4419121 TTTTTTTATTTT
1 TTTTTTTATTTA
4419133 TTATTTTTATTTA
1 TT-TTTTTATTTA
4419146 TTTTTTTAT
1 TTTTTTTAT
4419155 CTGTTCTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:4419865 original size:14 final size:15
Alignment explanation
Indices: 4419831--4419865 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4419821 TAAATCCATT
4419831 TTTATATTTAAGTAC
1 TTTATATTTAAGTAC
4419846 TTTATATTTAAGTA-
1 TTTATATTTAAGTAC
4419860 TTTATA
1 TTTATA
4419866 CAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTATATTTAAGTAC
Found at i:4426888 original size:88 final size:88
Alignment explanation
Indices: 4426734--4427259 Score: 543
Period size: 88 Copynumber: 6.0 Consensus size: 88
4426724 ATCTGTGAAG
* * * * * *
4426734 ATAGCAGATTTTGCCTTCCTGCGCCGATAGCAAAGCAGATCGAAGATACCAGCCTTGCTTCTCTG
1 ATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
4426799 GGTTGCAGCGGAACAGGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* *
4426822 ATAACAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
4426887 GGTTGCAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* * *
4426910 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACATCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
4426975 GGTTACAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* * * * * **
4426998 ATAGTAAATCTTGCCTTCCTGCTCCGACAGCAAAGCAGATCGAAGACTCCAGCCTTATCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* ** * * *
4427063 AGCAGTAGTGGAGTAGGTTGAAAA
66 GGTTGCAGCGGAGCAGGTT-AAAA
* ** * ** * * * * * * *
4427087 TTA-CAGATCTTATCTCCCTAAGCAG-TAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* * * * *
4427150 GATGGCAGCAGAACAGGTTAAAG
66 GGTTGCAGCGGAGCAGGTTAAAA
** * * * *
4427173 ATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* * * *
4427238 AGTGGAAGTGGAGCAGGTTAAA
66 GGTTGCAGCGGAGCAGGTTAAA
4427260 GATTACAGAT
Statistics
Matches: 357, Mismatches: 78, Indels: 6
0.81 0.18 0.01
Matches are distributed among these distances:
86 5 0.01
87 53 0.15
88 293 0.82
89 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGTTAAAA
Found at i:4426923 original size:44 final size:44
Alignment explanation
Indices: 4426787--4427018 Score: 117
Period size: 44 Copynumber: 5.3 Consensus size: 44
4426777 AGATACCAGC
* * * *
4426787 CTTGCTTCTCTGGGTTGCAGCGGAACAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * * ** * * ** * * * *
4426831 CTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
4426875 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * **** * * ** * * * *
4426919 CTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACATCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* * *
4426963 CTTGCCTCCCTGGGTTACAGCGGAGCAGGTTAAAAATAGTAAAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
*
4427007 CTTGCCTTCCTG
1 CTTGCCTCCCTG
4427019 CTCCGACAGC
Statistics
Matches: 123, Mismatches: 61, Indels: 8
0.64 0.32 0.04
Matches are distributed among these distances:
43 34 0.28
44 54 0.44
45 35 0.28
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:4426947 original size:45 final size:45
Alignment explanation
Indices: 4426804--4426947 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 45
4426794 CTCTGGGTTG
4426804 CAGCGGAA-CAGGTTAAAAATAACAGATCTTGCCTTCTTGCGCCGA
1 CAGC-GAAGCAGGTTAAAAATAACAGATCTTGCCTTCTTGCGCCGA
* ** * * * * * * * **
4426849 CAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTGGGTTG-
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCTTGCGCCGA
* * *
4426892 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCTTGCGCCGA
4426937 CAGCGAAGCAG
1 CAGCGAAGCAG
4426948 ATCGAAGACA
Statistics
Matches: 69, Mismatches: 27, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
43 18 0.26
44 26 0.38
45 25 0.36
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (45 bp):
CAGCGAAGCAGGTTAAAAATAACAGATCTTGCCTTCTTGCGCCGA
Found at i:4427192 original size:175 final size:174
Alignment explanation
Indices: 4426767--4427301 Score: 547
Period size: 175 Copynumber: 3.1 Consensus size: 174
4426757 CCGATAGCAA
* * * * * * * * *
4426767 AGCAGATCGAAGATACCAGCCTTGCTTCTCTGGGTTGCAGCGGAACAGGTTAAAAATAACAGATC
1 AGCAGATCGAAGACATCAACCTTGCCTCCCTCGATGGCAGCGGAACAGGTTAAAAATAGCAGATC
* * * * * *
4426832 TTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCG
66 TTGCCTTCCTGCTCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTAGAAGTG
* ** * * * *
4426897 GAGCAGGTTAAAAATAGCAGATCTTGCCT-TCT-TGCACCGACAGCGA
131 GAGCAGGTTAAAATTA-CAGATCTTATCTCCCTAAGCA--G-TAGCGG
* * * ** * * *
4426943 AGCAGATCGAAGACATCAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTAAAAATAGTAAATC
1 AGCAGATCGAAGACATCAACCTTGCCTCCCTCGATGGCAGCGGAACAGGTTAAAAATAGCAGATC
* * ** * *
4427008 TTGCCTTCCTGCTCCGACAGCAAAGCAGATCGAAGACTCCAGCCTTATCTCCCTGAGCAGTAGTG
66 TTGCCTTCCTGCTCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTAGAAGTG
