Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 73
Found at i:8721111 original size:14 final size:14
Alignment explanation
Indices: 8721092--8721119 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8721082 GACTTAAGAC
8721092 ATTTAAGATCGAGT
1 ATTTAAGATCGAGT
8721106 ATTTAAGATCGAGT
1 ATTTAAGATCGAGT
8721120 TTTTCTGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
ATTTAAGATCGAGT
Found at i:8724543 original size:11 final size:10
Alignment explanation
Indices: 8724521--8724566 Score: 65
Period size: 11 Copynumber: 4.4 Consensus size: 10
8724511 TCACTTTTTT
*
8724521 TAAAAATAAA
1 TAAAAATGAA
8724531 TAAAAATGCAA
1 TAAAAATG-AA
8724542 TAAAAATGAA
1 TAAAAATGAA
8724552 TTAAAAATGAA
1 -TAAAAATGAA
8724563 TAAA
1 TAAA
8724567 TTTCAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
10 13 0.39
11 20 0.61
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
TAAAAATGAA
Found at i:8724547 original size:21 final size:21
Alignment explanation
Indices: 8724521--8724566 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8724511 TCACTTTTTT
8724521 TAAAAAT-AAATAAAAATGCAA
1 TAAAAATGAAATAAAAATG-AA
*
8724542 TAAAAATGAATTAAAAATGAA
1 TAAAAATGAAATAAAAATGAA
8724563 TAAA
1 TAAA
8724567 TTTCAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
TAAAAATGAAATAAAAATGAA
Found at i:8725160 original size:11 final size:10
Alignment explanation
Indices: 8725107--8725173 Score: 71
Period size: 10 Copynumber: 6.6 Consensus size: 10
8725097 TTTACATTAT
*
8725107 ATTTTTATTA
1 ATTTTTATTC
*
8725117 AATTTTATTC
1 ATTTTTATTC
*
8725127 ATTTTAATTC
1 ATTTTTATTC
*
8725137 ATTTTAATTC
1 ATTTTTATTC
8725147 ATTTTTATTGC
1 ATTTTTATT-C
* *
8725158 ATTTTTCTTT
1 ATTTTTATTC
8725168 ATTTTT
1 ATTTTT
8725174 TATAAAGTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
10 40 0.82
11 9 0.18
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.67
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:8725417 original size:29 final size:29
Alignment explanation
Indices: 8725363--8725419 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8725353 TTGTCTCGTC
8725363 AATAATTATTATTTTTAACAACAATTAAT
1 AATAATTATTATTTTTAACAACAATTAAT
* *
8725392 AATATTTATTCATTTTTAATAA-AATTAA
1 AATAATTATT-ATTTTTAACAACAATTAA
8725420 AATTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
AATAATTATTATTTTTAACAACAATTAAT
Found at i:8725477 original size:406 final size:390
Alignment explanation
Indices: 8724868--8725661 Score: 1223
Period size: 397 Copynumber: 2.0 Consensus size: 390
8724858 GTCTAACTGC
**
8724868 TGTCTAAATATCAACTCAATTGTACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTCTGCT
1 TGTCTAAATATCAACTCAATTAAACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTCTGCT
* * *
8724933 TAATCATCACAAAAACTGTTTTGTCTCGTCATTAATTATTATTTTTAACAATAGTTAATAAAATT
66 TAATCATCACAAAAACTGTTTTGTCTCGTCAATAATTATTATTTTTAACAACAATTAATAAAATT
*
8724998 TATTTATTTTTAATAAAATTAAAATTTAATATTTATTTTATATTGTTTAAAATTAATATTAGAAA
131 TATTCATTTTTAATAAAATTAAAATTTAATATTTATTTTATATTGTTTAAAATTAATATTAGAAA
*
8725063 GAATATTTTAAATAAAGGGGTGATATTTTTTAGCTTTACATTATATTTTTATTAAATTTTATTCA
196 GAATATTTTAAATAAAGAGGTGATA-TTTTTAGCTTTACATTATATTTTTATTAAATTTTATTC-
* *
8725128 TTTTAATTCATTTTAATTCATTTTTATTGCATTTTTCTTTATTTTT-TATAAAGTGAATAATAAT
259 -----A-T--TTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTAAAAAAAGTGAATAATAAT
* * * *
8725192 TAATTTAATCTCTCCATTATAATTGAAAGTTTATTTTAATATTTTTAAATAATTAATTTTAAAAG
316 TAATTTAATCTCTCAATTATAATTAAAAGCTTATTTTAATATTTTTAAACAATTAATTTTAAAAG
8725257 TCAATAAAGT
381 TCAATAAAGT
8725267 TGTCTAAATATCAACTCAATTAAACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTCTG-T
1 TGTCTAAATATCAACTCAATTAAACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTCTGCT
* * *
8725331 TCAATCTTCACAAAAAATTGTTTTGTCTCGTCAATAATTATTATTTTTAACAACAATTAATAATA
66 T-AATCATCAC-AAAAACTGTTTTGTCTCGTCAATAATTATTATTTTTAACAACAATTAATAAAA
*
8725396 TTTATTCATTTTTAATAAAATTAAAATTAAAATTTAATATTTATTTTATATTTTTTAAAATTAAT
129 TTTATTCA-TTTT--T--AA-TAAAATTAAAATTTAATATTTATTTTATATTGTTTAAAATTAAT
8725461 ATTAGAAAGAATATTTTAAATAAAGAGGTGATATTTTTAGCTTTACATTATATTTTTATTAAATT
188 ATTAGAAAGAATATTTTAAATAAAGAGGTGATATTTTTAGCTTTACATTATATTTTTATTAAATT
*
8725526 TTATTCATTTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTAAAAAAAGTGAATAATAATTC
253 TTATTCATTTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTAAAAAAAGTGAATAATAATTA
* * *
8725591 ATTTGATCTCTCAATTGTAATTAAAAGCTTATTTTAATATTTTTAAACAATTAATTTTTAAAGTC
318 ATTTAATCTCTCAATTATAATTAAAAGCTTATTTTAATATTTTTAAACAATTAATTTTAAAAGTC
8725656 AATAAA
383 AATAAA
8725662 CATTATTAAC
Statistics
Matches: 365, Mismatches: 21, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
396 36 0.10
397 81 0.22
398 3 0.01
399 70 0.19
400 55 0.15
401 4 0.01
403 1 0.00
405 40 0.11
406 75 0.21
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (390 bp):
TGTCTAAATATCAACTCAATTAAACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTCTGCT
TAATCATCACAAAAACTGTTTTGTCTCGTCAATAATTATTATTTTTAACAACAATTAATAAAATT
TATTCATTTTTAATAAAATTAAAATTTAATATTTATTTTATATTGTTTAAAATTAATATTAGAAA
GAATATTTTAAATAAAGAGGTGATATTTTTAGCTTTACATTATATTTTTATTAAATTTTATTCAT
TTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTAAAAAAAGTGAATAATAATTAATTTAATC
TCTCAATTATAATTAAAAGCTTATTTTAATATTTTTAAACAATTAATTTTAAAAGTCAATAAAGT
Found at i:8725542 original size:11 final size:10
Alignment explanation
Indices: 8725512--8725570 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
8725502 TTTACATTAT
*
8725512 ATTTTTATTA
1 ATTTTTATTC
*
8725522 AATTTTATTC
1 ATTTTTATTC
8725532 ATTTTTAATTC
1 ATTTTT-ATTC
8725543 ATTTTTATTGC
1 ATTTTTATT-C
* *
8725554 ATTTTTCTTT
1 ATTTTTATTC
8725564 ATTTTTA
1 ATTTTTA
8725571 AAAAAAGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 22 0.54
11 19 0.46
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:8726922 original size:28 final size:27
Alignment explanation
Indices: 8726877--8726929 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
8726867 AAAGTAATAA
*
8726877 AAATAAAAAAATATTAATAATGATATT
1 AAATAAAAAAATAATAATAATGATATT
*
8726904 AAATAAATATAATAATAATAATGATA
1 AAATAAA-AAAATAATAATAATGATA
8726930 ATTATAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
AAATAAAAAAATAATAATAATGATATT
Found at i:8727654 original size:133 final size:131
Alignment explanation
Indices: 8727383--8727670 Score: 339
Period size: 133 Copynumber: 2.2 Consensus size: 131
8727373 ATTTGCTTCG
** * *
8727383 CTGCTCTTCAAAGAAGATTGAATCGGGGAAGATTTGCTCCACTGCTTTTCGAAAAAGATTAAATT
1 CTGCTCTTCATGGAAGATTGAATCGGGGAAGATTTACTCCACTGCTTTTCGAAAAAGATCAAATT
* * * *
8727448 TAGAAAAGGGGATCTGCTCCGCTGCTCTTCAAGGTATATCAGATCTGGAAAGTTTGATTCATTCC
66 AAAAAAAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCTGGAAAGTTTAATTCATTCC
8727513 A
131 A
* ** * *
8727514 CTGCTCTTCATGGAAGATTGAATCGGTGTTGATTTACTTCACTGCTTTTC-AGGAAAGATCAAAT
1 CTGCTCTTCATGGAAGATTGAATCGGGGAAGATTTACTCCACTGCTTTTCGA-AAAAGATCAAAT
* * * * *
8727578 CTAAAAATAAGGGGATCTGCTCCGTTGCTCTTTAGGGTAGATCATATTTGGAAA-TGTTAATTCA
65 -TAAAAA-AAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCTGGAAAGT-TTAATTCA
8727642 CTT-CA
127 -TTCCA
*
8727647 CTTCTCTTCATGGAAGATTGAATC
1 CTGCTCTTCATGGAAGATTGAATC
8727671 AAGGTAGATT
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
130 1 0.01
131 53 0.40
132 5 0.04
133 72 0.54
134 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (131 bp):
CTGCTCTTCATGGAAGATTGAATCGGGGAAGATTTACTCCACTGCTTTTCGAAAAAGATCAAATT
AAAAAAAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCTGGAAAGTTTAATTCATTCC
A
Found at i:8727699 original size:133 final size:132
Alignment explanation
Indices: 8727453--8727799 Score: 318
Period size: 133 Copynumber: 2.6 Consensus size: 132
8727443 AAATTTAGAA
* *
8727453 AAGGGGATCTGCTCCGCTGCTCTTCAAGGTATATCAGATCTGGAAAGTTTGATTCATTCCACTGC
1 AAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCTGGAAAGTTTAATTCATTCCACTGC
* * * **
8727518 TCTTCATGGAAGATTGAATCGGTGTTGATTTACTTCACTGCTTTTCAGGAAAGATCAAATCTAAA
66 TCTTCATGGAAGATTGAATCAGTGTAGATTTACTTCACTGATCCTCAGG-AAGATCAAATCTAAA
8727583 AAT
130 AAT
* * * * *
8727586 AAGGGGATCTGCTCCGTTGCTCTTTAGGGTAGATCATATTTGGAAA-TGTTAATTCACTT-CACT
