Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, 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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 54
Found at i:7958438 original size:20 final size:20
Alignment explanation
Indices: 7958413--7958455 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7958403 TCTAAGATCT
* *
7958413 CATTTAGGACCATGTAGATG
1 CATTTAGGAACATATAGATG
*
7958433 CATTTAGGAACATATAGCTG
1 CATTTAGGAACATATAGATG
7958453 CAT
1 CAT
7958456 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (20 bp):
CATTTAGGAACATATAGATG
Found at i:7958836 original size:18 final size:18
Alignment explanation
Indices: 7958804--7958846 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
7958794 CATTTCCAGA
7958804 TGCCC-ATGCTGGACCAC
1 TGCCCAATGCTGGACCAC
*
7958821 TGCCCAATGTTGGACCAC
1 TGCCCAATGCTGGACCAC
7958839 TGCCCAAT
1 TGCCCAAT
7958847 CCTCACGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (18 bp):
TGCCCAATGCTGGACCAC
Found at i:7960676 original size:16 final size:15
Alignment explanation
Indices: 7960652--7960684 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
7960642 ATTTTTAGAT
7960652 TAAAAAATTAAATTA
1 TAAAAAATTAAATTA
7960667 TAAAATAATTAAATTA
1 TAAAA-AATTAAATTA
7960683 TA
1 TA
7960685 TTTTATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAAATTAAATTA
Found at i:7962312 original size:24 final size:24
Alignment explanation
Indices: 7962280--7962341 Score: 124
Period size: 24 Copynumber: 2.6 Consensus size: 24
7962270 ACTGTGAAAA
7962280 AGAAGCTAAGCAGAATACTTTGCT
1 AGAAGCTAAGCAGAATACTTTGCT
7962304 AGAAGCTAAGCAGAATACTTTGCT
1 AGAAGCTAAGCAGAATACTTTGCT
7962328 AGAAGCTAAGCAGA
1 AGAAGCTAAGCAGA
7962342 TTCAGTATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (24 bp):
AGAAGCTAAGCAGAATACTTTGCT
Found at i:7966680 original size:13 final size:13
Alignment explanation
Indices: 7966662--7966686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7966652 AATTGTTAAG
7966662 TTAATTATTAGGT
1 TTAATTATTAGGT
7966675 TTAATTATTAGG
1 TTAATTATTAGG
7966687 AAAATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTAATTATTAGGT
Found at i:7969210 original size:24 final size:22
Alignment explanation
Indices: 7969178--7969247 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
7969168 TATTTAAAAT
7969178 AAAAA-AAATATAAAATTATTC
1 AAAAATAAATATAAAATTATTC
* *
7969199 AAAATTATAAATATAAAA-AACTTT
1 AAAA--ATAAATATAAAATTA-TTC
*
7969223 AAAAATAAAAATAAAATTATTC
1 AAAAATAAATATAAAATTATTC
7969245 AAA
1 AAA
7969248 TAATTAGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.10
22 16 0.41
23 3 0.08
24 16 0.41
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATAAATATAAAATTATTC
Found at i:7969802 original size:29 final size:28
Alignment explanation
Indices: 7969755--7969809 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
7969745 ATTCAATTTC
7969755 TTTTAGATTTTTATAATTTAATTTTTAT
1 TTTTAGATTTTTATAATTTAATTTTTAT
*
7969783 TTTTAGTATTTTT-TATATTTGATTTTT
1 TTTTAG-ATTTTTATA-ATTTAATTTTT
7969810 TAATATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (28 bp):
TTTTAGATTTTTATAATTTAATTTTTAT
Found at i:7969815 original size:15 final size:14
Alignment explanation
Indices: 7969762--7969819 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
7969752 TTCTTTTAGA
*
7969762 TTTTTATAATTT-AA
1 TTTTTAT-ATTTGAT
*
7969776 TTTTTATTTTTAGTAT
1 TTTTTATATTT-G-AT
7969792 TTTTTATATTTGAT
1 TTTTTATATTTGAT
7969806 TTTTTAATATTTGA
1 TTTTT-ATATTTGA
7969820 ATAATGTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.08
14 14 0.38
15 9 0.24
16 11 0.30
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (14 bp):
TTTTTATATTTGAT
Found at i:7978272 original size:28 final size:27
Alignment explanation
Indices: 7978241--7978297 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 27
7978231 TAAAAACCCT
7978241 AAAAA-ACTAAAGTTAAAAAGGAAAATAA
1 AAAAAGACTAAA-TTAAAAA-GAAAATAA
*
7978269 AAAAATGGCTAAATTAAAAAGAAAATAA
1 AAAAA-GACTAAATTAAAAAGAAAATAA
7978297 A
1 A
7978298 TGAAAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 14 0.54
29 7 0.27
30 5 0.19
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.16
Consensus pattern (27 bp):
AAAAAGACTAAATTAAAAAGAAAATAA
Found at i:7978273 original size:29 final size:28
Alignment explanation
Indices: 7978241--7978306 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
7978231 TAAAAACCCT
7978241 AAAAAACTAAAGTTAAAAAGGAAAATAAA-
1 AAAAAACTAAA-TTAAAAA-GAAAATAAAG
**
7978270 AAAATGGCTAAATTAAAAAGAAAATAAATG
1 AAAA-AACTAAATTAAAAAGAAAATAAA-G
7978300 AAAAAAC
1 AAAAAAC
7978307 ACAAAAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
28 9 0.30
29 12 0.40
30 9 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.15
Consensus pattern (28 bp):
AAAAAACTAAATTAAAAAGAAAATAAAG
Found at i:7978374 original size:28 final size:28
Alignment explanation
Indices: 7978321--7978379 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7978311 AAAGTTAGCT
* *
7978321 AAATTAAAAAATAAATAAATAAAATACA
1 AAATTAAAAAATAAATAAACAAAATAAA
*
7978349 AAATTAAAGAAATAAA-AAACATAATAAA
1 AAATTAAA-AAATAAATAAACAAAATAAA
7978377 AAA
1 AAA
7978380 GAATATCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (28 bp):
AAATTAAAAAATAAATAAACAAAATAAA
Found at i:7992326 original size:22 final size:22
Alignment explanation
Indices: 7992278--7992333 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
7992268 ACCCTTAAAA
* *
7992278 GATAAAAAAAAACGTTAGATTT
1 GATAAAAAAAAACATTAGAATT
7992300 G-TAAAATAAAAACATT-GAATT
1 GATAAAA-AAAAACATTAGAATT
7992321 GATAAAAAGAAAA
1 GATAAAAA-AAAA
7992334 GATGAAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.61, C:0.04, G:0.12, T:0.23
Consensus pattern (22 bp):
GATAAAAAAAAACATTAGAATT
Found at i:7992603 original size:21 final size:21
Alignment explanation
Indices: 7992563--7992603 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7992553 ACAATTACTA
*
7992563 AAATAAAAAATAAAAGAAATG
1 AAATAAAAAATAAAAAAAATG
7992584 AAATAAAAAA-AATAAAAAAT
1 AAATAAAAAATAA-AAAAAAT
7992604 AAACAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATAAAAAATAAAAAAAATG
Found at i:7992617 original size:17 final size:16
Alignment explanation
Indices: 7992562--7992618 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 16
7992552 AACAATTACT
7992562 AAAATAAAAAATAAAA
1 AAAATAAAAAATAAAA
* *
7992578 GAAAT--GAAATAAAA
1 AAAATAAAAAATAAAA
7992592 AAAATAAAAAATAAACA
1 AAAATAAAAAATAAA-A
*
7992609 AAGATAAAAA
1 AAAATAAAAA
7992619 CCCTAAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 12 0.36
16 11 0.33
17 10 0.30
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAATAAAAAATAAAA
Found at i:7992727 original size:16 final size:16
Alignment explanation
Indices: 7992703--7992766 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
7992693 AAAAGTTAAC
7992703 TAAATTAAAAAAGAAAA
1 TAAA-TAAAAAAGAAAA
* *
7992720 TAAATAAAATACAAAA
1 TAAATAAAAAAGAAAA
*
7992736 TAAA-AGAAATAATAATAA
1 TAAATA-AAA-AAGAA-AA
7992754 T-AATAAAAAAGAA
1 TAAATAAAAAAGAA
7992767 TATTATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 21 0.55
17 12 0.32
18 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (16 bp):
TAAATAAAAAAGAAAA
Found at i:7992758 original size:21 final size:21
Alignment explanation
Indices: 7992711--7992761 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7992701 ACTAAATTAA
* *
7992711 AAAAGAAAATAAATAAAATAC
1 AAAATAAAAGAAATAAAATAC
7992732 AAAATAAAAGAAATAATAATA-
1 AAAATAAAAGAAATAA-AATAC
*
7992753 ATAATAAAA
1 AAAATAAAA
7992762 AAGAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAATAAAAGAAATAAAATAC
Found at i:8000310 original size:17 final size:17
Alignment explanation
Indices: 8000288--8000330 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
8000278 TATCCACGAC
8000288 ATGCAACTATAACCTAA
1 ATGCAACTATAACCTAA
8000305 ATGCAACTATAACCTAA
1 ATGCAACTATAACCTAA
8000322 ATGCAACTA
1 ATGCAACTA
8000331 ATATGCTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (17 bp):
ATGCAACTATAACCTAA
Found at i:8012750 original size:22 final size:21
Alignment explanation
Indices: 8012704--8012744 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
8012694 ATATTGCACC
8012704 TTTGGAATCGATATTAAGGGTA
1 TTTGGAATCGATATT-AGGGTA
*
8012726 TTTGGTATCGATATT-GGGT
1 TTTGGAATCGATATTAGGGT
8012745 TAATTTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.41
Consensus pattern (21 bp):
TTTGGAATCGATATTAGGGTA
Found at i:8015430 original size:22 final size:22
Alignment explanation
Indices: 8015405--8015465 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
8015395 GGCATATGAA
8015405 ATTTGTCCCGAAGGACCTA-TGT
1 ATTTGTCCCGAAGGACC-ACTGT
8015427 ATTTGTCCCGAAGGACCACTGT
1 ATTTGTCCCGAAGGACCACTGT
*
8015449 ATATGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
8015466 GCATAGACCC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCACTGT
Found at i:8017393 original size:8 final size:8
Alignment explanation
Indices: 8017378--8017420 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
