Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 37
Found at i:8756077 original size:14 final size:13
Alignment explanation
Indices: 8756038--8756305 Score: 198
Period size: 14 Copynumber: 21.1 Consensus size: 13
8756028 GATGATTTAG
8756038 TAATGATTT-TAA
1 TAATGATTTATAA
8756050 TATTATGA-TT-TAA
1 TA--ATGATTTATAA
8756063 TAATGATTTAGTAA
1 TAATGATTTA-TAA
8756077 TAAT-A-TTATAA
1 TAATGATTTATAA
*
8756088 TAAT-AATT-TAA
1 TAATGATTTATAA
*
8756099 TAATGACTTTAGTATT
1 TAATGA-TTTA-TA-A
*
8756115 TGATGA-TT-TAA
1 TAATGATTTATAA
8756126 TAATGATTTGATAA
1 TAATGATTT-ATAA
*
8756140 TAATCA-TTATAA
1 TAATGATTTATAA
8756152 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
8756166 TAATTA-TTATAA
1 TAATGATTTATAA
8756178 TAATGATTTAATAA
1 TAATGATTT-ATAA
8756192 TAATG----ATAA
1 TAATGATTTATAA
8756201 TAATGATTTAATAA
1 TAATGATTT-ATAA
*
8756215 TAATCA-TTATAA
1 TAATGATTTATAA
*
8756227 TAATGATTTAATAG
1 TAATGATTT-ATAA
8756241 TAATGA-TT-TAA
1 TAATGATTTATAA
*
8756252 TAATGA-TT-TAG
1 TAATGATTTATAA
8756263 TAATGATTTTATAA
1 TAATGA-TTTATAA
8756277 TAATGATTTAATAA
1 TAATGATTT-ATAA
8756291 TAATGATTTAATAA
1 TAATGATTT-ATAA
8756305 T
1 T
8756306 TATTACTAAT
Statistics
Matches: 212, Mismatches: 15, Indels: 56
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.04
11 42 0.20
12 40 0.19
13 31 0.15
14 83 0.39
15 2 0.01
16 5 0.02
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (13 bp):
TAATGATTTATAA
Found at i:8756158 original size:26 final size:25
Alignment explanation
Indices: 8756060--8756318 Score: 214
Period size: 26 Copynumber: 10.3 Consensus size: 25
8756050 TATTATGATT
*
8756060 TAATAATGATTTAGTAATAAT-A-TTA
1 TAATAATCA-TTA-TAATAATGATTTA
*
8756085 TAATAATAATT-TAATAATGACTTTA
1 TAATAATCATTATAATAATGA-TTTA
* * *
8756110 GTATTTGATGATT-TAATAATGATTTGA
1 -TA-ATAATCATTATAATAATGATTT-A
8756137 TAATAATCATTATAATAATGATTTA
1 TAATAATCATTATAATAATGATTTA
*
8756162 GTAATAATTATTATAATAATGA-TT-
1 -TAATAATCATTATAATAATGATTTA
* *
8756186 TAATAATAATGATAATAATGATTTAA
1 TAATAATCATTATAATAATGATTT-A
8756212 TAATAATCATTATAATAATGATTTAA
1 TAATAATCATTATAATAATGATTT-A
* *
8756238 TAGTAATGATT-TAATAATGATTTA
1 TAATAATCATTATAATAATGATTTA
* *
8756262 GTAATGAT-TTTATAATAATGATTTAA
1 -TAATAATCATTATAATAATGATTT-A
* *
8756288 TAATAATGATT-TAATAATTA-TTA
1 TAATAATCATTATAATAATGATTTA
8756311 CTAATAAT
1 -TAATAAT
8756319 TATGGAATAA
Statistics
Matches: 198, Mismatches: 20, Indels: 33
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.04
23 21 0.11
24 16 0.08
25 63 0.32
26 75 0.38
27 16 0.08
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (25 bp):
TAATAATCATTATAATAATGATTTA
Found at i:8756463 original size:42 final size:42
Alignment explanation
Indices: 8756413--8756493 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
8756403 ATATTTAATG
* *
8756413 ATTTGATACTAATGATTTACTAATTATTATTAATAATGATTT
1 ATTTGATACTAATGATTTACTAATGATTACTAATAATGATTT
*
8756455 ATTTGATACTAATGATTTACTAATGATTACTAGTAATGA
1 ATTTGATACTAATGATTTACTAATGATTACTAATAATGA
8756494 AATTATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (42 bp):
ATTTGATACTAATGATTTACTAATGATTACTAATAATGATTT
Found at i:8756485 original size:21 final size:21
Alignment explanation
Indices: 8756419--8756486 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 21
8756409 AATGATTTGA
*
8756419 TACTAATGATTTACTAATTATTAT
1 TACTAATGATTTACT-A--ATGAT
* *
8756443 TAATAATGATTTA-T-TTGA-
1 TACTAATGATTTACTAATGAT
8756461 TACTAATGATTTACTAATGAT
1 TACTAATGATTTACTAATGAT
8756482 TACTA
1 TACTA
8756487 GTAATGAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 12 0.33
19 3 0.08
20 3 0.08
21 5 0.14
23 1 0.03
24 12 0.33
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (21 bp):
TACTAATGATTTACTAATGAT
Found at i:8756486 original size:10 final size:11
Alignment explanation
Indices: 8756419--8756486 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
8756409 AATGATTTGA
8756419 TACTAATGATT
1 TACTAATGATT
*
8756430 TACTAATTATTAT
1 TACTAATGA-T-T
*
8756443 TAATAATGATT
1 TACTAATGATT
*
8756454 TA-T-TTGA--
1 TACTAATGATT
8756461 TACTAATGATT
1 TACTAATGATT
8756472 TACTAATGA-T
1 TACTAATGATT
8756482 TACTA
1 TACTA
8756487 GTAATGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.13
10 7 0.15
11 20 0.43
12 2 0.04
13 8 0.17
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (11 bp):
TACTAATGATT
Found at i:8756492 original size:24 final size:23
Alignment explanation
Indices: 8756422--8756493 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 23
8756412 GATTTGATAC
* *
8756422 TAATGATTTACTAATTATTATTAA
1 TAATGATTTACTAATGATTACT-A
*
8756446 TAATGATTTA-T-TTGA-TAC--
1 TAATGATTTACTAATGATTACTA
8756464 TAATGATTTACTAATGATTACTA
1 TAATGATTTACTAATGATTACTA
8756487 GTAATGA
1 -TAATGA
8756494 AATTATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
18 10 0.26
19 1 0.03
20 3 0.08
21 5 0.13
22 2 0.05
23 1 0.03
24 16 0.42
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.46
Consensus pattern (23 bp):
TAATGATTTACTAATGATTACTA
Found at i:8759232 original size:64 final size:65
Alignment explanation
Indices: 8759099--8759255 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 65
8759089 CAATGAAAGT
* * * ** *
8759099 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCACTACCTTATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
*
8759163 ATGCATCGATGCA-TACCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-
1 ATGCATCGATGCACTACCTTATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAG
8759224 AG
64 AG
*
8759226 AGTGCATCGATGCACTACC-TGTGCATCGAT
1 A-TGCATCGATGCACTACCTTATGCATCGAT
8759256 ACACATTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 4 0.05
64 65 0.81
65 11 0.14
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (65 bp):
ATGCATCGATGCACTACCTTATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:8762937 original size:64 final size:64
Alignment explanation
Indices: 8762783--8762939 Score: 144
Period size: 64 Copynumber: 2.5 Consensus size: 64
8762773 CAATGAAAGT
* * ** *
8762783 ATGCATCGATGCACTA-CTGATGCATCGGTGTATAAAATGCATTCGATGTTGTATTATTACTGTG
1 ATGCATCGATGCACTACCTG-TGCATCGATGTATAAAATGCATTCGATGTTCTATTATTAAAGAG
* * * * *
8762847 ATGCATCGATGCA-TGCCTTATACATCGATGTACT-AATTGCATTTGATGTTTCTATT-TTAAA-
1 ATGCATCGATGCACTACC-TGTGCATCGATGTA-TAAAATGCATTCGATG-TTCTATTATTAAAG
8762908 AG
63 AG
8762910 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACCTGTGCATCGAT
8762940 CCACTTTCAA
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
63 3 0.04
64 60 0.81
65 11 0.15
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGTATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:8764499 original size:29 final size:29
Alignment explanation
Indices: 8764452--8764520 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
8764442 AGGGCGCAGA
**
8764452 ACAAGGTCGCGGGGCGTGCATGGCAACCT
1 ACAAGGTCGCCTGGCGTGCATGGCAACCT
* *
8764481 ACCATGTCGCCTGGCGTGCATGGCAACCT
1 ACAAGGTCGCCTGGCGTGCATGGCAACCT
8764510 ACAAGGTCGCC
1 ACAAGGTCGCC
8764521 CAGAGGGCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (29 bp):
ACAAGGTCGCCTGGCGTGCATGGCAACCT
Found at i:8765405 original size:22 final size:21
Alignment explanation
Indices: 8765380--8765427 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
8765370 AATATTCTAT
8765380 ATTATTCGAACAAAATTATAAA
1 ATTATTCGAACAAAATT-TAAA
** *
8765402 ATTATTTTAACAAAATTTATA
1 ATTATTCGAACAAAATTTAAA
8765423 ATTAT
1 ATTAT
8765428 CAAACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTATTCGAACAAAATTTAAA
Found at i:8767796 original size:17 final size:17
Alignment explanation
Indices: 8767771--8767804 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8767761 TTATTTCGAA
8767771 AAAAATAAAATACAAAT
1 AAAAATAAAATACAAAT
*
8767788 AAAAGTAAAATACAAAT
1 AAAAATAAAATACAAAT
8767805 TTGAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATACAAAT
Found at i:8768575 original size:39 final size:38
Alignment explanation
Indices: 8768532--8768673 Score: 180
Period size: 39 Copynumber: 3.7 Consensus size: 38
8768522 AGGTCGAACA
8768532 AGTTCTTCTCATTATGAACTTCTTCTTCCTATCAAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTATC-AGATG
* * *
8768571 AGTTCTTCTCATTATGAACTTATTCGTCTTCT-TTAGATG
1 AGTTCTTCTCATTATGAACTTCTTC-T-TCCTATCAGATG
* *
8768610 AGTTCTTCTCATTATGAATTTCTTCTTCCTTTTTCAGATG
1 AGTTCTTCTCATTATGAACTTCTTCTTCC--TATCAGATG
8768650 AGTTCTTCTCATTATGAAC-TCTTC
1 AGTTCTTCTCATTATGAACTTCTTC
8768674 CACTGGGGAT
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 58 0.64
40 26 0.29
41 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (38 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTATCAGATG
Found at i:8769094 original size:124 final size:122
Alignment explanation
Indices: 8768854--8769513 Score: 715
Period size: 123 Copynumber: 5.5 Consensus size: 122
8768844 AAATTAAGGC
** * *
8768854 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCCTTCTTCTGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * *
8768918 TGAACATTT-T-TGGAAATGTTTATGTTGATCTATCTCCTTCTGTGATAAAGTCAAACAA
66 TGAAC-TTTCTCTGGAAA-ATTGATG-TGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
* *
8768976 AAGGTTGAACAAACTCTTCTCATTAAGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
8769041 TGAACTTTCTCTGGAAAAATTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
66 TGAACTTTCTCTGG-AAAATTGATG-TGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
*
8769100 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTAC-TC-TCAAGATGAGTTCTTCTCATT
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AGATGAGTTCTTCTCATT
* * * *
8769163 ATGAACTTTCTCTGGACAAATTAATGATGATCTATCTCCTTCTGTGATAGAATCATGAAA
65 ATGAACTTTCTCTGGA-AAATTGATG-TGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
* * * * *
8769223 AAGATTGAACAAGTTCTTCTCATTATGAAATTTTTCTTCATTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * ** *
8769288 TGAACTCTAC-CTGG-CAATT--T-TGATCCA--T-C--GAGTGAT-GAATTCAAGCAA
66 TGAACT-TTCTCTGGAAAATTGATGTGATCTATCTCCTTCTGTGATAG-AGTCAAGCAA
* *
8769336 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * ** * * **
8769401 TGAACTCT-TCTGG-AAA-TG-T-TGATCCA--T-C--GAGTGATGGATTTGAGCAA
66 TGAACTTTCTCTGGAAAATTGATGTGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
8769448 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
8769513 T
66 T
8769514 TTTCCCCGCC
Statistics
Matches: 482, Mismatches: 43, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
111 1 0.00
112 96 0.20
113 79 0.16
115 1 0.00
116 1 0.00
118 6 0.01
120 1 0.00
122 43 0.09
123 141 0.29
124 106 0.22