1 AAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCTGGAAAGT-TTAATTCA-TTCCACT
* * * *
8727649 TCTCTTCATGGAAGATTGAATCAAG-GTAGATTT-GTTGCATTTATCCTCAGGAAGATCAAATC-
64 GCTCTTCATGGAAGATTGAATC-AGTGTAGATTTACTT-CACTGATCCTCAGGAAGATCAAATCT
**
8727711 CGAAA-
127 AAAAAT
* * * * * * * *
8727716 AA-GAGATATGCTCTGCTACTATTCAAGGTAGATCAGATCTAGAAACG-TTGATTCAATT-CATT
1 AAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCTGGAAA-GTTTAATTC-ATTCCACT
8727778 GCTCTTCA-GAGAAGATTGAATC
64 GCTCTTCATG-GAAGATTGAATC
8727800 TGGAGGAAAA
Statistics
Matches: 174, Mismatches: 32, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
128 1 0.01
129 62 0.36
130 3 0.02
131 3 0.02
132 14 0.08
133 88 0.51
134 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (132 bp):
AAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCTGGAAAGTTTAATTCATTCCACTGC
TCTTCATGGAAGATTGAATCAGTGTAGATTTACTTCACTGATCCTCAGGAAGATCAAATCTAAAA
AT
Found at i:8728639 original size:45 final size:45
Alignment explanation
Indices: 8728574--8728895 Score: 337
Period size: 45 Copynumber: 7.2 Consensus size: 45
8728564 TGAGAAAGTC
* * * * * *
8728574 AAGTTAAGAATGACATCACTAAAAGGTTGACTCCTCCTCATGAGA
1 AAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGA
* **
8728619 TAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTTGCGAGA
1 AAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGA
* * * *
8728664 AAGTCAATAAGGACAACACTAAAATATTGATTCCTCTTCACCAGA
1 AAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGA
* * *
8728709 AAGTCATGAAGGGA-AACACTAAAAGATTGACTTCTCTTTAC-AGGA
1 AAGTCAAGAA-GGACAACACTAAAAGATTGACTCCTCTTCACGA-GA
* * * *
8728754 AAGTCAAGAATGA-AAGCATTGAAAGATTGACTCCTCTTC-GGAGA
1 AAGTCAAGAAGGACAA-CACTAAAAGATTGACTCCTCTTCACGAGA
* * * *
8728798 AAGTCAAGAAGGATAACACTAAAAAATTGACTCATCTTCACAAGA
1 AAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGA
* * * *
8728843 AATTCAAGAAGGACAACATTGAAAGATTGAATCCTCTTCACGAGA
1 AAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGA
8728888 AAGTCAAG
1 AAGTCAAG
8728896 TTGATGTTTC
Statistics
Matches: 226, Mismatches: 45, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
44 38 0.17
45 185 0.82
46 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (45 bp):
AAGTCAAGAAGGACAACACTAAAAGATTGACTCCTCTTCACGAGA
Found at i:8728844 original size:134 final size:135
Alignment explanation
Indices: 8728574--8728895 Score: 364
Period size: 134 Copynumber: 2.4 Consensus size: 135
8728564 TGAGAAAGTC
* * * * * * * * * *
8728574 AAGTTAAGAATGACATCACTAAAAGGTTGACTCCTCCTCATGAGATAGTCAAGAAGGACAA-CAC
1 AAGTCAAGAAGGACAACACTAAAAGATTGAATCCTCTTCACGAGAAAGTCAAGAATGA-AAGCAT
* * * * * *
8728638 TAAAAGATTGACTCCTCTTTGCGAGAAAGTCAATAAGGACAACACTAAAATATTGATTCCTCTTC
65 TGAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAAATTGACTCATCTTC
*
8728703 ACCAGA
130 ACAAGA
* * * *
8728709 AAGTCATGAAGGGA-AACACTAAAAGATTGACTTCTCTTTAC-AGGAAAGTCAAGAATGAAAGCA
1 AAGTCAAGAA-GGACAACACTAAAAGATTGAATCCTCTTCACGA-GAAAGTCAAGAATGAAAGCA
*
8728772 TTGAAAGATTGACTCCTCTTCG-GAGAAAGTCAAGAAGGATAACACTAAAAAATTGACTCATCTT
64 TTGAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAAATTGACTCATCTT
8728836 CACAAGA
129 CACAAGA
* * *
8728843 AATTCAAGAAGGACAACATTGAAAGATTGAATCCTCTTCACGAGAAAGTCAAG
1 AAGTCAAGAAGGACAACACTAAAAGATTGAATCCTCTTCACGAGAAAGTCAAG
8728896 TTGATGTTTC
Statistics
Matches: 155, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
133 3 0.02
134 86 0.55
135 64 0.41
136 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (135 bp):
AAGTCAAGAAGGACAACACTAAAAGATTGAATCCTCTTCACGAGAAAGTCAAGAATGAAAGCATT
GAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAAATTGACTCATCTTCA
CAAGA
Found at i:8730400 original size:4 final size:4
Alignment explanation
Indices: 8730391--8730474 Score: 75
Period size: 4 Copynumber: 20.8 Consensus size: 4
8730381 CTTGATATAT
* *
8730391 TTTC TTTC TTCTT TTTC TTTC TTCTC TTTC TTTC TTTT TTTC -TTC TCTT-
1 TTTC TTTC TT-TC TTTC TTTC TT-TC TTTC TTTC TTTC TTTC TTTC T-TTC
* *
8730440 TTTC TTTC TTT- TTCTC TTTC TTTG TTTC TATC TTT
1 TTTC TTTC TTTC TT-TC TTTC TTTC TTTC TTTC TTT
8730475 TCTCTTGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
3 7 0.11
4 47 0.72
5 11 0.17
ACGTcount: A:0.01, C:0.23, G:0.01, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:8730408 original size:13 final size:13
Alignment explanation
Indices: 8730390--8730461 Score: 98
Period size: 13 Copynumber: 5.8 Consensus size: 13
8730380 ACTTGATATA
8730390 TTTTCTTTCTTCT
1 TTTTCTTTCTTCT
8730403 TTTTCTTTCTTCT
1 TTTTCTTTCTTCT
*
8730416 CTTTCTTTCTT-T
1 TTTTCTTTCTTCT
8730428 TTTTC-TTC-TCT
1 TTTTCTTTCTTCT
8730439 TTTTCTTTCTT-T
1 TTTTCTTTCTTCT
*
8730451 TTCTCTTTCTT
1 TTTTCTTTCTT
8730462 TGTTTCTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
10 1 0.02
11 9 0.17
12 19 0.36
13 24 0.45
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTTCTTCT
Found at i:8730429 original size:23 final size:24
Alignment explanation
Indices: 8730393--8730480 Score: 89
Period size: 23 Copynumber: 3.8 Consensus size: 24
8730383 TGATATATTT
8730393 TCTTTC-TTCTTTT-TCTTTCTTC
1 TCTTTCTTTCTTTTCTCTTTCTTC
8730415 TCTTTCTTTC-TTT-T-TTTCTTC
1 TCTTTCTTTCTTTTCTCTTTCTTC
8730436 TCTTTTTCTTTCTTTTTCTCTTTCTT-
1 TC--TTTCTTTC-TTTTCTCTTTCTTC
* *
8730462 TGTTTCTATCTTTTCTCTT
1 TCTTTCTTTCTTTTCTCTT
8730481 GAATATGAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
21 9 0.16
22 10 0.18
23 20 0.35
24 7 0.12
25 3 0.05
26 2 0.04
27 6 0.11
ACGTcount: A:0.01, C:0.24, G:0.01, T:0.74
Consensus pattern (24 bp):
TCTTTCTTTCTTTTCTCTTTCTTC
Found at i:8730434 original size:12 final size:12
Alignment explanation
Indices: 8730390--8730475 Score: 102
Period size: 12 Copynumber: 7.1 Consensus size: 12
8730380 ACTTGATATA
8730390 TTTTCTTTCTTCT
1 TTTTCTTTCTT-T
8730403 TTTTCTTTCTTCT
1 TTTTCTTTCTT-T
*
8730416 CTTTCTTTCTTT
1 TTTTCTTTCTTT
*
8730428 TTTTC-TTCTCT
1 TTTTCTTTCTTT
8730439 TTTTCTTTCTTT
1 TTTTCTTTCTTT
*
8730451 TTCTCTTTCTTT
1 TTTTCTTTCTTT
* *
8730463 GTTTCTATCTTT
1 TTTTCTTTCTTT
8730475 T
1 T
8730476 CTCTTGAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
11 10 0.16
12 30 0.48
13 23 0.37
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:8731195 original size:33 final size:33
Alignment explanation
Indices: 8731158--8731222 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
8731148 TTTGACTTTT
**
8731158 TACCTCAAAGATAGTTAAGGGTATGAATTTGGG
1 TACCTCAAAGATAAATAAGGGTATGAATTTGGG
* *
8731191 TACCTCAAAGATAAATAATGGTATGACTTTGG
1 TACCTCAAAGATAAATAAGGGTATGAATTTGG
8731223 TGACTCATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (33 bp):
TACCTCAAAGATAAATAAGGGTATGAATTTGGG
Found at i:8733048 original size:3 final size:3
Alignment explanation
Indices: 8733002--8733095 Score: 77
Period size: 3 Copynumber: 31.3 Consensus size: 3
8732992 ATCTGCAAAG
* * * *
8733002 TAA TAA -AA TAA AAA TAT TAA TAA TTA TAT TAAA TAA -ATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA
* * *
8733047 TAG TAA TAA -ATA TAA TAA GAA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8733092 TAA T
1 TAA T
8733096 TAAAACTCGA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
2 4 0.06
3 63 0.89
4 4 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8735153 original size:6 final size:6
Alignment explanation
Indices: 8735142--8735166 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8735132 ATTTCATTTC
8735142 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
8735167 AGGTTTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:8736938 original size:9 final size:9
Alignment explanation
Indices: 8736920--8736981 Score: 57
Period size: 9 Copynumber: 7.7 Consensus size: 9
8736910 GAGAAAATAT
8736920 GAGA-GAGA
1 GAGAGGAGA
8736928 GAGAGGAGA
1 GAGAGGAGA
8736937 GAGAGGAGA
1 GAGAGGAGA
*
8736946 GAG-GGGGA
1 GAGAGGAGA
8736954 GA-AGGAGA
1 GAGAGGAGA
8736962 G-G-GGAGA
1 GAGAGGAGA
8736969 -A-AGGAGA
1 GAGAGGAGA
*
8736976 GGGAGG
1 GAGAGG
8736982 GAGGAAAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
7 10 0.23
8 15 0.34
9 19 0.43
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (9 bp):
GAGAGGAGA
Found at i:8736938 original size:13 final size:13