*
4427073 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
131 GAGCAGGTT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* * *
4427118 AGTAGATCGAAGACA-CTAACCTTGCCTCCCTCGATGGCAGCAGAACAGGTTAAAGATAGCAGAT
1 AGCAGATCGAAGACATC-AACCTTGCCTCCCTCGATGGCAGCGGAACAGGTTAAAAATAGCAGAT
* * * * *
4427182 CTTGCCTTCCTG-TACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTCAGTGGAAG
65 CTTGCCTTCCTGCT-CCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTAGAAG
* *
4427246 TGGAGCAGGTTAAAGATTACAGATTTTATCTCCCTAAGCAGTAGTGG
129 TGGAGCAGGTTAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGCGG
4427293 AGCAGATCG
1 AGCAGATCG
4427302 CATCCAGCCT
Statistics
Matches: 299, Mismatches: 54, Indels: 13
0.82 0.15 0.04
Matches are distributed among these distances:
174 5 0.02
175 154 0.52
176 129 0.43
177 8 0.03
178 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.22
Consensus pattern (174 bp):
AGCAGATCGAAGACATCAACCTTGCCTCCCTCGATGGCAGCGGAACAGGTTAAAAATAGCAGATC
TTGCCTTCCTGCTCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTAGAAGTG
GAGCAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
Found at i:4427361 original size:44 final size:44
Alignment explanation
Indices: 4427312--4427409 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
4427302 CATCCAGCCT
* * * * *
4427312 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAACAGGGGAATAGGTTAAAAATTGAGAATCC
* * *
4427356 TATCTCCCTGGTCAATAGGGGAATATGTTAAAAATTGAGAATCT
1 TATCTCCCTGGTCAACAGGGGAATAGGTTAAAAATTGAGAATCC
4427400 TATCTCCCTG
1 TATCTCCCTG
4427410 AAGTTGCAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGGTCAACAGGGGAATAGGTTAAAAATTGAGAATCC
Found at i:4427492 original size:44 final size:44
Alignment explanation
Indices: 4427395--4427599 Score: 149
Period size: 44 Copynumber: 4.8 Consensus size: 44
4427385 AAAAATTGAG
* * *
4427395 AATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAT
*
4427439 AAT-TCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA-
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AT
* * * *** *
4427483 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAT
* * * *
4427523 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTTAGTAA-GAA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAACCAAT
* *
4427567 AATCTTATC-CCCATAAAATTGCAGTGGAGCAGA
1 AATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA
4427600 CTGAATGAAC
Statistics
Matches: 125, Mismatches: 25, Indels: 22
0.73 0.15 0.13
Matches are distributed among these distances:
40 20 0.16
41 7 0.06
42 3 0.02
43 11 0.09
44 82 0.66
45 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAT
Found at i:4427637 original size:44 final size:45
Alignment explanation
Indices: 4427523--4427639 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 45
4427513 GATCGCATCT
*
4427523 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTTAGTAAGAAA
1 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTTAGTAAGAAA
* *
4427568 A-TCTTATC-CCCATAAAATTGCAGTGGAGCAGAC-T-G-AATGAACA
1 AGTCTTATCTCCC-TAAAGTTGTAGTGGAGCAGACTTAGTAA-GAA-A
*
4427611 AGTCCTATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTAAAGTTGTAGTGGAG
4427640 TGGATTAGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.03
42 4 0.07
43 6 0.10
44 45 0.74
45 4 0.07
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTTAGTAAGAAA
Found at i:4428403 original size:17 final size:16
Alignment explanation
Indices: 4428378--4428409 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
4428368 ATTCTCAAAG
4428378 TTTTTTTTATTTTTTA
1 TTTTTTTTATTTTTTA
4428394 TTTTTATTTATTTTTT
1 TTTTT-TTTATTTTTT
4428410 GATCTGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTATTTTTTA
Found at i:4429127 original size:14 final size:15
Alignment explanation
Indices: 4429093--4429127 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4429083 TAAATCCATT
4429093 TTTATATTTAAGTAC
1 TTTATATTTAAGTAC
4429108 TTTATATTTAAGTA-
1 TTTATATTTAAGTAC
4429122 TTTATA
1 TTTATA
4429128 CAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTATATTTAAGTAC
Found at i:4429707 original size:15 final size:16
Alignment explanation
Indices: 4429687--4429718 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4429677 GATTTGTGTT
4429687 TTCATTT-ATATTTTA
1 TTCATTTGATATTTTA
4429702 TTCATTTGATATTTTA
1 TTCATTTGATATTTTA
4429718 T
1 T
4429719 ATGTCGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (16 bp):
TTCATTTGATATTTTA
Found at i:4430901 original size:26 final size:27
Alignment explanation
Indices: 4430836--4430900 Score: 114
Period size: 26 Copynumber: 2.4 Consensus size: 27
4430826 AATAAGCACC
4430836 AAAAATTTATTTTAAAAATAAAAAATA
1 AAAAATTTATTTTAAAAATAAAAAATA
*
4430863 AAAAA-ATATTTTAAAAATAAAAAATA
1 AAAAATTTATTTTAAAAATAAAAAATA
4430889 AAAAATTTATTT
1 AAAAATTTATTT