8017368 TAATATTGTA
8017378 ATACATAT
1 ATACATAT
8017386 AT--ATAT
1 ATACATAT
8017392 ATACATAT
1 ATACATAT
8017400 ATAC--AT
1 ATACATAT
8017406 ATACATAT
1 ATACATAT
8017414 ATACATA
1 ATACATA
8017421 CACACACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 12 0.39
8 19 0.61
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (8 bp):
ATACATAT
Found at i:8017416 original size:14 final size:14
Alignment explanation
Indices: 8017378--8017420 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
8017368 TAATATTGTA
*
8017378 ATACATATATATAT
1 ATACATATATACAT
8017392 ATACATATATACAT
1 ATACATATATACAT
8017406 ATACATATATACAT
1 ATACATATATACAT
8017420 A
1 A
8017421 CACACACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (14 bp):
ATACATATATACAT
Found at i:8020720 original size:65 final size:65
Alignment explanation
Indices: 8020598--8020756 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
8020588 TGCACTAAGA
* * *
8020598 GTGCACCGATGCATCAAGTGC-TTCGATG-TTTCAAAAGAGCCAGAGTGCATCGATGCATGGCT-
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAGAGCCACAGTGCATCGATGCATGG-TA
8020660 G
65 G
* *
8020661 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATC-AGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAAGAGCCACAGTGCATCGA-TGCATGGT
*
8020724 AT
64 AG
*
8020726 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
8020757 CAATTTAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
63 19 0.23
64 9 0.11
65 53 0.63
66 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAGAGCCACAGTGCATCGATGCATGGTAG
Found at i:8021180 original size:60 final size:60
Alignment explanation
Indices: 8021087--8021207 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
8021077 AAATTTGAAA
8021087 TCAATTTCAATTTAGAAAAATTACTCCCCCTTACTATAACACTTCTCCCTTTTAAAACAT
1 TCAATTTCAATTTAGAAAAATTACTCCCCCTTACTATAACACTTCTCCCTTTTAAAACAT
*
8021147 TCAATTTCAATTTATAAAAATTACTCCCCCTTACTATAACACTTCTCCCTTTTAAAACAT
1 TCAATTTCAATTTAGAAAAATTACTCCCCCTTACTATAACACTTCTCCCTTTTAAAACAT
8021207 T
1 T
8021208 TTAACACTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.26, G:0.01, T:0.38
Consensus pattern (60 bp):
TCAATTTCAATTTAGAAAAATTACTCCCCCTTACTATAACACTTCTCCCTTTTAAAACAT
Found at i:8021307 original size:2 final size:2
Alignment explanation
Indices: 8021300--8021370 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
8021290 AATTGATTAA
8021300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8021342 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 A
8021371 GATTAAGCTG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8027450 original size:22 final size:21
Alignment explanation
Indices: 8027408--8027447 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8027398 GAGTTTATTT
*
8027408 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8027429 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8027448 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:8029426 original size:18 final size:17
Alignment explanation
Indices: 8029372--8029420 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8029362 TTGGACCCTT
* *
8029372 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
8029390 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
8029408 AGTGCATTCGATG
1 AGTGCA-TCGATG
8029421 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:8029590 original size:65 final size:63
Alignment explanation
Indices: 8029391--8029601 Score: 223
Period size: 65 Copynumber: 3.3 Consensus size: 63
8029381 GTGCACTAAG
* * **
8029391 AGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGG-T
* * *
8029455 GGTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGG
1 AGTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGG
8029518 T
63 T
* *
8029519 ATGTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGA
1 A-GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-
8029583 TT
63 -T
*
8029585 AGTGCATCGGTGCATCA
1 AGTGCATCGATGCATCA
8029602 CTCTGAAAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.41
65 62 0.50
66 2 0.02
67 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGT
Found at i:8030268 original size:17 final size:17
Alignment explanation
Indices: 8030246--8030281 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
8030236 CATAGAATAA
8030246 AACCATAGAAATAGAAT
1 AACCATAGAAATAGAAT
8030263 AACCATAGAAATAGAAT
1 AACCATAGAAATAGAAT
8030280 AA
1 AA
8030282 AAATAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (17 bp):
AACCATAGAAATAGAAT
Found at i:8030316 original size:19 final size:19
Alignment explanation
Indices: 8030292--8030331 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8030282 AAATAATTAT
8030292 AAATCTAATAAAATATTCC
1 AAATCTAATAAAATATTCC
8030311 AAATCTAATAAAATATTCC
1 AAATCTAATAAAATATTCC
8030330 AA
1 AA
8030332 TTTTATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATCTAATAAAATATTCC
Found at i:8030411 original size:13 final size:13
Alignment explanation
Indices: 8030395--8030445 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
8030385 CTAAATCTAA
8030395 AAAATAAATATAG
1 AAAATAAATATAG
*
8030408 AAAATAAATATAT
1 AAAATAAATATAG
* *
8030421 TATATAAATATAG
1 AAAATAAATATAG
8030434 AAAATAAATATA
1 AAAATAAATATA
8030446 TTATTGGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (13 bp):
AAAATAAATATAG
Found at i:8030415 original size:26 final size:26
Alignment explanation
Indices: 8030386--8030445 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
8030376 TAAAATATTC
*
8030386 TAAATCTAAAAAATAAATATAGAAAA
1 TAAATATAAAAAATAAATATAGAAAA
** *
8030412 TAAATATATTATATAAATATAGAAAA
1 TAAATATAAAAAATAAATATAGAAAA
8030438 TAAATATA
1 TAAATATA
8030446 TTATTGGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (26 bp):
TAAATATAAAAAATAAATATAGAAAA
Found at i:8030446 original size:26 final size:26
Alignment explanation
Indices: 8030398--8030449 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8030388 AATCTAAAAA
8030398 ATAAATATAGAAAATAAATATATTAT
1 ATAAATATAGAAAATAAATATATTAT
8030424 ATAAATATAGAAAATAAATATATTAT
1 ATAAATATAGAAAATAAATATATTAT
8030450 TGGTTTGTTC
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:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
ATAAATATAGAAAATAAATATATTAT
Found at i:8030845 original size:15 final size:15
Alignment explanation
Indices: 8030825--8030853 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8030815 CTAACTCAAC
8030825 CCGATCCGACCCAAA
1 CCGATCCGACCCAAA
8030840 CCGATCCGACCCAA
1 CCGATCCGACCCAA
8030854 TTCAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.48, G:0.14, T:0.07
Consensus pattern (15 bp):
CCGATCCGACCCAAA
Found at i:8038335 original size:15 final size:15
Alignment explanation
Indices: 8038315--8038362 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
8038305 CAATAAGCAC
8038315 TAAAATATAAAGAAA
1 TAAAATATAAAGAAA
* *
8038330 TAAAATTTAAAGACA
1 TAAAATATAAAGAAA
*
8038345 -AAATTATAAAGAAA
1 TAAAATATAAAGAAA
8038359 TAAA
1 TAAA
8038363 GTAATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (15 bp):
TAAAATATAAAGAAA
Found at i:8039769 original size:30 final size:30
Alignment explanation
Indices: 8039735--8039807 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
8039725 ATATGGTGTT
*
8039735 ATCTCATGCGAGATTGAAATTAAACTTCGC
1 ATCTCAAGCGAGATTGAAATTAAACTTCGC
*
8039765 ATCTCAAGGGAGATTGAAATTAAACTTCGC
1 ATCTCAAGCGAGATTGAAATTAAACTTCGC
*
8039795 ATCTCAAGGGAGA
1 ATCTCAAGCGAGA
8039808 GAAAGCTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (30 bp):
ATCTCAAGCGAGATTGAAATTAAACTTCGC
Found at i:8040485 original size:36 final size:36
Alignment explanation
Indices: 8040410--8040515 Score: 108
Period size: 36 Copynumber: 3.0 Consensus size: 36
8040400 AAGTTGAAGT
* * * * *
8040410 TGACTCATCCTTTATGAGTTAAATC-AAGTTGTGGA
1 TGACTCATCCATTACGAGTTAAGTCTGATTTGTGGA
* * *
8040445 TGACTCCTCCCTTACGAGTTACA-TTTGATTTGTGGA
1 TGACTCATCCATTACGAGTTA-AGTCTGATTTGTGGA
*
8040481 TGACTCATCCATTATGAGTTAAGTCTGATTTGTGG
1 TGACTCATCCATTACGAGTTAAGTCTGATTTGTGG
8040516 TGTTCTTTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
35 20 0.34
36 38 0.66
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.39
Consensus pattern (36 bp):
TGACTCATCCATTACGAGTTAAGTCTGATTTGTGGA
Found at i:8041020 original size:37 final size:36
Alignment explanation
Indices: 8040970--8041074 Score: 120
Period size: 37 Copynumber: 2.9 Consensus size: 36
8040960 CGGAACTTTT
* *
8040970 TTTTATGGGAAACTACCTCAAGTGAGATAAAAATTG
1 TTTTAAGGAAAACTACCTCAAGTGAGATAAAAATTG
* * * * * *
8041006 TTTTAGGGATAAACTATCTCTAGTAAGATGAAACTTG
1 TTTTAAGGA-AAACTACCTCAAGTGAGATAAAAATTG
*
8041043 TTTTAAGGAAAACTACCTCAAGTGATATAAAA
1 TTTTAAGGAAAACTACCTCAAGTGAGATAAAA
8041075 TTTTTATTTC
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
36 25 0.45
37 30 0.55
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (36 bp):
TTTTAAGGAAAACTACCTCAAGTGAGATAAAAATTG
Found at i:8049690 original size:80 final size:79