125 7 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (122 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAATTGATGTGATCTATCTCCTTCTGTGATAGAGTCAAGCAA
Found at i:8769289 original size:247 final size:236
Alignment explanation
Indices: 8768854--8769417 Score: 662
Period size: 247 Copynumber: 2.3 Consensus size: 236
8768844 AAATTAAGGC
* * *
8768854 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCCTTCTTCTGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * *
8768918 TGAACATTT-TTGGAAATGTTTATGTTGATCTATCTCCTTCTGTGATAAAGTCAAACAAAAGGTT
66 TGAAC-TTTCTTGGAAATATTAATGATGATCTATCTCCTTCTGTGATAAAGTCAAACAAAAGATT
* *
8768982 GAACAAACTCTTCTCATTAAGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
130 GAACAAACTCTTCTCATTAAGAAATTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACT
* * * *
8769047 -TTCTCTGGAAAAATTGATGCTGATCTATCTCCTTCTGTGAT-AGAGTCATGCAA
195 CTAC-CTGG--AAATT--T--TGATCCA--T-C--CAGTGATGA-AGTCAAGCAA
* *
8769100 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTAC-TC-TCAAGATGAGTTCTTCTCATT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AGATGAGTTCTTCTCATT
*
8769163 ATGAACTTTCTCTGGACAA-ATTAATGATGATCTATCTCCTTCTGTGATAGAA-TCATGA-AAAA
65 ATGAACTTTCT-TGGA-AATATTAATGATGATCTATCTCCTTCTGTGATA-AAGTCA-AACAAAA
** * *
8769225 GATTGAACAAGTTCTTCTCATTATGAAATTTTTCTTCATTCTTCAGATGAGTTCTTCTCATTATG
126 GATTGAACAAACTCTTCTCATTAAGAAATTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATG
* * *
8769290 AACTCTACCTGGCAATTTTGATCCATCGAGTGATGAATTCAAGCAA
191 AACTCTACCTGGAAATTTTGATCCATCCAGTGATGAAGTCAAGCAA
*
8769336 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
8769401 TGAACTCTTC-TGGAAAT
66 TGAACT-TTCTTGGAAAT
8769418 GTTGATCCAT
Statistics
Matches: 279, Mismatches: 26, Indels: 36
0.82 0.08 0.11
Matches are distributed among these distances:
235 2 0.01
236 54 0.19
237 28 0.10
238 6 0.02
239 1 0.00
241 6 0.02
243 1 0.00
245 9 0.03
246 59 0.21
247 106 0.38
248 7 0.03
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (236 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTTGGAAATATTAATGATGATCTATCTCCTTCTGTGATAAAGTCAAACAAAAGATTG
AACAAACTCTTCTCATTAAGAAATTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTC
TACCTGGAAATTTTGATCCATCCAGTGATGAAGTCAAGCAA
Found at i:8769477 original size:112 final size:113
Alignment explanation
Indices: 8769221--8769513 Score: 471
Period size: 112 Copynumber: 2.6 Consensus size: 113
8769211 AGAATCATGA
* * * *
8769221 AAAAGATTGAACAAGTTCTTCTCATTATGAAATTTTTCTTCATTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
8769286 TATGAACTCTACCTGGCAATTTTGATCCATCGAGTGATGAATTCAAGC
66 TATGAACTCTACCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGC
*
8769334 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * **
8769399 TATGAACTCT-TCTGGAAATGTTGATCCATCGAGTGATGGATTTGAGC
66 TATGAACTCTACCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGC
*
8769446 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
8769511 TAT
66 TAT
8769514 TTTCCCCGCC
Statistics
Matches: 167, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
112 97 0.58
113 70 0.42
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (113 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTACCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGC
Found at i:8771252 original size:8 final size:7
Alignment explanation
Indices: 8771232--8771270 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
8771222 CATACATACA
8771232 TTTGCAT
1 TTTGCAT
8771239 TTTGCAT
1 TTTGCAT
8771246 CTTTGCAT
1 -TTTGCAT
8771254 TTTGCAT
1 TTTGCAT
8771261 CTTTGCAT
1 -TTTGCAT
8771269 TT
1 TT
8771271 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (7 bp):
TTTGCAT
Found at i:8771252 original size:15 final size:15
Alignment explanation
Indices: 8771232--8771270 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
8771222 CATACATACA
8771232 TTTGCATTTTGCATC
1 TTTGCATTTTGCATC
8771247 TTTGCATTTTGCATC
1 TTTGCATTTTGCATC
8771262 TTTGCATTT
1 TTTGCATTT
8771271 ATACTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (15 bp):
TTTGCATTTTGCATC
Found at i:8771366 original size:27 final size:27
Alignment explanation
Indices: 8771330--8771399 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
8771320 CATTCACATA
8771330 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
8771357 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
8771383 TTTACATAATTGCATTT
1 TTTACAT--TTGCATTT
8771400 GGTTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.22
27 21 0.58
28 7 0.19
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:8771383 original size:12 final size:12
Alignment explanation
Indices: 8771329--8771356 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8771319 ACATTCACAT
8771329 ATTTACATTTGC
1 ATTTACATTTGC
8771341 ATTTACATTTGC
1 ATTTACATTTGC
8771353 ATTT
1 ATTT
8771357 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:8772887 original size:2 final size:2
Alignment explanation
Indices: 8772880--8772908 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8772870 TTTATCCTTT
8772880 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8772909 CCTTTGTTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8773231 original size:10 final size:9
Alignment explanation
Indices: 8773214--8773266 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
8773204 AAGAAAGAAG
8773214 AAGGAAAAA
1 AAGGAAAAA
8773223 AAGGGAAAAA
1 AA-GGAAAAA
8773233 AA-GAAAAA
1 AAGGAAAAA
*
8773241 AA-AAAGAAA
1 AAGGAA-AAA
8773250 AAGGAAAAA
1 AAGGAAAAA
8773259 AAGGAAAA
1 AAGGAAAA
8773267 TCGAATCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 10 0.26
9 18 0.46
10 11 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAGGAAAAA
Found at i:8778101 original size:22 final size:22
Alignment explanation
Indices: 8778073--8778195 Score: 192
Period size: 22 Copynumber: 5.6 Consensus size: 22
8778063 ACATCTACAT
8778073 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
8778095 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
8778117 TTTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
8778139 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
8778161 TTTTTAAAGATGATAGATTTTC
1 TCTTCAAAGATGATAGATTCTC
*
8778183 TTTTCAAAGATGA
1 TCTTCAAAGATGA
8778196 AAGCTTTATT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 93 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:8778790 original size:112 final size:113
Alignment explanation
Indices: 8778592--8779294 Score: 641
Period size: 123 Copynumber: 6.0 Consensus size: 113
8778582 TAGCAAAGAT
*
8778592 TCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTAGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
8778657 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* *
8778705 TCAAATCCATCACTCGATGGATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTAGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
8778769 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * * * * *
8778817 TTGAATTCATCACTCGATGGATCAAAATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTAGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
* * * *
8778881 AAGAATGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT--
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* * * * *
8778928 TCATGATTCTATCACAGAAGGAGATAGATCATTATTAATTTTTCCAGAGAAAGTTCATAATGAGA
1 TCA--AATCCATCAC-----TAGATGGATCA--A--CA--TTTCCAGAGAAAGTTCATAATGAGA
8778993 AGAACTCATCTTG-AG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
53 AGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* * * * * *
8779053 AT-GACTCTATCACAGAAGGAGATAGATCAGCATCAATTTTTTCAGAGAAAGTTCATAATGAGAA
1 -TCAAATCCATCAC-----TAGATGGATCA--A-C-A--TTTCCAGAGAAAGTTCATAATGAGAA
*
8779117 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTT
54 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG-C
** * * ** * *
8779178 TGACTTTATCACAGAATGAGATAGATCAACATCAACATTTCCATA-AATGTTCATAATGAGAAGA
1 T--C-AAATC-C---ATCA-CTAGAT--GGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGA
* * **
8779242 ACTCATCAGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
56 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTT
8779295 GCCTTAATTT
Statistics
Matches: 506, Mismatches: 49, Indels: 61
0.82 0.08 0.10
Matches are distributed among these distances:
111 1 0.00
112 103 0.20
113 112 0.22
118 8 0.02
120 1 0.00
122 39 0.08
123 137 0.27
124 84 0.17
125 3 0.01
126 2 0.00
127 1 0.00
128 7 0.01
130 5 0.01
132 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTAGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:8779554 original size:39 final size:39
Alignment explanation
Indices: 8779475--8779616 Score: 198
Period size: 39 Copynumber: 3.6 Consensus size: 39
8779465 ATCCCCAGTG
8779475 GAAG-AGTTCATAATGAGAAGAACTCATCTGAAA-AAGGAA
1 GAAGAAGTTCATAATGAGAAGAACTCATCT-AAAGAA-GAA
* *
8779514 GAAGAAATTCATAATGAGAAAAACTCATCTAAAGAAGAA
1 GAAGAAGTTCATAATGAGAAGAACTCATCTAAAGAAGAA
* ** *
8779553 GAATAAGTTCATAATGAGAAGAACTCATCTTGAGAGGAA
1 GAAGAAGTTCATAATGAGAAGAACTCATCTAAAGAAGAA
8779592 GAAGAAGTTCATAATGAGAAGAACT
1 GAAGAAGTTCATAATGAGAAGAACT
8779617 TGTTCGACCT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
39 67 0.73
40 25 0.27
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (39 bp):
GAAGAAGTTCATAATGAGAAGAACTCATCTAAAGAAGAA
Found at i:8780375 original size:17 final size:17
Alignment explanation
Indices: 8780342--8780374 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8780332 TATTTTTCAG
8780342 ATTTGTATTTTACTTTT
1 ATTTGTATTTTACTTTT
8780359 ATTTGTATTTTA-TTTT
1 ATTTGTATTTTACTTTT
8780375 TTTCGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (17 bp):
ATTTGTATTTTACTTTT
Found at i:8781643 original size:11 final size:13
Alignment explanation
Indices: 8781604--8781645 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
8781594 TGTTTAATAA
8781604 AATATATATATATT
1 AATATAT-TATATT
*
8781618 AATATATTATCTT
1 AATATATTATATT
8781631 AA-A-ATTATATT
1 AATATATTATATT
8781642 AATA
1 AATA
8781646 AACTTAACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 7 0.28
14 7 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATATTATATT
Found at i:8798459 original size:19 final size:19
Alignment explanation
Indices: 8798429--8798479 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
8798419 TTATTATGTA
8798429 TAAAAATAAATTT-AATATT
1 TAAAAATAAATTTGAA-ATT
* *
8798448 TTAAAATGAATTTGAAATT
1 TAAAAATAAATTTGAAATT
*
8798467 TAAAAATCAATTT
1 TAAAAATAAATTT
8798480 TACCAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 25 0.93
20 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (19 bp):