4430901 ATTATATTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 25 0.71
27 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAATTTATTTTAAAAATAAAAAATA
Found at i:4434403 original size:24 final size:25
Alignment explanation
Indices: 4434356--4434416 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
4434346 CAAAAAGGAG
*
4434356 GAGAAGATGAAAGGGAAGAAGAAAATA
1 GAGAAGATGAAA--GAAGAAGAAAAAA
4434383 GAGAAGATGAAA-AAGAAGAAAAAA
1 GAGAAGATGAAAGAAGAAGAAAAAA
*
4434407 GAGAGGATGA
1 GAGAAGATGA
4434417 TGGCAAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 20 0.62
27 12 0.38
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.07
Consensus pattern (25 bp):
GAGAAGATGAAAGAAGAAGAAAAAA
Found at i:4442286 original size:48 final size:48
Alignment explanation
Indices: 4442214--4442308 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
4442204 GGGAAGGACC
*
4442214 GTGCTAACTTCTTGCTACACAGGGAAAACAGTATCTAAATCTGGGATT
1 GTGCTAACTTCTTGCTACACAGGGAAAACAATATCTAAATCTGGGATT
* * *
4442262 GTGCTAACTTCTTGCTGCATAGGGAAAACAATATCTAAATTTGGGAT
1 GTGCTAACTTCTTGCTACACAGGGAAAACAATATCTAAATCTGGGAT
4442309 AGCACCTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (48 bp):
GTGCTAACTTCTTGCTACACAGGGAAAACAATATCTAAATCTGGGATT
Found at i:4443401 original size:5 final size:5
Alignment explanation
Indices: 4443391--4443421 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
4443381 TGAGCACTCG
4443391 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
4443422 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:4444103 original size:13 final size:13
Alignment explanation
Indices: 4444085--4444109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4444075 TAAAAGTTTG
4444085 AGGGAAAGTAAAT
1 AGGGAAAGTAAAT
4444098 AGGGAAAGTAAA
1 AGGGAAAGTAAA
4444110 ATTTTGGAGG
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:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (13 bp):
AGGGAAAGTAAAT
Found at i:4448381 original size:172 final size:172
Alignment explanation
Indices: 4448053--4448539 Score: 536
Period size: 172 Copynumber: 2.8 Consensus size: 172
4448043 AAAGCTAAGC
* * * *
4448053 ACAAAGCTTTACCTGCACATAATTTCGAGAACAA-TCTGAATCAATTACATCATCTGCTTCACAA
1 ACAAAGCTTTACCTGCACATAA-TTC-ACAACAATTC-AAATCAATTACATTATCTGTTTCACAA
* * * ** *
4448117 TCTT-AAGTTCAAGAGATTCATAACAAAACCAAAGCAACCGGTTTATGAATTCTTTGAAGTTTAT
63 TCTTAAAGTTCAAGCGATTCATAA-TAAACCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCAT
* * * * * *
4448181 TTCCAGTAG-AGATGCGATAATTAAAACTCCTGATAAATTGAAATAA
127 TT-CAATTGTAGATACGATAAATAAAACTCCGGACAAATTGAAATAA
* * *
4448227 ACAAAGCTTTACCTGCACATAATTCATTAACAATTCAAAGCAATTACATTATCTGTTTAACAATC
1 ACAAAGCTTTACCTGCACATAATTCA-CAACAATTCAAATCAATTACATTATCTGTTTCACAATC
*
4448292 TTAAAGTTCAA-CGATTCATAATAAACCAAAGGAATCGGTTTATGAATTCTCAGAAGTTCATTTC
65 TTAAAGTTCAAGCGATTCATAATAAACCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCATTTC
* *
4448356 AATTGTAGATACGTTAAATAAAACTCCGGACAAATTGAAATGA
130 AATTGTAGATACGATAAATAAAACTCCGGACAAATTGAAATAA
* * * * **
4448399 ACAAAGCTTCACCAGCACATAATTCAACAGA-AATTCAAATAAATTACAGTATCCATTTCACAAT
1 ACAAAGCTTTACCTGCACATAATTC-ACA-ACAATTCAAATCAATTACATTATCTGTTTCACAAT
* * * * * *
4448463 CTTAAAGATCAAGCTG-TTCATAATAAATCAAAAGCAATCGGTTCATGATTTCTCGGAATTTCAT
64 CTTAAAGTTCAAGC-GATTCATAATAAA-CCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCAT
4448527 TTCAATTGTAGAT
127 TTCAATTGTAGAT
4448540 TCCAAATTAA
Statistics
Matches: 267, Mismatches: 37, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
171 4 0.01
172 130 0.49
173 57 0.21
174 76 0.28
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (172 bp):
ACAAAGCTTTACCTGCACATAATTCACAACAATTCAAATCAATTACATTATCTGTTTCACAATCT
TAAAGTTCAAGCGATTCATAATAAACCAAAGCAATCGGTTTATGAATTCTCAGAAGTTCATTTCA
ATTGTAGATACGATAAATAAAACTCCGGACAAATTGAAATAA
Found at i:4460942 original size:31 final size:30
Alignment explanation
Indices: 4460901--4461068 Score: 160
Period size: 31 Copynumber: 5.5 Consensus size: 30
4460891 CCAAAGATAA
* *
4460901 TATTATTTTAATATTTATCTAAATAGTATTT
1 TATTAATTTAATATTTATCTAGATA-TATTT
* * * *
4460932 TATTAATTTAATATTAATAT-GAGATATTA
1 TATTAATTTAATATTTATCTAGATATATTT
*
4460961 AATTTAATTTAATATTTATCTAGATAATATTT
1 TA-TTAATTTAATATTTATCTAGAT-ATATTT
* * **
4460993 TATTAATTTAATATTAATAT-GATATATCA
1 TATTAATTTAATATTTATCTAGATATATTT
* *
4461022 AATTTAACTTAATATTTATCTAGATTATATTT
1 TA-TTAATTTAATATTTATCTAGA-TATATTT
4461054 TATTAATTTAATATT
1 TATTAATTTAATATT
4461069 AATGTGATTA
Statistics
Matches: 107, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
29 10 0.09
30 36 0.34
31 49 0.46
32 12 0.11
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (30 bp):
TATTAATTTAATATTTATCTAGATATATTT
Found at i:4460973 original size:61 final size:60
Alignment explanation
Indices: 4460907--4461071 Score: 258
Period size: 61 Copynumber: 2.7 Consensus size: 60