Alignment explanation
Indices: 8049601--8050091 Score: 696
Period size: 81 Copynumber: 6.1 Consensus size: 79
8049591 CTTTTACCTT
* * * *
8049601 AAGGCATTTACCCTTTCATCTAACTAGCATAATTGACACCATTTTGTCAAATGTACAGCTAGGTC
1 AAGGTATTTAACCTTTCATCTAACT-GCATAATTGACA-CATTTTGTCAAATGCACAGCTAGGCC
8049666 ATT-ATCTTTTACTCA
64 ATTAATCTTTTACTCA
* * * *
8049681 AAGGTATTTAACCTTTCATCTAACTGCATAATCGACAACTTTTTGTCAAATGCAAAACTAGGCCA
1 AAGGTATTTAACCTTTCATCTAACTGCATAATTGAC-ACATTTTGTCAAATGCACAGCTAGGCCA
8049746 TTAATCTTTTACTCA
65 TTAATCTTTTACTCA
* * * *
8049761 AAGGTATTTAACCTTTCATCAAACTGCATAATTGACATCGTTCTGTCAAATGCACAGCTAGGTCA
1 AAGGTATTTAACCTTTCATCTAACTGCATAATTGACA-CATTTTGTCAAATGCACAGCTAGGCCA
8049826 TTAATCTTTTACTCA
65 TTAATCTTTTACTCA
* *
8049841 AAGGTATTTAACCTTTTATCTAACTAGCATAATTGACACATTTTTGTCAAATGCACATCTAGGCC
1 AAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACA-TTTTGTCAAATGCACAGCTAGGCC
8049906 ATTAATCTTTTACTCA
64 ATTAATCTTTTACTCA
* * * *
8049922 AAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACTTTTCTGTTAAATGCACATCTAGGCC
1 AAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACATTT-TGTCAAATGCACAGCTAGGCC
8049987 ATTAATCTTTTACTCA
64 ATTAATCTTTTACTCA
*
8050003 ATGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCC
1 AAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACATTT-TGTCAAATGCACAGCTAGGCC
*
8050068 ATAAATCTTTTACTCA
64 ATTAATCTTTTACTCA
*
8050084 AAAGTATT
1 AAGGTATT
8050092 ATTCATAATA
Statistics
Matches: 371, Mismatches: 34, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
79 35 0.09
80 134 0.36
81 202 0.54
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (79 bp):
AAGGTATTTAACCTTTCATCTAACTGCATAATTGACACATTTTGTCAAATGCACAGCTAGGCCAT
TAATCTTTTACTCA
Found at i:8050275 original size:57 final size:55
Alignment explanation
Indices: 8050214--8050319 Score: 158
Period size: 57 Copynumber: 1.9 Consensus size: 55
8050204 TACCAATAGA
* *
8050214 GAAATTTATAAACTTATTATGAATTTATTATTTTCTTGCACACAGAGTGCCCATACT
1 GAAATTCATAAACTTATTATGAATTTATTAGTTT-TT-CACACAGAGTGCCCATACT
* *
8050271 GAAATTCGTAAACTTATTATGAATTTATTAGTTTTTCACACATAGTGCC
1 GAAATTCATAAACTTATTATGAATTTATTAGTTTTTCACACAGAGTGCC
8050320 ATGTGGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
55 12 0.27
56 2 0.04
57 31 0.69
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (55 bp):
GAAATTCATAAACTTATTATGAATTTATTAGTTTTTCACACAGAGTGCCCATACT
Found at i:8050668 original size:20 final size:22
Alignment explanation
Indices: 8050640--8050710 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
8050630 TGGCTCAATA
*
8050640 GTATCGATAC-CCT-TACCATG
1 GTATCGATACTACTATACCATG
*
8050660 GTATTGATACTACTATACCATG
1 GTATCGATACTACTATACCATG
*
8050682 GT-TCCGATACT-CTATA--ACG
1 GTAT-CGATACTACTATACCATG
8050701 GTATCGATAC
1 GTATCGATAC
8050711 CATTTTTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.23
20 10 0.23
21 8 0.19
22 15 0.35
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (22 bp):
GTATCGATACTACTATACCATG
Found at i:8052042 original size:23 final size:23
Alignment explanation
Indices: 8052016--8052064 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
8052006 ATAATTATTA
* *
8052016 TATAAATCATATGATGAAGATGT
1 TATAAATCATATGATAAACATGT
*
8052039 TATATATCATATGATAAACATGT
1 TATAAATCATATGATAAACATGT
8052062 TAT
1 TAT
8052065 TTAAGTTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (23 bp):
TATAAATCATATGATAAACATGT
Found at i:8053037 original size:30 final size:27
Alignment explanation
Indices: 8053001--8053066 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 27
8052991 TTTAAATGAA
8053001 AATAAAAAATAAAATATTTTAATTTAAGTT
1 AATAAAAAATAAAATA-TTTAA--TAAGTT
*
8053031 AAT-AAAAAT-ATATATTTAATAAGTT
1 AATAAAAAATAAAATATTTAATAAGTT
*
8053056 AATATAAAATA
1 AATAAAAAATA
8053067 TTTTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
25 9 0.28
26 5 0.16
27 5 0.16
28 4 0.12
29 6 0.19
30 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
AATAAAAAATAAAATATTTAATAAGTT
Found at i:8053059 original size:25 final size:24
Alignment explanation
Indices: 8053009--8053074 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 24
8052999 AAAATAAAAA
8053009 ATAAAATA-TTTTAATTTAAGTTAAT
1 ATAAAATATTTTTAA--TAAGTTAAT
8053034 A-AAAATATATATTTAATAAGTTAAT
1 ATAAAATAT-T-TTTAATAAGTTAAT
8053059 ATAAAATATTTTTAAT
1 ATAAAATATTTTTAAT
8053075 TTAATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
24 12 0.32
25 12 0.32
26 8 0.22
27 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
ATAAAATATTTTTAATAAGTTAAT
Found at i:8053091 original size:25 final size:26
Alignment explanation
Indices: 8053009--8053114 Score: 73
Period size: 25 Copynumber: 4.2 Consensus size: 26
8052999 AAAATAAAAA
*
8053009 ATAAAATATT-TTAATTTAAGT-TA-
1 ATAAAATATTATGAATTTAAGTATAT
*
8053032 ATAAAA-ATATAT-ATTTAATAAGT-TAAT
1 ATAAAATAT-TATGAATT--TAAGTAT-AT
* *
8053059 ATAAAATATTTTTAATTTAA-TATAT
1 ATAAAATATTATGAATTTAAGTATAT
* *
8053084 ATATAATATTATGAATTTAAGTATTT
1 ATAAAATATTATGAATTTAAGTATAT
8053110 ATAAA
1 ATAAA
8053115 CTAATATACA
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
22 2 0.03
23 10 0.15
24 1 0.02
25 26 0.40
26 13 0.20
27 8 0.12
28 5 0.08
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
ATAAAATATTATGAATTTAAGTATAT
Found at i:8053712 original size:27 final size:27
Alignment explanation
Indices: 8053674--8053725 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
8053664 CTTCAACAGA
8053674 TCATCCTATAACTTGGCCAATCTTGTT
1 TCATCCTATAACTTGGCCAATCTTGTT
*
8053701 TCATCCTCTAACTTGGCCAATCTTG
1 TCATCCTATAACTTGGCCAATCTTG
8053726 CTTCCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (27 bp):
TCATCCTATAACTTGGCCAATCTTGTT
Found at i:8056512 original size:4 final size:4
Alignment explanation
Indices: 8056499--8056528 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
8056489 TGAAAGCAAA
8056499 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
8056529 AACAATTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8058578 original size:31 final size:31
Alignment explanation
Indices: 8058542--8058658 Score: 88
Period size: 31 Copynumber: 3.9 Consensus size: 31
8058532 TTCTAATAAA
8058542 TTAACTTTTAAAAATACTTTATT-TTATCATT
1 TTAACTTTTAAAAATA-TTTATTATTATCATT
*
8058573 TTAAC--TTAAAATATATTTTATTCTTAT-A--
1 TTAACTTTTAAAA-ATA-TTTATTATTATCATT
* *
8058601 TAAACTTTTAAAAATATATT-TTATTATTATT
1 TTAACTTTTAAAAATAT-TTATTATTATCATT
* * *
8058632 TTAACTTTTCAAAGTATATATT-TTATC
1 TTAACTTTTAAAAATATTTATTATTATC
8058659 TTAATTTACT
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
28 11 0.16
29 12 0.17
30 21 0.30
31 25 0.36
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.54
Consensus pattern (31 bp):
TTAACTTTTAAAAATATTTATTATTATCATT
Found at i:8058651 original size:33 final size:31
Alignment explanation
Indices: 8058580--8058657 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
8058570 ATTTTAACTT
*
8058580 AAAATATATTTTATTCTTATATAAACTTTTA
1 AAAATATATTTTATTATTATATAAACTTTTA
* *
8058611 AAAATATATTTTATTATTATTTTAACTTTTCA
1 AAAATATATTTTATTATTATATAAACTTTT-A
*
8058643 AAGTATATATTTTAT
1 AA-AATATATTTTAT
8058658 CTTAATTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 27 0.66
32 3 0.07
33 11 0.27
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (31 bp):
AAAATATATTTTATTATTATATAAACTTTTA
Found at i:8058779 original size:18 final size:18
Alignment explanation
Indices: 8058727--8058781 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
8058717 TATTAACTTC
8058727 AAAATA-TTTTAACA-TAA
1 AAAATATTTTTAA-ATTAA
*
8058744 AATATATATTTTAGAATTAA
1 AAAATAT-TTTTA-AATTAA
8058764 AAAATATTTTTAAATTAA
1 AAAATATTTTTAAATTAA
8058782 GTTAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 11 0.34
20 10 0.31
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
AAAATATTTTTAAATTAA
Found at i:8058817 original size:27 final size:27
Alignment explanation
Indices: 8058764--8058813 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
8058754 TTAGAATTAA
*
8058764 AAAATATTTTTAAATTAAGTTAATAAT
1 AAAATATATTTAAATTAAGTTAATAAT
8058791 AAAATATATTT-AA-TAAGTTAATA
1 AAAATATATTTAAATTAAGTTAATA
8058814 TAATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 2 0.09
27 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
AAAATATATTTAAATTAAGTTAATAAT
Found at i:8059557 original size:21 final size:21
Alignment explanation
Indices: 8059533--8059578 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
8059523 TATAACAATA
8059533 ATATAAAA-ATTAATAAAAAGT
1 ATATAAAATA-TAATAAAAAGT
8059554 ATATAAAATATAATAAAAAGT
1 ATATAAAATATAATAAAAAGT
8059575 ATAT
1 ATAT
8059579 TATAACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
ATATAAAATATAATAAAAAGT
Found at i:8059608 original size:12 final size:12
Alignment explanation
Indices: 8059531--8059656 Score: 56
Period size: 11 Copynumber: 11.1 Consensus size: 12
8059521 ATTATAACAA
*
8059531 TAATATAAAAAT
1 TAATATAAAATT
*
8059543 TAATA-AAAA-G
1 TAATATAAAATT
*
8059553 T-ATATAAAATA
1 TAATATAAAATT
*