TAAAAATAAATTTGAAATT
Found at i:8806023 original size:20 final size:20
Alignment explanation
Indices: 8805995--8806037 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
8805985 ATATAAAAAA
8805995 TTAT-TTTTTATTAAATATTT
1 TTATATTTTTATTAAAT-TTT
*
8806015 TTATATTTTTATTTAATTTT
1 TTATATTTTTATTAAATTTT
8806035 TTA
1 TTA
8806038 AATAATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATATTTTTATTAAATTTT
Found at i:8808253 original size:22 final size:21
Alignment explanation
Indices: 8808222--8808272 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
8808212 TGAATTAAAT
8808222 TTAAAT-TTGATCTG-ATACAAA
1 TTAAATCTTGAT-TGAATAC-AA
8808243 TTAAATCTTGATTGAATACAA
1 TTAAATCTTGATTGAATACAA
8808264 TCTAAATCT
1 T-TAAATCT
8808273 AAAATAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (21 bp):
TTAAATCTTGATTGAATACAA
Found at i:8820476 original size:13 final size:14
Alignment explanation
Indices: 8820449--8820518 Score: 81
Period size: 15 Copynumber: 4.9 Consensus size: 14
8820439 GTTGTATTTA
*
8820449 TATTTTATGTATAG
1 TATTTTATATATAG
8820463 TATTTTAT-TATAG
1 TATTTTATATATAG
*
8820476 TATTATATATATA-
1 TATTTTATATATAG
8820489 TAATATTTATATATAG
1 T-AT-TTTATATATAG
8820505 TATATTTATATATA
1 TAT-TTTATATATA
8820519 TTATGGTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.26
14 14 0.28
15 22 0.44
16 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TATTTTATATATAG
Found at i:8820486 original size:2 final size:2
Alignment explanation
Indices: 8820479--8820557 Score: 58
Period size: 2 Copynumber: 40.5 Consensus size: 2
8820469 ATTATAGTAT
* *
8820479 TA TA TA TA TA TA -A TA TT TA TA TA TA GTA TA TT TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
8820520 TA TGG TA TT TA TT TA TA TA -A TA TA TT TA TA -A TA TA TA T
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8820558 TTTATAGTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
1 4 0.07
2 52 0.88
3 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (2 bp):
TA
Found at i:8820545 original size:13 final size:13
Alignment explanation
Indices: 8820479--8820563 Score: 51
Period size: 13 Copynumber: 6.9 Consensus size: 13
8820469 ATTATAGTAT
*
8820479 TATATATATATAA
1 TATATTTATATAA
*
8820492 TAT-TTATATATAG
1 TATATT-TATATAA
8820505 TATA-TT-TAT-A
1 TATATTTATATAA
*
8820515 TATA-TTATGGT-A
1 TATATTTAT-ATAA
*
8820527 TTTATTTATATAA
1 TATATTTATATAA
8820540 TATATTTATA-ATA
1 TATATTTATATA-A
8820553 TATATTT-TATA
1 TATATTTATATA
8820564 GTCTTTTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
10 6 0.11
11 4 0.07
12 11 0.19
13 36 0.63
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (13 bp):
TATATTTATATAA
Found at i:8820557 original size:57 final size:63
Alignment explanation
Indices: 8820443--8820580 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 63
8820433 TTTGTTGTTG
* *
8820443 TATTTATATTTTATGTATAGTATTTTATTATAGTATTATATATATATAATATTTATATATAGTA
1 TATTTATATTATATGTATAGTATTTTATTATAGTATAATATATATATAATA-TTATATATAGTA
* * * *
8820507 TATTTATA-TATAT-TATGGTA-TTTATT-TA-TATAATATATTTATAATATATATTTTATAGTC
1 TATTTATATTATATGTATAGTATTTTATTATAGTATAATATATATATAATAT-TA-TATATAGTA
8820567 T-TTTATATTTATAT
1 TATTTATA-TTATAT
8820581 CTAGTATATA
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
58 1 0.02
59 24 0.38
60 10 0.16
61 11 0.17
62 6 0.09
63 4 0.06
64 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (63 bp):
TATTTATATTATATGTATAGTATTTTATTATAGTATAATATATATATAATATTATATATAGTA
Found at i:8820591 original size:41 final size:40
Alignment explanation
Indices: 8820442--8820604 Score: 127
Period size: 40 Copynumber: 4.0 Consensus size: 40
8820432 GTTTGTTGTT
* * * *
8820442 GTATTTATATTTTATGTATAGTATTTTATTATAGTATTATATA
1 GTATTTATA-TTTATATATAGTA-TATAATATA-TATTTTATA
* * * *
8820485 -TATATAATATTTATATATAGTATAT-TTATATATATTATG
1 GTAT-TTATATTTATATATAGTATATAATATATATTTTATA
*
8820524 GTATTTAT-TTATATAATATA-TTTATAATATATATTTTATA
1 GTATTTATATT-TAT-ATATAGTATATAATATATATTTTATA
* * *
8820564 GTCTTTTATATTTATATCTAGTATATAATATATAGTTTATA
1 GT-ATTTATATTTATATATAGTATATAATATATATTTTATA
8820605 CGTAGTATAT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
38 2 0.02
39 16 0.16
40 30 0.31
41 28 0.29
42 17 0.18
43 4 0.04
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (40 bp):
GTATTTATATTTATATATAGTATATAATATATATTTTATA
Found at i:8820700 original size:22 final size:22
Alignment explanation
Indices: 8820672--8820713 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
8820662 TTTTTATTTT
8820672 GTAGGTCCAATTAAAAGAGTTC
1 GTAGGTCCAATTAAAAGAGTTC
8820694 GTAGGTCCAATTAAAAGAGT
1 GTAGGTCCAATTAAAAGAGT
8820714 CCAAAGGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (22 bp):
GTAGGTCCAATTAAAAGAGTTC
Found at i:8820721 original size:22 final size:22
Alignment explanation
Indices: 8820674--8820725 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
8820664 TTTATTTTGT
* **
8820674 AGGTCCAATTAAAAGAGTTCGT
1 AGGTCCAATTAAAAGAGTCCAA
8820696 AGGTCCAATTAAAAGAGTCCAA
1 AGGTCCAATTAAAAGAGTCCAA
8820718 AGGTCCAA
1 AGGTCCAA
8820726 GTCAATTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (22 bp):
AGGTCCAATTAAAAGAGTCCAA
Found at i:8825380 original size:18 final size:18
Alignment explanation
Indices: 8825357--8825391 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8825347 ACTGAATATT
*
8825357 TGTCCCGAAGGACCACTA
1 TGTCCCAAAGGACCACTA
8825375 TGTCCCAAAGGACCACT
1 TGTCCCAAAGGACCACT
8825392 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:8825646 original size:2 final size:2
Alignment explanation
Indices: 8825639--8825664 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8825629 TATAACATTA
8825639 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
8825665 GCATGTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8832463 original size:2 final size:2
Alignment explanation
Indices: 8832456--8832493 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8832446 TATAACGTTA
8832456 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
8832494 GTATGCATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8835425 original size:21 final size:21
Alignment explanation
Indices: 8835399--8835470 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
8835389 TTTCCAGATT
8835399 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* * *
8835420 CGTTGCGATTTATTACAAATT--
1 CGTTGCGA--TAGTCCAAGTTCG
*
8835441 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
8835462 CGTTGCGAT
1 CGTTGCGAT
8835471 TTATTCCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
19 7 0.17
21 25 0.62
23 8 0.20
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:8835443 original size:42 final size:42
Alignment explanation
Indices: 8835396--8835498 Score: 179
Period size: 42 Copynumber: 2.5 Consensus size: 42
8835386 CAGTTTCCAG
8835396 ATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAA
1 ATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAA
* *
8835438 ATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAA
1 ATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAA
*
8835480 ATTCGTTTCGATAGTCCAA
1 ATTCGTTGCGATAGTCCAA
8835499 AATCGCAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (42 bp):
ATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAA
Found at i:8835486 original size:21 final size:20
Alignment explanation
Indices: 8835390--8835491 Score: 64
Period size: 21 Copynumber: 4.9 Consensus size: 20
8835380 GCAAATCAGT
*
8835390 TTCCAGATTCGTTGCGA-TA
1 TTCCAAATTCGTTGCGATTA
* *
8835409 GTCCAAGTTCGCGTTGCGATTTA
1 TTCCAAATT--CGTTGCGA-TTA
*
8835432 TTACAAATTCGTTGCGA-TA
1 TTCCAAATTCGTTGCGATTA
* * *
8835451 GTCGAAGTTCGCGTTGCGATTTA
1 TTCCAAATT--CGTTGCGA-TTA
*
8835474 TTCCAAATTCGTTTCGAT
1 TTCCAAATTCGTTGCGAT
8835492 AGTCCAAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 15
0.68 0.16 0.17
Matches are distributed among these distances:
19 13 0.21
20 1 0.02
21 31 0.51
23 16 0.26
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
TTCCAAATTCGTTGCGATTA
Found at i:8836238 original size:5 final size:5
Alignment explanation
Indices: 8836228--8836257 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8836218 TCGCCGCCGC
8836228 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
8836258 TGTGGTCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CGTCT
Found at i:8838976 original size:2 final size:2
Alignment explanation
Indices: 8838969--8838993 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8838959 GTATTTCTCT
8838969 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
8838994 TAAAAATAAG
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:8840192 original size:31 final size:30
Alignment explanation
Indices: 8840149--8840257 Score: 99
Period size: 30 Copynumber: 3.8 Consensus size: 30
8840139 ATATTTAAAT
*
8840149 TATATTTATTAATATTTATAATAATATAATA
1 TATATTTATTAATA-TTATAATAAAATAATA
*
8840180 TATATTTTTTAATATTATAATAAAATAAT-
1 TATATTTATTAATATTATAATAAAATAATA
*
8840209 TA-A-TTA-TATTATTATAATATAAGAT-AT-
1 TATATTTATTAATATTATAATA-AA-ATAATA
*
8840236 TAT-TTTAATAATA-TATAATAAA
1 TATATTTATTAATATTATAATAAA
8840258 TTATTAATAA
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
26 12 0.18
27 10 0.15
28 13 0.19
29 6 0.09
30 14 0.21
31 13 0.19
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
TATATTTATTAATATTATAATAAAATAATA
Found at i:8840230 original size:53 final size:52
Alignment explanation
Indices: 8840156--8840265 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 52
8840146 AATTATATTT
* *
8840156 ATTAA-TATTTATAATAATATAATATA-TATTTT-TTAATATTATAATAAAATA
1 ATTAATTATTTATAATAATATAAGATATTATTTTAATAATA-TATAAT-AAATA
* *
8840207 ATTAATTATATTATTATAATATAAGATATTATTTTAATAATATATAATAAATT
1 ATTAATTAT-TTATAATAATATAAGATATTATTTTAATAATATATAATAAATA
8840260 ATTAAT
1 ATTAAT
8840266 AAAATTTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
51 5 0.10
52 3 0.06
53 26 0.51
54 12 0.24
55 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (52 bp):
ATTAATTATTTATAATAATATAAGATATTATTTTAATAATATATAATAAATA
Found at i:8840264 original size:21 final size:22
Alignment explanation
Indices: 8840216--8840267 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
8840206 AATTAATTAT
*
8840216 ATTATT-ATAATATAAGATATT
1 ATTATTAATAATATAAGATATA
8840237 ATT-TTAATAATATATA-ATA-A
1 ATTATTAATAATATA-AGATATA
8840257 ATTATTAATAA
1 ATTATTAATAA
8840268 AATTTATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 21 0.78
22 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTATTAATAATATAAGATATA
Found at i:8840394 original size:21 final size:20
Alignment explanation