4460897 ATAATATTAT
*
4460907 TTTAATATTTATCTAAATAGTATTTTATTAATTTAATATTAATATGAGATATTAAATTTAA
1 TTTAATATTTATCTAAATA-TATTTTATTAATTTAATATTAATATGAGATATCAAATTTAA
* *
4460968 TTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGATATATCAAATTTAA
1 TTTAATATTTATCTAAAT-ATATTTTATTAATTTAATATTAATATGAGATATCAAATTTAA
* *
4461029 CTTAATATTTATCTAGATTATATTTTATTAATTTAATATTAAT
1 TTTAATATTTATCTA-AATATATTTTATTAATTTAATATTAAT
4461072 GTGATTAATT
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
61 94 0.98
62 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (60 bp):
TTTAATATTTATCTAAATATATTTTATTAATTTAATATTAATATGAGATATCAAATTTAA
Found at i:4461078 original size:30 final size:30
Alignment explanation
Indices: 4460927--4461078 Score: 137
Period size: 30 Copynumber: 5.0 Consensus size: 30
4460917 ATCTAAATAG
*
4460927 TATTTTATTAATTTAATATTAATATGA-GA
1 TATTTTATTAATTTAATATTAATATGATTA
** * * *
4460956 TATTAAATTTAATTTAATATTTATCTAGATAA
1 TATTTTA-TTAATTTAATATTAATAT-GATTA
4460988 TATTTTATTAATTTAATATTAATATGA-TA
1 TATTTTATTAATTTAATATTAATATGATTA
*** * * *
4461017 TATCAAATTTAACTTAATATTTATCTAGATTA
1 TATTTTA-TTAATTTAATATTAATAT-GATTA
*
4461049 TATTTTATTAATTTAATATTAATGTGATTA
1 TATTTTATTAATTTAATATTAATATGATTA
4461079 ATTCTAATCC
Statistics
Matches: 95, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
29 10 0.11
30 38 0.40
31 35 0.37
32 12 0.13
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (30 bp):
TATTTTATTAATTTAATATTAATATGATTA
Found at i:4462231 original size:9 final size:9
Alignment explanation
Indices: 4462219--4462295 Score: 109
Period size: 9 Copynumber: 8.6 Consensus size: 9
4462209 TCAATTTAGT
4462219 TAATTCGGG
1 TAATTCGGG
*
4462228 TAATTCGGT
1 TAATTCGGG
4462237 TAATTCGGG
1 TAATTCGGG
* *
4462246 TAATCCGGT
1 TAATTCGGG
*
4462255 TAATTCGGT
1 TAATTCGGG
4462264 TAATTCGGG
1 TAATTCGGG
*
4462273 TAATTCGGT
1 TAATTCGGG
4462282 TAATTCGGG
1 TAATTCGGG
4462291 TAATT
1 TAATT
4462296 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (9 bp):
TAATTCGGG
Found at i:4462249 original size:27 final size:27
Alignment explanation
Indices: 4462219--4462295 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
4462209 TCAATTTAGT
*
4462219 TAATTCGGGTAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGTTAATTCGGG
*
4462246 TAATCCGGTTAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGTTAATTCGGG
*
4462273 TAATTCGGTTAATTCGGGTAATT
1 TAATTCGGTTAATTCGGTTAATT
4462296 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTCGGG
Found at i:4462691 original size:26 final size:25
Alignment explanation
Indices: 4462639--4462694 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
4462629 CACTTTTAAA
*
4462639 TAAACAGTTAATAGAATCATTTAGT
1 TAAACAGTTAATAGAATCAGTTAGT
*
4462664 TAAATCAGTTAATAGAA-CTAGTTGGT
1 TAAA-CAGTTAATAGAATC-AGTTAGT
4462690 TAAAC
1 TAAAC
4462695 CAGCCACTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (25 bp):
TAAACAGTTAATAGAATCAGTTAGT
Found at i:4469586 original size:24 final size:26
Alignment explanation
Indices: 4469559--4469608 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
4469549 ATTGAACCTG
4469559 TTTTTTTACTTTTAA-AATTT-TTTA
1 TTTTTTTACTTTTAATAATTTATTTA
*
4469583 TTTTTTTATTTTTAATAATTTATTTA
1 TTTTTTTACTTTTAATAATTTATTTA
4469609 ATTAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.61
25 5 0.22
26 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTTTACTTTTAATAATTTATTTA
Found at i:4470718 original size:33 final size:33
Alignment explanation
Indices: 4470675--4470747 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
4470665 AAACTATAAG
4470675 TATG-TTTGCAAATATGGTTGGTAAGATGTATA
1 TATGTTTTGCAAATATGGTTGGTAAGATGTATA
4470707 TATGTTTTGCAAATATGGTTGGTAAGATGTATA
1 TATGTTTTGCAAATATGGTTGGTAAGATGTATA
4470740 TATGTTTT
1 TATGTTTT
4470748 AATTAAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 4 0.10
33 36 0.90
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (33 bp):
TATGTTTTGCAAATATGGTTGGTAAGATGTATA
Found at i:4473076 original size:10 final size:10
Alignment explanation
Indices: 4473048--4473086 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
4473038 AAAAAACATT
4473048 AATATATAAA
1 AATATATAAA
*
4473058 AAT-TTTAAA
1 AATATATAAA
4473067 AATATATAAA
1 AATATATAAA
*
4473077 AATAAATAAA
1 AATATATAAA
4473087 TATTTTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AATATATAAA
Found at i:4473080 original size:29 final size:32
Alignment explanation
Indices: 4473048--4473111 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
4473038 AAAAAACATT
*
4473048 AATATATAAAAATTTT-AAAAATAT-ATAA-A
1 AATAAATAAAAATTTTCAAAAATATAATAATA
*
4473077 AATAAATAAATATTTTCAAAAATATAATAATA
1 AATAAATAAAAATTTTCAAAAATATAATAATA
4473109 AAT
1 AAT
4473112 TTAAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 14 0.47
30 8 0.27
31 4 0.13