Alignment explanation
Indices: 8736920--8737043 Score: 62
Period size: 13 Copynumber: 9.5 Consensus size: 13
8736910 GAGAAAATAT
*
8736920 GAGAGAGAGAGAG
1 GAGAGGGAGAGAG
*
8736933 GAGAGAGAG-GA-
1 GAGAGGGAGAGAG
*
8736944 GAGAGGGGGAGAAG
1 GAGAGGGAGAG-AG
*
8736958 GAGAGGGGAGAAAG
1 GAGA-GGGAGAGAG
*
8736972 GAGAGGGAGGGAG
1 GAGAGGGAGAGAG
*
8736985 GAAAAGAGGTGGGA-AG
1 G---AGAGG-GAGAGAG
* *
8737001 AGAGAGGAAGGGAG
1 -GAGAGGGAGAGAG
*
8737015 GGGAGGG-GAG-G
1 GAGAGGGAGAGAG
8737026 GAGAGGGAGAGAG
1 GAGAGGGAGAGAG
8737039 G-GAGG
1 GAGAGG
8737044 AATGAGATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 25
0.68 0.12 0.20
Matches are distributed among these distances:
11 14 0.17
12 12 0.14
13 26 0.31
14 17 0.20
15 5 0.06
16 7 0.08
17 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.01
Consensus pattern (13 bp):
GAGAGGGAGAGAG
Found at i:8736963 original size:30 final size:30
Alignment explanation
Indices: 8736928--8736984 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8736918 ATGAGAGAGA
*
8736928 GAGAGGAGAGAGAGGAGAGAGG-GGGAGAAG
1 GAGAGGAGAGAAAGGAGAG-GGAGGGAGAAG
*
8736958 GAGAGGGGAGAAAGGAGAGGGAGGGAG
1 GAGAGGAGAGAAAGGAGAGGGAGGGAG
8736985 GAAAAGAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (30 bp):
GAGAGGAGAGAAAGGAGAGGGAGGGAGAAG
Found at i:8736993 original size:30 final size:31
Alignment explanation
Indices: 8736929--8737015 Score: 76
Period size: 30 Copynumber: 2.9 Consensus size: 31
8736919 TGAGAGAGAG
* * *
8736929 AGAGGAGAGAGAGGAGAGAGG-GGGA-GAAGG
1 AGAGGGGAGAAAGGAGAG-GGAGGGAGGAAGA
8736959 AGAGGGGAGAAAGGAGAGGGAGGGAGGAA-A
1 AGAGGGGAGAAAGGAGAGGGAGGGAGGAAGA
*
8736989 AGAGGTGG-G-AAGAGAGAGGAAGGGAGG
1 AGAGG-GGAGAAAG-GAGAGGGAGGGAGG
8737016 GGAGGGGAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 5 0.10
30 39 0.80
31 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (31 bp):
AGAGGGGAGAAAGGAGAGGGAGGGAGGAAGA
Found at i:8739070 original size:41 final size:42
Alignment explanation
Indices: 8739020--8739131 Score: 167
Period size: 41 Copynumber: 2.7 Consensus size: 42
8739010 AACTGTTCTG
* * *
8739020 TAGCGGCGTTTGGAGA-GTAAACGCCACAAAAGTTAAACATA
1 TAGCAGCGTTTGGAAATCTAAACGCCACAAAAGTTAAACATA
8739061 TAGCAGCGTTT-GAAATCTAAACGCCACAAAAGTTAAACATA
1 TAGCAGCGTTTGGAAATCTAAACGCCACAAAAGTTAAACATA
*
8739102 TAGCAGCGTTT-GAAATCCAAACGCCACAAA
1 TAGCAGCGTTTGGAAATCTAAACGCCACAAA
8739132 TAGAGTCATT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 63 0.95
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (42 bp):
TAGCAGCGTTTGGAAATCTAAACGCCACAAAAGTTAAACATA
Found at i:8739413 original size:40 final size:40
Alignment explanation
Indices: 8739305--8739417 Score: 106
Period size: 42 Copynumber: 2.8 Consensus size: 40
8739295 GGTTAATCAA
* *
8739305 TAGTGGCGTTTATAAAAGAAACGCCGCAATAGAGTGGTAATT
1 TAGTGGCGTTTTTCAAA-AAACGCCGCAATAGAGT-GTAATT
* * *
8739347 TAGCGGCGTTTGTAACAAAAAA-GCCGCAATAGAGT-T-TTT
1 TAGTGGCGTTT-T-TCAAAAAACGCCGCAATAGAGTGTAATT
8739386 TAAGTGGCGTTTTTCAAATAAACGCCGCAATA
1 T-AGTGGCGTTTTTCAAA-AAACGCCGCAATA
8739418 AATAATACAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
38 4 0.07
39 7 0.12
40 19 0.32
42 23 0.39
43 3 0.05
44 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (40 bp):
TAGTGGCGTTTTTCAAAAAACGCCGCAATAGAGTGTAATT
Found at i:8744475 original size:24 final size:24
Alignment explanation
Indices: 8744448--8744498 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
8744438 TAAATCAAAA
* *
8744448 ATCAAAACATAGTCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * *
8744472 ATCATATCAAAATCTAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
8744496 ATC
1 ATC
8744499 CGTTCAGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:8749300 original size:3 final size:3
Alignment explanation
Indices: 8749292--8749365 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
8749282 AATATAAATT
*
8749292 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8749340 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
8749366 TGGATAAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8749989 original size:227 final size:227
Alignment explanation
Indices: 8749501--8750371 Score: 1290
Period size: 227 Copynumber: 3.8 Consensus size: 227
8749491 ATTGAATAAA
* * ** * *
8749501 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGC-TGGGGATGATGATCCAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTTGGAAAAGATAATCCAT
* * *
8749564 CAAATGATGAATTCA-AGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
65 CAAGTGATGAATTCAGA-CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
* * * *
8749628 TCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGAT-GAA
129 TCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGCTGATCCATCAAATGATAGAA
* * * * *
8749691 TTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
190 TT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
8749730 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC-TGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
* *
8749794 AATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
66 AA-GTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
*
8749859 CAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCAAGTGATAGAATTAGG
130 CAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCAAATGATAGAATTAGG
8749924 CAGAAGGTTGAACAAATTCTTCTCATTATGAAT
195 CAGAAGGTTGAACAAATTCTTCTCATTATGAAT
8749957 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
** * *
8750022 AAGTGATGAATTCAGGTAACAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
66 AAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* *
8750087 AGATGAGTTCTTCTCATTATGAACCTTCTCCGGAAAAGCTGATCCATCAAGTGATAGAATTAGGC
131 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCAAATGATAGAATTAGGC
8750152 AGAAGGTTGAACAAATTCTTCTCATTATGAAT
196 AGAAGGTTGAACAAATTCTTCTCATTATGAAT
*
8750184 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
* * *
8750249 AAGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
66 AAGTGAT-GAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
* * *
8750313 CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TCAATCCATCAAATGATAGA
130 CAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCT-GATCCATCAAATGATAGA
8750372 TTTGAATCTT
Statistics
Matches: 599, Mismatches: 35, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
226 4 0.01
227 444 0.74
228 30 0.05
229 23 0.04
230 97 0.16
231 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (227 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
AAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCAAATGATAGAATTAGGC
AGAAGGTTGAACAAATTCTTCTCATTATGAAT
Found at i:8750033 original size:113 final size:113
Alignment explanation
Indices: 8749501--8750368 Score: 1235
Period size: 114 Copynumber: 7.6 Consensus size: 113
8749491 ATTGAATAAA
* * ** * *
8749501 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATAATCCATC
* * * * *
8749565 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 AAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* * * * *
8749614 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATAATCC
* * * * *
8749678 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
8749730 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
* ** *
8749795 ATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* *
8749844 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
*
8749909 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
8749957 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC-TGGAAAAGATAATCCATC
* *
8750022 AAGTGATGAATTCAGGTAACAGGTTGAACAAATTCTTCTCATTATGAAT
65 AAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* * *
8750071 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCCGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
*
8750136 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
*
8750184 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTTGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC-TGGAAAAGATAATCCATC
*
8750249 AAGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTCATTATGAAT
65 AAGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* *
8750298 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG-TCAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGAT-AATCCATC
*
8750362 AAATGAT
65 AAGTGAT
8750369 AGATTTGAAT
Statistics
Matches: 701, Mismatches: 41, Indels: 26
0.91 0.05 0.03
Matches are distributed among these distances:
112 4 0.01
113 251 0.36
114 339 0.48
116 85 0.12
117 20 0.03
118 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
AGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
Found at i:8751158 original size:83 final size:83
Alignment explanation
Indices: 8751018--8751326 Score: 514
Period size: 83 Copynumber: 3.7 Consensus size: 83
8751008 TAGTTCTTAC
*
8751018 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCCAA
8751083 TTCAATGATTGGTTCTG-
66 TTCAATGATTGGTTCTGT
*
8751100 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 C-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCCA
*
8751165 ATTCAATGATTTGTTCTGT
65 ATTCAATGATTGGTTCTGT
* * **
8751184 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCCAA
8751249 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
*
8751267 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTT
8751327 TTAGTTAATG
Statistics
Matches: 215, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
82 1 0.00
83 211 0.98
84 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCCAA
TTCAATGATTGGTTCTGT
Found at i:8752476 original size:7 final size:7
Alignment explanation
Indices: 8752464--8752530 Score: 77
Period size: 7 Copynumber: 9.9 Consensus size: 7
8752454 CTTGACCCCC
8752464 TTTCTTT
1 TTTCTTT
8752471 TTTC-TT
1 TTTCTTT
*
8752477 CTT-TTT
1 TTTCTTT
*
8752483 TCTCTTT
1 TTTCTTT
8752490 TTTCTTT
1 TTTCTTT
*
8752497 TTTCTATA
1 TTTCT-TT
8752505 TTT-TTT
1 TTTCTTT
8752511 TTTCTTT
1 TTTCTTT
8752518 TTTCTTT
1 TTTCTTT
8752525 TTTCTT
1 TTTCTT
8752531 CAAGCATAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
6 11 0.22
7 35 0.70
8 4 0.08
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:8752481 original size:9 final size:9
Alignment explanation
Indices: 8752466--8752527 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
8752456 TGACCCCCTT
8752466 TCTTTTTTC
1 TCTTTTTTC
8752475 TTCTTTTTTC
1 -TCTTTTTTC
8752485 TCTTTTTTC
1 TCTTTTTTC
*
8752494 T-TTTTTCTA
1 TCTTTTT-TC
* *
8752503 TATTTTTTTT
1 T-CTTTTTTC
8752513 TCTTTTTTC
1 TCTTTTTTC
8752522 T-TTTTT
1 TCTTTTT
8752528 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 10 0.22
9 19 0.42
10 11 0.24
11 5 0.11
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:8763221 original size:15 final size:15
Alignment explanation
Indices: 8763189--8763221 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8763179 AATAATAAAT
*
8763189 AAAGAAAGAATTTGA
1 AAAGAAAGAATTTAA
8763204 AAAGAAAGAATTTAA
1 AAAGAAAGAATTTAA
8763219 AAA
1 AAA
8763222 TTAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (15 bp):
AAAGAAAGAATTTAA
Found at i:8765399 original size:3 final size:3
Alignment explanation
Indices: 8765391--8765488 Score: 187
Period size: 3 Copynumber: 32.7 Consensus size: 3
8765381 AATATAAATT
*
8765391 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8765439 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8765487 TA
1 TA
8765489 TGGATAAAAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8766407 original size:18 final size:17
Alignment explanation
Indices: 8766379--8766415 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
8766369 AGTGGTATAG
8766379 TTTGTTTGTTGTCTTAT
1 TTTGTTTGTTGTCTTAT
8766396 TTTGTATTGTTGTCTTAT
1 TTTGT-TTGTTGTCTTAT
8766414 TT
1 TT
8766416 CATTTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.70
Consensus pattern (17 bp):
TTTGTTTGTTGTCTTAT
Found at i:8766833 original size:16 final size:16
Alignment explanation
Indices: 8766803--8766849 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
8766793 TAAAATATTT
*
8766803 ATTAACATTATTTTAAA
1 ATTAA-ATTAATTTAAA
8766820 ATTAAATTAATTTAAA
1 ATTAAATTAATTTAAA
*
8766836 TTTAAATTGAATTT
1 ATTAAATT-AATTT
8766850 TTCTCATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTAAATTAATTTAAA
Found at i:8767436 original size:19 final size:20
Alignment explanation
Indices: 8767392--8767436 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
8767382 ATTTGTTTTT
*
8767392 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
8767412 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
8767431 AATAAA
1 AATAAA
8767437 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:8767737 original size:22 final size:21
Alignment explanation
Indices: 8767708--8767749 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8767698 TGATCAAATG
8767708 ATATTATTTTAGT-ATTTTTAT
1 ATATTATTTT-GTGATTTTTAT
8767729 ATATATATTTTGTGATTTTTA
1 ATAT-TATTTTGTGATTTTTA
8767750 GGTATAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATATTATTTTGTGATTTTTAT
Found at i:8767755 original size:22 final size:22
Alignment explanation
Indices: 8767707--8767755 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
8767697 TTGATCAAAT
8767707 GATAT-TATTTTAGTATTTTTA
1 GATATATATTTTAGTATTTTTA
*
8767728 TATATATATTTT-GTGATTTTTA
1 GATATATATTTTAGT-ATTTTTA
*
8767750 GGTATA
1 GATATA
8767756 ATCCCTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (22 bp):
GATATATATTTTAGTATTTTTA
Found at i:8769356 original size:21 final size:22
Alignment explanation
Indices: 8769295--8769348 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
8769285 TATTAAGGAA
8769295 TATTTTTAGGGAGTTGGTTATC
1 TATTTTTAGGGAGTTGGTTATC
8769317 TATTTTTAGGGAGTTGGTTATC
1 TATTTTTAGGGAGTTGGTTATC
8769339 TATTTTTAGG
1 TATTTTTAGG
8769349 ATGTGGTTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.19, C:0.04, G:0.26, T:0.52
Consensus pattern (22 bp):
TATTTTTAGGGAGTTGGTTATC
Found at i:8775003 original size:13 final size:13
Alignment explanation
Indices: 8774966--8775005 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
8774956 TTGATATTGA
8774966 AAAATAAATA-TT
1 AAAATAAATATTT
*
8774978 AAAATAATTTATTT
1 AAAATAA-ATATTT
8774992 AAAATAAATATTT
1 AAAATAAATATTT
8775005 A
1 A
8775006 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:8776436 original size:11 final size:10
Alignment explanation
Indices: 8776406--8776446 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
8776396 GGGCTTTGTA
8776406 ATTTAATATT
1 ATTTAATATT
8776416 ATTTATATATGT
1 ATTTA-ATAT-T
8776428 ATTTAATATAT
1 ATTTAATAT-T
8776439 ATTTAATA
1 ATTTAATA
8776447 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:8776450 original size:3 final size:3
Alignment explanation
Indices: 8776442--8776536 Score: 145
Period size: 3 Copynumber: 31.7 Consensus size: 3
8776432 AATATATATT
* * *
8776442 TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
8776490 TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8776537 TTTATAATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8776990 original size:112 final size:112
Alignment explanation
Indices: 8776861--8777647 Score: 1163
Period size: 112 Copynumber: 7.0 Consensus size: 112
8776851 ATAGAATTAT
* * *
8776861 GCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
8776926 ATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGA
66 ATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
*
8776973 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
8777038 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAAC-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
8777086 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * **
8777151 ATTATGAAC-TCGACCTGGCAATGCTGATCCATCGAA-TGATGAATTCAA
66 ATTATGAACTTC--TCTGGAAAAGCTGATCCATC-AAGTGATGGATTTGA
*
8777199 GCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * *
8777263 CATTATGAACTTCTTTGGACAAGCTGATCCATCAAGTGAT-GAATTCA
65 CATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
8777310 GGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
8777375 CATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGAT-GAATTCA
65 CATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
8777422 GGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
