Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10072460
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 70252 characters in sequence are not A, C, G, or T
File 17 of 20
Found at i:7633197 original size:30 final size:31
Alignment explanation
Indices: 7633156--7633216 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
7633146 ATTGTATAGC
* *
7633156 AATATGTTGAAAGGAGAT-GCAATTCAAAGA
1 AATATGATGAAAGGAAATGGCAATTCAAAGA
7633186 AATATGATGAAAGGAAATGGCAATTCAAAGA
1 AATATGATGAAAGGAAATGGCAATTCAAAGA
7633217 CTAAACCCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.21
Consensus pattern (31 bp):
AATATGATGAAAGGAAATGGCAATTCAAAGA
Found at i:7633359 original size:19 final size:18
Alignment explanation
Indices: 7633337--7633383 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7633327 CAAAAAATCA
*
7633337 TGAAAATCCGTCAAAACTT
1 TGAAAATCC-TCAAAACTC
*
7633356 TGAAAAACCTCAAAACTC
1 TGAAAATCCTCAAAACTC
*
7633374 TCAAAATCCT
1 TGAAAATCCT
7633384 GAAATCTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (18 bp):
TGAAAATCCTCAAAACTC
Found at i:7634195 original size:2 final size:2
Alignment explanation
Indices: 7634188--7634218 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7634178 ACACATATTC
7634188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7634219 ATTTAATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7654556 original size:27 final size:28
Alignment explanation
Indices: 7654494--7654557 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
7654484 TCAGGAAACT
* *
7654494 GATTTTTTATATTTTTAATATATTTAAA
1 GATTTTTTACATTTTTAATATATATAAA
* *
7654522 GATATTTTACA-TTTTAATTTATATATAA
1 GATTTTTTACATTTTTAATATATATA-AA
7654550 -ATTTTTTA
1 GATTTTTTA
7654558 ATATTATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (28 bp):
GATTTTTTACATTTTTAATATATATAAA
Found at i:7661446 original size:2 final size:2
Alignment explanation
Indices: 7661433--7661477 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
7661423 CTGAACAAGA
* *
7661433 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7661475 AG A
1 AG A
7661478 TCACTCGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7675621 original size:21 final size:21
Alignment explanation
Indices: 7675583--7675622 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7675573 ATGAATTTCT
*
7675583 TAATCATCAGAGTTCCAAAAG
1 TAATCATCAGACTTCCAAAAG
7675604 TAATCATCA-ACTTGCCAAA
1 TAATCATCAGACTT-CCAAA
7675623 CAACTAGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (21 bp):
TAATCATCAGACTTCCAAAAG
Found at i:7681613 original size:93 final size:93
Alignment explanation
Indices: 7681454--7681641 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 93
7681444 CAGGAGTGGA
7681454 AGAAAGTCCAGGAGAAACTAACGACTACAATTTGGCCGGTGTTGATGAGAGGTTGCCAATAGAAG
1 AGAAAGTCCAGGAGAAACTAACGACTACAATTTGGCCGGTGTTGATGAGAGGTTGCCAATAGAAG
*
7681519 GAGCAAAGCAGGAAAATATTGAAGAACC
66 GAGCAAAGCAGGAAAATATCGAAGAACC
7681547 AGAAAGTCCAGGAGAAACTAACGACTACAATTTGGCCGGTGTTGATGAGAGGTTGCCAATAGAAG
1 AGAAAGTCCAGGAGAAACTAACGACTACAATTTGGCCGGTGTTGATGAGAGGTTGCCAATAGAAG
7681612 GAGCAAAGCAGGAAAATATCGAAGAACC
66 GAGCAAAGCAGGAAAATATCGAAGAACC
7681640 AG
1 AG
7681642 CTTCTGTGGT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.16
Consensus pattern (93 bp):
AGAAAGTCCAGGAGAAACTAACGACTACAATTTGGCCGGTGTTGATGAGAGGTTGCCAATAGAAG
GAGCAAAGCAGGAAAATATCGAAGAACC
Found at i:7691114 original size:24 final size:24
Alignment explanation
Indices: 7691078--7691128 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
7691068 AATTTCACGC
* **
7691078 CTTTTTATCTGTTTTTATTCGATG
1 CTTTTTATATGTTGATATTCGATG
*
7691102 CTTTTTATATGTTGATATTTGATG
1 CTTTTTATATGTTGATATTCGATG
7691126 CTT
1 CTT
7691129 GGTCTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.61
Consensus pattern (24 bp):
CTTTTTATATGTTGATATTCGATG
Found at i:7711296 original size:4 final size:4
Alignment explanation
Indices: 7711287--7711313 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7711277 GAAGTAATGA
7711287 AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AAT
7711314 CAACGACACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7721024 original size:3 final size:3
Alignment explanation
Indices: 7721016--7721044 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7721006 TCTATTCTCT
7721016 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7721045 GACATTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7723700 original size:26 final size:26
Alignment explanation
Indices: 7723671--7723722 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
7723661 CATCTGATAC
* * *
7723671 TTTTATTT-TTTTCTATATTACAAAG
1 TTTTTTTTATTTTCTACATTAAAAAG
*
7723696 TTTTTTTTATTTTTTACATTAAAAAG
1 TTTTTTTTATTTTCTACATTAAAAAG
7723722 T
1 T
7723723 ATTGAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTTTTTATTTTCTACATTAAAAAG
Found at i:7725121 original size:21 final size:21
Alignment explanation
Indices: 7725080--7725121 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7725070 TGTTCTAGTT
* * *
7725080 TATTTTATTTTAAATATTTAA
1 TATTTGATTTTAAAAAATTAA
7725101 TATTTGATTTTAAAAAATTAA
1 TATTTGATTTTAAAAAATTAA
7725122 GCAATGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTTGATTTTAAAAAATTAA
Found at i:7733638 original size:21 final size:21
Alignment explanation
Indices: 7733614--7733657 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7733604 TCAATGCCTC
7733614 TTTTATAACCTTTGACCCAGA
1 TTTTATAACCTTTGACCCAGA
7733635 TTTTATAACCTTTGACCCAGA
1 TTTTATAACCTTTGACCCAGA
7733656 TT
1 TT
7733658 CTGAACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (21 bp):
TTTTATAACCTTTGACCCAGA
Found at i:7741023 original size:2 final size:2
Alignment explanation
Indices: 7741016--7741050 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7741006 TTCCCCCTGT
*
7741016 TC TC TC TC TC TC TC TG TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7741051 ACACATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.03, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7744493 original size:40 final size:41
Alignment explanation
Indices: 7744430--7744509 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
7744420 TTAGCTATTC
* * **
7744430 TTCATCTTAGTGGGGTTTTCTAACCTTGCCAAGATTGGTGG
1 TTCACCTTAGTGGAGTTTTCTAACCTCACCAAGATTGGTGG
*
7744471 TTCACCTTAGTGGAG-TTTCTAACCTCACCACGATTGGTG
1 TTCACCTTAGTGGAGTTTTCTAACCTCACCAAGATTGGTG
7744510 TCTTTCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 21 0.62
41 13 0.38
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TTCACCTTAGTGGAGTTTTCTAACCTCACCAAGATTGGTGG
Found at i:7746374 original size:11 final size:11
Alignment explanation
Indices: 7746358--7746382 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7746348 AAATATTTTA
7746358 TTAAAATAAAT
1 TTAAAATAAAT
7746369 TTAAAATAAAT
1 TTAAAATAAAT
7746380 TTA
1 TTA
7746383 TATATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAAATAAAT
Found at i:7746954 original size:20 final size:20
Alignment explanation
Indices: 7746929--7746967 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7746919 AGTAATTATA
* *
7746929 ATATGTTAATATGTCACATT
1 ATATGTTAACATATCACATT
7746949 ATATGTTAACATATCACAT
1 ATATGTTAACATATCACAT
7746968 CAATATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (20 bp):
ATATGTTAACATATCACATT
Found at i:7747348 original size:33 final size:34
Alignment explanation
Indices: 7747301--7747373 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
7747291 TTTCTCCCTT
*
7747301 AACAACTTGACGCAACTTTAT-CTAACCTGAGCCC
1 AACAACTGGACGCAACTTTATCCT-ACCTGAGCCC
*
7747335 -ACAACTGGGCGCAACTTTATCCTACCTGAGCCC
1 AACAACTGGACGCAACTTTATCCTACCTGAGCCC
7747368 AACAAC
1 AACAAC
7747374 CAGGATCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 28 0.80
34 7 0.20
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.21
Consensus pattern (34 bp):
AACAACTGGACGCAACTTTATCCTACCTGAGCCC
Found at i:7753723 original size:65 final size:66
Alignment explanation
Indices: 7753643--7753818 Score: 207
Period size: 66 Copynumber: 2.7 Consensus size: 66
7753633 TTCACCTATC