32 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (32 bp):
AATAAATAAAAATTTTCAAAAATATAATAATA
Found at i:4473110 original size:28 final size:29
Alignment explanation
Indices: 4473047--4473120 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
4473037 CAAAAAACAT
*
4473047 TAATATATAAAAATTTTAAAAATATATAA
1 TAATAAATAAAAATTTTAAAAATATATAA
* * *
4473076 AAATAAATAAATATTTTCAAAA-ATATAA
1 TAATAAATAAAAATTTTAAAAATATATAA
**
4473104 TAATAAATTTAAATTTT
1 TAATAAATAAAAATTTT
4473121 TATATTAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
TAATAAATAAAAATTTTAAAAATATATAA
Found at i:4473131 original size:6 final size:6
Alignment explanation
Indices: 4473122--4473146 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4473112 TTAAATTTTT
4473122 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
4473147 ATAAAATAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:4474824 original size:21 final size:21
Alignment explanation
Indices: 4474794--4474833 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4474784 GAGCTTGCCT
* *
4474794 TTATTTTTTTATTTTTAAATC
1 TTATTATTTTAATTTTAAATC
4474815 TTATTATTTTAATTTTAAA
1 TTATTATTTTAATTTTAAA
4474834 AAGATATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTATTTTAATTTTAAATC
Found at i:4480175 original size:16 final size:15
Alignment explanation
Indices: 4480151--4480184 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
4480141 AGATTAATTT
4480151 TATTTAAAATTAAAA
1 TATTTAAAATTAAAA
*
4480166 TATTTGAAAATTATAA
1 TATTT-AAAATTAAAA
4480182 TAT
1 TAT
4480185 ACCAAATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TATTTAAAATTAAAA
Found at i:4480412 original size:24 final size:27
Alignment explanation
Indices: 4480381--4480439 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
4480371 TATCGGATTA
4480381 ATTATTTA-ATATA-AA-T-ATATAATT
1 ATTATTTACATATATAATTAATATAA-T
4480405 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
4480433 ATTATTT
1 ATTATTT
4480440 TATAACATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 8 0.27
26 5 0.17
27 2 0.07
28 9 0.30
29 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:4485538 original size:20 final size:20
Alignment explanation
Indices: 4485513--4485553 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4485503 TATTTGACAC
* *
4485513 TCACTCATATTTTTTAATAT
1 TCACTCATAATTTTAAATAT
4485533 TCACTCATAATTTTAAATAT
1 TCACTCATAATTTTAAATAT
4485553 T
1 T
4485554 TCTTTGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
TCACTCATAATTTTAAATAT
Found at i:4486479 original size:15 final size:15
Alignment explanation
Indices: 4486453--4486489 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
4486443 CATGGTATGA
4486453 GTTTAT-GGGTTTTG
1 GTTTATAGGGTTTTG
4486467 GTTTATAGGGTTTTG
1 GTTTATAGGGTTTTG
4486482 G-TTATAGG
1 GTTTATAGG
4486490 CAAATGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (15 bp):
GTTTATAGGGTTTTG
Found at i:4513905 original size:15 final size:15
Alignment explanation
Indices: 4513883--4513962 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
4513873 GTATCTTGGG
4513883 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
4513898 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
4513913 TTTCTTTATTTTGGG
1 TTTCTTTATTCTGGA
*
4513928 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
4513943 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
4513957 TTTCTT
1 TTTCTT
4513963 CTTATCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.80
16 2 0.04
ACGTcount: A:0.10, C:0.15, G:0.14, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:4513919 original size:30 final size:30
Alignment explanation
Indices: 4513874--4513953 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
4513864 CATAGTATCG
* *
4513874 TATCTTGGGTTTCTTTATTCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* * *
4513904 TAT-TCTGGATTTCTTTATTTTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
4513934 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
4513954 GGTTTTCTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 1 0.02
30 40 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:4513943 original size:45 final size:44
Alignment explanation
Indices: 4513878--4513962 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
4513868 GTATCGTATC
*
4513878 TTGGGTTTCTTTATTCTGGATCTCTTTATTCTGGATTTCTTTATT
1 TTGGGTTTCTCTATTCTGGATCTCTTTATTC-GGATTTCTTTATT
* *
4513923 TTGGGTTTCTCTA-TCTTGGATTTCTTTATTCGGTTTTCTT
1 TTGGGTTTCTCTATTC-TGGATCTCTTTATTCGGATTTCTT
4513963 CTTATCTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 10 0.28
45 26 0.72
ACGTcount: A:0.09, C:0.14, G:0.16, T:0.60
Consensus pattern (44 bp):
TTGGGTTTCTCTATTCTGGATCTCTTTATTCGGATTTCTTTATT
Found at i:4516536 original size:52 final size:48
Alignment explanation
Indices: 4516472--4516617 Score: 145