8059564 TAATA-AAAAGTA
1 TAATATAAAA-TT
*
8059576 TATTATAACAA--
1 TAATATAA-AATT
8059587 TAATATAAAATT
1 TAATATAAAATT
**
8059599 TAATA-AAAAAG
1 TAATATAAAATT
8059610 T-ATATAAAATT
1 TAATATAAAATT
* * *
8059621 TAATAGAAAGTA
1 TAATATAAAATT
*
8059633 TATTATAACAA--
1 TAATATAA-AATT
8059644 TAATATAAAATT
1 TAATATAAAATT
8059656 T
1 T
8059657 TATCGATCAT
Statistics
Matches: 86, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
9 3 0.03
10 12 0.14
11 33 0.38
12 33 0.38
13 3 0.03
14 2 0.02
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (12 bp):
TAATATAAAATT
Found at i:8059616 original size:22 final size:21
Alignment explanation
Indices: 8059589--8059635 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
8059579 TATAACAATA
8059589 ATATAAAATTTAATAAAAAAGT
1 ATATAAAATTTAAT-AAAAAGT
*
8059611 ATATAAAATTTAATAGAAAGT
1 ATATAAAATTTAATAAAAAGT
8059632 ATAT
1 ATAT
8059636 TATAACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (21 bp):
ATATAAAATTTAATAAAAAGT
Found at i:8059635 original size:57 final size:56
Alignment explanation
Indices: 8059504--8059656 Score: 270
Period size: 57 Copynumber: 2.7 Consensus size: 56
8059494 GAAAGGAAAG
*
8059504 AATTTAATAAAAAGTATATTATAACAATAATATAAAAATTAATAAAAAGTATATAA
1 AATTTAATAAAAAGTATATTATAACAATAATATAAAATTTAATAAAAAGTATATAA
*
8059560 AATATAATAAAAAGTATATTATAACAATAATATAAAATTTAATAAAAAAGTATATAA
1 AATTTAATAAAAAGTATATTATAACAATAATATAAAATTTAAT-AAAAAGTATATAA
*
8059617 AATTTAATAGAAAGTATATTATAACAATAATATAAAATTT
1 AATTTAATAAAAAGTATATTATAACAATAATATAAAATTT
8059657 TATCGATCAT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
56 41 0.45
57 51 0.55
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (56 bp):
AATTTAATAAAAAGTATATTATAACAATAATATAAAATTTAATAAAAAGTATATAA
Found at i:8062307 original size:18 final size:19
Alignment explanation
Indices: 8062266--8062304 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8062256 TTGCAATCAT
8062266 CCATCGACAAAACTATCCC
1 CCATCGACAAAACTATCCC
8062285 CCATCGACAAAACTATCCC
1 CCATCGACAAAACTATCCC
8062304 C
1 C
8062305 ATCTATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.44, G:0.05, T:0.15
Consensus pattern (19 bp):
CCATCGACAAAACTATCCC
Found at i:8064519 original size:3 final size:3
Alignment explanation
Indices: 8064500--8064542 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
8064490 TATGTAAATA
*
8064500 AAT ATT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8064543 GGATAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8065067 original size:139 final size:139
Alignment explanation
Indices: 8064805--8065068 Score: 321
Period size: 139 Copynumber: 1.9 Consensus size: 139
8064795 ATTTGGTGAG
* *
8064805 AACACGGTTCCTACGTGATGAGGAAGTCTGATTGTCTAAGGATGACACCGCTCCAACGCGTTGAG
1 AACACGGTTCCTACGTGATGAGGAAGTCTGATTATCCAAGGATGACACCGCTCCAACGCGTTGAG
* * * * * * *
8064870 GAGATTTGGTCGATGGATGACATTGTTCCTACGTGGTCAAAACGTATAGTCGTCTTTAGGTATAC
66 GAGATATGGTCGATGGACGACAATGTTCCTACGTGATCAAAACATATAGTCATATTTAGGTATAC
8064935 ATTGGAGAC
131 ATTGGAGAC
* * * * * * ** *
8064944 AACACGTTTCCTATGTGATGAGGAAGTCTGGTTATCCGAGGATGACGCTGCTCTTATGCGTTGAG
1 AACACGGTTCCTACGTGATGAGGAAGTCTGATTATCCAAGGATGACACCGCTCCAACGCGTTGAG
* ** * *
8065009 GAGATATGGTCGATGGACGACAATGTTCCTACGTGATGAGGACATCTTGTCATATTTAGG
66 GAGATATGGTCGATGGACGACAATGTTCCTACGTGATCAAAACATATAGTCATATTTAGG
8065069 GATAATTTAG
Statistics
Matches: 102, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
139 102 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (139 bp):
AACACGGTTCCTACGTGATGAGGAAGTCTGATTATCCAAGGATGACACCGCTCCAACGCGTTGAG
GAGATATGGTCGATGGACGACAATGTTCCTACGTGATCAAAACATATAGTCATATTTAGGTATAC
ATTGGAGAC
Found at i:8065185 original size:30 final size:30
Alignment explanation
Indices: 8065151--8065548 Score: 166
Period size: 30 Copynumber: 12.3 Consensus size: 30
8065141 CTTTGTTTTG
* *
8065151 AGAGAAACAATCCCAAAGGTTTATGTTTCA
1 AGAGAAACAATCTCAAAGGTTAATGTTTCA
** * * *
8065181 AGAGAAACTGTTTCAAGCAAGTCAAATTTTGTTTCA
1 AGAGAAACAATCTCAA--AGGT-TAA---TGTTTCA
*
8065217 AGAGAAACAATCTCAAAGGTTAATGGTTCA
1 AGAGAAACAATCTCAAAGGTTAATGTTTCA
8065247 AGAGAAACAATCTCAAAGGTTAATGTTTCA
1 AGAGAAACAATCTCAAAGGTTAATGTTTCA
** *** *
8065277 AGAGAAACTGTCTCAAGCGAGACAAAATTTATTTCA
1 AGAGAAACAATCTCAA---AG-GTTAA--TGTTTCA
*
8065313 AGAGAAACAATCTCAAAGGTTTATGTTTCA
1 AGAGAAACAATCTCAAAGGTTAATGTTTCA
* * ** **
8065343 GGAGAATCTGTCTCAAGAGAGACAAAATTTGTTTCA
1 AGAGAAACAATCTCAA-AG-G--TTAA--TGTTTCA
* *
8065379 AAAGAAACAATCTCAAAGGTTTATGTTTCA
1 AGAGAAACAATCTCAAAGGTTAATGTTTCA
* ** ***
8065409 GGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCA
1 AGAGAAACAATCTCAA---AG-GTTAA--TGTTTCA
* *
8065445 AGAGAAATAATCTCAAAGGTTTATGTTTCA
1 AGAGAAACAATCTCAAAGGTTAATGTTTCA
* ** * ***
8065475 TGAGAAACTGTTTCAAGCGAGACAAAATTTGTTTCA
1 AGAGAAACAATCTCAA---AG-GTTAA--TGTTTCA
* *
8065511 AGAGAAACAATCTCAAATGTTTATGTTTCA
1 AGAGAAACAATCTCAAAGGTTAATGTTTCA
8065541 AGAGAAAC
1 AGAGAAAC
8065549 TGTCTCTAGC
Statistics
Matches: 262, Mismatches: 76, Indels: 60
0.66 0.19 0.15
Matches are distributed among these distances:
30 131 0.50
31 2 0.01
32 8 0.03
33 14 0.05
34 9 0.03
35 2 0.01
36 96 0.37
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (30 bp):
AGAGAAACAATCTCAAAGGTTAATGTTTCA
Found at i:8065273 original size:96 final size:96
Alignment explanation
Indices: 8065151--8065548 Score: 333
Period size: 96 Copynumber: 4.1 Consensus size: 96
8065141 CTTTGTTTTG
* * * * *
8065151 AGAGAAACAATCCCAAAGGTTTATGTTTCAAGAGAAACTGTTTCAAGCAAGTCAAATTTTGTTTC
1 AGAGAAACAATCTCAAAGGTTAATGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTC
*
8065216 AAGAGAAACAATCTCAAAGGTTAATGGTTCA
66 AAGAGAAACAATCTCAAAGGTTAATGTTTCA
* *
8065247 AGAGAAACAATCTCAAAGGTTAATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTATTTC
1 AGAGAAACAATCTCAAAGGTTAATGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTC
*
8065312 AAGAGAAACAATCTCAAAGGTTTATGTTTCA
66 AAGAGAAACAATCTCAAAGGTTAATGTTTCA
* * ** ** * ** **
8065343 GGAGAATCTGTCTCAAGAGAGACAAAATTTGTTTCAAAAGAAACAATCTC-A--AAG----GTTT
1 AGAGAAACAATCTCAA-AG-G--TTAA--TGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATT
* ** ***
8065401 ATGTTTCAGGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCA
60 -TGTTTCAAGAGAAACAATCTCAA---AG-GTTAA--TGTTTCA
* * * * *
8065445 AGAGAAATAATCTCAAAGGTTTATGTTTCATGAGAAACTGTTTCAAGCGAGACAAAATTTGTTTC
1 AGAGAAACAATCTCAAAGGTTAATGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTC
* *
8065510 AAGAGAAACAATCTCAAATGTTTATGTTTCA
66 AAGAGAAACAATCTCAAAGGTTAATGTTTCA
8065541 AGAGAAAC
1 AGAGAAAC
8065549 TGTCTCTAGC
Statistics
Matches: 228, Mismatches: 54, Indels: 40
0.71 0.17 0.12
Matches are distributed among these distances:
95 2 0.01
96 148 0.65
97 3 0.01
98 3 0.01
99 7 0.03
100 4 0.02
101 3 0.01
102 56 0.25
103 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (96 bp):
AGAGAAACAATCTCAAAGGTTAATGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTC
AAGAGAAACAATCTCAAAGGTTAATGTTTCA
Found at i:8065376 original size:162 final size:163
Alignment explanation
Indices: 8065107--8065416 Score: 444
Period size: 162 Copynumber: 1.9 Consensus size: 163
8065097 AGATTAAATT
* * * * **
8065107 TGTTTCAAGAGAAATTGTCACGAGCGAGACGAAACTTTGTTTTGAGAGAAACAATCCCAAAGGTT
1 TGTTTCAAGAGAAACTGTCACAAGCGAGACGAAAATTTATTTCAAGAGAAACAATCCCAAAGGTT
* * * *
8065172 TATGTTTCAAGAGAAACTGTTTCAAGCAAGTCAAATTTTGTTTCAAGAGAAACAATCTCAAAGGT
66 TATGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGT
8065237 TAATGGTTCAAGAGAAACAATCTCAAAGGTTAA
131 TAATGGTTCAAGAGAAACAATCTCAAAGGTTAA
* *
8065270 TGTTTCAAGAGAAACTGTCTCAAGCGAGAC-AAAATTTATTTCAAGAGAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTGTCACAAGCGAGACGAAAATTTATTTCAAGAGAAACAATCCCAAAGGTT
* *
8065334 TATGTTTCAGGAGAATCTGTCTCAAG-AGAGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGG
66 TATGTTTCAAGAGAAACTGTCTCAAGCA-AGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGG
* * *
8065398 TTTATGTTTCAGGAGAAAC
130 TTAATGGTTCAAGAGAAAC
8065417 TGTCTCAAGC
Statistics
Matches: 129, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
161 1 0.01
162 101 0.78
163 27 0.21
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (163 bp):
TGTTTCAAGAGAAACTGTCACAAGCGAGACGAAAATTTATTTCAAGAGAAACAATCCCAAAGGTT
TATGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATTTGTTTCAAAAGAAACAATCTCAAAGGT
TAATGGTTCAAGAGAAACAATCTCAAAGGTTAA
Found at i:8065609 original size:30 final size:30
Alignment explanation
Indices: 8065573--8065689 Score: 110
Period size: 30 Copynumber: 3.7 Consensus size: 30
8065563 CAAAAAAAAA
8065573 TTCAAGAGAAACAATCTCAAAGGTTTATGT
1 TTCAAGAGAAACAATCTCAAAGGTTTATGT
* *** **
8065603 TGCAAGAGAAATTGTCTCAATCGAGACAAAATT-TGT
1 TTCAAGAGAAACAATCTCAA---AG----GTTTATGT
8065639 TTCAAGAGAAACAATCTCAAAGGTTTATGT
1 TTCAAGAGAAACAATCTCAAAGGTTTATGT
8065669 TTCAAGAGAAACAATCTCAAA
1 TTCAAGAGAAACAATCTCAAA
8065690 TGAGATGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 16
0.71 0.13 0.17
Matches are distributed among these distances:
29 2 0.03
30 40 0.60
33 4 0.06
36 19 0.28
37 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAAGAGAAACAATCTCAAAGGTTTATGT
Found at i:8065688 original size:66 final size:66
Alignment explanation
Indices: 8065243--8065680 Score: 687
Period size: 66 Copynumber: 6.6 Consensus size: 66
8065233 AGGTTAATGG
* *
8065243 TTCAAGAGAAACAATCTCAAAGGTTAATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTA
1 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
8065308 T
66 T
* * *
8065309 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAGGAGAATCTGTCTCAAGAGAGACAAAATTTG
1 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
8065374 T
66 T
* *
8065375 TTCAAAAGAAACAATCTCAAAGGTTTATGTTTCAGGAGAAACTGTCTCAAGCGAGACAAAATTTG
1 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
8065440 T
66 T
* * *
8065441 TTCAAGAGAAATAATCTCAAAGGTTTATGTTTCATGAGAAACTGTTTCAAGCGAGACAAAATTTG
1 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
8065506 T
66 T
* * * ****
8065507 TTCAAGAGAAACAATCTCAAATGTTTATGTTTCAAGAGAAACTGTCTCTAGCAAGACAAAAAAAA
1 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
*
8065572 A
66 T
* * *
8065573 TTCAAGAGAAACAATCTCAAAGGTTTATGTTGCAAGAGAAATTGTCTCAATCGAGACAAAATTTG
1 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
8065638 T
66 T
8065639 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAC
1 TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAAC
8065681 AATCTCAAAT
Statistics
Matches: 336, Mismatches: 36, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 336 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (66 bp):
TTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
T
Found at i:8074917 original size:21 final size:23
Alignment explanation
Indices: 8074871--8074915 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8074861 TACTCAACTC
*
8074871 AGAGATATCATATCACTACCCAA
1 AGAGATATCATATCACGACCCAA
8074894 AGAGATCATCAT-TCA-GACCCAA
1 AGAGAT-ATCATATCACGACCCAA
8074916 GAAGCAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.20
Consensus pattern (23 bp):
AGAGATATCATATCACGACCCAA
Found at i:8094225 original size:66 final size:66
Alignment explanation
Indices: 8094064--8094796 Score: 317
Period size: 67 Copynumber: 10.7 Consensus size: 66
8094054 ACAATTTGTC
* * * ** * * * *
8094064 ACCTTGGAGATTGCTTCTCTCCAAAAAAAAATTCCGTCTAGCTTGAGACATTTTTTTTTTTGAAA
1 ACCTTTGAGATTGTTTCTCT-C-AAAACAAATTTTGTCTCGCTTGAGACA--GTTTCTCTTGAAA
8094129 -A-AA
62 CATAA
* * * *
8094132 AGCCTTAGAGATTGTTT-TCCTCAAAACAAATTTTGTCTCACTTGAGGCAGTTTCTC-TGTAAAT
1 A-CCTTTGAGATTGTTTCT-CTCAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTG-AAAC
*
8094195 GTAA
63 ATAA
*
8094199 ACCTTTGAGATTGTTTCTCTCCAAACAAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT
1 ACCTTTGAGATTGTTTCTCTCAAAAC-AAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT
8094264 AA
65 AA
* * * * *
8094266 ACCTTTGAGATTGCTTCTCTCAAAACAAAGTTTCGTCTTGCTTGAGACAGTTTCTTTTGAAACAA
1 ACCTTTGAGATTGTTTCTCTCAAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT
8094331 AA
65 AA
** * * * * * * *
8094333 TTGATCTCACATGAGATTGTTT-TCTTAAAAACAAATTTCGTGTCACTTGAGATAATTTTCCCTT
1 ---A-C-C-TTTGAGATTGTTTCTC-TCAAAACAAATTTTGTCTCGCTTGAGA-CAGTTTCTCTT
* ***
8094397 GAGATGCAA
58 GAAACATAA
* * * ** * ** ** * * * *
8094406 A-CTTTGAAATTGTTGCACTTGAAATAAAACTAATCTCACTTGAGATTA-TTTCT-TTCAAACAA
1 ACCTTTGAGATTGTTTCTCTCAAAACAAATTTTGTCTCGCTTGAGA-CAGTTTCTCTTGAAACAT
8094468 AA
65 AA
* * * ** * ** * *
8094470 ATCGTCTCTCTTGAG-TCAGTTTTCCCTCGAAACACAAATATTGAAATTG-TT-TCACTGTTTCA
1 A----C-CT-TTGAGAT-TG-TTTCTCTC-AAA-ACAAATTTTG-TCTCGCTTGAGACAGTTTCT
8094532 CTTGAAACA-AA
55 CTTGAAACATAA
* ** * *
8094543 GTTGATCTCAATTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAGATAGTTTATCTT
1 ----A-C-C-TTTGAGATTGTTTCTCTCAAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTT
8094608 GAAACATAAA
58 GAAACAT-AA
** *
8094618 ACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
1 ACCTTTGAGATTGTTTCTCTCAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
8094683 A
66 A
* * * ** * * *
8094684 ACCTTTGATATTGTTTATCTCGAAACAAAGTTTCATCTCGCTTGAGATAGTTTTTCTTGAAACAC
1 ACCTTTGAGATTGTTTCTCTCAAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT
8094749 AA
65 AA
* **
8094751 A-TTCTTGAGATTGTTTCTCTTGAAACAAA--TTGTCTCGCTTGAGACA
1 ACCT-TTGAGATTGTTTCTCTCAAAACAAATTTTGTCTCGCTTGAGACA
8094797 ATTTTCCACA
Statistics
Matches: 505, Mismatches: 115, Indels: 94
0.71 0.16 0.13
Matches are distributed among these distances:
64 23 0.05
65 11 0.02
66 82 0.16
67 205 0.41
68 29 0.06
69 16 0.03
70 6 0.01
71 14 0.03
72 30 0.06
73 60 0.12
74 24 0.05
75 4 0.01
77 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (66 bp):
ACCTTTGAGATTGTTTCTCTCAAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
A
Found at i:8094636 original size:68 final size:68
Alignment explanation
Indices: 8094554--8094794 Score: 341
Period size: 67 Copynumber: 3.6 Consensus size: 68
8094544 TTGATCTCAA
8094554 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAGATAGTTTATCTTGAAACATAAAA
1 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAGATAGTTTATCTTGAAACATAAAA
8094619 CCT
66 CCT
* *
8094622 TTGAGATTGTTTCTCTTGAAAC-AAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT-AAA
1 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAGATAGTTTATCTTGAAACATAAAA
8094685 CCT
66 CCT
* * * ** * * *
8094688 TTGATATTGTTTATCTCGAAACAAAGTTTCATCTCGCTTGAGATAGTTTTTCTTGAAACACAAAT
1 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAGATAGTTTATCTTGAAACATAAAA
*
8094753 TC-
66 CCT
8094755 TTGAGATTGTTTCTCTTGAAACAAA---TTGTCTCGCTTGAGA
1 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAGA
8094795 CAATTTTCCA
Statistics
Matches: 154, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
64 13 0.08
66 25 0.16
67 91 0.59
68 25 0.16
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (68 bp):
TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAGATAGTTTATCTTGAAACATAAAA
CCT
Found at i:8094670 original size:36 final size:36
Alignment explanation
Indices: 8094554--8094680 Score: 129
Period size: 36 Copynumber: 3.6 Consensus size: 36
8094544 TTGATCTCAA
*
8094554 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGC
1 TTGAGATAGTTTCTCTTGAAAC-AAGTTTTGTCTCGC
* **** *
8094591 TTGAGATAGTTTATCTTGAAAC-A--TAAAAC-C-T
1 TTGAGATAGTTTCTCTTGAAACAAGTTTTGTCTCGC
*
8094622 TTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGC
1 TTGAGATAGTTTCTCTTGAAACAAGTTTTGTCTCGC
*
8094658 TTGAGACAGTTTCTCTTGAAACA
1 TTGAGATAGTTTCTCTTGAAACA
8094681 TAAACCTTTG
Statistics
Matches: 69, Mismatches: 16, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
31 20 0.29
32 2 0.03
33 2 0.03
34 2 0.03
35 2 0.03
36 21 0.30
37 20 0.29
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (36 bp):
TTGAGATAGTTTCTCTTGAAACAAGTTTTGTCTCGC
Found at i:8095417 original size:139 final size:139
Alignment explanation
Indices: 8095160--8095585 Score: 471
Period size: 139 Copynumber: 3.1 Consensus size: 139
8095150 CCAAACAATC
* * * * * *
8095160 AGACTTCCTTATCACGTAGGAACCGTG-T-TCTCCAAATTATCCCTAAAGATGGCTAGACGTCTT
1 AGACTTCCTCATCACATAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGACTAGACATCCT
* * * * * * * * *
8095223 CATCACGTAGGAACAATGTCGTCCACCGACCAGATTTCCTCAACGAGTAGGAGCAGTGTCTTCCT
66 CATCAAGTAGGAAAAATATCATCCACCGACCAAATCTCCTCAACGCGAAGGAGCAGTGTCATCCT
8095288 TAGATAACT
131 TAGATAACT
* * * * *
8095297 AGATTTCCTCATCACATAGGAACTGTGTTGTTTCTAAATTATCCCTAAAGACGACTATACATCCT
1 AGACTTCCTCATCACATAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGACTAGACATCCT
* * * * * * * * ** * *
8095362 CGTTAATTAGGAAAAATGTCATTCACCGACCATATCTCCTTAACTCGTTGTAGCAGTGTCATCAT
66 CATCAAGTAGGAAAAATATCATCCACCGACCAAATCTCCTCAACGCGAAGGAGCAGTGTCATCCT
*
8095427 CAGATAACT
131 TAGATAACT
* *
8095436 AGACTTCCTCATCACGTAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGATGACTAGACATCCT
1 AGACTTCCTCATCACATAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGACTAGACATCCT
* * *
8095501 CATCACGTAGGAACAATATCGTCCACCGACCAAATCTCCTCAACGCGAAGGAGCAGTGTCATCCT
66 CATCAAGTAGGAAAAATATCATCCACCGACCAAATCTCCTCAACGCGAAGGAGCAGTGTCATCCT
*
8095566 TAGACAA-T
131 TAGATAACT
8095574 CAGACTTCCTCA
1 -AGACTTCCTCA
8095586 ATGCGAAGGA
Statistics
Matches: 234, Mismatches: 52, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
137 23 0.10
138 2 0.01
139 209 0.89
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (139 bp):
AGACTTCCTCATCACATAGGAACCGTGTTGTCTCCAAATTATCCCTAAAGACGACTAGACATCCT
CATCAAGTAGGAAAAATATCATCCACCGACCAAATCTCCTCAACGCGAAGGAGCAGTGTCATCCT
TAGATAACT
Found at i:8095598 original size:43 final size:43
Alignment explanation
Indices: 8095537--8095638 Score: 195
Period size: 43 Copynumber: 2.4 Consensus size: 43
8095527 CGACCAAATC
*
8095537 TCCTCAACGCGAAGGAGCAGTGTCATCCTTAGACAATCAGACT
1 TCCTCAATGCGAAGGAGCAGTGTCATCCTTAGACAATCAGACT
8095580 TCCTCAATGCGAAGGAGCAGTGTCATCCTTAGACAATCAGACT
1 TCCTCAATGCGAAGGAGCAGTGTCATCCTTAGACAATCAGACT
8095623 TCCTCAATGCGAAGGA