*
7753643 AGGCCCAA-ATCTAGGCCCAATAATGACCCATTAAGAAACAAAATTT-GTTAAACTTTGAAC-CA
1 AGGCCCAATAT-TAGGCCCAATAATGACCCATTAAGAAACAAAATTTGGTCAAACTTT-AACTCA
7753705 CTG
64 CTG
* * * * * * * *
7753708 AGGCTCAATATTAGGCCCGATGATTACCTATTAAGTAACAAAATTTGGTCCAACTTTAACTCATT
1 AGGCCCAATATTAGGCCCAATAATGACCCATTAAGAAACAAAATTTGGTCAAACTTTAACTCACT
7753773 G
66 G
*
7753774 AGGCCCAATGTTAGGCCCAA-AGATGACCCATTAAGAAACAAAATT
1 AGGCCCAATATTAGGCCCAATA-ATGACCCATTAAGAAACAAAATT
7753819 CCTCCCACCA
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
65 40 0.44
66 51 0.56
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (66 bp):
AGGCCCAATATTAGGCCCAATAATGACCCATTAAGAAACAAAATTTGGTCAAACTTTAACTCACT
G
Found at i:7753790 original size:66 final size:65
Alignment explanation
Indices: 7753587--7753818 Score: 220
Period size: 65 Copynumber: 3.6 Consensus size: 65
7753577 ACAAAGGCCC
* * * ** ** *
7753587 ATTAGGCCCACTGATGACCCATTAAGAAACTAAATGTTATCCTA-TTTTCACCTA-TCAGGCCCA
1 ATTAGGCCCAATGATGACCCATTAAGAAACAAAAT-TTGTCAAACTTTGAACC-ACTGAGGCCCA
7753650 A-
64 AT
* * *
7753651 ATCTAGGCCCAATAATGACCCATTAAGAAACAAAATTTGTTAAACTTTGAACCACTGAGGCTCAA
1 AT-TAGGCCCAATGATGACCCATTAAGAAACAAAATTTGTCAAACTTTGAACCACTGAGGCCCAA
7753716 T
65 T
* * * * * *
7753717 ATTAGGCCCGATGATTACCTATTAAGTAACAAAATTTGGTCCAACTTT-AACTCATTGAGGCCCA
1 ATTAGGCCCAATGATGACCCATTAAGAAACAAAATTT-GTCAAACTTTGAAC-CACTGAGGCCCA
7753781 AT
64 AT
* *
7753783 GTTAGGCCCAAAGATGACCCATTAAGAAACAAAATT
1 ATTAGGCCCAATGATGACCCATTAAGAAACAAAATT
7753819 CCTCCCACCA
Statistics
Matches: 136, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
64 7 0.05
65 77 0.57
66 52 0.38
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (65 bp):
ATTAGGCCCAATGATGACCCATTAAGAAACAAAATTTGTCAAACTTTGAACCACTGAGGCCCAAT
Found at i:7755597 original size:18 final size:18
Alignment explanation
Indices: 7755553--7755598 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
7755543 TAAAAAACTC
**
7755553 TTTAAAAAAAATAACTTT
1 TTTAAAAAAAATAAAATT
**
7755571 TTTTTAAAAAATAAAATT
1 TTTAAAAAAAATAAAATT
7755589 TTTAAAAAAA
1 TTTAAAAAAA
7755599 GAGCTTCAGG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTAAAAAAAATAAAATT
Found at i:7757187 original size:20 final size:20
Alignment explanation
Indices: 7757149--7757187 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7757139 ATAGTCTGTA
* * *
7757149 GAACAATTTTTTTAGAGGGT
1 GAACAAGTTTCTTACAGGGT
7757169 GAACAAGTTTCTTACAGGG
1 GAACAAGTTTCTTACAGGG
7757188 ATATGATAAC
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:0.26, T:0.33
Consensus pattern (20 bp):
GAACAAGTTTCTTACAGGGT
Found at i:7774128 original size:29 final size:30
Alignment explanation
Indices: 7774086--7774152 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
7774076 GATATTTTTT
*
7774086 TAATTAAAAGTT-AAATATTTCAATTGTAA
1 TAATTAAAAATTAAAATATTTCAATTGTAA
* * * *
7774115 TAATTAAAAATTAAAATTTTTTATTTTTAA
1 TAATTAAAAATTAAAATATTTCAATTGTAA
7774145 TAATTAAA
1 TAATTAAA
7774153 TGTTAAGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (30 bp):
TAATTAAAAATTAAAATATTTCAATTGTAA
Found at i:7774148 original size:30 final size:29
Alignment explanation
Indices: 7774078--7774152 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
7774068 AACATTTGGA
* *
7774078 TATTTTT-TTAATTAAAAGTTAAATATTT
1 TATTTTTAATAATTAAAAATTAAATATTT
* * * *
7774106 CAATTGTAATAATTAAAAATTAAAATTTTT
1 TATTTTTAATAATTAAAAATT-AAATATTT
7774136 TATTTTTAATAATTAAA
1 TATTTTTAATAATTAAA
7774153 TGTTAAGTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 4 0.11
29 11 0.31
30 21 0.58
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TATTTTTAATAATTAAAAATTAAATATTT
Found at i:7774234 original size:27 final size:27
Alignment explanation
Indices: 7774203--7774357 Score: 139
Period size: 27 Copynumber: 5.7 Consensus size: 27
7774193 TAGAAAATCG
*
7774203 TGTTAAAAATATAGTTATTATACGTTA
1 TGTTAAAAATTTAGTTATTATACGTTA
* * * * *
7774230 TGTTAAAAATTTAATTGTTACACATCA
1 TGTTAAAAATTTAGTTATTATACGTTA
* * * * *
7774257 TATTAAAAATGTAATTGTTATATGTTA
1 TGTTAAAAATTTAGTTATTATACGTTA
*
7774284 TGTTAAAAATTTAGTTATTATACGTCA
1 TGTTAAAAATTTAGTTATTATACGTTA
* *** * *
7774311 TATTAAAAAAAAAGTTGTTATACATTA
1 TGTTAAAAATTTAGTTATTATACGTTA
*
7774338 CGTTAAAAATTTAGTTATTA
1 TGTTAAAAATTTAGTTATTA
7774358 CATACTATAT
Statistics
Matches: 97, Mismatches: 31, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (27 bp):
TGTTAAAAATTTAGTTATTATACGTTA
Found at i:7774287 original size:54 final size:54
Alignment explanation
Indices: 7774205--7774359 Score: 195
Period size: 54 Copynumber: 2.9 Consensus size: 54
7774195 GAAAATCGTG
* * * *
7774205 TTAAAAATATAGTTATTATACGTTATGTTAAAAATTTAATTGTTACACATCATA
1 TTAAAAATATAATTGTTATACGTTATGTTAAAAATTTAGTTATTACACATCATA
* * * *
7774259 TTAAAAATGTAATTGTTATATGTTATGTTAAAAATTTAGTTATTATACGTCATA
1 TTAAAAATATAATTGTTATACGTTATGTTAAAAATTTAGTTATTACACATCATA
* * *
7774313 TTAAAAA-AAAAGTTGTTATACATTACGTTAAAAATTTAGTTATTACA
1 TTAAAAATATAA-TTGTTATACGTTATGTTAAAAATTTAGTTATTACA
7774360 TACTATATTG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.02
54 84 0.98
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (54 bp):
TTAAAAATATAATTGTTATACGTTATGTTAAAAATTTAGTTATTACACATCATA
Found at i:7774432 original size:24 final size:24
Alignment explanation
Indices: 7774405--7774460 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
7774395 TCAAAATTTT
**
7774405 AATTATTAAATGTTATTATGAAAA
1 AATTATTAAATGTTACGATGAAAA
*
7774429 AATTATTACATGTTACGATGAAAA
1 AATTATTAAATGTTACGATGAAAA
7774453 AATTATTA
1 AATTATTA
7774461 TACGTCATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (24 bp):
AATTATTAAATGTTACGATGAAAA
Found at i:7788929 original size:22 final size:23
Alignment explanation
Indices: 7788869--7788931 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
7788859 TTAATATTTG
*
7788869 TATTTTTACTAT-AAATATTGAA
1 TATTTTTAATATAAAATATTGAA
*
7788891 TA--TTTAATTATACAAAT-TTTAA
1 TATTTTTAA-TATA-AAATATTGAA
7788913 TATTTTTAATATAAAATAT
1 TATTTTTAATATAAAATAT
7788932 ATTAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 12 0.36
23 9 0.27
24 5 0.15
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTTTAATATAAAATATTGAA
Found at i:7794782 original size:62 final size:61
Alignment explanation
Indices: 7794683--7794804 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 61
7794673 CCTGATTCAA
* * * *
7794683 GGGTCATTTTTGTTAATACTAGGATTTGTGTCGTTCTCTTCCATTTCTTGTTGTCACATCT
1 GGGTCATTTTTGTTAATACGAGGATTTCTGTCATTCTCTTCCATTCCTTGTTGTCACATCT
7794744 GGGTCATTTTTTGTTAATACGAGGATTTCTGTCATTCTCTTCCATTCCTTGTTGTCACATC
1 GGGTCA-TTTTTGTTAATACGAGGATTTCTGTCATTCTCTTCCATTCCTTGTTGTCACATC
7794805 ATAAATTTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
61 6 0.11
62 50 0.89
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.48
Consensus pattern (61 bp):
GGGTCATTTTTGTTAATACGAGGATTTCTGTCATTCTCTTCCATTCCTTGTTGTCACATCT
Found at i:7805546 original size:15 final size:15
Alignment explanation
Indices: 7805521--7805562 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
7805511 GTTTCCCCAA
7805521 AATCTCTTTTTTTTTT
1 AATC-CTTTTTTTTTT
*
7805537 AATCCTTTTTCTTTT
1 AATCCTTTTTTTTTT
7805552 AAT-CTTTTTTT
1 AATCCTTTTTTT
7805563 ATATTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.29
15 13 0.54
16 4 0.17
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
AATCCTTTTTTTTTT
Found at i:7806312 original size:19 final size:19
Alignment explanation
Indices: 7806288--7806324 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7806278 TCTTCTTATT
7806288 TTTATTTAATTTAATTTTA
1 TTTATTTAATTTAATTTTA
* *
7806307 TTTATTTATTTTTATTTT
1 TTTATTTAATTTAATTTT
7806325 TAACAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTAATTTAATTTTA
Found at i:7824109 original size:17 final size:17
Alignment explanation
Indices: 7824087--7824123 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7824077 ACGTGCCCTG
7824087 AGTGCTAAGTGCTAAGT
1 AGTGCTAAGTGCTAAGT
7824104 AGTGCTAAGTGCTAAGT
1 AGTGCTAAGTGCTAAGT
7824121 AGT
1 AGT
7824124 TAGTAGTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (17 bp):
AGTGCTAAGTGCTAAGT