Period size: 52 Copynumber: 3.0 Consensus size: 48
4516462 AAATGTGATT
* *
4516472 TCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATACGTGC
1 TCCGTATAAGACCATAGCTGGGCTATGGCATCGGAG---TGTGATACGTGA
* * *
4516523 TACTGTATAAGACCATATCTGGGATATGGCATC--AGTGTGATACGTGA
1 T-CCGTATAAGACCATAGCTGGGCTATGGCATCGGAGTGTGATACGTGA
* * * *
4516570 TCCGTGTAAGACCATGGCTGGGCTATGGCCTCGGTA-TGTGATATGTGA
1 TCCGTATAAGACCATAGCTGGGCTATGGCATCGG-AGTGTGATACGTGA
4516618 CTATGTGCAA
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
46 25 0.32
47 12 0.15
48 11 0.14
49 1 0.01
50 2 0.03
51 1 0.01
52 27 0.34
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (48 bp):
TCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGTGTGATACGTGA
Found at i:4526251 original size:21 final size:21
Alignment explanation
Indices: 4526225--4526279 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4526215 AACAGCGGTG
*
4526225 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* *
4526246 GCGGTGAAATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
4526267 GCAGTGAGATTAG
1 GCGGTGAGATTAG
4526280 AAACAGCGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:4530467 original size:25 final size:25
Alignment explanation
Indices: 4530419--4530468 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4530409 AGAAGAGAAC
4530419 ATGAAGAACGAAAGAAGAAAAAGGA
1 ATGAAGAACGAAAGAAGAAAAAGGA
*
4530444 ATGAAGAACGAAAGAAGGAAAAGGA
1 ATGAAGAACGAAAGAAGAAAAAGGA
4530469 GCCTTACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.30, T:0.04
Consensus pattern (25 bp):
ATGAAGAACGAAAGAAGAAAAAGGA
Found at i:4530815 original size:49 final size:48
Alignment explanation
Indices: 4530723--4530819 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
4530713 TTTCTTTGCT
* **
4530723 TAAAAACGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
*
4530771 TAAAAACGCCTAAGTCAGCTTTAACTCGCAACGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGC-CTAACTCGCAACGATAAAGGATTCAACAG
4530820 AATTCCCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 19 0.43
49 25 0.57
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
Found at i:4531090 original size:36 final size:36
Alignment explanation
Indices: 4531045--4531117 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
4531035 TACAATTAAA
* *
4531045 AGCTGTATACAATTAGAACTCTAAGCTTACATAATT
1 AGCTATATACAATTAGAACTCTAAGATTACATAATT
*
4531081 AGCTATATACAATTAGAACTCTAAGATTCCATAATT
1 AGCTATATACAATTAGAACTCTAAGATTACATAATT
4531117 A
1 A
4531118 TATCTTCTAG
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:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (36 bp):
AGCTATATACAATTAGAACTCTAAGATTACATAATT
Found at i:4535955 original size:49 final size:48
Alignment explanation
Indices: 4535863--4535959 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
4535853 TTTCTTTGCT
* * **
4535863 TAAAAATGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
* *
4535911 TAAAAACGCCTAAGTCAGCTTTAACTCGTAACGATAAAGGATTCAACAG
1 TAAAAACGCCTAAGTCAGC-CTAACTCGCAACGATAAAGGATTCAACAG
4535960 AATTCCCTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 18 0.43
49 24 0.57
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.23
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGGATTCAACAG
Found at i:4536230 original size:36 final size:36
Alignment explanation
Indices: 4536185--4536257 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
4536175 TACAATTAAA
* *
4536185 AGCTGTATACAATTAGAACTCTAAGCTTACATAATT
1 AGCTATATACAATTAGAACTCTAAGATTACATAATT
*
4536221 AGCTATATACAATTAGAACTCTAAGATTCCATAATT
1 AGCTATATACAATTAGAACTCTAAGATTACATAATT
4536257 A
1 A
4536258 TATCTTCTAG
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:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (36 bp):
AGCTATATACAATTAGAACTCTAAGATTACATAATT
Found at i:4538151 original size:11 final size:11
Alignment explanation
Indices: 4538137--4538181 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
4538127 TTTATTTTTA
4538137 TTTTAAAATAT
1 TTTTAAAATAT
4538148 TTTTAAAATACTT
1 TTTTAAAATA--T
* *
4538161 TTTTTATATAT
1 TTTTAAAATAT
4538172 TTTTAAAATA
1 TTTTAAAATA
4538182 AATTTTGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4539969 original size:19 final size:18
Alignment explanation
Indices: 4539947--4539985 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4539937 TGTGTTCTCT
*
4539947 TTTAATTGTGGGGCTATCA
1 TTTAA-TGTAGGGCTATCA
*
4539966 TTTAATGTAGGTCTATCA
1 TTTAATGTAGGGCTATCA
4539984 TT
1 TT
4539986 AGTTTAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (18 bp):
TTTAATGTAGGGCTATCA
Found at i:4540598 original size:11 final size:12
Alignment explanation
Indices: 4540579--4540610 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4540569 TTTCTTAATG
4540579 TATTTTTTTTGC
1 TATTTTTTTTGC
*
4540591 TATTTTTTTTGT
1 TATTTTTTTTGC