8777487 CATTATGAACTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
*
8777535 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
8777600 ATTATGAACTCTCTCTGGAAATG-TCAATCCATCAAATGATAGATTTGA
66 ATTATGAACT-TCTCTGGAAAAGCT-GATCCATCAAGTGATGGATTTGA
8777648 ATCTTTGCTA
Statistics
Matches: 624, Mismatches: 39, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
111 10 0.02
112 371 0.59
113 235 0.38
114 8 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
Found at i:8778579 original size:83 final size:83
Alignment explanation
Indices: 8778435--8779351 Score: 1638
Period size: 83 Copynumber: 11.0 Consensus size: 83
8778425 CTTATTTCTA
* *
8778435 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAA
8778499 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
*
8778518 TTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8778583 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * * *
8778601 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTACTGCTAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8778666 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
8778684 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8778749 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
8778767 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8778832 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * * *
8778850 CTATGAGCACATTCATCTTCCCAATTCAATGATTGGTTATGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8778915 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
8778933 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8778998 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * *
8779016 CTATGAGCACATTCATCTTCCCAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8779081 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
8779099 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
8779164 GAACACTTCCAGAAAATG
66 GAACACTTCCAGAAGATG
* * * *
8779182 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTACTGCTAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
8779247 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
8779265 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
8779330 GAACAGTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
8779348 CTAT
1 CTAT
8779352 GAGCCCATTG
Statistics
Matches: 796, Mismatches: 37, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
82 2 0.00
83 794 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:8791879 original size:13 final size:13
Alignment explanation
Indices: 8791842--8791881 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
8791832 TTGATATTGA
8791842 AAAATAAATA-TT
1 AAAATAAATATTT
*
8791854 AAAATAATTTATTT
1 AAAATAA-ATATTT
8791868 AAAATAAATATTT
1 AAAATAAATATTT
8791881 A
1 A
8791882 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:8793284 original size:11 final size:10
Alignment explanation
Indices: 8793254--8793294 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
8793244 GGGCTTTGTA
8793254 ATTTAATATT
1 ATTTAATATT
8793264 ATTTATATATGT
1 ATTTA-ATAT-T
8793276 ATTTAATATAT
1 ATTTAATAT-T
8793287 ATTTAATA
1 ATTTAATA
8793295 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:8793298 original size:3 final size:3
Alignment explanation
Indices: 8793290--8793385 Score: 156
Period size: 3 Copynumber: 31.7 Consensus size: 3
8793280 AATATATATT
*
8793290 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
8793338 TAA TAA TAA TAA TAAA TAA TAA TAA TTA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8793384 TA
1 TA
8793386 TTTATAATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
3 83 0.97
4 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8797404 original size:19 final size:19
Alignment explanation
Indices: 8797382--8797419 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8797372 ATGGGCAGTG
*
8797382 TTGAATGATGAAGTTGTTA
1 TTGAATGATGAAGCTGTTA
8797401 TTGAATGATGAAGCTGTTA
1 TTGAATGATGAAGCTGTTA
8797420 GCTGATGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.39
Consensus pattern (19 bp):
TTGAATGATGAAGCTGTTA
Found at i:8800605 original size:19 final size:19
Alignment explanation
Indices: 8800581--8800628 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8800571 ATGTTGTGAA
8800581 CGGTTTGACCGGTCCAAAC
1 CGGTTTGACCGGTCCAAAC
* **
8800600 CGGTTTGACTGGTCTGAAC
1 CGGTTTGACCGGTCCAAAC
*
8800619 CGGGTTGACC
1 CGGTTTGACC
8800629 AGTCGGACCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (19 bp):
CGGTTTGACCGGTCCAAAC
Found at i:8800768 original size:57 final size:58
Alignment explanation
Indices: 8800664--8800832 Score: 250
Period size: 57 Copynumber: 2.9 Consensus size: 58
8800654 AGATCCGGTG
* * *
8800664 ACATTCTGGAAAATATTTTGAAATAGGTGACATTTTGGGAAATATTTTGAAAAAGGTA
1 ACATTCTGGGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAAAAGGTA
* * *
8800722 ACATTCTGGGAAATATTTT-AAAAATGTAACATTCTGGGAAATATTTTGAAAAAGGTG
1 ACATTCTGGGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAAAAGGTA
* * *
8800779 ACATTATGGGAATTATTTTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAA
1 ACATTCTGGGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAAAA
8800833 AGTGATATTT
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
57 50 0.51
58 49 0.49
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (58 bp):
ACATTCTGGGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAAAAGGTA
Found at i:8800812 original size:86 final size:87
Alignment explanation
Indices: 8800664--8800832 Score: 277
Period size: 86 Copynumber: 2.0 Consensus size: 87
8800654 AGATCCGGTG
* *
8800664 ACATTCTGGAAAATATTTTGAAATAGGTGACATTTTGGGAAATATTTTGAAAAAGGTAACATTCT
1 ACATTCTGGAAAATATTTTGAAAAAGGTGACATTATGGGAAATATTTTGAAAAAGGTAACATTCT
8800729 GGGAAATATTTT-AAAAATGTA
66 GGGAAATATTTTGAAAAATGTA
* * *
8800750 ACATTCTGGGAAATATTTTGAAAAAGGTGACATTATGGGAATTATTTTGAAAAAGGTGACATTCT
1 ACATTCTGGAAAATATTTTGAAAAAGGTGACATTATGGGAAATATTTTGAAAAAGGTAACATTCT
*
8800815 GGGAATTATTTTGAAAAA
66 GGGAAATATTTTGAAAAA
8800833 AGTGATATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 71 0.93
87 5 0.07
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (87 bp):
ACATTCTGGAAAATATTTTGAAAAAGGTGACATTATGGGAAATATTTTGAAAAAGGTAACATTCT
GGGAAATATTTTGAAAAATGTA
Found at i:8800850 original size:29 final size:29
Alignment explanation
Indices: 8800660--8800848 Score: 263
Period size: 29 Copynumber: 6.6 Consensus size: 29
8800650 GACCAGATCC
* *
8800660 GGTGACATTCTGGAAAATATTTTGAAATA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
*
8800689 GGTGACATTTTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
*
8800718 GGTAACATTCTGGGAAATATTTT-AAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
* *
8800746 TGTAACATTCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
* *
8800775 GGTGACATTATGGGAATTATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
*
8800804 GGTGACATTCTGGGAATTATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAAAA
* * *
8800833 AGTGATATTTTGGGAA
1 GGTGACATTCTGGGAA
8800849 TTTTCGAATT
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
28 27 0.19
29 118 0.81
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (29 bp):
GGTGACATTCTGGGAAATATTTTGAAAAA
Found at i:8801931 original size:26 final size:26
Alignment explanation
Indices: 8801878--8801931 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
8801868 AGGGTAACTC
*
8801878 TTTTATGAGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
8801904 TTTTATGAGATTTACTGTACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
8801930 TT
1 TT
8801932 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:8803835 original size:69 final size:69
Alignment explanation
Indices: 8803724--8803863 Score: 280
Period size: 69 Copynumber: 2.0 Consensus size: 69
8803714 GCTTCGTCTG
8803724 AACGGACCGCTACCCAGACTCCTGTGCGTTCACAGACTACAGTACATACTCCAATTAGAGATCGT
1 AACGGACCGCTACCCAGACTCCTGTGCGTTCACAGACTACAGTACATACTCCAATTAGAGATCGT
8803789 AGCC
66 AGCC
8803793 AACGGACCGCTACCCAGACTCCTGTGCGTTCACAGACTACAGTACATACTCCAATTAGAGATCGT
1 AACGGACCGCTACCCAGACTCCTGTGCGTTCACAGACTACAGTACATACTCCAATTAGAGATCGT