Indices: 8840365--8840451 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 20
8840355 AATAATATTT
*
8840365 TAATAAATATATTTAAAATA
1 TAATTAATATATTTAAAATA
*
8840385 CTAATTAATATTTTTAAAATA
1 -TAATTAATATATTTAAAATA
*
8840406 TAATATAACACTATTACTTTAATA-A
1 TAAT-T-A-A-TA-TA-TTTAAAATA
*
8840431 TAATTAATATATTTATAATA
1 TAATTAATATATTTAAAATA
8840451 T
1 T
8840452 TTTTATTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
19 5 0.09
20 8 0.15
21 21 0.40
22 2 0.04
23 2 0.04
24 3 0.06
25 6 0.11
26 6 0.11
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTAATATATTTAAAATA
Found at i:8844719 original size:29 final size:29
Alignment explanation
Indices: 8844685--8844840 Score: 161
Period size: 29 Copynumber: 5.3 Consensus size: 29
8844675 GACCCGCCCC
* *
8844685 GGTGACATTCTGAGATTTTTTTTGAAAAA
1 GGTGACATTCTGAGAATTATTTTGAAAAA
* * * * *
8844714 TGTGACATTTTGGGAAATATTTTTGAAAAG
1 GGTGACATTCTGAGAATTA-TTTTGAAAAA
* *
8844744 GGTGACATTCTAAGAAATATTTTGAAAAAA
1 GGTGACATTCTGAGAATTATTTTG-AAAAA
*
8844774 GGTGACATTCT-AGAAAATATTTTGAAAAA
1 GGTGACATTCTGAG-AATTATTTTGAAAAA
** *
8844803 TTTGACATTCTGGGAATTATTTTGAAAAA
1 GGTGACATTCTGAGAATTATTTTGAAAAA
8844832 GGTGACATT
1 GGTGACATT
8844841 TTAGAAATTT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
29 55 0.52
30 50 0.48
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (29 bp):
GGTGACATTCTGAGAATTATTTTGAAAAA
Found at i:8844739 original size:30 final size:29
Alignment explanation
Indices: 8844704--8844848 Score: 166
Period size: 30 Copynumber: 5.0 Consensus size: 29
8844694 CTGAGATTTT
* * *
8844704 TTTTGAAAAATGTGACATTTTGGGAAATA
1 TTTTGAAAAAGGTGACATTCTAGGAAATA
* *
8844733 TTTTTGAAAAGGGTGACATTCTAAGAAATA
1 -TTTTGAAAAAGGTGACATTCTAGGAAATA
*
8844763 TTTTGAAAAAAGGTGACATTCTAGAAAATA
1 TTTTG-AAAAAGGTGACATTCTAGGAAATA
** * *
8844793 TTTTGAAAAATTTGACATTCTGGGAATTA
1 TTTTGAAAAAGGTGACATTCTAGGAAATA
*
8844822 TTTTGAAAAAGGTGACATTTTA-GAAAT
1 TTTTGAAAAAGGTGACATTCTAGGAAAT
8844849 TTTCGAATGT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
28 4 0.04
29 42 0.44
30 50 0.52
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (29 bp):
TTTTGAAAAAGGTGACATTCTAGGAAATA
Found at i:8844797 original size:59 final size:59
Alignment explanation
Indices: 8844685--8844847 Score: 202
Period size: 59 Copynumber: 2.8 Consensus size: 59
8844675 GACCCGCCCC
* * * * * *
8844685 GGTGACATTCTGAGATTTTTTTTGAAAAATGTGACATTTTGGGAAATATTTTTGAAAAG
1 GGTGACATTCTGAGAATTATTTTGAAAAAGGTGACATTTTAGAAAATATTTTTGAAAAA
* * *
8844744 GGTGACATTCTAAGAAATATTTTGAAAAAAGGTGACATTCTAGAAAATA-TTTTGAAAAA
1 GGTGACATTCTGAGAATTATTTTG-AAAAAGGTGACATTTTAGAAAATATTTTTGAAAAA
** *
8844803 TTTGACATTCTGGGAATTATTTTGAAAAAGGTGACATTTTAGAAA
1 GGTGACATTCTGAGAATTATTTTGAAAAAGGTGACATTTTAGAAA
8844848 TTTTCGAATG
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
58 20 0.23
59 48 0.55
60 20 0.23
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (59 bp):
GGTGACATTCTGAGAATTATTTTGAAAAAGGTGACATTTTAGAAAATATTTTTGAAAAA
Found at i:8855327 original size:13 final size:13
Alignment explanation
Indices: 8855304--8855337 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8855294 TTAAAATAAG
8855304 AATATAATATTAT
1 AATATAATATTAT
* *
8855317 CATATATTATTAT
1 AATATAATATTAT
8855330 AATATAAT
1 AATATAAT
8855338 TGAGTATATT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATAATATTAT
Found at i:8855400 original size:23 final size:23
Alignment explanation
Indices: 8855367--8855422 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
8855357 TTATTATTAT
8855367 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAATATTAATAAA
* * *
8855391 TATATTTTAAATATGTTAATAAT
1 TATATTTTAAAAATATTAATAAA
8855414 TAATATTTT
1 T-ATATTTT
8855423 TATTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATAAA
Found at i:8862286 original size:32 final size:32
Alignment explanation
Indices: 8862250--8862338 Score: 151
Period size: 32 Copynumber: 2.8 Consensus size: 32
8862240 GTTCGGGTCT
8862250 GGTCAAAATTGGATTGGTTGGTTTTCAAGTTG
1 GGTCAAAATTGGATTGGTTGGTTTTCAAGTTG
8862282 GGTCAAAATTGGATTGGTTGGTTTTCAAGTTG
1 GGTCAAAATTGGATTGGTTGGTTTTCAAGTTG
* * *
8862314 GGTCAAAATCGGATTGATTGATTTT
1 GGTCAAAATTGGATTGGTTGGTTTT
8862339 TGGATCGGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.40
Consensus pattern (32 bp):
GGTCAAAATTGGATTGGTTGGTTTTCAAGTTG
Found at i:8862427 original size:20 final size:20
Alignment explanation
Indices: 8862410--8862455 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
8862400 TCAGTTCAGA
8862410 TCAACCATTAGATTTTCATG
1 TCAACCATTAGATTTTCATG
** *
8862430 TCAACTTTTAGATTTTCAAG
1 TCAACCATTAGATTTTCATG
8862450 TCAACC
1 TCAACC
8862456 GTTATCGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (20 bp):
TCAACCATTAGATTTTCATG
Found at i:8862803 original size:3 final size:3
Alignment explanation
Indices: 8862790--8862831 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
8862780 AAATGTTAAA
8862790 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8862832 ATTATTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8864410 original size:15 final size:15
Alignment explanation
Indices: 8864388--8864423 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8864378 TTTTCCTTCG
*
8864388 AATTAATTATATATT
1 AATTAATTACATATT
*
8864403 AGTTAATTACATATT
1 AATTAATTACATATT
8864418 AATTAA
1 AATTAA
8864424 GAGACATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
AATTAATTACATATT
Found at i:8868928 original size:2 final size:2
Alignment explanation
Indices: 8868921--8868951 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8868911 AAGAAATACA
8868921 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
8868952 AAACAATATA
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:8872377 original size:15 final size:15
Alignment explanation
Indices: 8872357--8872388 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8872347 TGCTTGAAAG
8872357 TAACAGTAGTGTCAA
1 TAACAGTAGTGTCAA
8872372 TAACAGTAGTGTCAA
1 TAACAGTAGTGTCAA
8872387 TA
1 TA
8872389 GACATCACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (15 bp):
TAACAGTAGTGTCAA
Found at i:8873691 original size:20 final size:20
Alignment explanation
Indices: 8873662--8873731 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
8873652 TTCTAAACTT
* *
8873662 AAAATTGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
8873682 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
8873702 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
8873721 AAAATCGCAAC
1 AAAATCGCAAC
8873732 GTGAAACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 14 0.33
20 29 0.67
ACGTcount: A:0.50, C:0.20, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:8873721 original size:19 final size:19
Alignment explanation
Indices: 8873677--8873748 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
8873667 TGCAACATGA
*
8873677 AAATGAAAATCGCAACACG
1 AAATGAAAATCGCAACGCG
**
8873696 AAAATGACTATCGCAACGCG
1 -AAATGAAAATCGCAACGCG
*
8873716 AAATGAAAATCGCAACGTG
1 AAATGAAAATCGCAACGCG
**
8873735 AAACCAAAATCGCA
1 AAATGAAAATCGCA
8873749 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 28 0.64
20 16 0.36
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:8873766 original size:19 final size:19
Alignment explanation
Indices: 8873744--8873803 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
8873734 GAAACCAAAA
*
8873744 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
8873763 TCGCGTTGCGATAATCATT
1 TCGCGTTGCGATTTTCATT
8873782 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
8873802 TC
1 TC
8873804 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:8873800 original size:20 final size:20
Alignment explanation
Indices: 8873749--8873803 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
8873739 CAAAATCGCA
8873749 TTGCGATTTTCATTT-CGCG
1 TTGCGATTTTCATTTCCGCG
**
8873768 TTGCGATAATCATTTCCGCG
1 TTGCGATTTTCATTTCCGCG
8873788 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
8873804 AACCAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCG
Found at i:8875712 original size:94 final size:93
Alignment explanation
Indices: 8875552--8875853 Score: 532
Period size: 94 Copynumber: 3.2 Consensus size: 93
8875542 GAAGTTAGTA
* *
8875552 TTTGTCTTTTGGTTGAAGTAAATATATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
1 TTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
8875617 ACACTGTGAAGTTAGTATTTGTCTTTGT
66 ACACTGTGAAGTTAGTATTTGTCTTTGT
*
8875645 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
8875710 AACACTGTGAAGTTAGTATTTGTCTTTGT
65 AACACTGTGAAGTTAGTATTTGTCTTTGT
*
8875739 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
* *
8875804 AATACTCTGAAGTTAGTATTTGTCTTTGT
65 AACACTGTGAAGTTAGTATTTGTCTTTGT
8875833 TTTGTCTTTTGGTTGAAGTAA
1 TTTGTCTTTTGGTTGAAGTAA
8875854 TGCAATCCAT
Statistics
Matches: 201, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 21 0.10
94 180 0.90
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.48
Consensus pattern (93 bp):
TTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
ACACTGTGAAGTTAGTATTTGTCTTTGT
Found at i:8875971 original size:19 final size:19
Alignment explanation
Indices: 8875944--8876005 Score: 106
Period size: 19 Copynumber: 3.3 Consensus size: 19
8875934 TCTTTTGGTT
*
8875944 GAAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
8875963 GAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
8875982 GAAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
8876001 GAAAC
1 GAAAC
8876006 TATAATCGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.48, C:0.23, G:0.21, T:0.08
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:8876012 original size:19 final size:19
Alignment explanation
Indices: 8875950--8876014 Score: 96
Period size: 19 Copynumber: 3.4 Consensus size: 19
8875940 GGTTGAAATG
*
8875950 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAACT
8875969 AAAATCGCAACGCGAAA-T
1 AAAATCGCAACGCGAAACT
8875987 GAAAATCGCAACGCGAAACT
1 -AAAATCGCAACGCGAAACT
*
8876007 ATAATCGC
1 AAAATCGC
8876015 GTTACGATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 41 0.98
20 1 0.02
ACGTcount: A:0.46, C:0.25, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:8876088 original size:19 final size:19
Alignment explanation
Indices: 8876011--8876080 Score: 104
Period size: 19 Copynumber: 3.6 Consensus size: 19
8876001 GAAACTATAA
* *
8876011 TCGCGTTACGATTTTTATT
1 TCGCGTTGCGATTTTCATT
8876030 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
8876049 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
8876069 TCGCGTTGCGAT