Found at i:7842409 original size:2 final size:2
Alignment explanation
Indices: 7842402--7842434 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7842392 GATACACCAA
7842402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7842435 CACACGCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7852321 original size:3 final size:3
Alignment explanation
Indices: 7852313--7852352 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
7852303 GAAGGAGAGG
*
7852313 AGA AGA AGA AGA AGA AGA AGA AGGA A-A AGA AGG AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA A
7852353 AGGACTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7854945 original size:2 final size:2
Alignment explanation
Indices: 7854938--7854967 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7854928 TAGCTACCTT
7854938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7854968 GCTTCACGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7862938 original size:21 final size:21
Alignment explanation
Indices: 7862924--7862988 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
7862914 TAAATTTTAT
7862924 TATAAAATTTTTAAAATAAAA
1 TATAAAATTTTTAAAATAAAA
7862945 TATAAAATTTTTAAAATAAAA
1 TATAAAATTTTTAAAATAAAA
*
7862966 TATAAAAATTTTAAAATAAAA
1 TATAAAATTTTTAAAATAAAA
7862987 TA
1 TA
7862989 CTTAAAATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAAAATTTTTAAAATAAAA
Found at i:7878712 original size:6 final size:6
Alignment explanation
Indices: 7878701--7878737 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
7878691 TACGGAGTGA
7878701 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATCTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT
7878738 TCATCCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:7894236 original size:17 final size:18
Alignment explanation
Indices: 7894214--7894247 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7894204 TTATAAATTT
7894214 TAAAT-ATTAAAAAAATC
1 TAAATAATTAAAAAAATC
*
7894231 TAAATAATTAAATAAAT
1 TAAATAATTAAAAAAAT
7894248 TATTCATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAATAATTAAAAAAATC
Found at i:7901239 original size:37 final size:37
Alignment explanation
Indices: 7901191--7901266 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
7901181 GATATAAGTT
7901191 AAAAGACTTGCTTAATGTTACTGCCAAAACACCAATA
1 AAAAGACTTGCTTAATGTTACTGCCAAAACACCAATA
7901228 AAAAGACTTGCTTAATGTTACTGCCAAAACACCAATA
1 AAAAGACTTGCTTAATGTTACTGCCAAAACACCAATA
7901265 AA
1 AA
7901267 GGACATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.24
Consensus pattern (37 bp):
AAAAGACTTGCTTAATGTTACTGCCAAAACACCAATA
Found at i:7911439 original size:24 final size:23
Alignment explanation
Indices: 7911386--7911451 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
7911376 TTTTTTAGTT
7911386 TTTAATATTAAAAATATTAAATA
1 TTTAATATTAAAAATATTAAATA
7911409 TTT-ATATTATAGAAAT-TTCAAA-A
1 TTTAATATTA-A-AAATATT-AAATA
7911432 TTTAATA-TAAAATATATTAA
1 TTTAATATTAAAA-ATATTAA
7911452 TATAAGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
21 2 0.05
22 11 0.30
23 14 0.38
24 10 0.27
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAATATTAAAAATATTAAATA
Found at i:7914288 original size:48 final size:49
Alignment explanation
Indices: 7914232--7914333 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 49
7914222 CAAGATACAA
*
7914232 TATAACAAGGTACTTCCTCTTAGCTTGAATTAGTATCGAAAA-CTTTAC
1 TATAACAAGGTACTTCCTCTTAGCATGAATTAGTATCGAAAACCTTTAC
7914280 TATAACAAGGTACTTCCTCTTAGCATGAATTAGTATCGAAAACCTTTAC
1 TATAACAAGGTACTTCCTCTTAGCATGAATTAGTATCGAAAACCTTTAC
7914329 TATAA
1 TATAA
7914334 TTCTGGTGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 41 0.79
49 11 0.21
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (49 bp):
TATAACAAGGTACTTCCTCTTAGCATGAATTAGTATCGAAAACCTTTAC
Found at i:7928813 original size:12 final size:11
Alignment explanation
Indices: 7928784--7928809 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7928774 GATTCAGTTT
7928784 GTTTAATTACG
1 GTTTAATTACG
7928795 GTTTAATTACG
1 GTTTAATTACG
7928806 GTTT
1 GTTT
7928810 TAATGGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (11 bp):
GTTTAATTACG
Found at i:7932004 original size:145 final size:146
Alignment explanation
Indices: 7931786--7932049 Score: 431
Period size: 145 Copynumber: 1.8 Consensus size: 146
7931776 AATTGTGTCT
* * * *
7931786 TCTGTATATGCTGCTTCATCTTTGTGCTTGAGATGTTTTATATATGTATGAATCTCAGCAAACAC
1 TCTGTATATGCAGCTCCATCTTTGTGCTTAAGATGTTTTATATAGGTATGAATCTCAGCAAACAC
** * *
7931851 TTGCTCTGGTGAGACGTTATAGTTTGTAATGATATTGTAATTTATTTGAAATCGTTGGTGTCTTC
66 TTGCTCTGGTGAGACCATATAGTTTGTAATGATATTGTAATGTATCTGAAATCGTTGGTGTCTTC
7931916 TGTTGAATGTTCTATG
131 TGTTGAATGTTCTATG
* *
7931932 TCTGTATATGCAGCTCCATCTTTGTGTTTAAGATG-TTTGTATAGGTATGAATCTCAGCAAACAC
1 TCTGTATATGCAGCTCCATCTTTGTGCTTAAGATGTTTTATATAGGTATGAATCTCAGCAAACAC
7931996 TTGCTCTGGTGAGACCATATAGTTTGTAATGATATTGTAATGTATCTGAAATCG
66 TTGCTCTGGTGAGACCATATAGTTTGTAATGATATTGTAATGTATCTGAAATCG
7932050 ATTTCTTTGA
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
145 77 0.71
146 31 0.29
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (146 bp):
TCTGTATATGCAGCTCCATCTTTGTGCTTAAGATGTTTTATATAGGTATGAATCTCAGCAAACAC
TTGCTCTGGTGAGACCATATAGTTTGTAATGATATTGTAATGTATCTGAAATCGTTGGTGTCTTC
TGTTGAATGTTCTATG
Found at i:7936152 original size:16 final size:16
Alignment explanation
Indices: 7936131--7936161 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7936121 TCGACGTATA
7936131 TTTAAATTAAAAATAT
1 TTTAAATTAAAAATAT
7936147 TTTAAATTAAAAATA
1 TTTAAATTAAAAATA
7936162 AAATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATTAAAAATAT
Found at i:7936595 original size:19 final size:19
Alignment explanation
Indices: 7936573--7936612 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7936563 TATACATATT
7936573 AAATAAAA-ATATTTTTAAA
1 AAATAAAATATA-TTTTAAA
*
7936592 AAATAATATATATTTTAAA
1 AAATAAAATATATTTTAAA
7936611 AA
1 AA
7936613 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAAAATATATTTTAAA
Found at i:7936611 original size:18 final size:18
Alignment explanation
Indices: 7936581--7936632 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
7936571 TTAAATAAAA
7936581 ATAT-TTTTAAAAAATAAT
1 ATATATTTT-AAAAATAAT
7936599 ATATATTTTAAAAATTAAT
1 ATATATTTTAAAAA-TAAT
*
7936618 -TAAATTTTATAAAAT
1 ATATATTTTA-AAAAT
7936633 TTTAATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATTTTAAAAATAAT
Found at i:7936617 original size:19 final size:19
Alignment explanation
Indices: 7936581--7936633 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
7936571 TTAAATAAAA
*
7936581 ATAT-TTTTAAAAAATAAT
1 ATATATTTTAAAAATTAAT
7936599 ATATATTTTAAAAATTAAT
1 ATATATTTTAAAAATTAAT
*
7936618 -TAAATTTTATAAAATT
1 ATATATTTTA-AAAATT
7936634 TTAATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATATTTTAAAAATTAAT
Found at i:7939460 original size:21 final size:19
Alignment explanation
Indices: 7939419--7939462 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
7939409 ATTAATTTAG
* *
7939419 ATATACAAAAAATATATAA
1 ATATAAAAAAAATATACAA
7939438 ATATAAAATAAAATAATACAA
1 ATATAAAA-AAAAT-ATACAA
7939459 ATAT
1 ATAT
7939463 TTATAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
ATATAAAAAAAATATACAA
Found at i:7939956 original size:24 final size:24
Alignment explanation
Indices: 7939912--7939961 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
7939902 AAATATCATT
7939912 TTTTTATAAAAAAAATTTAAACTTAA
1 TTTTTATAAAAAAAA-TTAAA-TTAA
*
7939938 TTTTTATAAAATAAA-TAAATTAA
1 TTTTTATAAAAAAAATTAAATTAA
7939961 T
1 T
7939962 ATACTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 4 0.17
26 14 0.61
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTTTATAAAAAAAATTAAATTAA
Found at i:7948883 original size:101 final size:101
Alignment explanation
Indices: 7948771--7948974 Score: 327
Period size: 101 Copynumber: 2.0 Consensus size: 101
7948761 GGACTTGAAA
* * ** *
7948771 ATGTAAGTTAGAATGGTTATCTTATATGGTCAAAGATTATATTATTTTATGAAGGGGGACAAAAT
1 ATGTAAGTTAGAATGGTCATCTTATATGGTCAAAGATTATATAATTGGATGAAGGGCGACAAAAT