8803858 AGCC
66 AGCC
8803862 AA
1 AA
8803864 GTAAAGGCTC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (69 bp):
AACGGACCGCTACCCAGACTCCTGTGCGTTCACAGACTACAGTACATACTCCAATTAGAGATCGT
AGCC
Found at i:8808159 original size:22 final size:22
Alignment explanation
Indices: 8808108--8808164 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
8808098 GTTGACCGGT
* * *
8808108 CCGACCCAACACGACCCGTTGA
1 CCGACCCGACCCGACCCATTGA
*
8808130 CTGACCCGACCCGACCCATTGA
1 CCGACCCGACCCGACCCATTGA
8808152 CCGACCCGACCCG
1 CCGACCCGACCCG
8808165 GTGATATTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.49, G:0.19, T:0.09
Consensus pattern (22 bp):
CCGACCCGACCCGACCCATTGA
Found at i:8808296 original size:29 final size:29
Alignment explanation
Indices: 8808164--8808297 Score: 196
Period size: 29 Copynumber: 4.6 Consensus size: 29
8808154 GACCCGACCC
* * *
8808164 GGTGATATTCTGGGAAATATTTTGAAATA
1 GGTGACATTCTGGGAATTATTTTGAAAAA
*
8808193 GGTGACATTCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAATTATTTTGAAAAA
* *
8808222 GGTGATATTATGGGAATTATTTTGAAAAA
1 GGTGACATTCTGGGAATTATTTTGAAAAA
8808251 GGTGACATTCTGGGAATTATTTTGAAAAA
1 GGTGACATTCTGGGAATTATTTTGAAAAA
* *
8808280 AGTGACATTTTGGGAATT
1 GGTGACATTCTGGGAATT
8808298 TTCGAATTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
GGTGACATTCTGGGAATTATTTTGAAAAA
Found at i:8811877 original size:19 final size:19
Alignment explanation
Indices: 8811853--8811890 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8811843 AGGGAGAATG
8811853 TTGAATGATGAAGCTGTTA
1 TTGAATGATGAAGCTGTTA
8811872 TTGAATGATGAAGCTGTTA
1 TTGAATGATGAAGCTGTTA
8811891 GCTGATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (19 bp):
TTGAATGATGAAGCTGTTA
Found at i:8813677 original size:81 final size:81
Alignment explanation
Indices: 8813583--8814562 Score: 1291
Period size: 81 Copynumber: 12.1 Consensus size: 81
8813573 AAGCATTTAG
* * * * * * * **
8813583 TCTTTTACCCAAAGGCATTTAGCCTTCCATCTAACTTGCATGATTGACACCTTTATGTTGAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
8813648 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * *
8813664 TATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* ** *
8813729 ACAGCTAGATCAGTAA
66 ACAACTAGGCCATTAA
* * * * * *
8813745 TCTGTTACTCAAAGGTATTTAACGTTTCATCTAACAGGCATAATTGACACTTTTATGTCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
8813810 ACAGCTAGCCCATTAA
66 ACAACTAGGCCATTAA
* * * *
8813826 TCTTTTACTCAAAGGTATGTAACATTTCATCTAACTGGCATAAGTGAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
8813891 ATAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * *
8813907 TCTTTTACT-ACAAGGTATTTAATCTTTCATCTAACTGACATAATTGAAACATTTCTGTCAAATG
1 TCTTTTACTCA-AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
8813971 CA-AAGCTAGGCCATTAA
65 CACAA-CTAGGCCATTAA
* * * * * *
8813988 TATTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAGTTGACACATTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
8814053 ACAACTAGGCAATTAA
66 ACAACTAGGCCATTAA
* *
8814069 TCTTTTACTCAATA-GTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTATCAAATG
1 TCTTTTACTCAA-AGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
* *
8814133 AACAACTAGACCATTAA
65 CACAACTAGGCCATTAA
* * *
8814150 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATAAGTGACATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
8814215 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * *
8814231 TCTTTTACTCAAAGTTATTTAACCTTTCATCCAATTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
8814296 ATAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * *
8814312 TCTTTTACTCAATGGTATTTAACCTTTTATCTAACTGGCATAATTGACACATTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
8814377 ACAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
8814393 TCTTTTACTCAAAGGTATTTAAACCTTTTATCTAACTGGCATAATTGACACCTTTCTTTCAAATG
1 TCTTTTACTCAAAGGTATTT-AACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
* **
8814458 CACAGCTAGGTTATTAA
65 CACAACTAGGCCATTAA
* *
8814475 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
8814540 ACAATTAGACCATTAA
66 ACAACTAGGCCATTAA
8814556 TCTTTTA
1 TCTTTTA
8814563 TTTTAGAATA
Statistics
Matches: 790, Mismatches: 102, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
80 3 0.00
81 707 0.89
82 80 0.10
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAA
Found at i:8818061 original size:81 final size:81
Alignment explanation
Indices: 8817925--8818844 Score: 1258
Period size: 81 Copynumber: 11.4 Consensus size: 81
8817915 AAGCATTTAG
* * * * * * *
8817925 TCTTTTACCCAAAGGCATTTAGCCTTCCATCTAACTTGCATGATTCACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
8817990 ACAACTAGGTCATTAA
66 ACAGCTAGGCCATTAA
* * * * * **
8818006 TCTTTTACACAAAGGTATTTAACATTTCATCTAGCTGACATAATTGACACTTTTCTACCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
8818071 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
8818087 TCTTTTACTCAATGGTATTTAACCTTTCATCTAACTGGTATAATTGACATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
8818152 ATAACTAGG-CATTAA
66 ACAGCTAGGCCATTAA
* ** *
8818167 TCTTTTACTCAAAGGTATTTAACCTTTCATATAACT-GCATAATTGACATATTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
**
8818231 ACAGCTAGGCTTTTAA
66 ACAGCTAGGCCATTAA
* *
8818247 TCTTTTACTCAAAGGTATTTAACCTTTCATTTAACCGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
8818312 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
8818328 TCTTTTAGTC-AAGGTATTTCATCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
8818392 ATAGCTAGGACATTAA
66 ACAGCTAGGCCATTAA
* * *
8818408 TCTTTTACTCAAAGGTATTTAA-GTTTACATCTAACT-ACATAATTGACACCTTTCTATCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTT-CATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
8818471 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
*
8818488 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTCTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
8818553 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
8818569 TCTTTTACTCAAATGTATTTAACCTTTCATCTATCTGGCATAATTGACACCTTTATGTC-AATAG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAAT-G
*
8818633 CACAGCTAGGCTATTAA
65 CACAGCTAGGCCATTAA
* *
8818650 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATGGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
8818715 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * ** * * *
8818731 TATTTTATTCAAAGGTATTTAACCTTTCATCTAACTTTCATAATCGACATCTTTCTGTCAGATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
8818796 ACATCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
8818812 TCTTTTACTCAAATGTATTTAAGCATTCATCTA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTA
8818845 TTACTCAAAT
Statistics
Matches: 741, Mismatches: 90, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
79 32 0.04
80 225 0.30
81 481 0.65
82 3 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:8818408 original size:241 final size:239
Alignment explanation
Indices: 8817925--8818844 Score: 1259
Period size: 241 Copynumber: 3.8 Consensus size: 239
8817915 AAGCATTTAG
* * * * * * *
8817925 TCTTTTACCCAAAGGCATTTAGCCTTCCATCTAACTTGCATGATTCACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATAATTGACACCTTTCTATCAAATGC
* * * * *
8817990 ACAACTAGGTCATTAATCTTTTACACAAAGGTATTTAACATTTCATCTAGCTGACATAATTGACA
65 ACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* **
8818055 CTTTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACTCAATGGTATTTAACCTTTCATCTA
130 CCTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAA-GGTATTTAACCTTTCATCTA
* *
8818120 ACTGGTATAATTGACATCTTTCTGTCAAATGCATAACTAGGCATTAA
194 ACTGGCATAATTGACA-CTTTCTGTCAAATGCATAGCTAGGCATTAA
* ** * *
8818167 TCTTTTACTCAAAGGTATTTAACCTTTCATATAACTGCATAATTGACATATTTTTGTCAAATGCA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTATCAAATGCA
* ** * *
8818232 CAGCTAGGCTTTTAATCTTTTACTCAAAGGTATTTAACCTTTCATTTAACCGGCATAATTGACAC
66 CAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC
* * * *
8818297 CTTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTAGTCAAGGTATTTCATCTTTCATCTAAC
131 CTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAGGTATTTAACCTTTCATCTAAC
8818362 TGGCATAATTGACACATTTCTGTCAAATGCATAGCTAGGACATTAA
196 TGGCATAATTGACAC-TTTCTGTCAAATGCATAGCTAGG-CATTAA
* *
8818408 TCTTTTACTCAAAGGTATTTAA-GTTTACATCTAACTACATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTT-CATCTAACTGCATAATTGACACCTTTCTATCAAATGC
*
8818472 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
65 ACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* *
8818537 CCTTTCTCTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAATGTATTTAACCTTTCATCTA
130 CCTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTC-AAGGTATTTAACCTTTCATCTA
* * *
8818602 TCTGGCATAATTGACACCTTTATGTC-AATAGCACAGCTAGGCTATTAA
194 ACTGGCATAATTGACA-CTTTCTGTCAAAT-GCATAGCTAGGC-ATTAA
*
8818650 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATGGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACCTTTCTATCAAATGC
* * ** *
8818715 ACAACTAGGCCATTAATATTTTATTCAAAGGTATTTAACCTTTCATCTAACTTTCATAATCGACA
65 ACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * * * * *
8818780 TCTTTCTGTCAGATGCACATCTAGGCCATTAATCTTTTACTCAAATGTATTTAAGCATTCATCTA
130 CCTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTC-AAGGTATTTAACCTTTCATCTA
8818845 TTACTCAAAT
Statistics
Matches: 605, Mismatches: 64, Indels: 17
0.88 0.09 0.02
Matches are distributed among these distances:
239 1 0.00
240 58 0.10
241 281 0.46
242 117 0.19
243 148 0.24
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (239 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTATCAAATGCA
CAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC
CTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAGGTATTTAACCTTTCATCTAAC
TGGCATAATTGACACTTTCTGTCAAATGCATAGCTAGGCATTAA
Found at i:8818843 original size:29 final size:29
Alignment explanation
Indices: 8818805--8818873 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
8818795 CACATCTAGG
* *
8818805 CCATTAATCTTTTACTCAAATGTATTTAA
1 CCATTCATCTATTACTCAAATGTATTTAA
*
8818834 GCATTCATCTATTACTCAAATGTATTTAA
1 CCATTCATCTATTACTCAAATGTATTTAA
8818863 CCATTCATCTA
1 CCATTCATCTA
8818874 ACTGGTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (29 bp):
CCATTCATCTATTACTCAAATGTATTTAA
Found at i:8818932 original size:110 final size:110
Alignment explanation
Indices: 8818739--8818954 Score: 308
Period size: 110 Copynumber: 2.0 Consensus size: 110
8818729 AATATTTTAT
* * * * * * *
8818739 TCAAAGGTATTTAACCTTTCATCTAACTTTCATAATCGACATCTTTCTGTCAGATGCACATCTAG
1 TCAAAGGTATTTAACCATTCATCTAACTGTCATAATCGACACCTTTATGTAAAATGCACAACTAG
* *
8818804 GCCATTAATCTTTTACTCAAATGTATTTAAGCATTCATCTATTAC
66 GCCATTAATCTTTTACTCAAAGGTATTTAACCATTCATCTATTAC
* *
8818849 TCAAATGTATTTAACCATTCATCTAACTGGT-ATAATTGACACCTTTATGTAAAATGCACAACTA
1 TCAAAGGTATTTAACCATTCATCTAACT-GTCATAATCGACACCTTTATGTAAAATGCACAACTA
*
8818913 GGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
65 GGCCATTAATCTTTTACTCAAAGGTATTTAACCATTCATCTA
8818955 ACTGGCATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 92 0.99
111 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (110 bp):
TCAAAGGTATTTAACCATTCATCTAACTGTCATAATCGACACCTTTATGTAAAATGCACAACTAG
GCCATTAATCTTTTACTCAAAGGTATTTAACCATTCATCTATTAC
Found at i:8818978 original size:191 final size:191
Alignment explanation
Indices: 8818649--8819035 Score: 594
Period size: 191 Copynumber: 2.0 Consensus size: 191
8818639 TAGGCTATTA
* * * *
8818649 ATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATGGACACCTTTCTATCAAATG
1 ATCTATTACTCAAAGGTATTTAACCATTCATCTAACTGGCATAATGGACACCTTTATATAAAATG
* **
8818714 CACAACTAGGCCATTAATATTTTATTCAAAGGTATTTAACCTTTCATCTAACTTTCATAATCGAC
66 CACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATCGAC
* * * * *
8818779 ATCTTTCTGTCAGATGCACATCTAGGCCATTAATCTTTTACTCAAATGTATTTAAGCATTC
131 ACCTTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCATTC
* * * *
8818840 ATCTATTACTCAAATGTATTTAACCATTCATCTAACTGGTATAATTGACACCTTTATGTAAAATG
1 ATCTATTACTCAAAGGTATTTAACCATTCATCTAACTGGCATAATGGACACCTTTATATAAAATG
* *
8818905 CACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAC
66 CACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATCGAC
* *
8818970 ACCTTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCGAAGGTATTTAACCTTTC
131 ACCTTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCATTC
8819031 ATCTA
1 ATCTA
8819036 AATGGCATAA
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
191 176 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (191 bp):
ATCTATTACTCAAAGGTATTTAACCATTCATCTAACTGGCATAATGGACACCTTTATATAAAATG
CACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATCGAC
ACCTTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCATTC
Found at i:8818985 original size:81 final size:81
Alignment explanation
Indices: 8818835--8819900 Score: 1594
Period size: 81 Copynumber: 13.2 Consensus size: 81
8818825 TGTATTTAAG
* * * * * * *
8818835 CATTCATCTATTACTCAAATGTATTTAACCATTCATCTAACTGGTATAATTGACACCTTTATGTA
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
*
8818900 AAATGCACAACTAGGC
66 AAATGCACAGCTAGGC
8818916 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
*
8818981 AAATGCACAACTAGGC
66 AAATGCACAGCTAGGC
* *
8818997 CATTAATCTTTTACTCGAAGGTATTTAACCTTTCATCTAAATGGCATAATTGACACCTTTCTGTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
*
8819062 AAATGAACAGCTAGGC
66 AAATGCACAGCTAGGC
* * **
8819078 CATTAATCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCATAATTGACAACTTTCTACC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
* * *
8819143 AAATGCAAAACTAGTC
66 AAATGCACAGCTAGGC
* * *
8819159 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACATCTTTCTATC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
*
8819224 AAATGCATAGCTAGGC
66 AAATGCACAGCTAGGC
* *
8819240 CATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
*
8819305 AAATGCACGGCTAGGC
66 AAATGCACAGCTAGGC
* * *
8819321 AATTAATCTTTTACTCAATGGTATTTAACCTTTCATGTAACTGGCATAATTGACACCTTTCTGTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
8819386 AAATGCACAGCTAGGC
66 AAATGCACAGCTAGGC
** *
8819402 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAATTTTTTTGT
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAC-ACCTTTCTGT
*
8819467 CAAATGCACAGCTAAGC
65 CAAATGCACAGCTAGGC
*
8819484 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACA-CTTTCTGTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
*
8819548 AAATGCACATCTAGGC
66 AAATGCACAGCTAGGC
*
8819564 CATTAATCTTTTACTCAAAGGTATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
* *
8819629 AAATACACAACTAGGC
66 AAATGCACAGCTAGGC
* * * ** * * *
8819645 CTTTAATATTTTAGTTTATGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTTTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
* * *
8819710 ATATGTACAACTAGGC
66 AAATGCACAGCTAGGC
*
8819726 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTGACACCTTTCTGTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
8819791 AAATGCACAGCTAGGC
66 AAATGCACAGCTAGGC
* * * **
8819807 CATTAATCTTTTACACAAAGGTATTTAATCTTTCATCTAACTGGCATAGTTGACAATTTTCTGTC
1 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
* *
8819872 AAATGAACAGTTAGGC
66 AAATGCACAGCTAGGC
*
8819888 CACTAATCTTTTA
1 CATTAATCTTTTA
8819901 TTTTAGATTA
Statistics
Matches: 893, Mismatches: 90, Indels: 4
0.90 0.09 0.00
Matches are distributed among these distances:
80 74 0.08
81 743 0.83
82 76 0.09
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC
AAATGCACAGCTAGGC
Found at i:8819059 original size:272 final size:272
Alignment explanation
Indices: 8818563--8819105 Score: 872
Period size: 272 Copynumber: 2.0 Consensus size: 272
8818553 ACAGCTAGGC
* * * *
8818563 CATTAATCTTTTACTCAAATGTATTTAACCTTTCATCTATCTGGCATAATTGACACCTTTATGTC
1 CATTAATCTATTACTCAAATGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTA
* *
8818628 AATAGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAA
66 AATAGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAA
*
8818693 TGGACACCTTTCTATCAAATGCACAACTAGGCCATTAATATTTTATTCAAAGGTATTTAACCTTT
131 TGGACACCTTTCTATCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTT
* ** * * * *