1 TCGCGTTGCGAT
8876081 AGTCATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 28 0.61
20 18 0.39
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:8879217 original size:24 final size:24
Alignment explanation
Indices: 8879190--8879243 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8879180 CTGAAAAATC
8879190 ATCAAAATCCGAGTATTGAACAAG
1 ATCAAAATCCGAGTATTGAACAAG
* * *
8879214 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGAACAAG
8879238 ATCAAA
1 ATCAAA
8879244 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGAACAAG
Found at i:8880129 original size:20 final size:19
Alignment explanation
Indices: 8880106--8880316 Score: 197
Period size: 20 Copynumber: 10.4 Consensus size: 19
8880096 AGAATCTCGT
8880106 TGCGATTTACTAAATCGCAA
1 TGCGA-TTACTAAATCGCAA
8880126 TGCGATTACGTAAATCGCAA
1 TGCGATTAC-TAAATCGCAA
**
8880146 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTA-CTAAATCGCAA
8880167 TGCGATTACGTAAATCGCAA
1 TGCGATTAC-TAAATCGCAA
*
8880187 TGCGATTAAGTAAATCGCAA
1 TGCGATT-ACTAAATCGCAA
**
8880207 TGCGAATTAAGAAAATCGCAA
1 TGCG-ATT-ACTAAATCGCAA
8880228 TGCGATTACGTAAATCGCAA
1 TGCGATTAC-TAAATCGCAA
* **
8880248 TGTGAATTAGGAAAATCGCAA
1 TGCG-ATTA-CTAAATCGCAA
8880269 TGCGATTACGTAAATCGCAA
1 TGCGATTAC-TAAATCGCAA
** *
8880289 TGCGAATTAGGAAAATCGCAT
1 TGCG-ATTA-CTAAATCGCAA
8880310 TGCGATT
1 TGCGATT
8880317 TACGTATTCG
Statistics
Matches: 162, Mismatches: 17, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.03
20 88 0.54
21 69 0.43
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (19 bp):
TGCGATTACTAAATCGCAA
Found at i:8880168 original size:41 final size:41
Alignment explanation
Indices: 8880106--8880350 Score: 327
Period size: 41 Copynumber: 6.0 Consensus size: 41
8880096 AGAATCTCGT
* *
8880106 TGCGATTTAC-TAAATCGCAATGCG-ATTACGTAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
* * * *
8880146 TGCGAATTAGGAAAATCGCAATGCG-ATTACGTAAATCGCAA
1 TGCG-ATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
* *
8880187 TGCGATTAAGTAAATCGCAATGCGAATTAAGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
*
8880228 TGCGATTACGTAAATCGCAATGTGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
*
8880269 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAT
1 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
* *
8880310 TGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
8880351 CACGAATTTG
Statistics
Matches: 187, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
40 25 0.13
41 156 0.83
42 6 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (41 bp):
TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
Found at i:8880171 original size:61 final size:60
Alignment explanation
Indices: 8880106--8880350 Score: 305
Period size: 61 Copynumber: 4.0 Consensus size: 60
8880096 AGAATCTCGT
8880106 TGCGATTTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGA-TTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
* *
8880167 TGCGATTACGTAAATCGCAATGCGATTAAGTAAATCGCAATGCGAATTAAGAAAATCGCAA
1 TGCGATTAC-TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
* * * * *
8880228 TGCGATTACGTAAATCGCAATGTGAATTAGGAAAATCGCAATGCG-ATTACGTAAATCGCAA
1 TGCGATTAC-TAAATCGCAATGCG-ATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
** * * *
8880289 TGCGAATTAGGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAATCGCAA
1 TGCG-ATTA-CTAAATCGCAATGCGA-TTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
8880351 CACGAATTTG
Statistics
Matches: 161, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
60 4 0.02
61 106 0.66
62 51 0.32
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (60 bp):
TGCGATTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
Found at i:8880388 original size:82 final size:81
Alignment explanation
Indices: 8880117--8880396 Score: 239
Period size: 82 Copynumber: 3.4 Consensus size: 81
8880107 GCGATTTACT
* * * * *
8880117 AAATCGCAATGCGATTACGT-A-AATCGCAATGCGAATTAGGAAAATCGCAATGCG-ATTACGTA
1 AAATCGCAATGCGA-TA-GTAAGAATCGCATTGCG-ATTACGTAAATCGCAATGCGAATTAGGAA
** * *
8880179 AATCGCAATGCGATTAAGT
63 AATCGCAACACGATTACGG
* * *
8880198 AAATCGCAATGCGA-ATTAAGAAAATCGCAATGCGATTACGTAAATCGCAATGTGAATTAGGAAA
1 AAATCGCAATGCGATAGTAAG--AATCGCATTGCGATTACGTAAATCGCAATGCGAATTAGGAAA
** *
8880262 ATCGCAATGCGATTACGT
64 ATCGCAACACGATTACGG
* * *
8880280 AAATCGCAATGCGAATTAGGAA-AATCGCATTGCGATTTACGT-ATTCGCATTGCGAATTAGGAA
1 AAATCGCAATGCG-A-TAGTAAGAATCGCATTGCGA-TTACGTAAATCGCAATGCGAATTAGGAA
**
8880343 AATCGCAACACGAATTTGGG
63 AATCGCAACACG-ATTACGG
* *
8880363 AAATCGCAATGCGATAGTCAGAATCGCGTTGCGA
1 AAATCGCAATGCGATAGTAAGAATCGCATTGCGA
8880397 ATCTGGAAAC
Statistics
Matches: 167, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 2 0.01
81 35 0.21
82 102 0.61
83 24 0.14
85 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (81 bp):
AAATCGCAATGCGATAGTAAGAATCGCATTGCGATTACGTAAATCGCAATGCGAATTAGGAAAAT
CGCAACACGATTACGG
Found at i:8882650 original size:16 final size:16
Alignment explanation
Indices: 8882598--8882651 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
8882588 TATCCCATTC
8882598 ATAATTTTAATAATT-G
1 ATAATTTT-ATAATTAG
8882614 A-AA-TTTA-AATTAG
1 ATAATTTTATAATTAG
* *
8882627 TTATTTTTATAATTAG
1 ATAATTTTATAATTAG
8882643 ATAATTTTA
1 ATAATTTTA
8882652 ACCCGATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 4 0.13
13 2 0.07
14 4 0.13
15 6 0.20
16 14 0.47
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATAATTTTATAATTAG
Found at i:8883404 original size:20 final size:21
Alignment explanation
Indices: 8883371--8883409 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
8883361 AAATATTTCC
8883371 TCTTTTAAATAAAA-TTAACT
1 TCTTTTAAATAAAAGTTAACT
8883391 TCTTTTATAA-AAAAGTTAA
1 TCTTTTA-AATAAAAGTTAA
8883410 ATTATACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (21 bp):
TCTTTTAAATAAAAGTTAACT
Found at i:8886344 original size:50 final size:50
Alignment explanation
Indices: 8886286--8886387 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
8886276 CCCAACAAAT
*
8886286 ATGACCACATTAGCTGCGCATTTAATTAATTTAAATCCAAATTACAATGG
1 ATGACCACATTAGCTGCGCATTTAATTAATTTAAACCCAAATTACAATGG
8886336 ATGACCACATTAGCTGCGCATTTAATTAATTTAAACCCAAATTACAATGG
1 ATGACCACATTAGCTGCGCATTTAATTAATTTAAACCCAAATTACAATGG
8886386 AT
1 AT
8886388 ACGTTTAACT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (50 bp):
ATGACCACATTAGCTGCGCATTTAATTAATTTAAACCCAAATTACAATGG
Found at i:8889877 original size:2 final size:2
Alignment explanation
Indices: 8889870--8889905 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
8889860 AACATAGATG
8889870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
8889906 AGAATAAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8890106 original size:29 final size:28
Alignment explanation
Indices: 8890074--8890142 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
8890064 CTACTTGATT
*
8890074 ATATACACATATGAT-ATGTATGTTAAATG
1 ATATA-ACATATG-TGATGCATGTTAAATG
* *
8890103 ATATGAACCTATGTGATGCATGTTAGATG
1 ATAT-AACATATGTGATGCATGTTAAATG
*
8890132 ATATAAGATAT
1 ATATAACATAT
8890143 ATGTTCACAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 6 0.18
29 26 0.79
30 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.36
Consensus pattern (28 bp):
ATATAACATATGTGATGCATGTTAAATG
Found at i:8890455 original size:31 final size:31
Alignment explanation
Indices: 8890365--8890461 Score: 106
Period size: 31 Copynumber: 3.1 Consensus size: 31
8890355 AGAGTCGAGG
8890365 GTTTACCTATG-TCTTTCGGGACATATGGACA
1 GTTTACCTATGTTC-TTCGGGACATATGGACA
* ** * *
8890396 GGATTACCTATGTTCTAAGGAACATATGGATA
1 -GTTTACCTATGTTCTTCGGGACATATGGACA
* *
8890428 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTTCGGGACATATGGACA
8890459 GTT
1 GTT
8890462 GTCGAGGTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
31 27 0.52
32 23 0.44
33 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACA
Found at i:8891330 original size:13 final size:13
Alignment explanation
Indices: 8891312--8891348 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
8891302 TTTACGGAAG
*
8891312 TATTGTAGTAGTA
1 TATTGTAGCAGTA
8891325 TATTGTAGCAG--
1 TATTGTAGCAGTA
8891336 TATTGTAGCAGTA
1 TATTGTAGCAGTA
8891349 CTATAGCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (13 bp):
TATTGTAGCAGTA
Found at i:8893467 original size:24 final size:23
Alignment explanation
Indices: 8893435--8893501 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
8893425 AAAATTTCAG
8893435 GAGCTCGATTGAAGCTCGAGATTC
1 GAGCTCGATTGAAGCTCGA-ATTC
* * * *
8893459 GAGCTCGATTGACGATCGATTTT
1 GAGCTCGATTGAAGCTCGAATTC
*
8893482 GAGCTCGATTCAAGCTCGAA
1 GAGCTCGATTGAAGCTCGAA
8893502 CTCAAACCCG
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGAATTC
Found at i:8893595 original size:14 final size:15
Alignment explanation
Indices: 8893576--8893606 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
8893566 TATAATTATC
8893576 AATAATGT-ATTTTT
1 AATAATGTAATTTTT
8893590 AATAATGTAATTTTT
1 AATAATGTAATTTTT
8893605 AA
1 AA
8893607 AATCTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
AATAATGTAATTTTT
Found at i:8899708 original size:15 final size:15
Alignment explanation
Indices: 8899688--8899884 Score: 80
Period size: 15 Copynumber: 13.1 Consensus size: 15
8899678 AAGGGAAAAG
8899688 ATAAAATAATAATAA
1 ATAAAATAATAATAA
8899703 ATAAAATAA-AGATAAA
1 ATAAAATAATA-AT-AA
*
8899719 ATAAAACAAATCAA-AA
1 ATAAAA-TAAT-AATAA
** *
8899735 GGAAAAAAATAGATCAA
1 ATAAAATAATA-AT-AA
* *
8899752 A-ACAA-AATATTAA
1 ATAAAATAATAATAA
8899765 A-AAATATAA-AATCAA
1 ATAAA-ATAATAAT-AA
*
8899780 A-AAAACAA-AATATTA
1 ATAAAATAATAATA--A
* *
8899795 ATATAATAATAAAAA
1 ATAAAATAATAATAA
8899810 ATAAAA-AA-AATAA
1 ATAAAATAATAATAA
*
8899823 A-AATAATAAAAATAA
1 ATAA-AATAATAATAA
8899838 AGTAAAATAATAAT-A
1 A-TAAAATAATAATAA
8899853 ATAATAATAATAAT-A
1 ATAA-AATAATAATAA
8899868 ATAATAATAATAA-AA
1 ATAA-AATAATAATAA
8899883 AT
1 AT
8899885 GGGTTAAATT
Statistics
Matches: 145, Mismatches: 15, Indels: 44
0.71 0.07 0.22
Matches are distributed among these distances:
12 2 0.01
13 13 0.09
14 19 0.13
15 70 0.48
16 30 0.21
17 9 0.06
18 1 0.01
19 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (15 bp):
ATAAAATAATAATAA
Found at i:8899803 original size:3 final size:3
Alignment explanation
Indices: 8899788--8899880 Score: 97
Period size: 3 Copynumber: 32.7 Consensus size: 3
8899778 AAAAAAACAA
* * * * *
8899788 AAT ATT AAT -AT AAT AAT AA- AA- AAT AAA AAA AAT AAA AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
8899833 AAT AA- AGT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8899879 AA