*
7948836 TACATAATTAGATATGAGCATTGGTGCTATGCATAC
66 TACATAATTAGATATGAACATTGGTGCTATGCATAC
7948872 ATGTAAGTTAGAATGGTCATCTTATATGGTCAAAGATTATATAATTGGATGAAGGGCGACAAAAT
1 ATGTAAGTTAGAATGGTCATCTTATATGGTCAAAGATTATATAATTGGATGAAGGGCGACAAAAT
* * *
7948937 TACATAATTAGATGTGAATATTTGTGCTATGCATAC
66 TACATAATTAGATATGAACATTGGTGCTATGCATAC
7948973 AT
1 AT
7948975 TAAAATAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (101 bp):
ATGTAAGTTAGAATGGTCATCTTATATGGTCAAAGATTATATAATTGGATGAAGGGCGACAAAAT
TACATAATTAGATATGAACATTGGTGCTATGCATAC
Found at i:7969156 original size:24 final size:24
Alignment explanation
Indices: 7969129--7969176 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7969119 TCAAAAATAG
7969129 GAAATTTGTTGAATGTGGCTAATT
1 GAAATTTGTTGAATGTGGCTAATT
7969153 GAAATTTGTTGAATGTGGCTAATT
1 GAAATTTGTTGAATGTGGCTAATT
7969177 AACTTACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
GAAATTTGTTGAATGTGGCTAATT
Found at i:7974391 original size:5 final size:5
Alignment explanation
Indices: 7974383--7974448 Score: 55
Period size: 5 Copynumber: 13.2 Consensus size: 5
7974373 TAAGAATCAA
* ** *
7974383 AAAAT AAAAT AAAAT ATAAA- AAATT AAAAT -TTAT ATAAT ATAAAT AAAAT
1 AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT
*
7974433 AAATT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT A
7974449 TATAATATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
4 4 0.08
5 38 0.78
6 7 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (5 bp):
AAAAT
Found at i:7974421 original size:50 final size:50
Alignment explanation
Indices: 7974333--7974486 Score: 145
Period size: 50 Copynumber: 3.0 Consensus size: 50
7974323 ATAATGTTAT
* * * *
7974333 AATTAAAATAAAA-ATATTAAAATAATATATATATATAATATAAGAATCAAA-A
1 AATTAAAATAAAATATA-AAAAATAAAAAAT-TATATAATAT-A-AATAAAATA
* *
7974385 AA-TAAAATAAAATATAAAAAATTAAAATTTATATAATATAAATAAAATA
1 AATTAAAATAAAATATAAAAAATAAAAAATTATATAATATAAATAAAATA
* * *
7974434 AATTAAAATAAAATATATAATATAAAAAATTATATTAA-AGAAATAAAAATA
1 AATTAAAATAAAATATAAAAAATAAAAAATTATA-TAATATAAAT-AAAATA
7974485 AA
1 AA
7974487 ATATATAAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
48 6 0.07
49 4 0.05
50 42 0.49
51 29 0.34
52 5 0.06
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (50 bp):
AATTAAAATAAAATATAAAAAATAAAAAATTATATAATATAAATAAAATA
Found at i:7974424 original size:57 final size:54
Alignment explanation
Indices: 7974336--7974465 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 54
7974326 ATGTTATAAT
* *
7974336 TAAAATA-AAAATATTAAAATAATATATATATATAATATAAGAATCAA-AAAATAAAA
1 TAAAATATAAAAAATTAAAATAATAT-TA-ATATAA-ATAA-AATAAATAAAATAAAA
*
7974392 TAAAATATAAAAAATTAAAAT-TTATATAATATAAATAAAATAAATTAAAATAAAA
1 TAAAATATAAAAAATTAAAATAATAT-TAATATAAATAAAATAAA-TAAAATAAAA
7974447 TATATAATATAAAAAATTA
1 TA-A-AATATAAAAAATTA
7974466 TATTAAAGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
53 5 0.08
54 4 0.06
55 17 0.26
56 14 0.21
57 26 0.39
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.31
Consensus pattern (54 bp):
TAAAATATAAAAAATTAAAATAATATTAATATAAATAAAATAAATAAAATAAAA
Found at i:7974444 original size:24 final size:24
Alignment explanation
Indices: 7974395--7974459 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
7974385 AATAAAATAA
* * *
7974395 AATATAAA-AAATTAAAATTTATAT
1 AATATAAATAAAAT-AAATTAAAAT
7974419 AATATAAATAAAATAAATTAAAAT
1 AATATAAATAAAATAAATTAAAAT
* * *
7974443 AAAATATATAATATAAA
1 AATATAAATAAAATAAA
7974460 AAATTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATATAAATAAAATAAATTAAAAT
Found at i:7974500 original size:34 final size:33
Alignment explanation
Indices: 7974439--7974525 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
7974429 AAATAAATTA
* * *
7974439 AAATAAAATATATAATATAAAAAATTATATTAAAG
1 AAATAAAA-ATAAAATATATAAAATTATAAT-AAG
* *
7974474 AAATAAAAATAAAATATATAAGATTATAATAAT
1 AAATAAAAATAAAATATATAAAATTATAATAAG
*
7974507 AAATGAAAATAAAATATAT
1 AAATAAAAATAAAATATAT
7974526 GACATTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 20 0.43
34 18 0.39
35 8 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (33 bp):
AAATAAAAATAAAATATATAAAATTATAATAAG
Found at i:7974522 original size:15 final size:14
Alignment explanation
Indices: 7974383--7974522 Score: 63
Period size: 15 Copynumber: 9.4 Consensus size: 14
7974373 TAAGAATCAA
7974383 AAAATAAAATAAAAT
1 AAAAT-AAATAAAAT
7974398 ATAAA-AAATTAAAAT
1 A-AAATAAA-TAAAAT
**
7974413 -TTATATAATATAAAT
1 AAAATA-AATA-AAAT
7974428 AAAATAAATTAAAAT
1 AAAATAAA-TAAAAT
* *
7974443 AAAATATATAATAT
1 AAAATAAATAAAAT
* *
7974457 -AAA-AAATTATAT
1 AAAATAAATAAAAT
* *
7974469 TAAAGAAATAAAAAT
1 AAAATAAAT-AAAAT
*
7974484 AAAATATATAAGATTAT
1 AAAATAAATAA-A--AT
7974501 AATAATAAATGAAAAT
1 AA-AATAAAT-AAAAT
7974517 AAAATA
1 AAAATA
7974523 TATGACATTC
Statistics
Matches: 96, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
12 7 0.07
13 7 0.07
14 17 0.18
15 40 0.42
16 12 0.12
17 4 0.04
18 7 0.07
19 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:7974527 original size:15 final size:14
Alignment explanation
Indices: 7974336--7974525 Score: 74
Period size: 14 Copynumber: 13.1 Consensus size: 14
7974326 ATGTTATAAT
7974336 TAAAATAAAA-ATA
1 TAAAATAAAATATA
7974349 TTAAAATAATATATATA
1 -TAAAATAA-A-ATATA
7974366 TATAATATAAGAATCA-A
1 TA-AA-ATAA-AAT-ATA
7974383 -AAAATAAAATA-A
1 TAAAATAAAATATA
* *
7974395 -AATATAAAAAAT-
1 TAAAATAAAATATA
**
7974407 TAAAAT-TTATATAA
1 TAAAATAAAATAT-A
*
7974421 TATAAATAAAATAAA
1 TA-AAATAAAATATA
7974436 TTAAAATAAAATATA
1 -TAAAATAAAATATA
* *
7974451 TAATATAAAAAAT-
1 TAAAATAAAATATA
* * *
7974464 TATATTAAAGAAATA
1 TAAAATAAA-ATATA
7974479 -AAAATAAAATATA
1 TAAAATAAAATATA
*
7974492 TAAGATTATAATAATAAA
1 TAA-A--ATAA-AATATA
7974510 TGAAAATAAAATATA
1 T-AAAATAAAATATA
7974525 T
1 T
7974526 GACATTCAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 41
0.68 0.11 0.21
Matches are distributed among these distances:
12 14 0.10
13 17 0.13
14 37 0.28
15 26 0.19
16 13 0.10
17 12 0.09
18 13 0.10
19 2 0.01
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.31
Consensus pattern (14 bp):
TAAAATAAAATATA
Found at i:7980302 original size:79 final size:79
Alignment explanation
Indices: 7980142--7980300 Score: 187
Period size: 80 Copynumber: 2.0 Consensus size: 79
7980132 AGTACAAAGT
* * * * *
7980142 AGGGTTGGGCTATTAACTTTTTACAAGAAAGGATTGCACAAAAGTGAGATTTCATTAAAAATATG
1 AGGGTTGGCCTATGAACTTTTGACAAGAAAAGATTGCACAAAAGTGAGATTTCATTAAAAATATA
7980207 TAAGAGTACAGAAA
66 TAAGAGTACAGAAA
* *
7980221 AGGGTTGGCCTATGAACTTTTGACAATAAAAGATTG-ACCAAAAAGTCG-GATTTCATTAAATAT
1 AGGGTTGGCCTATGAACTTTTGACAAGAAAAGATTGCA-C-AAAAGT-GAGATTTCATTAAAAAT
* * *
7980284 TTATAGGAGTATAGAAA
63 ATATAAGAGTACAGAAA
7980301 GGTAAGAGTG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 32 0.48
80 33 0.49
81 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (79 bp):
AGGGTTGGCCTATGAACTTTTGACAAGAAAAGATTGCACAAAAGTGAGATTTCATTAAAAATATA
TAAGAGTACAGAAA
Found at i:7981198 original size:212 final size:212
Alignment explanation
Indices: 7980799--7981234 Score: 626
Period size: 212 Copynumber: 2.1 Consensus size: 212
7980789 AATATTATGA
* *
7980799 ATATATATAATTATATAAATATATTACATATACATATATTTAATTTAGAGATAAGCATTACTACA
1 ATATATATAA-TAAATAAATATATTACATATACATATATTTAATTTAGACATAAGCATTACTACA
* * * **
7980864 ATTTATAATAGATTTTATTTATAAGATTACACTTAATAATTTTATTAGTTATCACATTAGATGCT
65 ACTTAGAATAAATTTTATTTATAAGATTACACTTAATAATTTTATTAGCCATCACATTAGATGCT
*
7980929 ATAACATATTGTTTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTTTAACATATA
130 ATAACATAATGTTTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTTTAACATATA
* * *
7980994 ATTTGTATAATTGA-TT-
195 AGTTATATAATTAATTTC
* *
7981010 ATATATATAATAAAGT-AATATATTATATATATGCATATATTTAATTTATACATAAGCATTACTA
1 ATATATATAATAAA-TAAATATATTACATATA--CATATATTTAATTTAGACATAAGCATTACTA
* * * *
7981074 TAACTTAGAATAAATTTTATTTATATGATTACACTTAATAATTTTATTAGCCATCACCTTAGATT
63 CAACTTAGAATAAATTTTATTTATAAGATTACACTTAATAATTTTATTAGCCATCACATTAGATG
* * *
7981139 TTTTAACATAATGTTTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTTTAACATG
128 CTATAACATAATGTTTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTTTAACATA
*
7981204 TAAGTTATATCATTAATTTC
193 TAAGTTATATAATTAATTTC
7981224 ATATATATAAT
1 ATATATATAAT
7981235 TATGAATGAA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
210 17 0.09
211 11 0.06
212 158 0.79
213 2 0.01
214 11 0.06
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (212 bp):
ATATATATAATAAATAAATATATTACATATACATATATTTAATTTAGACATAAGCATTACTACAA
CTTAGAATAAATTTTATTTATAAGATTACACTTAATAATTTTATTAGCCATCACATTAGATGCTA
TAACATAATGTTTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTTTAACATATAA
GTTATATAATTAATTTC
Found at i:7981930 original size:34 final size:34
Alignment explanation
Indices: 7981882--7981953 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
7981872 ATGGCAAACC
* * *
7981882 TTTGACATTAACAGCAAATAGATATTTGGTATAT
1 TTTGACATTAACAGCAAACAGACATTTGATATAT
*
7981916 TTTGACATTGACAGCAAACAGACATTTGATATAT
1 TTTGACATTAACAGCAAACAGACATTTGATATAT
7981950 TTTG
1 TTTG
7981954 TAAGAAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (34 bp):
TTTGACATTAACAGCAAACAGACATTTGATATAT
Found at i:7986685 original size:21 final size:20
Alignment explanation
Indices: 7986643--7986688 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
7986633 ATTAATATAT
*
7986643 TACTATATATAGTTATTATA
1 TACTATATATAGTTATAATA
7986663 TACT-TATATAGTGTATAAGTA
1 TACTATATATAGT-TATAA-TA
7986684 TACTA
1 TACTA
7986689 AGAAGCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 8 0.36
20 8 0.36
21 6 0.27
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (20 bp):
TACTATATATAGTTATAATA
Found at i:7991220 original size:29 final size:31
Alignment explanation
Indices: 7991166--7991234 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
7991156 AAATAGATTG
* *
7991166 AATTAAAATAATTTTTAAAATTAAAAAATTA
1 AATTAAAATAATTTTTAAAATAAAAAAACTA
* *
7991197 AATTAATATAA-TTTT-AAATAAAAAGACTA
1 AATTAAAATAATTTTTAAAATAAAAAAACTA
7991226 AATTGAAAA
1 AATT-AAAA
7991235 AAATCATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 15 0.47
30 7 0.22
31 10 0.31
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (31 bp):
AATTAAAATAATTTTTAAAATAAAAAAACTA
Found at i:7993175 original size:2 final size:2
Alignment explanation
Indices: 7993168--7993192 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7993158 TCACATACTG
7993168 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7993193 GTATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7993498 original size:29 final size:29
Alignment explanation
Indices: 7993462--7993555 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
7993452 CAAAAATATA
*
7993462 TTACACGCCTTGTTGAAAAAATATTATTG
1 TTACACGCCTTATTGAAAAAATATTATTG
** * * *
7993491 TTACACGCAATATTGAATAAAGATTGTTG
1 TTACACGCCTTATTGAAAAAATATTATTG
*
7993520 TTACATG-CTATATTGAAAAAATATTATTG
1 TTACACGCCT-TATTGAAAAAATATTATTG
7993549 TTACACG
1 TTACACG
7993556 TCATATTTAA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (29 bp):
TTACACGCCTTATTGAAAAAATATTATTG
Found at i:7993567 original size:29 final size:29
Alignment explanation
Indices: 7993474--7993555 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
7993464 ACACGCCTTG
7993474 TTGAAAAAATATTATTGTTACACGCAATA
1 TTGAAAAAATATTATTGTTACACGCAATA
* * * * *
7993503 TTGAATAAAGATTGTTGTTACATGCTATA
1 TTGAAAAAATATTATTGTTACACGCAATA
7993532 TTGAAAAAATATTATTGTTACACG
1 TTGAAAAAATATTATTGTTACACG
7993556 TCATATTTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (29 bp):
TTGAAAAAATATTATTGTTACACGCAATA
Found at i:7993806 original size:23 final size:22
Alignment explanation
Indices: 7993767--7993809 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7993757 AAAAATTTTC
*
7993767 TTTCAAAACTTAGGTTTATAAA
1 TTTCAAAACTTAAGTTTATAAA
*
7993789 TTTCAAATTCTTAAGTTTATA
1 TTTCAAA-ACTTAAGTTTATA
7993810 GGTGTCTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTCAAAACTTAAGTTTATAAA
Found at i:7993995 original size:22 final size:23
Alignment explanation
Indices: 7993961--7994003 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7993951 TAGTGTCTTG
*
7993961 AAAGTGTAAAAAA-AGAAATCTA
1 AAAGTGCAAAAAAGAGAAATCTA
*
7993983 AAAGTGCAGAAAAGAGAAATC
1 AAAGTGCAAAAAAGAGAAATC
7994004 GATAGCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.60, C:0.07, G:0.19, T:0.14
Consensus pattern (23 bp):
AAAGTGCAAAAAAGAGAAATCTA
Found at i:7994000 original size:23 final size:22
Alignment explanation
Indices: 7993961--7994003 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7993951 TAGTGTCTTG
*
7993961 AAAGTGTAAAAAAAGAAATCTA
1 AAAGTGCAAAAAAAGAAATCTA
*
7993983 AAAGTGCAGAAAAGAGAAATC
1 AAAGTGCA-AAAAAAGAAATC
7994004 GATAGCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.60, C:0.07, G:0.19, T:0.14
Consensus pattern (22 bp):
AAAGTGCAAAAAAAGAAATCTA
Found at i:7994499 original size:5 final size:5
Alignment explanation
Indices: 7994485--7994644 Score: 51
Period size: 5 Copynumber: 31.2 Consensus size: 5
7994475 TAATAATTGG
* * * * *
7994485 TATCA TATCA CATCA TATCA TAT-A -ATAA TTGATTA TATCA TATCG CATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA -T-ATCA TATCA TATCA TATCA
** * * * *
7994535 TATTG TATCA TATTA TATTA TAATAA TGGATCA TATAA TATC- TCATCA
1 TATCA TATCA TATCA TATCA T-ATCA T--ATCA TATCA TATCA T-ATCA
* * **
7994583 TATCG TATCA TATCA TAT-- TGATCA TATAA TAATTGG TATCA TATCA
1 TATCA TATCA TATCA TATCA T-ATCA TATCA T-A-TCA TATCA TATCA
* *
7994629 CATCT TATCA TATCA T
1 TATCA TATCA TATCA T
7994645 GCAATAATTG
Statistics
Matches: 113, Mismatches: 29, Indels: 26
0.67 0.17 0.15
Matches are distributed among these distances:
3 3 0.03
4 5 0.04
5 87 0.77
6 9 0.08
7 9 0.08
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (5 bp):
TATCA
Found at i:7994509 original size:32 final size:31
Alignment explanation
Indices: 7994453--7994515 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7994443 TAATCGTATC
* * *
7994453 GTATCATATCATATTAATCTTATAATAATTG
1 GTATCATATCACATCAATCATATAATAATTG
7994484 GTATCATATCACATCATATCATATAATAATTG
1 GTATCATATCACATCA-ATCATATAATAATTG
7994516 ATTATATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (31 bp):
GTATCATATCACATCAATCATATAATAATTG
Found at i:7994576 original size:48 final size:48
Alignment explanation
Indices: 7994485--7994601 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
7994475 TAATAATTGG
* * * * *
7994485 TATCATATCACATCATATCATATAATAATTGATTATATCATATCGCATCA
1 TATCGTATCATATCATAT--TATAATAATGGATCATATAATATCGCATCA
* * *
7994535 TATTGTATCATATTATATTATAATAATGGATCATATAATATCTCATCA
1 TATCGTATCATATCATATTATAATAATGGATCATATAATATCGCATCA
7994583 TATCGTATCATATCATATT
1 TATCGTATCATATCATATT
7994602 GATCATATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 43 0.75
50 14 0.25
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (48 bp):
TATCGTATCATATCATATTATAATAATGGATCATATAATATCGCATCA
Found at i:7996789 original size:17 final size:17
Alignment explanation
Indices: 7996767--7996800 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7996757 ATTAAACTGT
7996767 TGCAACTCAAAATCAGG
1 TGCAACTCAAAATCAGG
7996784 TGCAACTCAAAATCAGG
1 TGCAACTCAAAATCAGG
7996801 GCTGGCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (17 bp):
TGCAACTCAAAATCAGG
Found at i:8016445 original size:16 final size:16
Alignment explanation
Indices: 8016408--8016438 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8016398 TTTAAAAAGT
8016408 TAAAAAATATAAAATA
1 TAAAAAATATAAAATA
8016424 TAAAAAATATAAAAT
1 TAAAAAATATAAAAT
8016439 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAATATAAAATA
Found at i:8045247 original size:2 final size:2
Alignment explanation
Indices: 8045240--8045271 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8045230 CCATTTATTT
*
8045240 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8045272 CAATTAACGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8048788 original size:7 final size:7
Alignment explanation
Indices: 8048738--8048813 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
8048728 TTAATTATCA
8048738 ATAATAT
1 ATAATAT
8048745 ATAAT-T
1 ATAATAT
*