4540603 TATTTTTT
1 TATTTTTT
4540611 CACCATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.81
Consensus pattern (12 bp):
TATTTTTTTTGC
Found at i:4547513 original size:29 final size:30
Alignment explanation
Indices: 4547480--4547550 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
4547470 AAAAGTTATA
*
4547480 AAAATTATTTTGAAAAA-T-TAAAAATCAT-T
1 AAAATAATTTT-AAAAAGTATAAAAAT-ATCT
*
4547509 AAAATCA-TTTAAAAAGTATAAAAATATCT
1 AAAATAATTTTAAAAAGTATAAAAATATCT
4547538 AAAATAATTTTAA
1 AAAATAATTTTAA
4547551 TCTTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 5 0.14
28 6 0.17
29 20 0.56
30 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATAATTTTAAAAAGTATAAAAATATCT
Found at i:4551684 original size:3 final size:3
Alignment explanation
Indices: 4551678--4551703 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4551668 AAAGTAAGAA
4551678 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
4551704 AAAAGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:4556348 original size:16 final size:16
Alignment explanation
Indices: 4556312--4556350 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
4556302 GTTTGGTTCG
*
4556312 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAA
*
4556328 GTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
4556344 CTGTAAT
1 CTGTAAT
4556351 AGTATTATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:4556600 original size:56 final size:56
Alignment explanation
Indices: 4556492--4556613 Score: 140
Period size: 56 Copynumber: 2.2 Consensus size: 56
4556482 TTATTAATAT
* *
4556492 AAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAATTTAATA
1 AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAATTTAATA
* * * *
4556549 AAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAATTTACTA
1 AAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AATTTAATA
*
4556605 AAATCATAA
1 AAATAATAA
4556614 TATATAACGC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
55 4 0.07
56 29 0.54
57 21 0.39
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (56 bp):
AAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAATTTAATA
Found at i:4559757 original size:43 final size:43
Alignment explanation
Indices: 4559694--4559900 Score: 202
Period size: 43 Copynumber: 4.8 Consensus size: 43
4559684 AAAAAAAATT
* * * * *
4559694 CCGCTAAAGGTCAGGGTCTTTAGCGGCGCTTATTCCTCAAACG
1 CCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAACG
* * ***
4559737 CCGCTAAAGATCATGTTCTTTGGCGACGCTTCTTT-TGGAAACG
1 CCGCTAAAGATCATGTTCTTTAGCGGCGCTT-TTTCCACAAACG
*
4559780 CCGCTAAAGATCATGTTCTTTAGCAGCG-TTTTCTCCACAAACG
1 CCGCTAAAGATCATGTTCTTTAGCGGCGCTTTT-TCCACAAACG
* * **
4559823 CCACTAAAGGTCATGTTCTTTTAGCGGCGCTTTTTTGACAAACG
1 CCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTTCCACAAACG
* ** *
4559867 CCGCTAAAGACCATGACCTTTAGCAGCGCTTTTT
1 CCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTT
4559901 TTAAAAACGC
Statistics
Matches: 133, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 3 0.02
43 92 0.69
44 32 0.24
45 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (43 bp):
CCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAACG
Found at i:4559800 original size:86 final size:88
Alignment explanation
Indices: 4559694--4559897 Score: 245
Period size: 86 Copynumber: 2.4 Consensus size: 88
4559684 AAAAAAAATT
* * * * * *
4559694 CCGCTAAAGGTCAGGGTCTTTAGCGGCGCTTAT-TCCTCAAACGCCGCTAAAGATCATGTTC-TT
1 CCGCTAAAGATCATGATCTTTAGCAGCGCTTATCTCCACAAACGCCACTAAAGATCATGTTCTTT
* *
4559757 TGGCGACGCTTCTTTTG-GAAACG
66 TAGCGACGCTT-TTTTGACAAACG
* * *
4559780 CCGCTAAAGATCATGTTCTTTAGCAGCG-TTTTCTCCACAAACGCCACTAAAGGTCATGTTCTTT
1 CCGCTAAAGATCATGATCTTTAGCAGCGCTTATCTCCACAAACGCCACTAAAGATCATGTTCTTT
*
4559844 TAGCGGCGCTTTTTTGACAAACG
66 TAGCGACGCTTTTTTGACAAACG
* *
4559867 CCGCTAAAGACCATGACCTTTAGCAGCGCTT
1 CCGCTAAAGATCATGATCTTTAGCAGCGCTT
4559898 TTTTTAAAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
85 3 0.03
86 54 0.54
87 41 0.41
88 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (88 bp):
CCGCTAAAGATCATGATCTTTAGCAGCGCTTATCTCCACAAACGCCACTAAAGATCATGTTCTTT
TAGCGACGCTTTTTTGACAAACG
Found at i:4559893 original size:87 final size:86
Alignment explanation
Indices: 4559711--4559916 Score: 245
Period size: 87 Copynumber: 2.4 Consensus size: 86
4559701 AGGTCAGGGT
* * * * * *
4559711 CTTTAGCGGCGCTTATTCCTCAAACGCCGCTAAAGATCATGTTCTTTGGCGACGCTTCTTTTGGA
1 CTTTAGCAGCGCTTTTTCCACAAACGCCACTAAAGATCATGTTCTTTAGCGACGCTTCTTTTGCA
* **
4559776 AACGCCGCTAAAGATCATGTT
66 AACGCCGCTAAAGACCATGAC
* *
4559797 CTTTAGCAGCG-TTTTCTCCACAAACGCCACTAAAGGTCATGTTCTTTTAGCGGCGCTT-TTTTG
1 CTTTAGCAGCGCTTTT-TCCACAAACGCCACTAAAGATCATGTTC-TTTAGCGACGCTTCTTTTG
4559860 ACAAACGCCGCTAAAGACCATGAC
64 -CAAACGCCGCTAAAGACCATGAC
** *
4559884 CTTTAGCAGCGCTTTTTTTAAAAACGCCACTAA