1 TCCTCAATGCGAAGGA
8095639 ACCGTGTTGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (43 bp):
TCCTCAATGCGAAGGAGCAGTGTCATCCTTAGACAATCAGACT
Found at i:8097499 original size:15 final size:15
Alignment explanation
Indices: 8097472--8097520 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
8097462 TCACGTTTAG
8097472 ATTTTTTAAAATATAT
1 ATTTTTT-AAATATAT
*
8097488 ATTTTTTGAATAATAT
1 ATTTTTTAAAT-ATAT
*
8097504 TTTTTTTAAATATAT
1 ATTTTTTAAATATAT
8097519 AT
1 AT
8097521 AAACATAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
ATTTTTTAAATATAT
Found at i:8101262 original size:15 final size:16
Alignment explanation
Indices: 8101233--8101264 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
8101223 ATATGAATGA
8101233 AAAAGAATAGAAATTC
1 AAAAGAATAGAAATTC
8101249 AAAAGAAT-GAAATTC
1 AAAAGAATAGAAATTC
8101264 A
1 A
8101265 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAAGAATAGAAATTC
Found at i:8101990 original size:10 final size:10
Alignment explanation
Indices: 8101975--8102011 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
8101965 ATGTTTAAGG
8101975 TATATTTTAT
1 TATATTTTAT
8101985 TATATTTTAT
1 TATATTTTAT
8101995 TATATTTT-T
1 TATATTTTAT
*
8102004 AATATTTT
1 TATATTTT
8102012 GTATTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATATTTTAT
Found at i:8102016 original size:21 final size:20
Alignment explanation
Indices: 8101959--8102011 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
8101949 AATACTCTTA
8101959 TATTATATGTTTAAGGTATATTT
1 TATTATAT-TTTAA--TATATTT
*
8101982 TATTATATTTTATTATATTT
1 TATTATATTTTAATATATTT
*
8102002 T-TAATATTTT
1 TATTATATTTT
8102012 GTATTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.29
20 8 0.29
22 4 0.14
23 8 0.29
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (20 bp):
TATTATATTTTAATATATTT
Found at i:8102025 original size:9 final size:9
Alignment explanation
Indices: 8102013--8102069 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
8102003 TAATATTTTG
8102013 TATTTAATT
1 TATTTAATT
*
8102022 TATTTAA-G
1 TATTTAATT
8102030 TATTTAATT
1 TATTTAATT
8102039 TATTTAA--
1 TATTTAATT
*
8102046 TATTTTATT
1 TATTTAATT
*
8102055 TATATAATT
1 TATTTAATT
*
8102064 TTTTTA
1 TATTTA
8102070 CAGATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
7 6 0.16
8 7 0.18
9 25 0.66
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TATTTAATT
Found at i:8102025 original size:16 final size:16
Alignment explanation
Indices: 8102006--8102057 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
8101996 ATATTTTTAA
*
8102006 TATTTTGTATTTAATT
1 TATTTAGTATTTAATT
8102022 TATTTAAGTATTTAATT
1 TATTT-AGTATTTAATT
* *
8102039 TATTTAATATTTTATT
1 TATTTAGTATTTAATT
8102055 TAT
1 TAT
8102058 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 17 0.53
17 15 0.47
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
TATTTAGTATTTAATT
Found at i:8102034 original size:17 final size:17
Alignment explanation
Indices: 8102012--8102057 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
8102002 TTAATATTTT
8102012 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
8102029 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
*
8102046 -TATTTTATTTAT
1 GTATTTAATTTAT
8102058 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:8102067 original size:16 final size:16
Alignment explanation
Indices: 8102013--8102066 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 16
8102003 TAATATTTTG
* *
8102013 TATTTAATTTATTTAA
1 TATTTTATTTATATAA
* *
8102029 GTATTTAATTTATTTAA
1 -TATTTTATTTATATAA
8102046 TATTTTATTTATATAA
1 TATTTTATTTATATAA
8102062 T-TTTT
1 TATTTT
8102067 TTACAGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.11
16 15 0.43
17 16 0.46
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTTATTTATATAA
Found at i:8104317 original size:13 final size:12
Alignment explanation
Indices: 8104292--8104339 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
8104282 TTTGTATTTA
8104292 GTACTTTTTTATT
1 GTAC-TTTTTATT
*
8104305 GTAGTTGTTTATT
1 GTACTT-TTTATT
*
8104318 GAACTTTTTATT
1 GTACTTTTTATT
*
8104330 GTAATTTTTA
1 GTACTTTTTA
8104340 AATTTATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 16 0.55
13 13 0.45
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.62
Consensus pattern (12 bp):
GTACTTTTTATT
Found at i:8106887 original size:21 final size:21
Alignment explanation
Indices: 8106861--8106905 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8106851 GATTTCTGGG
* *
8106861 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
8106882 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
8106903 CAA
1 CAA
8106906 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:8107512 original size:18 final size:18
Alignment explanation
Indices: 8107489--8107523 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8107479 CTAGGAGATT
8107489 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
8107507 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
8107524 CTAGATGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:8108581 original size:149 final size:149
Alignment explanation
Indices: 8108401--8108703 Score: 606
Period size: 149 Copynumber: 2.0 Consensus size: 149
8108391 GAGTCGAGGG
8108401 TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
8108466 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
8108531 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
8108550 TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
8108615 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
8108680 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
8108699 TCTAC
1 TCTAC
8108704 GGGGCACTTT
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACACGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:8112180 original size:211 final size:212
Alignment explanation
Indices: 8111815--8112233 Score: 795
Period size: 211 Copynumber: 2.0 Consensus size: 212
8111805 TAATAAAAGT
*
8111815 GATACTTATGACACTAAATGTGTAGTTTACCCAAATTTTAAGGTTGATTTTTTTTAACTTTTTGA
1 GATACTTATGACACTAAATGTGTAGTTTACCCAAATTTTAAGGTTGATTTTTTTAAACTTTTTGA
8111880 TACATTTTTCTTAAAATATGACTGGTAGAAGAATATATTCAATATATTTTATTTATTATTTAAAT
66 TACATTTTTCTTAAAATATGACTGGTAGAAGAATATATTCAATATATTTTATTTATTATTTAAAT
* *
8111945 ATGTTTAATATATTTTATTTCTTTTAAATAAATTAGTTTTACAATTTTATATTTATCAAAAAATA
131 ATATTTAAGATATTTTATTTCTTTTAAATAAATTAGTTTTACAATTTTATATTTATCAAAAAATA
8112010 TAATTATATTTAAAAAC
196 TAATTATATTTAAAAAC
8112027 GATACTTATGACACTAAATGTGTAGTTTACCCAAATTTTAAGGTTGA-TTTTTTAAACTTTTTGA
1 GATACTTATGACACTAAATGTGTAGTTTACCCAAATTTTAAGGTTGATTTTTTTAAACTTTTTGA
*
8112091 TACATTTTTCTTAAAATATGACTGGTAGAAGAATATATTCGATATATTTTATTTATTATTTAAAT
66 TACATTTTTCTTAAAATATGACTGGTAGAAGAATATATTCAATATATTTTATTTATTATTTAAAT
8112156 ATATTTAAGATATTTTATTTCTTTTAAATAAATTAGTTTTACAATTTTATATTTATCAAAAAATA
131 ATATTTAAGATATTTTATTTCTTTTAAATAAATTAGTTTTACAATTTTATATTTATCAAAAAATA
8112221 TAATTATATTTAA
196 TAATTATATTTAA
8112234 TTTTCAAAAT
Statistics
Matches: 203, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
211 156 0.77
212 47 0.23
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (212 bp):
GATACTTATGACACTAAATGTGTAGTTTACCCAAATTTTAAGGTTGATTTTTTTAAACTTTTTGA
TACATTTTTCTTAAAATATGACTGGTAGAAGAATATATTCAATATATTTTATTTATTATTTAAAT
ATATTTAAGATATTTTATTTCTTTTAAATAAATTAGTTTTACAATTTTATATTTATCAAAAAATA
TAATTATATTTAAAAAC
Found at i:8113402 original size:15 final size:16
Alignment explanation
Indices: 8113370--8113402 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8113360 ACGGAAACAA
8113370 AAAAGAAAAAAATGAT
1 AAAAGAAAAAAATGAT
*
8113386 AAAAGGAAAAAAT-AT
1 AAAAGAAAAAAATGAT
8113401 AA
1 AA
8113403 TAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAGAAAAAAATGAT
Found at i:8113411 original size:2 final size:2
Alignment explanation
Indices: 8113397--8113438 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
8113387 AAAGGAAAAA
* *
8113397 AT AT A- AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8113438 A
1 A
8113439 CTAGATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8113498 original size:2 final size:2
Alignment explanation
Indices: 8113491--8113519 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8113481 AGAAATAGAA
8113491 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 A
8113520 AATGACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8117047 original size:99 final size:99
Alignment explanation
Indices: 8116876--8117068 Score: 280
Period size: 99 Copynumber: 1.9 Consensus size: 99
8116866 AGCTTAATAG
* *
8116876 TATAATCACCTCTATTAGGATAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAAATTCTT
1 TATAATCACCTCTATCAGGATAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAAATTCTC
* *
8116941 TAGAGGGACAGCTCAAGCTTTATTGTATAGATAT
66 TAGAGGGACAACTCAAGATTTATTGTATAGATAT
* * **
8116975 TATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTTGGGGCGTTTAACC-AATTGCT
1 TATAATCACCTCTATCAGGATAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAAATT-CT
* *
8117039 CTAGAGGGATAACTCAAGATTTATTTTATA
65 CTAGAGGGACAACTCAAGATTTATTGTATA
8117069 TATAATATTA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 4 0.05
99 79 0.95
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (99 bp):
TATAATCACCTCTATCAGGATAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAAATTCTC
TAGAGGGACAACTCAAGATTTATTGTATAGATAT
Found at i:8119124 original size:25 final size:25
Alignment explanation
Indices: 8119093--8119142 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
8119083 AATTTTCTAA
8119093 ATCTTACCAACACGTACTAGTATCT
1 ATCTTACCAACACGTACTAGTATCT
8119118 ATCTTACCAACACGTACTAGTATCT
1 ATCTTACCAACACGTACTAGTATCT
8119143 CATTCATCGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (25 bp):
ATCTTACCAACACGTACTAGTATCT
Found at i:8121245 original size:14 final size:16
Alignment explanation
Indices: 8121222--8121253 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8121212 CAAATAAAAT
8121222 AAAATAAAAAG-GAAA
1 AAAATAAAAAGAGAAA
8121237 AAAAT-AAAAGAGAAA
1 AAAATAAAAAGAGAAA
8121252 AA
1 AA
8121254 TACAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAATAAAAAGAGAAA
Found at i:8121324 original size:3 final size:3
Alignment explanation
Indices: 8121279--8121309 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8121269 ATATTAAGTG
8121279 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8121310 AAGGAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8121324 original size:22 final size:21
Alignment explanation
Indices: 8121296--8121342 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8121286 TAATAATAAT
*
8121296 AATAATAATAATAAAAGGAAAA
1 AATAATAATAA-AAAAGAAAAA
* *
8121318 AATAATACTAAAAATGAAAAA
1 AATAATAATAAAAAAGAAAAA
8121339 AATA
1 AATA
8121343 CAAATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (21 bp):
AATAATAATAAAAAAGAAAAA
Found at i:8121450 original size:4 final size:4
Alignment explanation
Indices: 8121441--8121492 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
8121431 GAAAAAAGAT
* * *
8121441 AATA AATA AATA TATA AATA AATA TACTA GATTA AATA AATAA AATA AATA
1 AATA AATA AATA AATA AATA AATA -AATA -AATA AATA AAT-A AATA AATA
8121492 A
1 A
8121493 TAATAATTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 30 0.75
5 10 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:8121459 original size:12 final size:12
Alignment explanation
Indices: 8121442--8121495 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
8121432 AAAAAAGATA
8121442 ATAAATAAATAT
1 ATAAATAAATAT
8121454 ATAAATAAATAT
1 ATAAATAAATAT
* *
8121466 ACTAGATTAAATAA
1 A-TA-AATAAATAT
8121480 ATAAAATAAATA-
1 AT-AAATAAATAT
8121492 ATAA
1 ATAA
8121496 TAATTGCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 2 0.06
12 15 0.42
13 10 0.28
14 9 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (12 bp):
ATAAATAAATAT
Found at i:8123536 original size:51 final size:50
Alignment explanation
Indices: 8123472--8123585 Score: 147
Period size: 51 Copynumber: 2.3 Consensus size: 50
8123462 AGGATTAGAT
* * * * *
8123472 TTATTATTTTATTAGGAACTAAGATAGAGTTAAAATATTATCTTTAATTTA
1 TTATTATTTTATTAGAAACTAAGATAGAATCAAAACA-TATATTTAATTTA
* * *
8123523 TTATTATTTTATTAGAAATTATGATAGAATCAAAACATATATTTAGTTTA
1 TTATTATTTTATTAGAAACTAAGATAGAATCAAAACATATATTTAATTTA
8123573 TTATTATTTTATT
1 TTATTATTTTATT
8123586 TAGTAGTTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 24 0.44
51 31 0.56
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.50
Consensus pattern (50 bp):
TTATTATTTTATTAGAAACTAAGATAGAATCAAAACATATATTTAATTTA
Found at i:8132903 original size:9 final size:10
Alignment explanation
Indices: 8132880--8132913 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8132870 ATGATGAACT
8132880 AAAAATTATG
1 AAAAATTATG
8132890 AAAAATTATG
1 AAAAATTATG
*
8132900 AAAAATTATT
1 AAAAATTATG
8132910 AAAA
1 AAAA
8132914 CTTTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (10 bp):
AAAAATTATG
Found at i:8134653 original size:15 final size:17
Alignment explanation
Indices: 8134618--8134652 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8134608 AATACTTTTC
8134618 AAAA-ATAAAAAAATAT
1 AAAATATAAAAAAATAT
8134634 AAAATATAAAAAAAT-T
1 AAAATATAAAAAAATAT
8134650 AAA
1 AAA
8134653 TCCCTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATATAAAAAAATAT
Found at i:8134809 original size:22 final size:22
Alignment explanation
Indices: 8134783--8134824 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8134773 CTTAAATCCC
* *
8134783 TAAATTTATAAATCATTAAACT
1 TAAATATATAAATCACTAAACT
*
8134805 TAAATATCTAAATCACTAAA
1 TAAATATATAAATCACTAAA
8134825 ATCTCAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATATATAAATCACTAAACT
Found at i:8137344 original size:17 final size:17
Alignment explanation
Indices: 8137322--8137358 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8137312 GGAATAAAGT
* *
8137322 TAGTTCATTGATTAAAC
1 TAGTTCATTAATCAAAC
8137339 TAGTTCATTAATCAAAC
1 TAGTTCATTAATCAAAC
8137356 TAG
1 TAG
8137359 CTCTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (17 bp):
TAGTTCATTAATCAAAC
Found at i:8145820 original size:20 final size:22
Alignment explanation
Indices: 8145775--8145832 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
8145765 GCATGAGTAG
8145775 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
8145799 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
* *
8145819 TGTACCGATGCACT
1 TGCATCGATGCACT
8145833 TCAATGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 2 0.06
24 13 0.41
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:8146629 original size:2 final size:2
Alignment explanation
Indices: 8146622--8146671 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
8146612 AATAGAAGTG
8146622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8146664 AT AT AT AT
1 AT AT AT AT
8146672 GTGTGTGTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8146676 original size:2 final size:2
Alignment explanation
Indices: 8146671--8146723 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
8146661 TATATATATA
8146671 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8146713 TG TG TG TG TG T
1 TG TG TG TG TG T
8146724 TTTTAAGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:8147490 original size:18 final size:18
Alignment explanation
Indices: 8147467--8147540 Score: 103
Period size: 18 Copynumber: 3.9 Consensus size: 18
8147457 AGGGATTATC
8147467 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
8147485 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTTCGGGAC--AT
* *
8147505 CAGTGGTCCTTCGAGATAT
1 -AGTGGTCCTTCGGGACAT
8147524 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
8147541 AATATTAAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 31 0.63
19 2 0.04
20 2 0.04
21 14 0.29
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:8147517 original size:39 final size:39
Alignment explanation
Indices: 8147463--8147540 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
8147453 GTCGAGGGAT
*
8147463 TATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
1 TATCAGTGGTCCTTCGAGACATAGTGGTCCTTCGGGACA
*
8147502 TATCAGTGGTCCTTCGAGATATAGTGGTCCTTCGGGACA
1 TATCAGTGGTCCTTCGAGACATAGTGGTCCTTCGGGACA
8147541 AATATTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TATCAGTGGTCCTTCGAGACATAGTGGTCCTTCGGGACA
Found at i:8152666 original size:13 final size:13
Alignment explanation
Indices: 8152648--8152706 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
8152638 GTCATAAATC
8152648 TATGACGCGCATT
1 TATGACGCGCATT
* *
8152661 TATGACACGTATT
1 TATGACGCGCATT
* *
8152674 TATGACACACATT
1 TATGACGCGCATT
*
8152687 TATGACGCTCATT
1 TATGACGCGCATT
8152700 TATGACG
1 TATGACG
8152707 AACATTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:8152712 original size:13 final size:13
Alignment explanation
Indices: 8152671--8152712 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8152661 TATGACACGT
8152671 ATTTATGAC-ACAC
1 ATTTATGACGA-AC
**
8152684 ATTTATGACGCTC
1 ATTTATGACGAAC
8152697 ATTTATGACGAAC
1 ATTTATGACGAAC
8152710 ATT
1 ATT
8152713 GAACGTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (13 bp):
ATTTATGACGAAC
Found at i:8152876 original size:2 final size:2
Alignment explanation
Indices: 8152869--8152893 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8152859 TTTCGTAAAT
8152869 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8152894 TGTAGATTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8159678 original size:39 final size:39
Alignment explanation
Indices: 8159635--8159711 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
8159625 TGCACCCATA
* **
8159635 GTGCCCATACGGTCATTCATAAACATATTATGAATTCTG
1 GTGCCCAAACGGTCATTCATAAACATAGGATGAATTCTG
* * **
8159674 GTGCCGAAACGGTTATTCATCCACATAGGATGAATTCT
1 GTGCCCAAACGGTCATTCATAAACATAGGATGAATTCT
8159712 ATGAAATGCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (39 bp):