1 AA
8899881 AAATGGGTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
2 9 0.12
3 67 0.88
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:8906890 original size:13 final size:13
Alignment explanation
Indices: 8906872--8906896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8906862 TCAGCAATCA
8906872 AACAACAATAAAC
1 AACAACAATAAAC
8906885 AACAACAATAAA
1 AACAACAATAAA
8906897 ATTACCCTCA
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:0.72, C:0.20, G:0.00, T:0.08
Consensus pattern (13 bp):
AACAACAATAAAC
Found at i:8911544 original size:28 final size:28
Alignment explanation
Indices: 8911496--8911551 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
8911486 TCGTCATTGC
*
8911496 TTTCAAACATTAACTCAACGACATAATA
1 TTTCAAACAATAACTCAACGACATAATA
*
8911524 TTTCAAACAATATACT-GACGACATAATA
1 TTTCAAACAATA-ACTCAACGACATAATA
8911552 CAAACAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (28 bp):
TTTCAAACAATAACTCAACGACATAATA
Found at i:8929316 original size:2 final size:2
Alignment explanation
Indices: 8929309--8929333 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8929299 AACCTTCTTT
8929309 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
8929334 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8929338 original size:2 final size:2
Alignment explanation
Indices: 8929333--8929362 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8929323 ACACACACAC
8929333 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
8929363 CAGTTCTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8933088 original size:220 final size:220
Alignment explanation
Indices: 8932692--8933145 Score: 872
Period size: 220 Copynumber: 2.1 Consensus size: 220
8932682 AATTAATTAG
*
8932692 AAAAAAATGTTAAATTATTAAATAATTTATTTAAGGATGTTATCGGGATTAAGAAAAAAAAGAGC
1 AAAAATAT-TTAAATTATTAAATAATTTATTTAAGGATGTTATCGGGATTAAGAAAAAAAAGAGC
8932757 CTTAACTTTTAAGCAGCCGCCGAGTTTCACAACAGCAGCCAATGGCCAGCTTTACAAAGTGCACA
65 CTTAACTTTTAAGCAGCCGCCGAGTTTCACAACAGCAGCCAATGGCCAGCTTTACAAAGTGCACA
8932822 AACGAGTCACAACTCACGGACTGAGTTGACTCTTATACTATCTCACTTGGAAGCGAATTTTATTA
130 AACGAGTCACAACTCACGGACTGAGTTGACTCTTATACTATCTCACTTGGAAGCGAATTTTATTA
8932887 AAATGCGGAAGCTGAAAAATTCACTT
195 AAATGCGGAAGCTGAAAAATTCACTT
8932913 AAAAATATTTAAATTATTAAATAATTTATTTAAGGATGTTATCGGGATTAAGAAAAAAAAGAGCC
1 AAAAATATTTAAATTATTAAATAATTTATTTAAGGATGTTATCGGGATTAAGAAAAAAAAGAGCC
8932978 TTAACTTTTAAGCAGCCGCCGAGTTTCACAACAGCAGCCAATGGCCAGCTTTACAAAGTGCACAA
66 TTAACTTTTAAGCAGCCGCCGAGTTTCACAACAGCAGCCAATGGCCAGCTTTACAAAGTGCACAA
* *
8933043 ACGAGTCACAACTCACGGACTGAGTTGACTCTTATACTGTCTCACTTGGACGCGAATTTTATTAA
131 ACGAGTCACAACTCACGGACTGAGTTGACTCTTATACTATCTCACTTGGAAGCGAATTTTATTAA
8933108 AATGCGGAAGCTGAAAAATTCACTT
196 AATGCGGAAGCTGAAAAATTCACTT
8933133 AAAAATATTTAAA
1 AAAAATATTTAAA
8933146 AAGAAAAGAG
Statistics
Matches: 230, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
220 223 0.97
221 7 0.03
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (220 bp):
AAAAATATTTAAATTATTAAATAATTTATTTAAGGATGTTATCGGGATTAAGAAAAAAAAGAGCC
TTAACTTTTAAGCAGCCGCCGAGTTTCACAACAGCAGCCAATGGCCAGCTTTACAAAGTGCACAA
ACGAGTCACAACTCACGGACTGAGTTGACTCTTATACTATCTCACTTGGAAGCGAATTTTATTAA
AATGCGGAAGCTGAAAAATTCACTT
Found at i:8941331 original size:21 final size:21
Alignment explanation
Indices: 8941307--8941348 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8941297 CTAACAATTT
8941307 GCATGGAAATGAAAGTGGAAG
1 GCATGGAAATGAAAGTGGAAG
8941328 GCATGGAAATGAAAGTGGAAG
1 GCATGGAAATGAAAGTGGAAG
8941349 CTTGCGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.38, T:0.14
Consensus pattern (21 bp):
GCATGGAAATGAAAGTGGAAG
Found at i:8948633 original size:26 final size:26
Alignment explanation
Indices: 8948600--8948668 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
8948590 TTGCATCCCC
*
8948600 TAAAATTTTATAATTTTATATCCCTT
1 TAAAATTTTATAAATTTATATCCCTT
8948626 TAAAATTTTATAAATTTATATCCCTT
1 TAAAATTTTATAAATTTATATCCCTT
8948652 TAAAATTTTATAAATTT
1 TAAAATTTTATAAATTT
8948669 GTCCCTGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (26 bp):
TAAAATTTTATAAATTTATATCCCTT
Found at i:8950898 original size:29 final size:30
Alignment explanation
Indices: 8950857--8950916 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
8950847 TGTTATGTTA
*
8950857 AGTCCCCCAACTATTAATA-GTTACAAAAT
1 AGTCACCCAACTATTAATATGTTACAAAAT
* * *
8950886 AGTCACCCGACTATTCATATGTTCCAAAAT
1 AGTCACCCAACTATTAATATGTTACAAAAT
8950916 A
1 A
8950917 ATCCTTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.28
Consensus pattern (30 bp):
AGTCACCCAACTATTAATATGTTACAAAAT
Found at i:8955285 original size:41 final size:41
Alignment explanation
Indices: 8955240--8955698 Score: 459
Period size: 41 Copynumber: 11.2 Consensus size: 41
8955230 ATTCACGTTG
* *
8955240 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
8955281 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*** *
8955322 CATTTCGCGTTGCGATAGTTG-AAATCGCAACGCGA-TCTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * * * * ** * *
8955361 CATCATCACAAATT-CG--CGTTGCATTTCGCGTTGCGATAGTTG
1 CAT-TTCGC--GTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTC
* ** * * * ** **
8955403 AAAATCGCGTTGTGGT-TTTTCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * *
8955443 TATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
*
8955484 CATTTCGTGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
8955525 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
8955566 CATTTCGCGTTGCGATAGTTGAAAATTGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
8955607 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
* * *
8955648 CATTTCGTGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
8955689 CATTTCGCGT
1 CATTTCGCGT
8955699 AACGGAAAAT
Statistics
Matches: 354, Mismatches: 51, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
39 12 0.03
40 37 0.10
41 299 0.84
42 6 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:8955336 original size:20 final size:20
Alignment explanation
Indices: 8955265--8955337 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
8955255 TAGTTGAAAA
*
8955265 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
8955285 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
8955306 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
8955326 TCGCGTTGCGAT
1 TCGCGTTGCGAT
8955338 AGTTGAAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:8955349 original size:20 final size:21
Alignment explanation
Indices: 8955244--8955349 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 21
8955234 ACGTTGCATT
*
8955244 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
8955265 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* *
8955285 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
8955306 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
8955326 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
8955346 TCGC
1 TCGC
8955350 AACGCGATCT
Statistics
Matches: 61, Mismatches: 21, Indels: 7
0.69 0.24 0.08
Matches are distributed among these distances:
20 34 0.56
21 27 0.44
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:8955432 original size:20 final size:20
Alignment explanation
Indices: 8955419--8955698 Score: 177
Period size: 20 Copynumber: 13.8 Consensus size: 20
8955409 GCGTTGTGGT
8955419 TTTTC-ATTTCGCGTTGCGA
1 TTTTCTATTTCGCGTTGCGA
8955438 TTTTCTATTTCGCGTTGCGA
1 TTTTCTATTTCGCGTTGCGA
** **
8955458 TAGTCTACAGTCGCGTTGCGA
1 TTTTCTA-TTTCGCGTTGCGA
* *
8955479 TTTTCCATTTCGTGTTGCGA
1 TTTTCTATTTCGCGTTGCGA
* ** **
8955499 TAGTTGAAAATCGCGTTGCGA
1 T-TTTCTATTTCGCGTTGCGA
*
8955520 TTTTCCATTTCGCGTTGCGA
1 TTTTCTATTTCGCGTTGCGA
* ** **
8955540 TAGTTGAAAATCGCGTTGCGA
1 T-TTTCTATTTCGCGTTGCGA
*
8955561 TTTTCCATTTCGCGTTGCGA
1 TTTTCTATTTCGCGTTGCGA
*** *
8955581 TAGTTGAAAATT-GCGTTGCGA
1 T--TTTCTATTTCGCGTTGCGA
*
8955602 TTTTCCATTTCGCGTTGCGA
1 TTTTCTATTTCGCGTTGCGA
** **
8955622 TAGTCTACAGTCGCGTTGCGA
1 TTTTCTA-TTTCGCGTTGCGA
* *
8955643 TTTTCCATTTCGTGTTGCGA
1 TTTTCTATTTCGCGTTGCGA
** **
8955663 TAGTCTACAGTCGCGTTGCGA
1 TTTTCTA-TTTCGCGTTGCGA
*
8955684 TTTTCCATTTCGCGT
1 TTTTCTATTTCGCGT
8955699 AACGGAAAAT
Statistics
Matches: 191, Mismatches: 61, Indels: 17
0.71 0.23 0.06
Matches are distributed among these distances:
19 10 0.05
20 93 0.49
21 83 0.43
22 5 0.03
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (20 bp):
TTTTCTATTTCGCGTTGCGA
Found at i:8955472 original size:142 final size:142
Alignment explanation
Indices: 8955211--8955479 Score: 366
Period size: 142 Copynumber: 1.9 Consensus size: 142
8955201 AATTTGCATT
*
8955211 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGT
1 GCGATCTCCACTATCACAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGT
* * * *
8955276 TTTTCCATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
66 TTTTCCATTTCGCGTTGCGATAGTTCGAGATCGCGTTGCGATTCTACATGTCGCGTTGCGATAGT
8955341 TGAAATCGCAAC
131 TGAAATCGCAAC
* * *
8955353 GCGATCTCCA-TCATCACAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTG
1 GCGATCTCCACT-ATCACAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTG-C
* * **
8955417 GTTTTT-CATTTCGCGTTGCGAT-TTTCTATTTCGCGTTGCGATAGTCTACA-GTCGCGTTGCGA
64 GTTTTTCCATTTCGCGTTGCGATAGTTCGAGATCGCGTTGCGAT--TCTACATGTCGCGTTGCGA
8955479 T
127 T
8955480 TTTCCATTTC
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
141 16 0.14
142 85 0.77
143 10 0.09
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (142 bp):
GCGATCTCCACTATCACAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGT
TTTTCCATTTCGCGTTGCGATAGTTCGAGATCGCGTTGCGATTCTACATGTCGCGTTGCGATAGT
TGAAATCGCAAC
Found at i:8955717 original size:20 final size:19
Alignment explanation
Indices: 8955694--8955923 Score: 81
Period size: 20 Copynumber: 11.3 Consensus size: 19
8955684 TTTTCCATTT
8955694 CGCGTAACGGAAAATCGCAA
1 CGCG-AACGGAAAATCGCAA
**
8955714 CGCG-ACTGTAGACTATCGCAA
1 CGCGAAC-G--GAAAATCGCAA
*
8955735 CGCGAAATGGAAAATCGCAA
1 CGCG-AACGGAAAATCGCAA
**
8955755 CGCG-ACTGTAGACTATCGCAA
1 CGCGAAC-G--GAAAATCGCAA
*
8955776 CGCGAAATGGAAAATCGCAA
1 CGCG-AACGGAAAATCGCAA
**** * *
8955796 CGCGATTTTCAACTATCACAA
1 CGCGA-ACGGAA-AATCGCAA
*
8955817 CGCGAAATGGAAAATCGCAA
1 CGCG-AACGGAAAATCGCAA
**
8955837 CGCG-ACTGTAGACTATCGCAA
1 CGCGAAC-G--GAAAATCGCAA
*
8955858 CGCGAAATGGAAAATCGCAA
1 CGCG-AACGGAAAATCGCAA
**
8955878 CGCG-ACTGTAGACTATCGCAA
1 CGCGAAC-G--GAAAATCGCAA
*
8955899 CGCGAAATGGAAAATCGCAA
1 CGCG-AACGGAAAATCGCAA
8955919 CGCGA
1 CGCGA
8955924 TTTTCAACTA
Statistics
Matches: 154, Mismatches: 33, Indels: 47