8048751 AAAATAT
1 ATAATAT
*
8048758 ATTATAT
1 ATAATAT
*
8048765 ATAAACAT
1 AT-AATAT
8048773 AATTAATAT
1 -A-TAATAT
8048782 ATAATAT
1 ATAATAT
*
8048789 AAAATAT
1 ATAATAT
*
8048796 -TAATAG
1 ATAATAT
8048802 A-AAT-T
1 ATAATAT
8048807 ATAATAT
1 ATAATAT
8048814 TTTCAATTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
5 1 0.02
6 15 0.29
7 26 0.50
8 4 0.08
9 5 0.10
10 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (7 bp):
ATAATAT
Found at i:8048799 original size:20 final size:20
Alignment explanation
Indices: 8048739--8048834 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
8048729 TAATTATCAA
8048739 TAATATATAAT-TAAAATA-
1 TAATATATAATATAAAATAT
8048757 T-AT-TAT-ATATAAACATAAT
1 TAATATATAATATAAA-AT-AT
8048776 TAATATATAATATAAAATAT
1 TAATATATAATATAAAATAT
* * *
8048796 TAATAGA-AATTATAATATTT
1 TAATATATAA-TATAAAATAT
*
8048816 TCA-AT-TAATATAAAATAT
1 TAATATATAATATAAAATAT
8048834 T
1 T
8048835 GAAAAATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.03
16 7 0.11
17 4 0.06
18 11 0.18
19 6 0.10
20 20 0.32
21 5 0.08
22 7 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (20 bp):
TAATATATAATATAAAATAT
Found at i:8052192 original size:26 final size:26
Alignment explanation
Indices: 8052156--8052207 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8052146 GGGTGTAGAT
8052156 TTAAGTGAAATAAAGGCATGCAAACA
1 TTAAGTGAAATAAAGGCATGCAAACA
8052182 TTAAGTGAAATAAAGGCATGCAAACA
1 TTAAGTGAAATAAAGGCATGCAAACA
8052208 CAGAAAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (26 bp):
TTAAGTGAAATAAAGGCATGCAAACA
Found at i:8070159 original size:18 final size:18
Alignment explanation
Indices: 8070124--8070157 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8070114 TACTTTTAAA
8070124 TTTATATTTAAATAAAAT
1 TTTATATTTAAATAAAAT
*
8070142 TTTA-ATTTTAATAAAA
1 TTTATATTTAAATAAAA
8070158 ATGAACAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATTTAAATAAAAT
Found at i:8080267 original size:18 final size:16
Alignment explanation
Indices: 8080245--8080275 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8080235 AAAAGTAACT
8080245 ATTTTTTAAAAAATAA
1 ATTTTTTAAAAAATAA
8080261 ATTTTTTAAAAAATA
1 ATTTTTTAAAAAATA
8080276 GTTTCAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTTTAAAAAATAA
Found at i:8084939 original size:2 final size:2
Alignment explanation
Indices: 8084932--8084963 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8084922 ATTTCATAGC
8084932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8084964 GCTTTACGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8095470 original size:4 final size:4
Alignment explanation
Indices: 8095461--8095490 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
8095451 GTGAGTTTTT
8095461 TTAA TTAA TTAA TTAA TTAA TTAA TATAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T-TAA T
8095491 AATACAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:8096429 original size:24 final size:25
Alignment explanation
Indices: 8096387--8096433 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
8096377 ACCCCGCCCC
**
8096387 CTTTTTTTTATTTTTTATTTTTACT
1 CTTTTTTTTATTTGGTATTTTTACT
8096412 CTTTTTTTT-TTTGGTATTTTTA
1 CTTTTTTTTATTTGGTATTTTTA
8096434 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (25 bp):
CTTTTTTTTATTTGGTATTTTTACT
Found at i:8112821 original size:27 final size:27
Alignment explanation
Indices: 8112782--8112841 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
8112772 GAAACTCTAT
*
8112782 AAGCACGACAAAAGTATTCTCCTTGAA
1 AAGCACGACAAAAGCATTCTCCTTGAA
*
8112809 AAGCACGATAAAAGCATTCTCCTTGAA
1 AAGCACGACAAAAGCATTCTCCTTGAA
*
8112836 TAGCAC
1 AAGCAC
8112842 TGACTATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (27 bp):
AAGCACGACAAAAGCATTCTCCTTGAA
Found at i:8116142 original size:2 final size:2
Alignment explanation
Indices: 8116135--8116169 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8116125 ATCCCACTTG
8116135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8116170 CTATTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8119974 original size:41 final size:41
Alignment explanation
Indices: 8119914--8119996 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
8119904 GCATTTTTTC
* *
8119914 CAAAAGTCGAGTTGCTAAGAAATGGTTGAATATGGGGCCTA
1 CAAAAGTCGAGTTGATAAGAAATGGTTGAATAAGGGGCCTA
8119955 CAAAAGTCGAGTTGATAAGAAATGGTTGAATAAGGGGCCTA
1 CAAAAGTCGAGTTGATAAGAAATGGTTGAATAAGGGGCCTA
8119996 C
1 C
8119997 GGTCCTACAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (41 bp):
CAAAAGTCGAGTTGATAAGAAATGGTTGAATAAGGGGCCTA
Found at i:8121332 original size:16 final size:17
Alignment explanation
Indices: 8121293--8121332 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8121283 TTTTAAATTA
* *
8121293 AAAAAATAATATTTTTT
1 AAAAATTAATATTATTT
8121310 AAAAATTAA-ATTATTT
1 AAAAATTAATATTATTT
8121326 AAAAATT
1 AAAAATT
8121333 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTAATATTATTT
Found at i:8121636 original size:18 final size:18
Alignment explanation
Indices: 8121602--8121645 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8121592 GACATAAAAA
8121602 TAATAAATATTATATTAAT
1 TAAT-AATATTATATTAAT
8121621 TAATAATAGTTA-ATTAAT
1 TAATAATA-TTATATTAAT
*
8121639 TATTAAT
1 TAATAAT
8121646 TATGAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TAATAATATTATATTAAT
Found at i:8123054 original size:3 final size:3
Alignment explanation
Indices: 8123046--8123074 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8123036 GAAAGCGGCT
8123046 TCC TCC TCC TCC TCC TCC TCC TCC -CC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
8123075 GCCGGATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
TCC
Found at i:8129707 original size:24 final size:24
Alignment explanation
Indices: 8129675--8129722 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8129665 AGTGTACATG
8129675 ATAGTTTCTCAGATGTTTTAATAT
1 ATAGTTTCTCAGATGTTTTAATAT
*
8129699 ATAGTTTCTTAGATGTTTTAATAT
1 ATAGTTTCTCAGATGTTTTAATAT
8129723 TATAATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (24 bp):
ATAGTTTCTCAGATGTTTTAATAT
Found at i:8134477 original size:45 final size:45
Alignment explanation
Indices: 8134409--8134610 Score: 244
Period size: 45 Copynumber: 4.5 Consensus size: 45
8134399 GAAATTACAC
* * * * * *
8134409 GTTAGGATGTTATACATCGTGTACAGAAACATGTTATACGCCATG
1 GTTAGGTTGTTACACGTCATGTACAAAAACATGTTACACGCCATG
* * * *
8134454 GTTAGGTTGTTACATGTCATGTACAAAAACGTGTAACACACCATG
1 GTTAGGTTGTTACACGTCATGTACAAAAACATGTTACACGCCATG
* * * * *
8134499 GTTAGGTTGTTATACGTAATGTACAAAAATATGTGACACGTCATG
1 GTTAGGTTGTTACACGTCATGTACAAAAACATGTTACACGCCATG
8134544 GTTAAGG-TGTTACACGTCATGTACAAAAACATGTTACACGCCATG
1 GTT-AGGTTGTTACACGTCATGTACAAAAACATGTTACACGCCATG
*
8134589 ATTAGGTTGTTACACGTCATGT
1 GTTAGGTTGTTACACGTCATGT
8134611 NNNNNNNNNN
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 3 0.02
45 125 0.95
46 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (45 bp):
GTTAGGTTGTTACACGTCATGTACAAAAACATGTTACACGCCATG
Found at i:8147965 original size:15 final size:16
Alignment explanation
Indices: 8147932--8147968 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8147922 TTTAATCAAA
8147932 AAAATTAATTTTAAAT
1 AAAATTAATTTTAAAT
8147948 AAAATT-ATCTTT-AAT
1 AAAATTAAT-TTTAAAT
8147963 AAAATT
1 AAAATT
8147969 GACCTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTAATTTTAAAT
Found at i:8148269 original size:22 final size:22
Alignment explanation
Indices: 8148244--8148317 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
8148234 AATTTTGATA
*
8148244 GTTTTTAAGCATTGCATAACTG
1 GTTTTTAAGCATTACATAACTG
* * *
8148266 GTTTTT-AGCATTACGTGACTA
1 GTTTTTAAGCATTACATAACTG
*
8148287 GTTTTTAAGCATTACATAACTT
1 GTTTTTAAGCATTACATAACTG
*
8148309 ATTTTTAAG
1 GTTTTTAAG
8148318 TATTGTATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 17 0.40
22 26 0.60
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (22 bp):
GTTTTTAAGCATTACATAACTG
Found at i:8148373 original size:23 final size:23
Alignment explanation
Indices: 8148342--8148396 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