GTGCCCAAACGGTCATTCATAAACATAGGATGAATTCTG
Found at i:8159771 original size:54 final size:54
Alignment explanation
Indices: 8159674--8159999 Score: 418
Period size: 54 Copynumber: 6.0 Consensus size: 54
8159664 ATGAATTCTG
** **
8159674 GTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTATGAAATGCACACTTA
1 GTGCCGAAACGACTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* * * * ** *
8159728 GTGTCAAAACGACTATTTATCCACATAGGATAAATTTTGTGAAATTCACACTTA
1 GTGCCGAAACGACTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* ** * * *
8159782 GTGCCGGAACGGTTATTTATTCACATAGGACGAATTCCGTGAAATGCACACTTA
1 GTGCCGAAACGACTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
* * * *
8159836 GTGCCGAAACAACTATTCATCCTCATAGGATGAATTCCGTGAAATGTACATTTA
1 GTGCCGAAACGACTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
*
8159890 GTGCCGAAACGCCTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
1 GTGCCGAAACGACTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
** * *
8159944 GTGTAGAAACGGCTATTCATCCACTTAGGATGAATTCCGTGAAATGCACACTTA
1 GTGCCGAAACGACTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
8159998 GT
1 GT
8160000 TCCTATTTGG
Statistics
Matches: 233, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 233 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (54 bp):
GTGCCGAAACGACTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTA
Found at i:8159995 original size:27 final size:27
Alignment explanation
Indices: 8159915--8159998 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
8159905 TTCATCCACA
8159915 TAGGATGAATTCCGTGAAATGCACACT
1 TAGGATGAATTCCGTGAAATGCACACT
* ** *
8159942 TAGTG-TAGAA--ACG-GCTATTCATCCACT
1 TAG-GAT-GAATTCCGTGAAATGCA--CACT
8159969 TAGGATGAATTCCGTGAAATGCACACT
1 TAGGATGAATTCCGTGAAATGCACACT
8159996 TAG
1 TAG
8159999 TTCCTATTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
25 5 0.12
26 6 0.15
27 19 0.46
28 6 0.15
29 5 0.12
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
TAGGATGAATTCCGTGAAATGCACACT
Found at i:8160493 original size:95 final size:95
Alignment explanation
Indices: 8160363--8160548 Score: 291
Period size: 95 Copynumber: 2.0 Consensus size: 95
8160353 ACTTCTACAA
* * * * *
8160363 TATGGTATCGATACCCCCTTCCGGTATCGATACCGATTTTAGGTTAGATGTTACCTGGTATTGAT
1 TATGGTACCGATACCCCCTTCCGATATCAATACCGATTTTAGCTTAGATGTTACCTGGTATCGAT
8160428 ACCCTTACCATGGTATCGATACTACCATAT
66 ACCCTTACCATGGTATCGATACTACCATAT
* ***
8160458 TATGGTACCGATACCCCCTTCCGATATCAATACCGATTTTAGCTTCGATGTTGTTTGGTATCGAT
1 TATGGTACCGATACCCCCTTCCGATATCAATACCGATTTTAGCTTAGATGTTACCTGGTATCGAT
8160523 ACCCTTACCATGGTATCGATACTACC
66 ACCCTTACCATGGTATCGATACTACC
8160549 TCATCGGTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (95 bp):
TATGGTACCGATACCCCCTTCCGATATCAATACCGATTTTAGCTTAGATGTTACCTGGTATCGAT
ACCCTTACCATGGTATCGATACTACCATAT
Found at i:8162096 original size:22 final size:22
Alignment explanation
Indices: 8162071--8162112 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8162061 ATCCTGAATG
*
8162071 ACCTATGGATTTGTCCCGAAGA
1 ACCTATGGATATGTCCCGAAGA
* *
8162093 ACCTCTGTATATGTCCCGAA
1 ACCTATGGATATGTCCCGAA
8162113 TGACCACTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (22 bp):
ACCTATGGATATGTCCCGAAGA
Found at i:8162337 original size:22 final size:22
Alignment explanation
Indices: 8162312--8162361 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8162302 TTCATGTACT
*
8162312 CATGTCAT-TTCTCTTGTAATCA
1 CATGTCATCTTCTCTTCT-ATCA
*
8162334 CATGT-ATCTTTTCTTCTATCA
1 CATGTCATCTTCTCTTCTATCA
8162355 CATGTCA
1 CATGTCA
8162362 CATGAATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.22, C:0.24, G:0.08, T:0.46
Consensus pattern (22 bp):
CATGTCATCTTCTCTTCTATCA
Found at i:8162860 original size:63 final size:63
Alignment explanation
Indices: 8162748--8162879 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
8162738 TTTCACTGGT
* * * * * *
8162748 GTATCGGTACACTGCCTATGTATTGGTGCACAAATTATATTCAAAGATTTTT-GTTTCAAGGGG
1 GTATCGATACACTGCCTATGTATCGATACACAAATTACATTCAAAGATTTTTCG-TTCAAGAGG
** * *
8162811 GTATCGATACACTGCCTATGTATCGATACACTTATTACATTCGATGATTTTTCGTTCAAGAGG
1 GTATCGATACACTGCCTATGTATCGATACACAAATTACATTCAAAGATTTTTCGTTCAAGAGG
8162874 GTATCG
1 GTATCG
8162880 GTACCTATTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 57 0.98
64 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (63 bp):
GTATCGATACACTGCCTATGTATCGATACACAAATTACATTCAAAGATTTTTCGTTCAAGAGG
Found at i:8169744 original size:63 final size:63
Alignment explanation
Indices: 8169631--8169762 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 63
8169621 CTTCACTGGT
* *
8169631 GTATCGGTACACTGCCTATGTATCGGTACACAAATTACATTCAAATATTTTT-GTTTCAAG-GG
1 GTATCGATACACTGCCTATGTATCGATACACAAATTACATTCAAATATTTTTCG-TTCAAGAGG
** * *
8169693 GATATCGATACACTGCCTATGTATCGATACACTTATTGCATTC-GATGATTTTTCGTTCAAGAGG
1 G-TATCGATACACTGCCTATGTATCGATACACAAATTACATTCAAAT-ATTTTTCGTTCAAGAGG
8169757 GTATCG
1 GTATCG
8169763 GTACCTGTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
62 3 0.05
63 53 0.88
64 4 0.07
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (63 bp):
GTATCGATACACTGCCTATGTATCGATACACAAATTACATTCAAATATTTTTCGTTCAAGAGG
Found at i:8172053 original size:2 final size:2
Alignment explanation
Indices: 8172046--8172071 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8172036 GAATTTAATC
8172046 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
8172072 ATTGTTATTA
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:8174289 original size:23 final size:23
Alignment explanation
Indices: 8174236--8174282 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8174226 AAATAAAGCT
8174236 TAAAGCTTACATATAACTTCTTA
1 TAAAGCTTACATATAACTTCTTA
8174259 TAAAGCTTACATATAACTTCTTA
1 TAAAGCTTACATATAACTTCTTA
8174282 T
1 T
8174283 TCAGCTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAAGCTTACATATAACTTCTTA
Found at i:8179340 original size:126 final size:127
Alignment explanation
Indices: 8179115--8179367 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 127
8179105 TCCAACGAGT
8179115 CTCCTTTGGAGGGTTTCTATCCATTGAACCAGAACAAGGCTTTTTCATACCTATGACCTAGAATC
1 CTCCTTTGGAGGGTTTCTATCCATTGAACCAGAACAAGGCTTTTTCATACCTATGACCTAGAATC
8179180 ATATATAAAATTTAATGACTAACAGTAGATAGTAGGTTAAAGTGGGATAAGC-AAGGAAAAA
66 ATATATAAAATTTAATGACTAACAGTAGATAGTAGGTTAAAGTGGGATAAGCAAAGGAAAAA
8179241 CTCCTTTGGAGGGTTTCTATCCATTGAACCAGAACAAGGCTTTTTCATACCTATGACCTAGAATC
1 CTCCTTTGGAGGGTTTCTATCCATTGAACCAGAACAAGGCTTTTTCATACCTATGACCTAGAATC
8179306 ATATATAAAATTTAATGACTAACAGTAGATAGTAGGTTAAAGTGGGATAAGCAAAGGAAAAA
66 ATATATAAAATTTAATGACTAACAGTAGATAGTAGGTTAAAGTGGGATAAGCAAAGGAAAAA
8179368 GAGGGGAGGG
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 117 0.93
127 9 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (127 bp):
CTCCTTTGGAGGGTTTCTATCCATTGAACCAGAACAAGGCTTTTTCATACCTATGACCTAGAATC
ATATATAAAATTTAATGACTAACAGTAGATAGTAGGTTAAAGTGGGATAAGCAAAGGAAAAA
Found at i:8184674 original size:17 final size:16
Alignment explanation
Indices: 8184652--8184683 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
8184642 GCGTATCCTC
8184652 TTCTTTCTTTTTTTTTT
1 TTCTTT-TTTTTTTTTT
8184669 TTCTTTTTTTTTTTT
1 TTCTTTTTTTTTTTT
8184684 ATAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTT
Found at i:8184677 original size:12 final size:13
Alignment explanation
Indices: 8184655--8184683 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8184645 TATCCTCTTC
8184655 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
8184668 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
8184681 TTT
1 TTT
8184684 ATAAATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:8184764 original size:26 final size:26
Alignment explanation
Indices: 8184735--8184794 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
8184725 ATTTTTAGTT
8184735 TTTAATTTTTTAAATTATACTTAAAA
1 TTTAATTTTTTAAATTATACTTAAAA
8184761 TTTAATTTTTTAAATTATACTTAAAA
1 TTTAATTTTTTAAATTATACTTAAAA
8184787 TTTAATTT
1 TTTAATTT
8184795 GTGTTTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTAATTTTTTAAATTATACTTAAAA
Found at i:8190265 original size:20 final size:21
Alignment explanation
Indices: 8190225--8190265 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8190215 ATTGAATCGA
*
8190225 TTTCATCCCCAATTCCCTCTT
1 TTTCAACCCCAATTCCCTCTT
*
8190246 TTTCAACCCTAATT-CCTCTT
1 TTTCAACCCCAATTCCCTCTT
8190266 CCATCATGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTCAACCCCAATTCCCTCTT
Found at i:8195259 original size:30 final size:31
Alignment explanation
Indices: 8195207--8195272 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
8195197 TTTTGCTTTG
8195207 TGTATAATAATATTTCTTCAACGTGTTGTCC
1 TGTATAATAATATTTCTTCAACGTGTTGTCC
** *
8195238 TGTATAATGCTATTT-TTCAACGTGTTGTCG
1 TGTATAATAATATTTCTTCAACGTGTTGTCC
8195268 TGTAT
1 TGTAT
8195273 GATATTTGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.47
Consensus pattern (31 bp):
TGTATAATAATATTTCTTCAACGTGTTGTCC
Done.