0.66 0.14 0.20
Matches are distributed among these distances:
18 5 0.03
19 6 0.04
20 69 0.45
21 65 0.42
22 5 0.03
23 4 0.03
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (19 bp):
CGCGAACGGAAAATCGCAA
Found at i:8955759 original size:41 final size:41
Alignment explanation
Indices: 8955702--8955989 Score: 456
Period size: 41 Copynumber: 7.0 Consensus size: 41
8955692 TTCGCGTAAC
8955702 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
1 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
8955743 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
1 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
* * *
8955784 GGAAAATCGCAACGCGATTTTCA-ACTATCACAACGCGAAAT
1 GGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAAT
8955825 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
1 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
8955866 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
1 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
* *
8955907 GGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAAT
1 GGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAAT
* * *
8955948 GAAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAAT
1 GGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAAT
8955989 G
1 G
8955990 CAACGCGAAT
Statistics
Matches: 235, Mismatches: 9, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
40 1 0.00
41 232 0.99
42 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
Found at i:8955921 original size:123 final size:123
Alignment explanation
Indices: 8955702--8955989 Score: 524
Period size: 123 Copynumber: 2.3 Consensus size: 123
8955692 TTCGCGTAAC
8955702 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGA
1 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGA
8955767 CTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCACAACGCGAAAT
66 CTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCACAACGCGAAAT
8955825 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGA
1 GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGA
*
8955890 CTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAAT
66 CTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCACAACGCGAAAT
* * *
8955948 GAAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATG
1 GGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATG
8955990 CAACGCGAAT
Statistics
Matches: 160, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
123 159 0.99
124 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (123 bp):
GGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGA
CTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCACAACGCGAAAT
Found at i:8969265 original size:30 final size:28
Alignment explanation
Indices: 8969219--8969279 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
8969209 TTCGCCTTAA
*
8969219 TTAAAAATTTAAATACTTGTAATATTCTT
1 TTAAAAATTTAAATACTTGTAA-ATACTT
* *
8969248 TTAAAAGATTTCAATACTTTTAAATACTT
1 TTAAAA-ATTTAAATACTTGTAAATACTT
8969277 TTA
1 TTA
8969280 TATTTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (28 bp):
TTAAAAATTTAAATACTTGTAAATACTT
Found at i:8969872 original size:6 final size:6
Alignment explanation
Indices: 8969861--8970681 Score: 1208
Period size: 6 Copynumber: 140.2 Consensus size: 6
8969851 ATTAATCAAT
*
8969861 AATATA AATATA AATAT- AATATA AATAAATA TATATA AATATA AATAT-
1 AATATA AATATA AATATA AATATA AAT--ATA AATATA AATATA AATATA
*
8969909 AATAAA ATATATA AATAT- AATATA AATATA AATATA AATATA AATATA
1 AATATA A-ATATA AATATA AATATA AATATA AATATA AATATA AATATA
8969957 AATAT- AA-ATA AATAT- AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
*
8970002 AATATA ATATATA TAA-ATA TATATA AATATA AATAT- AA-AT- AATATA
1 AATATA A-ATATA -AATATA AATATA AATATA AATATA AATATA AATATA
8970048 AATATA AATATA AATATA AATATA AATAT- AATAT- AA-ATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
8970093 AATATA AATAT- AA-ATA AATATA AATAT- AATATA AATAT- AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
*
8970137 AATAT- AA-ATA AATATA AATATA AATATA TATAATA TAA-ATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AAT-ATA -AATATA AATATA
8970184 AATATA AATAT- AA-ATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
* *
8970230 AATA-A AATATA AATATA AATATA AAAATA AA-ATA TA-ATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
8970275 AATAT- AATATA AATAT- AATATA TAATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA -AATATA AATATA AATATA AATATA
8970322 AATATA AATATA AATATA AATATA AATATA TAATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA -AATATA AATATA AATATA
8970371 AATATA AATATA AATATA AATATA AATA-A AATATA AATATA AATAT-
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
8970417 AATATA AATA-A ATATATA TAATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA A-ATATA -AATATA AATATA AATATA AATATA AATATA
8970466 AATATA AATATA AATAT- AA-ATA AATATAA ATATATA AATATA AATATAAA
1 AATATA AATATA AATATA AATATA AATAT-A A-ATATA AATATA AATAT--A
8970516 AATATA AATAT- AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
8970563 AATATA AATATA AATATA AATATA AATATA AATAT- AA-ATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
8970609 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
8970657 AATATA AATATA AATATA AATATA A
1 AATATA AATATA AATATA AATATA A
8970682 GCACGAACTG
Statistics
Matches: 757, Mismatches: 11, Indels: 94
0.88 0.01 0.11
Matches are distributed among these distances:
4 18 0.02
5 109 0.14
6 576 0.76
7 36 0.05
8 18 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:8973331 original size:23 final size:22
Alignment explanation
Indices: 8973301--8973363 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
8973291 TGAATTTAAA
8973301 AAATAATATAAAAATTATATTT
1 AAATAATATAAAAATTATATTT
** * * *
8973323 AAATGAATATTGATATAATTTTT
1 AAAT-AATATAAAAATTATATTT
*
8973346 AAATAATTTAAAAATTAT
1 AAATAATATAAAAATTAT
8973364 TAGATCAAAT
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (22 bp):
AAATAATATAAAAATTATATTT
Found at i:8984936 original size:64 final size:64
Alignment explanation
Indices: 8984867--8985023 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
8984857 TTGAAGGTGT
** *
8984867 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
8984929 GC
63 GC
* * * *
8984931 ATCGATGTATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
8984995 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
8985024 ACCTTCATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 3 0.04
64 62 0.82
65 11 0.14
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:8985436 original size:29 final size:29
Alignment explanation
Indices: 8985397--8985477 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
8985387 TATGTGATAT
8985397 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
* * *
8985427 GAGAAATGACGTGAGCTATATGATCATAA
1 GAGAAATGACATGAGCTACATGATCACAA
8985456 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
8985478 ACATATGGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.13
29 35 0.76
30 5 0.11
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:8994096 original size:78 final size:78
Alignment explanation
Indices: 8993967--8994122 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
8993957 TTCCGATATC
*
8993967 GATGCTTCGATAACGGCAAGTCCAATTACTCGTCCTCTAATTTCCTTTTCTTGTTTATGTCTACA
1 GATGCTTCGATAACGGCAAGTCCAATTACTCGGCCTCTAATTTCCTTTTCTTGTTTATGTCTACA
8994032 ACGATGAATGACT
66 ACGATGAATGACT
8994045 GATGCTTCGATAACGGCAAGTCCAATTACTCGGCCTCTAATTTCCTTTTCTTGTTTATGTCTACA
1 GATGCTTCGATAACGGCAAGTCCAATTACTCGGCCTCTAATTTCCTTTTCTTGTTTATGTCTACA
8994110 ACGATGAATGACT
66 ACGATGAATGACT
8994123 TGTCGATAAG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (78 bp):
GATGCTTCGATAACGGCAAGTCCAATTACTCGGCCTCTAATTTCCTTTTCTTGTTTATGTCTACA
ACGATGAATGACT
Found at i:8996379 original size:18 final size:18
Alignment explanation
Indices: 8996356--8996395 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8996346 AAAATTTATA
*
8996356 AAAATACATAATAATATT
1 AAAATAAATAATAATATT
* *
8996374 AAAATAAATTATCATATT
1 AAAATAAATAATAATATT
8996392 AAAA
1 AAAA
8996396 GGTAAAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAAATAATAATATT
Found at i:8996689 original size:38 final size:39
Alignment explanation
Indices: 8996646--8996736 Score: 141
Period size: 38 Copynumber: 2.4 Consensus size: 39
8996636 CAAGCTTATT
* *
8996646 TGGCGTCTTCATGCAAAATAA-AAGACTCTAAGATTACC
1 TGGCGTTTTCATGCAAAATAAGAAGACTCCAAGATTACC
*
8996684 TGGCGTTTTCATAC-AAATAAGAAGACTCCAAGATTACC
1 TGGCGTTTTCATGCAAAATAAGAAGACTCCAAGATTACC
8996722 TGGCGTTTTCATGCA
1 TGGCGTTTTCATGCA
8996737 GAAGACTCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
37 6 0.13
38 41 0.87
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (39 bp):
TGGCGTTTTCATGCAAAATAAGAAGACTCCAAGATTACC
Found at i:8997659 original size:23 final size:23
Alignment explanation
Indices: 8997632--8997678 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8997622 CAAGGTTAAA
* *
8997632 TAATTGTAGTAATTAATTTAATT
1 TAATTGTAATAATAAATTTAATT
* *
8997655 TAATTTTAATTATAAATTTAATT
1 TAATTGTAATAATAAATTTAATT
8997678 T
1 T
8997679 TTACCTTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TAATTGTAATAATAAATTTAATT
Found at i:8997823 original size:31 final size:32
Alignment explanation
Indices: 8997787--8997846 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
8997777 GAAAAATGTT
8997787 AAAAATATTGTT-ATATATTTACATTTTTATA
1 AAAAATATTGTTAATATATTTACATTTTTATA
8997818 AAAAATATTGTTAATATATTTACATTTTT
1 AAAAATATTGTTAATATATTTACATTTTT
8997847 GAAATTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (32 bp):
AAAAATATTGTTAATATATTTACATTTTTATA
Found at i:9008381 original size:102 final size:106
Alignment explanation
Indices: 9008191--9008918 Score: 447
Period size: 102 Copynumber: 6.7 Consensus size: 106
9008181 TTAAACAAAA
*
9008191 AATATGTTAAATCAAAATAAATAGTCTAATTAATTTATATTTACAATAAAAACAAAAATAAAACA
1 AATATGTAAAATCAAAATAAATAGTCTAA-TAATTTATATTTAC-ATAAAAACAAAAATAAAACA
* * * *
9008256 ATAAAATTTAAACTAAACTTACCAAACTACTCAAATTCGATTT
64 ATAAAATTTAAACTAAACATACCAAACTACTCAAATACAACTT
* * * *
9008299 AATATGTAAAATAAAAATAAATAGTCCAATAATTTATA-TTAC-TCAATAA-AAAGAT-AAA-AA
1 AATATGTAAAATCAAAATAAATAGTCTAATAATTTATATTTACAT-AAAAACAAAAATAAAACAA
*
9008359 TATAATTTAAACTAAACATACCAAACTACTCAAATACAACTT
65 TAAAATTTAAACTAAACATACCAAACTACTCAAATACAACTT
* * *
9008401 AATATGTGAAATCAAAATAAATATTCTAATAA-TTATAATTTAAATTAAAAACAAAAAACATACT
1 AATATGTAAAATCAAAATAAATAGTCTAATAATTTAT-ATTTACA-TAAAAAC--AAAA-ATA--
* *** * * * * **