8148332 CTGATATGAC
* *
8148342 ATTATGTGACTAGTTAGTAAGAT
1 ATTACGTGACTAGTTAATAAGAT
* *
8148365 ATTACGTGATTAGTTAATAAGGT
1 ATTACGTGACTAGTTAATAAGAT
*
8148388 ATTGCGTGA
1 ATTACGTGA
8148397 ATAATTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (23 bp):
ATTACGTGACTAGTTAATAAGAT
Found at i:8154055 original size:2 final size:2
Alignment explanation
Indices: 8154050--8154075 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8154040 ATCGGTTTTC
8154050 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8154076 AACATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8154672 original size:4 final size:4
Alignment explanation
Indices: 8154665--8154703 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
8154655 ATATATATAT
* *
8154665 ATAG ATAG ATAG ATAG ATAG ATAG ATGG ATAT ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
8154704 AACGTCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (4 bp):
ATAG
Found at i:8154849 original size:13 final size:13
Alignment explanation
Indices: 8154833--8154861 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8154823 CAAAATTTTA
8154833 TATAAAAAATAAT
1 TATAAAAAATAAT
8154846 TAT-AAAAATAAT
1 TATAAAAAATAAT
8154858 TATA
1 TATA
8154862 TTATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAAAAAATAAT
Found at i:8165033 original size:30 final size:28
Alignment explanation
Indices: 8164996--8165097 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 28
8164986 ATTAATCATA
8164996 AAAATTTATTTAACTTAAAATAAAAGTAT
1 AAAATTTATTTAACTTAAAATAAAA-TAT
8165025 ATAAATTTATTTAA-TTCAAAATAAAAATAT
1 A-AAATTTATTTAACTT-AAAAT-AAAATAT
* * *
8165055 AAAAATTTAATTAGACGTATAA-AAAATAT
1 -AAAATTTATTTA-ACTTAAAATAAAATAT
8165084 AAAGATTTATTTAA
1 AAA-ATTTATTTAA
8165098 ATTTTCTTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
28 4 0.06
29 18 0.29
30 30 0.48
31 9 0.15
32 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAATTTATTTAACTTAAAATAAAATAT
Found at i:8171303 original size:15 final size:15
Alignment explanation
Indices: 8171283--8171316 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8171273 CATTTATGGG
8171283 AAAGTATCATAAACT
1 AAAGTATCATAAACT
8171298 AAAGTATCATAAACT
1 AAAGTATCATAAACT
8171313 AAAG
1 AAAG
8171317 ATGACTGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (15 bp):
AAAGTATCATAAACT
Found at i:8174283 original size:13 final size:15
Alignment explanation
Indices: 8174252--8174292 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8174242 GAGGAGGGAG
8174252 AAGAAGGAGAAGAAA
1 AAGAAGGAGAAGAAA
8174267 AAGAAGGA-AAGAAA
1 AAGAAGGAGAAGAAA
*
8174281 AGAAAAGGAGAA
1 A-AGAAGGAGAA
8174293 AACGCACGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 14 0.61
16 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
AAGAAGGAGAAGAAA
Found at i:8174765 original size:24 final size:24
Alignment explanation
Indices: 8174737--8174795 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
8174727 TCGAATCAAA
* *
8174737 AAGAAAATATAATTACTCCTGTGC
1 AAGAAAAGAAAATTACTCCTGTGC
* *
8174761 CAGAACAGAAAATTACTCCTGTGC
1 AAGAAAAGAAAATTACTCCTGTGC
*
8174785 AAGAACAGAAA
1 AAGAAAAGAAA
8174796 CTATGGCGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
AAGAAAAGAAAATTACTCCTGTGC
Found at i:8176476 original size:30 final size:30
Alignment explanation
Indices: 8176441--8176502 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
8176431 AGCATTGATA
8176441 CTTCAGTTTGTGAAGAGTTTTAGAAGACAT
1 CTTCAGTTTGTGAAGAGTTTTAGAAGACAT
*
8176471 CTTCAGTTTGTGAAGAGTTTTAGAAGCCAT
1 CTTCAGTTTGTGAAGAGTTTTAGAAGACAT
8176501 CT
1 CT
8176503 GGTTAGAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (30 bp):
CTTCAGTTTGTGAAGAGTTTTAGAAGACAT
Found at i:8180377 original size:21 final size:21
Alignment explanation
Indices: 8180340--8180388 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
8180330 TTATTTTAAT
* **
8180340 ATATTTTATATTAATATTTGA
1 ATATTTTATAATAATATGAGA
8180361 ATATTTTATAA-ATATATGAGA
1 ATATTTTATAATA-ATATGAGA
8180382 ATATTTT
1 ATATTTT
8180389 GTATATTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (21 bp):
ATATTTTATAATAATATGAGA
Found at i:8181311 original size:42 final size:39
Alignment explanation
Indices: 8181225--8181372 Score: 131
Period size: 42 Copynumber: 3.6 Consensus size: 39
8181215 ATAATTAGAA
* *
8181225 TAATATTTAAATTATAAATAAAATATTAGTATTTTATAATAT
1 TAATA-TTAAATTATAAATAAAATATTAATA-TTTA-AAAAT
8181267 TAATGATTAAATTATAAATAAAATATTAATATACTTAAAAAT
1 TAAT-ATTAAATTATAAATAAAATATTAATAT--TTAAAAAT
* * * *
8181309 T-A-ATTAATTTATAAATACAA-ATTAACATTTAAATGAT
1 TAATATTAAATTATAAATAAAATATTAATATTTAAA-AAT
*
8181346 AAATTATTAATATTATAAATAAAATAT
1 TAA-TATTAA-ATTATAAATAAAATAT
8181373 AAATTATTAA
Statistics
Matches: 88, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
36 5 0.06
37 2 0.02
38 8 0.09
39 16 0.18
40 5 0.06
41 13 0.15
42 35 0.40
43 4 0.05
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (39 bp):
TAATATTAAATTATAAATAAAATATTAATATTTAAAAAT
Found at i:8181374 original size:27 final size:29
Alignment explanation
Indices: 8181339--8181397 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
8181329 ATTAACATTT
*
8181339 AAATGATAAATTATTAATA-TTATAAATA
1 AAATGATAAATTATTAATATTTAAAAATA
8181367 AAAT-ATAAATTATTAATATTTAAAAATA
1 AAATGATAAATTATTAATATTTAAAAATA
8181395 AAA
1 AAA
8181398 CAAAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
AAATGATAAATTATTAATATTTAAAAATA
Found at i:8181403 original size:27 final size:27
Alignment explanation
Indices: 8181344--8181403 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
8181334 CATTTAAATG
* *
8181344 ATAAATTATTAATATTATAAATAAAAT
1 ATAAATTATTAATATTAAAAATAAAAC
8181371 ATAAATTATTAATATTTAAAAATAAAAC
1 ATAAATTATTAATA-TTAAAAATAAAAC
8181399 A-AAAT
1 ATAAAT
8181404 AAAAATCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
ATAAATTATTAATATTAAAAATAAAAC
Found at i:8181498 original size:26 final size:26
Alignment explanation
Indices: 8181458--8181554 Score: 71
Period size: 26 Copynumber: 3.8 Consensus size: 26
8181448 TATTATTTTT
8181458 AATATTAATGA-TTAAAATAAAAATAA
1 AATATTAAT-ATTTAAAATAAAAATAA
* *
8181484 AATATTAATATTTAAACT----AT-C
1 AATATTAATATTTAAAATAAAAATAA
* * *
8181505 AATTTTAATATTTTAAATAAATTATAA
1 AATATTAATATTTAAAATAAA-AATAA
*
8181532 ATTATTAATATTTAAAAATAAAA
1 AATATTAATATTT-AAAATAAAA
8181555 TAATATAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
21 15 0.28
22 2 0.04
25 1 0.02
26 17 0.32
27 11 0.21
28 7 0.13
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (26 bp):
AATATTAATATTTAAAATAAAAATAA
Found at i:8181499 original size:21 final size:22
Alignment explanation
Indices: 8181475--8181626 Score: 73
Period size: 21 Copynumber: 6.6 Consensus size: 22
8181465 ATGATTAAAA
8181475 TAAAAATA-AAATATTAATATT
1 TAAAAATATAAATATTAATATT
* * *
8181496 T-AAACTATCAATTTTAATATTT
1 TAAAAATATAAATATTAATA-TT
8181518 TAAATAAATTATAAATTATTAATATT
1 T-AA-AAA-TATAAA-TATTAATATT
**
8181544 TAAAAATA-AAATAATATAA-AAA
1 TAAAAATATAAAT-AT-TAATATT
*
8181566 TAAATAATTATAATAATATTTA-ATT
1 TAAA-AA-TAT-A-AATATTAATATT
* *
8181591 TATAAATA-AAATATTAATTTT
1 TAAAAATATAAATATTAATATT
*
8181612 TAAAACATAAAAATA
1 TAAAA-ATATAAATA
8181627 AAATAATCAT
Statistics
Matches: 99, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
20 12 0.12
21 18 0.18
22 16 0.16
23 14 0.14
24 8 0.08
25 10 0.10
26 11 0.11
27 10 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAATATAAATATTAATATT
Found at i:8181533 original size:157 final size:155
Alignment explanation
Indices: 8181321--8181614 Score: 405
Period size: 157 Copynumber: 1.9 Consensus size: 155
8181311 ATTAATTTAT
*
8181321 AAATACAAATTAACATTTAAATGATAAATTATTAATATTATAAATAAAATATAAATTATTAATAT
1 AAATAAAAATTAACATTTAAATGATAAATTATTAATATTATAAATAAAATATAAATTATTAATAT
* * * *
8181386 TTAAAAATAAAACAAAATAAAAATCAACCA-TAGTAGTAACATTTAATTTATAAATTAAATATTA
66 TTAAAAATAAAACAAAATAAAAATAAACAATTA-TAATAACATTTAATTTATAAATAAAATATTA
8181450 TTATTTTTAATATTAATGATTAAAATAA
130 --ATTTTTAATATTAATGATTAAAATAA
* * * *
8181478 AAATAAAATATTAATATTTAAACT-ATCAATT-TTAATATTTTAAATAAATTATAAATTATTAAT