1 CTTTAGCAGCGCTTTTTCCACAAACGCCACTAA
4559917 TTTTGGTAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
85 3 0.03
86 40 0.39
87 55 0.54
88 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (86 bp):
CTTTAGCAGCGCTTTTTCCACAAACGCCACTAAAGATCATGTTCTTTAGCGACGCTTCTTTTGCA
AACGCCGCTAAAGACCATGAC
Found at i:4562038 original size:9 final size:9
Alignment explanation
Indices: 4562024--4562118 Score: 69
Period size: 9 Copynumber: 11.2 Consensus size: 9
4562014 ATAATGTAAT
4562024 TAAGTTATG
1 TAAGTTATG
*
4562033 TAAGTTGTG
1 TAAGTTATG
4562042 T-A-TTAT-
1 TAAGTTATG
*
4562048 TAAAGTTAAG
1 T-AAGTTATG
4562058 T-A-TTATG
1 TAAGTTATG
* *
4562065 TCAGTTATT
1 TAAGTTATG
4562074 TAAGTTATG
1 TAAGTTATG
**
4562083 TAAGTGGTG
1 TAAGTTATG
4562092 T-A-TTATG
1 TAAGTTATG
*
4562099 TAAGTTAAG
1 TAAGTTATG
4562108 TAAGTTATG
1 TAAGTTATG
4562117 TA
1 TA
4562119 GGCTATGTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
6 1 0.02
7 12 0.18
8 6 0.09
9 45 0.69
10 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4562053 original size:25 final size:24
Alignment explanation
Indices: 4562022--4562118 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
4562012 GTATAATGTA
* *
4562022 ATTAAGTTATGTAAGTTGTGTATT
1 ATTAAGTTAAGTAAGTTATGTATT
4562046 ATTAAAGTTAAGT-A-TTATGTCAGTT
1 ATT-AAGTTAAGTAAGTTATGT-A-TT
* **
4562071 ATTTAAGTTATGTAAGTGGTGTATT
1 A-TTAAGTTAAGTAAGTTATGTATT
4562096 ATGTAAGTTAAGTAAGTTATGTA
1 AT-TAAGTTAAGTAAGTTATGTA
4562119 GGCTATGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 5 0.09
24 6 0.10
25 39 0.67
26 4 0.07
27 4 0.07
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (24 bp):
ATTAAGTTAAGTAAGTTATGTATT
Found at i:4562128 original size:34 final size:34
Alignment explanation
Indices: 4562057--4562163 Score: 91
Period size: 34 Copynumber: 3.3 Consensus size: 34
4562047 TTAAAGTTAA
* ** *
4562057 GTATTATGTCAGTTATTTAAGTTATGTAAGTGGT
1 GTATTATGTAAGTTAAGTAAGTTATGTAAGTGAT
*
4562091 GTATTATGTAAGTTAAGTAAGTTATGTAGGCT-AT
1 GTATTATGTAAGTTAAGTAAGTTATGTAAG-TGAT
* * *
4562125 GTATTACGCAAGTT-A-T---TTATGTAAGTGGT
1 GTATTATGTAAGTTAAGTAAGTTATGTAAGTGAT
4562154 GTATTATGTA
1 GTATTATGTA
4562164 TTATCTAAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
28 1 0.02
29 17 0.28
32 1 0.02
33 1 0.02
34 39 0.65
35 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (34 bp):
GTATTATGTAAGTTAAGTAAGTTATGTAAGTGAT
Found at i:4562341 original size:9 final size:9
Alignment explanation
Indices: 4562329--4562714 Score: 117
Period size: 9 Copynumber: 44.7 Consensus size: 9
4562319 GATAAATTTG
4562329 AGTTATGTA
1 AGTTATGTA
4562338 AGTTATGATA
1 AGTTATG-TA
* *
4562348 TGATT-TATA
1 AG-TTATGTA
4562357 AGTTATGT-
1 AGTTATGTA
* **
4562365 A-TAATACA
1 AGTTATGTA
*
4562373 AGTTATGAA
1 AGTTATGTA
4562382 AGTTATGT-
1 AGTTATGTA
* *
4562390 A-TCATTTA
1 AGTTATGTA
*
4562398 ATTTATGTA
1 AGTTATGTA
*
4562407 AGTTGTGT-
1 AGTTATGTA
*
4562415 A-TTATGCA
1 AGTTATGTA
*
4562423 AGTCATGTA
1 AGTTATGTA
* *
4562432 GGCTATGT-
1 AGTTATGTA
4562440 A-TTATGTA
1 AGTTATGTA
4562448 AGTTAT-TA
1 AGTTATGTA
*
4562456 TGTTATTATGTA
1 AG---TTATGTA
*
4562468 AGTTATGAA
1 AGTTATGTA
*
4562477 AGTTATATATA
1 AG-T-TATGTA
4562488 AGTTAT-TA
1 AGTTATGTA
**
4562496 A-AAATGT-
1 AGTTATGTA
4562503 A-TTATGTA
1 AGTTATGTA
*
4562511 ATTTATGTA
1 AGTTATGTA
*
4562520 AGTTGTGT-
1 AGTTATGTA
4562528 A-TTATGTA
1 AGTTATGTA
*
4562536 AGTCATGTA
1 AGTTATGTA
* *
4562545 GGCTATGT-
1 AGTTATGTA
4562553 A-TTATGTA
1 AGTTATGTA
*
4562561 AGTTATGAA
1 AGTTATGTA
*
4562570 AGTTTTATATA
1 AG--TTATGTA
*
4562581 AGTGAT-TA
1 AGTTATGTA
**
4562589 A-AAATGT-
1 AGTTATGTA
4562596 A-TTATGTA
1 AGTTATGTA
* *
4562604 ATTTATTTA
1 AGTTATGTA
4562613 AGTTATTATGTA
1 AG---TTATGTA
*
4562625 AGTTATGAA
1 AGTTATGTA
4562634 AGTTATGT-
1 AGTTATGTA
4562642 A-TTATGTA
1 AGTTATGTA
* *
4562650 ATTTATTTA
1 AGTTATGTA
4562659 AGTTATGTA
1 AGTTATGTA
*
4562668 AGTTGTGT-
1 AGTTATGTA
*
4562676 A-TTATGCA
1 AGTTATGTA
*
4562684 AGTCATGTA
1 AGTTATGTA
* *
4562693 GGCTATGT-
1 AGTTATGTA
4562701 A-TTATGTA
1 AGTTATGTA
4562709 AGTTAT
1 AGTTAT
4562715 TATGTTATTA
Statistics
Matches: 269, Mismatches: 70, Indels: 76
0.65 0.17 0.18
Matches are distributed among these distances:
7 55 0.20
8 30 0.11
9 148 0.55
10 6 0.02
11 19 0.07
12 11 0.04
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:4562409 original size:25 final size:25
Alignment explanation
Indices: 4562355--4562441 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 25
4562345 ATATGATTTA
4562355 TAAGTTATGTATAATACAAGTTATG
1 TAAGTTATGTATAATACAAGTTATG
* * ** *
4562380 AAAGTTATGTATCATTTAATTTATG
1 TAAGTTATGTATAATACAAGTTATG
* * * *
4562405 TAAGTTGTGTATTATGCAAGTCATG
1 TAAGTTATGTATAATACAAGTTATG
* *
4562430 TAGGCTATGTAT
1 TAAGTTATGTAT
4562442 TATGTAAGTT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (25 bp):
TAAGTTATGTATAATACAAGTTATG
Done.