9008465 AAA-AATTACACAAAAATTATTTTTTAACTTACCAAACCACTCGAATACAGTTT
59 AAACAA-T----AAAATTTA-AACTAAACATACCAAACTACTCAAATACAACTT
** * * *
9008518 AATGCGTAAAAGCAAAATAAATAATCTAATTAATTTATATTTAC-----AA-TAAAA-AAAACAA
1 AATATGTAAAATCAAAATAAATAGTCTAA-TAATTTATATTTACATAAAAACAAAAATAAAACAA
** * * *
9008576 T-AAATGTTAAACTAAAGTTACCAAACAACTCAAATACGATTT
65 TAAAAT-TTAAACTAAACATACCAAACTACTCAAATACAACTT
* * * * ***
9008618 AATATGTAAAATAAAAATAATTAGTCTAATAATTTAT-GTTAC-TCAATAA-AAAAATAATGTAA
1 AATATGTAAAATCAAAATAAATAGTCTAATAATTTATATTTACAT-AAAAACAAAAATAAAACAA
* * *
9008680 T--AATTTAAACTACAC-TAATCAAGATTTACTCAAATACAACTT
65 TAAAATTTAAACTAAACAT-ACCAA-A-CTACTCAAATACAACTT
* * * *
9008722 AATATGTAAAATCAAAATAAATAATCTAATAATTTAAATTTAAATTTAAAAA-AATTACACTAAA
1 AATATGTAAAATCAAAATAAATAGTCTAATAATTTATATTTACA--TAAAAACAA--A-A--ATA
** * * * ** *
9008786 AATTACACGAAAATTTAAATTAAACTTACCAAACCACTTGAATACAATTT
59 AA--ACAATAAAATTTAAACTAAACATACCAAACTACTCAAATACAACTT
* * * *
9008836 AATATGTAAAATCAAAAATAAATAATCTAATTAATTTATATTTCAAATAAAAATTAAAAATGAAA
1 AATATGTAAAATC-AAAATAAATAGTCTAA-TAATTTATATTT-ACATAAAAA-CAAAAATAAAA
*
9008901 CAATAAAATTTACACTAA
62 CAATAAAATTTAAACTAA
9008919 TTTTATCAAA
Statistics
Matches: 479, Mismatches: 91, Indels: 98
0.72 0.14 0.15
Matches are distributed among these distances:
98 4 0.01
99 8 0.02
100 50 0.10
101 8 0.02
102 81 0.17
103 16 0.03
104 61 0.13
105 12 0.03
106 6 0.01
107 19 0.04
108 30 0.06
109 4 0.01
110 16 0.03
111 5 0.01
112 9 0.02
114 27 0.06
115 24 0.05
116 33 0.07
117 54 0.11
118 8 0.02
119 4 0.01
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (106 bp):
AATATGTAAAATCAAAATAAATAGTCTAATAATTTATATTTACATAAAAACAAAAATAAAACAAT
AAAATTTAAACTAAACATACCAAACTACTCAAATACAACTT
Found at i:9008618 original size:319 final size:318
Alignment explanation
Indices: 9008203--9008888 Score: 911
Period size: 319 Copynumber: 2.1 Consensus size: 318
9008193 TATGTTAAAT
*
9008203 CAAAATAAATAGTCTAATTAATTTATATTTACAATAAAAACAAAAATAAAACAATAAAATTTAAA
1 CAAAATAAATAATCTAATTAATTTATATTTACAAT-------AAAA-AAAACAATAAAATTTAAA
* *
9008268 CTAAACTTACCAAACTACTCAAATTCGATTTAATATGTAAAATAAAAATAAATAGTCCAATAATT
58 CTAAACTTACCAAACAACTCAAATACGATTTAATATGTAAAATAAAAATAAATAGTCCAATAATT
*
9008333 TATATTACTCAATAAAAAGATAAAA-ATATAATTTAAACTAAAC-ATACCAA-A-CTACTCAAAT
123 TATATTACTCAATAAAAAAATAAAATA-ATAATTTAAACTAAACTA-ACCAAGATCTACTCAAAT
* *
9008394 ACAACTTAATATGTGAAATCAAAATAAATATTCTAATAA-TTATAATTTAAATTAAAAACAAAAA
186 ACAACTTAATATGTAAAATCAAAATAAATAATCTAATAATTTA-AATTTAAATTAAAAA-AAAAA
** * * *
9008458 ACATACTAAAAATTACACAAAAA-TTATTTTTTAACTTACCAAACCACTCGAATACAGTTTAATG
249 AC--ACTAAAAATTACACAAAAATTTA-AATTAAACTTACCAAACCACTCGAATACAATTTAATA
9008522 CGTAAAAG
311 CGTAAAAG
*
9008530 CAAAATAAATAATCTAATTAATTTATATTTACAATAAAAAAAACAAT-AAATGTTAAACTAAAGT
1 CAAAATAAATAATCTAATTAATTTATATTTACAATAAAAAAAACAATAAAAT-TTAAACTAAACT
* * *
9008594 TACCAAACAACTCAAATACGATTTAATATGTAAAATAAAAATAATTAGTCTAATAATTTATGTTA
65 TACCAAACAACTCAAATACGATTTAATATGTAAAATAAAAATAAATAGTCCAATAATTTATATTA
** * * *
9008659 CTCAATAAAAAAATAATGTAATAATTTAAACTACACTAATCAAGATTTACTCAAATACAACTTAA
130 CTCAATAAAAAAATAAAATAATAATTTAAACTAAACTAACCAAGATCTACTCAAATACAACTTAA
* **
9008724 TATGTAAAATCAAAATAAATAATCTAATAATTTAAATTTAAATTTAAAAAAATTACACTAAAAAT
195 TATGTAAAATCAAAATAAATAATCTAATAATTTAAATTTAAATTAAAAAAAAAAACACTAAAAAT
* * * *
9008789 TACACGAAAATTTAAATTAAACTTACCAAACCACTTGAATACAATTTAATATGTAAAAT
260 TACACAAAAATTTAAATTAAACTTACCAAACCACTCGAATACAATTTAATACGTAAAAG
9008848 CAAAAATAAATAATCTAATTAATTTATATTT-CAAATAAAAA
1 C-AAAATAAATAATCTAATTAATTTATATTTAC-AATAAAAA
9008889 TTAAAAATGA
Statistics
Matches: 323, Mismatches: 27, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
318 61 0.19
319 153 0.47
320 12 0.04
321 60 0.19
322 3 0.01
327 34 0.11
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (318 bp):
CAAAATAAATAATCTAATTAATTTATATTTACAATAAAAAAAACAATAAAATTTAAACTAAACTT
ACCAAACAACTCAAATACGATTTAATATGTAAAATAAAAATAAATAGTCCAATAATTTATATTAC
TCAATAAAAAAATAAAATAATAATTTAAACTAAACTAACCAAGATCTACTCAAATACAACTTAAT
ATGTAAAATCAAAATAAATAATCTAATAATTTAAATTTAAATTAAAAAAAAAAACACTAAAAATT
ACACAAAAATTTAAATTAAACTTACCAAACCACTCGAATACAATTTAATACGTAAAAG
Found at i:9018678 original size:175 final size:175
Alignment explanation
Indices: 9018383--9018733 Score: 630
Period size: 175 Copynumber: 2.0 Consensus size: 175
9018373 ATGTCTTTTA
9018383 CCACATCAGAGTACCACTGCTGGTCAGGCACCAAATCCCTGCTCATTTTATTGAAAAGATCAGCC
1 CCACATCAGAGTACCACTGCTGGTCAGGCACCAAATCCCTGCTCATTTTATTGAAAAGATCAGCC
* * * * *
9018448 ACCTCTTCGTCGCTGCCCAAGTAGTTGTGAAGCATTACCGTAACTCGCTGCTCCTTAACATCGTC
66 ACATCTTCATCGCTGCCCAAGTAGTTGTGAAGCATTACCGTAACTCACAGCTCCTTAACATCATC
*
9018513 CGCTGTATCGATGAGGGAGTTGAGGAAGCATAAGTAAGTGGTAAT
131 CGCTGTATCGATGAGGGAGTCGAGGAAGCATAAGTAAGTGGTAAT
9018558 CCACATCAGAGTACCACTGCTGGTCAGGCACCAAATCCCTGCTCATTTTATTGAAAAGATCAGCC
1 CCACATCAGAGTACCACTGCTGGTCAGGCACCAAATCCCTGCTCATTTTATTGAAAAGATCAGCC
*
9018623 ACATCTTCATCGCTGCCCAAGTAGTTGTGAAGCATTCCCGTAACTCACAGCTCCTTAACATCATC
66 ACATCTTCATCGCTGCCCAAGTAGTTGTGAAGCATTACCGTAACTCACAGCTCCTTAACATCATC
*
9018688 CGCTGTATTGATGAGGGAGTCGAGGAAGCATAAGTAAGTGGTAAT
131 CGCTGTATCGATGAGGGAGTCGAGGAAGCATAAGTAAGTGGTAAT
9018733 C
1 C
9018734 TCAAATTCGT
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 168 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (175 bp):
CCACATCAGAGTACCACTGCTGGTCAGGCACCAAATCCCTGCTCATTTTATTGAAAAGATCAGCC
ACATCTTCATCGCTGCCCAAGTAGTTGTGAAGCATTACCGTAACTCACAGCTCCTTAACATCATC
CGCTGTATCGATGAGGGAGTCGAGGAAGCATAAGTAAGTGGTAAT
Found at i:9021640 original size:40 final size:40
Alignment explanation
Indices: 9021595--9021742 Score: 115
Period size: 40 Copynumber: 3.7 Consensus size: 40
9021585 GAACTCCTAT
* * *
9021595 TTCGCAACCCAGTTTCCAAATTCGCAACGC-GAATTTGTAAA
1 TTCGCAACACAGTTT-CAAATTCGCAACACTGAATTT-CAAA
**
9021636 -TCGCAACACAGAAGTCAAATTCGCAACACTGAATTTCAAA
1 TTCGCAACACAG-TTTCAAATTCGCAACACTGAATTTCAAA
** * * * *
9021676 TTCGCAACTGAATTTCAAATTCGCAACTC-GATTTTCGAA
1 TTCGCAACACAGTTTCAAATTCGCAACACTGAATTTCAAA
* *
9021715 TTCGCAACACGAATTT-AATTTCGCAACA
1 TTCGCAACAC-AGTTTCAAATTCGCAACA
9021743 GGTTTTAGTT
Statistics
Matches: 86, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
39 26 0.30
40 45 0.52
41 15 0.17
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (40 bp):
TTCGCAACACAGTTTCAAATTCGCAACACTGAATTTCAAA
Found at i:9021687 original size:19 final size:19
Alignment explanation
Indices: 9021650--9021741 Score: 105
Period size: 19 Copynumber: 4.7 Consensus size: 19
9021640 AACACAGAAG
9021650 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
9021671 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
9021690 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
* *
9021710 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
9021730 T-AATTTCGCAAC
1 TCAAATTCGCAAC
9021742 AGGTTTTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 31 0.49
20 22 0.35
21 10 0.16
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:9021742 original size:19 final size:20
Alignment explanation
Indices: 9021611--9021742 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
9021601 ACCCAGTTTC
*
9021611 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACACGAATTT
* *
9021631 GTAAA-TCGCAACACAGAA-GT
1 -CAAATTCGCAACAC-GAATTT
9021651 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-GAATTT
*
9021672 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACACGAATTT
* *
9021691 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACGAATTT
*
9021711 CGAATTCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
*
9021731 -AATTTCGCAACA
1 CAAATTCGCAACA
9021743 GGTTTTAGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
19 31 0.33
20 43 0.46
21 19 0.20
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:9022704 original size:24 final size:24
Alignment explanation
Indices: 9022677--9022728 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
9022667 ATTCGAAATT
9022677 TGATCTTGGTCAATACCCGGATTG
1 TGATCTTGGTCAATACCCGGATTG
* *
9022701 TGATCTTGGTCAATACTCGGATTT
1 TGATCTTGGTCAATACCCGGATTG
9022725 TGAT
1 TGAT
9022729 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (24 bp):
TGATCTTGGTCAATACCCGGATTG
Found at i:9024545 original size:21 final size:21
Alignment explanation
Indices: 9024521--9024624 Score: 102
Period size: 21 Copynumber: 4.9 Consensus size: 21
9024511 GCGGGCGGGA
9024521 CCTCTTGAACGATGATAGGGG
1 CCTCTTGAACGATGATAGGGG
* **
9024542 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGATAGGGG
* * *
9024563 CCTCTTCAATGATGAGAGGGGG
1 CCTCTTGAACGATGATA-GGGG
* *
9024585 CCTCTTGAACAAT-ATGAGGCG
1 CCTCTTGAACGATGAT-AGGGG
*
9024606 CCTTTTGAACGATGATAGG
1 CCTCTTGAACGATGATAGG
9024625 TGTATCAGGC
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
21 49 0.74
22 17 0.26
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGATAGGGG
Found at i:9024567 original size:42 final size:42
Alignment explanation
Indices: 9024501--9024624 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
9024491 GTGAATCGGG
* * *
9024501 CTCTTGAACGGCGGGCGGGACCTCTTGAACGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGATAGGGGC
* * *
9024543 CTCTTGAACGGTGGGAGGGGCCTCTTCAATGATGAGAGGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGATA-GGGGC
** ** * *
9024586 CTCTTGAACAATATGAGGCGCCTTTTGAACGATGATAGG
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGATAGG
9024625 TGTATCAGGC
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGATAGGGGC
Found at i:9024620 original size:43 final size:42
Alignment explanation
Indices: 9024521--9024620 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 42
9024511 GCGGGCGGGA
* ** * *
9024521 CCTCTTGAACGATGATAGGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGGCCTCTTGAACAATAGGAGGCG
* * *
9024563 CCTCTTCAATGATGAGAGGGGGCCTCTTGAACAATATGAGGCG
1 CCTCTTGAACGATGAGA-GGGGCCTCTTGAACAATAGGAGGCG
*
9024606 CCTTTTGAACGATGA
1 CCTCTTGAACGATGA
9024621 TAGGTGTATC
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 14 0.30
43 32 0.70
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (42 bp):
CCTCTTGAACGATGAGAGGGGCCTCTTGAACAATAGGAGGCG
Found at i:9025082 original size:21 final size:21
Alignment explanation
Indices: 9025036--9025089 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
9025026 ATAAAGTAAA
* * *
9025036 GACCTCATGATGCAAAGCATC
1 GACCTCATCACGCAAAGCACC
*
9025057 AACCTCATCACGCAAAGCACC
1 GACCTCATCACGCAAAGCACC
*
9025078 GACCTTATCACG
1 GACCTCATCACG
9025090 TAACTCCCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.17
Consensus pattern (21 bp):
GACCTCATCACGCAAAGCACC
Done.