1 AAATAAAA-ATTAACATTTAAA-TGATAAATTATTAATATTATAAATAAAATATAAATTATTAAT
* * * *
8181541 ATTTAAAAATAAAATAATATAAAAATAAATAATTATAATAATATTTAATTTATAAATAAAATATT
64 ATTTAAAAATAAAACAAAATAAAAATAAACAATTATAATAACATTTAATTTATAAATAAAATATT
8181606 AATTTTTAA
129 AATTTTTAA
8181615 AACATAAAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
155 8 0.07
157 92 0.76
158 20 0.17
159 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (155 bp):
AAATAAAAATTAACATTTAAATGATAAATTATTAATATTATAAATAAAATATAAATTATTAATAT
TTAAAAATAAAACAAAATAAAAATAAACAATTATAATAACATTTAATTTATAAATAAAATATTAA
TTTTTAATATTAATGATTAAAATAA
Found at i:8181539 original size:27 final size:27
Alignment explanation
Indices: 8181496--8181553 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
8181486 TATTAATATT
* *
8181496 TAAACTATCAATTTTAATATTT-TAAA
1 TAAACTATAAATTTTAATATTTAAAAA
*
8181522 TAAATTATAAATTATTAATATTTAAAAA
1 TAAACTATAAATT-TTAATATTTAAAAA
8181550 TAAA
1 TAAA
8181554 ATAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
27 9 0.33
28 7 0.26
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAACTATAAATTTTAATATTTAAAAA
Found at i:8181565 original size:16 final size:17
Alignment explanation
Indices: 8181544--8181583 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
8181534 TATTAATATT
8181544 TAAAAATAAAATAA-TA
1 TAAAAATAAAATAATTA
8181560 TAAAAAT-AAATAATTA
1 TAAAAATAAAATAATTA
*
8181576 TAATAATA
1 TAAAAATA
8181584 TTTAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAATAAAATAATTA
Found at i:8181609 original size:19 final size:21
Alignment explanation
Indices: 8181575--8181615 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
8181565 ATAAATAATT
8181575 ATAATAATATTTAATTTATAA
1 ATAATAATATTTAATTTATAA
*
8181596 ATAA-AATA-TTAATTTTTAA
1 ATAATAATATTTAATTTATAA
8181615 A
1 A
8181616 ACATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 4 0.21
21 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATAATATTTAATTTATAA
Found at i:8181625 original size:75 final size:76
Alignment explanation
Indices: 8181352--8181632 Score: 248
Period size: 75 Copynumber: 3.6 Consensus size: 76
8181342 TGATAAATTA
* * **
8181352 TTAATATTATAAATAAAATATAAATTATTAATATTTAAAAATAAAACAAAATAAAAATCAACCA-
1 TTAATATTATAAATAAAATATAAATTATTAATATTTAAAAATAAAATAAAATAAAAATAAATAAT
* *
8181416 TAGTAGTAACAT
66 TA-TAATAATAT
* * * * * *
8181428 TTAAT-TTATAAATTAAATATTATTATTTTTAATA-TTAATGATTAAAATAAAAATAAAATATTA
1 TTAATATTATAAATAAAATA-TA-AATTATTAATATTTAA-AAATAAAAT-AAAATAAAA-ATAA
* *
8181491 ATATTTAAACTATCAAT-T
61 ATAATTATA--AT-AATAT
* * *
8181509 TTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAATAAAATAATATAAAAATAAATAAT
1 TTAATATTATAAATAAAATATAAATTATTAATATTTAAAAATAAAATAAAATAAAAATAAATAAT
8181574 TATAATAATAT
66 TATAATAATAT
* * * **
8181585 TTAAT-TTATAAATAAAATATTAATTTTTAAAACATAAAAATAAAATAA
1 TTAATATTATAAATAAAATATAAATTATTAATATTTAAAAATAAAATAA
8181633 TCATATATAT
Statistics
Matches: 162, Mismatches: 31, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
75 52 0.32
76 19 0.12
77 15 0.09
78 19 0.12
79 13 0.08
80 18 0.11
81 13 0.08
82 13 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (76 bp):
TTAATATTATAAATAAAATATAAATTATTAATATTTAAAAATAAAATAAAATAAAAATAAATAAT
TATAATAATAT
Found at i:8186291 original size:13 final size:13
Alignment explanation
Indices: 8186273--8186302 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8186263 TTGGAATGTG
8186273 CATAAGTTATCAA
1 CATAAGTTATCAA
8186286 CATAAGTTATCAA
1 CATAAGTTATCAA
8186299 CATA
1 CATA
8186303 TGGTTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (13 bp):
CATAAGTTATCAA
Found at i:8193004 original size:22 final size:23
Alignment explanation
Indices: 8192969--8193011 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
8192959 GATTCTAGAT
8192969 TTTAAAAAATTTAAATTAATTTA
1 TTTAAAAAATTTAAATTAATTTA
8192992 TTTAAAAAA-TTAAATTAATT
1 TTTAAAAAATTTAAATTAATT
8193012 ATATATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAAAAAATTTAAATTAATTTA
Found at i:8193364 original size:11 final size:12
Alignment explanation
Indices: 8193315--8193369 Score: 62
Period size: 11 Copynumber: 4.8 Consensus size: 12
8193305 GTAATATAGA
*
8193315 ATAT-TATAAAT
1 ATATATATAATT
8193326 ATATATATAATT
1 ATATATATAATT
* *
8193338 GTATAAAT-ATT
1 ATATATATAATT
8193349 ATATATATAATT
1 ATATATATAATT
8193361 -TATATATAA
1 ATATATATAA
8193370 ACATTACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 22 0.59
12 15 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
ATATATATAATT
Found at i:8193615 original size:216 final size:219
Alignment explanation
Indices: 8193351--8193774 Score: 545
Period size: 216 Copynumber: 1.9 Consensus size: 219
8193341 TAAATATTAT
* * * *
8193351 ATATATAATTTATATATAAACATTACTATAGCTTATAATAAACTTTATTTATATGATTAAACATA
1 ATATATAATTTATACATAAACACTACGATAACTTATAATAAACTTTATTTATATGATTAAACATA
*
8193416 ATAATCTTATTAATTATCACCTTAGCTTTTAT-CACATATTGTTTATAATTAGTTACTATTTATA
66 ATAATCTTATTAATTATCACCTTAACTTTTATAC-CATATTGTTTATAATTAGTTACTATTTATA
* * *
8193480 TAAATTTTGATAT-AAAA-T-AT-T-ATAACATATAAATTGTGTAATTAATTTCATATATACATA
130 CAAACTTTGATATAAAAATTAATATCATAACATATAAATTGTATAATTAATTTCATAT-T-CATA
*
8193540 ATAAAGTAATATATTATACACATACAA
193 ATAAAGAAATATATTATACACATACAA
* * * * * *
8193567 ATATTTAATTTATACATAAGCACTACGATAACTTATAATATACTTTATTTATATTATTACACTTA
1 ATATATAATTTATACATAAACACTACGATAACTTATAATAAACTTTATTTATATGATTAAACATA
* * * * * *
8193632 ATAATTTTATTAGTTATCCCCTTAATTTTTATACCATGTTGTTTATAATTAGTTATTATTTATAC
66 ATAATCTTATTAATTATCACCTTAACTTTTATACCATATTGTTTATAATTAGTTACTATTTATAC
* * *
8193697 AAACTTTGATATAAAAATTAAAATATCATAACATATAAGTTGTATCATTAATTTCATATTTATAA
131 AAACTTTGATATAAAAATT--AATATCATAACATATAAATTGTATAATTAATTTCATATTCATAA
8193762 TAAAGAAATATAT
194 TAAAGAAATATAT
8193775 CTTATATATA
Statistics
Matches: 176, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
216 121 0.69
217 5 0.03
218 1 0.01
221 18 0.10
222 2 0.01
223 29 0.16
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (219 bp):
ATATATAATTTATACATAAACACTACGATAACTTATAATAAACTTTATTTATATGATTAAACATA
ATAATCTTATTAATTATCACCTTAACTTTTATACCATATTGTTTATAATTAGTTACTATTTATAC
AAACTTTGATATAAAAATTAATATCATAACATATAAATTGTATAATTAATTTCATATTCATAATA
AAGAAATATATTATACACATACAA
Found at i:8208313 original size:21 final size:22
Alignment explanation
Indices: 8208274--8208314 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8208264 TCTTGTTCTC
* *
8208274 TAATTAGCTTTTTTTGGTTTAA
1 TAATTAGCATTTTTGGGTTTAA
8208296 TAATTAG-ATTTTTGGGTTT
1 TAATTAGCATTTTTGGGTTT
8208315 TTTTTTGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (22 bp):
TAATTAGCATTTTTGGGTTTAA
Found at i:8210346 original size:93 final size:94
Alignment explanation
Indices: 8210215--8210398 Score: 307
Period size: 93 Copynumber: 2.0 Consensus size: 94
8210205 TACTATCTGA
* * * * *
8210215 GGTGATTTTCATGTGGAATTATACTGCTTGTGGTTCTTAGAGTAGCCTGGTATGCTTGTTTACTT
1 GGTGATTGTCATGTAGAATTATACTGCTTGTGGCTCTTAGACTAGCCTGGTATGCTTATTTACTT
8210280 TGCCCTGGAGAGAAAGGAACAACAGATGC
66 TGCCCTGGAGAGAAAGGAACAACAGATGC
*
8210309 GGTGATTGTCATGTAGAA-TATACTGTTTGTGGCTCTTAGACTAGCCTGGTATGCTTATTTACTT
1 GGTGATTGTCATGTAGAATTATACTGCTTGTGGCTCTTAGACTAGCCTGGTATGCTTATTTACTT
8210373 TGCCCTGGAGAGAAAGGAACAACAGA
66 TGCCCTGGAGAGAAAGGAACAACAGA
8210399 CTTTACGGGA
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 68 0.81
94 16 0.19
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (94 bp):
GGTGATTGTCATGTAGAATTATACTGCTTGTGGCTCTTAGACTAGCCTGGTATGCTTATTTACTT
TGCCCTGGAGAGAAAGGAACAACAGATGC
Found at i:8213381 original size:26 final size:26
Alignment explanation
Indices: 8213352--8213425 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
8213342 ATCTTCATCC
*
8213352 ATAATTATAAAATATATAAATTAATT
1 ATAATTATAATATATATAAATTAATT
8213378 ATAAATTA-AATATATATAATATT-ATT
1 AT-AATTATAATATATATAA-ATTAATT
*
8213404 -TTATTAT-ATATATA-AAATTAAT
1 ATAATTATAATATATATAAATTAAT
8213426 GACACATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 3 0.07
23 4 0.10
24 11 0.26
25 1 0.02
26 15 0.36
27 8 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATAATTATAATATATATAAATTAATT
Done.