8818758 CATCTAACTTTCATAATCGACATCTTTCTGTCAGATGCACATCTAGGCCATTAATCTTTTACTCA
196 CATCTAAATGGCATAATCGACACCTTTCTGTCAAATGAACAGCTAGGCCATTAATCTTTTACTCA
*
8818823 AATGTATTTAAG
261 AAGGTATTTAAG
* *
8818835 CATTCATCTATTACTCAAATGTATTTAACCATTCATCTAACTGGTATAATTGACACCTTTATGTA
1 CATTAATCTATTACTCAAATGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTA
8818900 AA-ATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATA
66 AATA-GCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATA
* * * *
8818964 ATTGACACCTTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTACTCGAAGGTATTTAACCTT
130 ATGGACACCTTTCTATCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTT
*
8819029 TCATCTAAATGGCATAATTGACACCTTTCTGTCAAATGAACAGCTAGGCCATTAATCTTTTACTC
195 TCATCTAAATGGCATAATCGACACCTTTCTGTCAAATGAACAGCTAGGCCATTAATCTTTTACTC
8819094 AAAGGTATTTAA
260 AAAGGTATTTAA
8819106 CCTTTTATCT
Statistics
Matches: 248, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
271 1 0.00
272 247 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (272 bp):
CATTAATCTATTACTCAAATGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTA
AATAGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAA
TGGACACCTTTCTATCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTT
CATCTAAATGGCATAATCGACACCTTTCTGTCAAATGAACAGCTAGGCCATTAATCTTTTACTCA
AAGGTATTTAAG
Found at i:8821465 original size:68 final size:68
Alignment explanation
Indices: 8821385--8821521 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 68
8821375 AACATAGCTA
* * *
8821385 CCCACAACAGTCAACAGT-AAACCGTAAGGAAAAGAAAGGAGATAAGAACTTACCACGGTCATCG
1 CCCACAACAGTCAACA-TCAAACCGAAAGGAAAAGAAAGGAGAGAAGAACTTACCACGATCATCG
8821449 AAGC
65 AAGC
* * *
8821453 CCCACAACAGTCAACATCAAACTGAAAGGAAAAGAAGGGAGAGAAGAACTTACCACGATCATCGG
1 CCCACAACAGTCAACATCAAACCGAAAGGAAAAGAAAGGAGAGAAGAACTTACCACGATCATCGA
8821518 AGC
66 AGC
8821521 C
1 C
8821522 TCCATGCGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.11
Consensus pattern (68 bp):
CCCACAACAGTCAACATCAAACCGAAAGGAAAAGAAAGGAGAGAAGAACTTACCACGATCATCGA
AGC
Found at i:8823386 original size:21 final size:22
Alignment explanation
Indices: 8823362--8823448 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 22
8823352 AGCTCGTATA
8823362 AATTGCACTGAAGTG-CCACAT
1 AATTGCACTGAAGTGACCACAT
*
8823383 AATTG-TCTCGAA-TGACCACAT
1 AATTGCACT-GAAGTGACCACAT
* *
8823404 AAGTTTACACCGAAGTG-CCACAT
1 AA--TTGCACTGAAGTGACCACAT
8823427 AATTGTC-CTGAAG-GACCACAT
1 AATTG-CACTGAAGTGACCACAT
8823448 A
1 A
8823449 GAACCCTCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
20 5 0.10
21 30 0.58
22 1 0.02
23 13 0.25
24 3 0.06
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (22 bp):
AATTGCACTGAAGTGACCACAT
Found at i:8823995 original size:2 final size:2
Alignment explanation
Indices: 8823988--8824013 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8823978 ATATGGTTTC
8823988 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
8824014 TTAGCATACC
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:8834253 original size:22 final size:22
Alignment explanation
Indices: 8834191--8834244 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
8834181 TTCAGGCTCA
* *
8834191 ATAGTATTGATACT-CCC-ATT
1 ATAGTATCGATACTACCCTTTT
8834211 ATAGTATCGATACTACCCTTTT
1 ATAGTATCGATACTACCCTTTT
*
8834233 ATGGTATCGATA
1 ATAGTATCGATA
8834245 TCCCCCTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 13 0.45
21 3 0.10
22 13 0.45
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (22 bp):
ATAGTATCGATACTACCCTTTT
Found at i:8838616 original size:13 final size:13
Alignment explanation
Indices: 8838598--8838628 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
8838588 GAATGATTGA
8838598 AATAATAAATTTG
1 AATAATAAATTTG
8838611 AATAATAAATTTG
1 AATAATAAATTTG
8838624 AATAA
1 AATAA
8838629 CGTCAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATAATAAATTTG
Found at i:8840512 original size:41 final size:41
Alignment explanation
Indices: 8840309--8840516 Score: 141
Period size: 41 Copynumber: 5.2 Consensus size: 41
8840299 CTACTCAGTT
* * *
8840309 GCGTTTTTATACATACGCCGCAATAGG-TTCATCCATAGTG
1 GCGTTTTTATACAAACGCCGCAATAGGAGTCATCTATAGTG
* * * * * *
8840349 GCATTTTTTTAATAAACG-C-CTATAGTG-GT-A-CTTTAGCG
1 GCGTTTTTAT-ACAAACGCCGCAATAG-GAGTCATCTATAGTG
* * *
8840387 GCGTTTTTATACAAACACCACAAGA-GAGTCA-CATATAGTG
1 GCGTTTTTATACAAACGCCGCAATAGGAGTCATC-TATAGTG
* * *
8840427 GCGTTTTTCA-ACAAAAGCCGCAATA-GAGT-AGTACTTTAGCG
1 GCGTTTTT-ATACAAACGCCGCAATAGGAGTCA-T-CTATAGTG
*
8840468 GCGTTTTTATACAAACGCCGCAATAGGATTCATCTATAGTG
1 GCGTTTTTATACAAACGCCGCAATAGGAGTCATCTATAGTG
8840509 GCGTTTTT
1 GCGTTTTT
8840517 TCAACAAACG
Statistics
Matches: 127, Mismatches: 27, Indels: 27
0.70 0.15 0.15
Matches are distributed among these distances:
37 6 0.05
38 16 0.13
39 12 0.09
40 40 0.31
41 47 0.37
42 5 0.04
43 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (41 bp):
GCGTTTTTATACAAACGCCGCAATAGGAGTCATCTATAGTG
Found at i:8840548 original size:83 final size:80
Alignment explanation
Indices: 8840309--8840647 Score: 299
Period size: 82 Copynumber: 4.2 Consensus size: 80
8840299 CTACTCAGTT
* * * * * *
8840309 GCGTTTTTATACATACGCCGCAATAGGTTCATCCATAGTGGCATTTTTTTAATAAACGC-CTATA
1 GCGTTTTTATACAAACGCCGCAATAGATTCATCTATAGTGGC-GTTTTTCAACAAACGCACTATA
*
8840373 G--TGGTACTTTAGCG
65 GACTCGTACTTTAGCG
* * * * * * *
8840387 GCGTTTTTATACAAACACCACAAGAGAGTCA-CATATAGTGGCGTTTTTCAACAAAAGCCGCAAT
1 GCGTTTTTATACAAACGCCGCAATAGATTCATC-TATAGTGGCGTTTTTCAACAAACG-CACTAT
* *
8840451 AGAGTAGTACTTTAGCG
64 AGACTCGTACTTTAGCG
* *
8840468 GCGTTTTTATACAAACGCCGCAATAGGATTCATCTATAGTGGCGTTTTTTCAACAAACGTAATAA
1 GCGTTTTTATACAAACGCCGCAATA-GATTCATCTATAGTGGCG-TTTTTCAACAAACGCACT-A
*
8840533 TAGACTCGTACTTTAGTG
63 TAGACTCGTACTTTAGCG
* * * * * * * * * *
8840551 GTGTTTTTTTACAAATGCCGCTATAGACTCTTACTTTAGTGGAGTTTTTAAATAAACGCCACTAT
1 GCGTTTTTATACAAACGCCGCAATAGATTCAT-CTATAGTGGCGTTTTTCAACAAACG-CACTAT
*
8840616 AGACTCGTACTTTAGTG
64 AGACTCGTACTTTAGCG
*
8840633 GTGTTTTTATACAAA
1 GCGTTTTTATACAAA
8840648 TGCCACTAAA
Statistics
Matches: 212, Mismatches: 38, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
77 12 0.06
78 34 0.16
79 5 0.02
81 34 0.16
82 65 0.31
83 62 0.29
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (80 bp):
GCGTTTTTATACAAACGCCGCAATAGATTCATCTATAGTGGCGTTTTTCAACAAACGCACTATAG
ACTCGTACTTTAGCG
Found at i:8840577 original size:41 final size:41
Alignment explanation
Indices: 8840376--8840722 Score: 247
Period size: 41 Copynumber: 8.4 Consensus size: 41
8840366 GCCTATAGTG
* * * * *
8840376 GTACTTTAGCGGCGTTTTTATACAAACACCACAAGAGAGTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTC
* * * * * *
8840417 --ACATATAGTGGCGTTTTTCA-ACAAAAGCCGCAATAGAGTA
1 GTAC-TTTAGTGGCGTTTTT-ATACAAACGCCACTATAGACTC
* * * *
8840457 GTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGATTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCACTATA-GACTC
* * * *
8840499 AT-CTATAGTGGCGTTTTT-TCAACAAACG-TAATAATAGACTC
1 GTACTTTAGTGGCGTTTTTAT--ACAAACGCCACT-ATAGACTC
* * * *
8840540 GTACTTTAGTGGTGTTTTTTTACAAATGCCGCTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTC
* * * *
8840581 TTACTTTAGTGGAGTTTTTAAATAAACGCCACTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTC
* * *
8840622 GTACTTTAGTGGTGTTTTTATACAAATGCCACTAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTC
* * * * ** *
8840663 ATACTTTAGTGGCATTTTTGGTTACAAACACTGCTAAAGACTC
1 GTACTTTAGTGGCGTTTTT--ATACAAACGCCACTATAGACTC
8840706 GTACTTTAGTGGCGTTT
1 GTACTTTAGTGGCGTTT
8840723 GTAAGTTTGT
Statistics
Matches: 242, Mismatches: 50, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
39 2 0.01
40 30 0.12
41 146 0.60
42 31 0.13
43 33 0.14
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTC
Found at i:8840681 original size:82 final size:81
Alignment explanation
Indices: 8840309--8840722 Score: 268
Period size: 82 Copynumber: 5.1 Consensus size: 81
8840299 CTACTCAGTT
* * * ** * * *
8840309 GCGTTTTTATACATACGCCGCAATAGGTTCAT-CCATAGTGGCATTTTTTTAATAAACGC-CTAT
1 GCGTTTTTATACAAACGCCACAAGAGACTCATACTATAGTGGCA-TTTTTCAACAAACGCACTAT
*
8840372 AG--TGGTACTTTAGCG
65 AGACTCGTACTTTAGCG
* * * * * * *
8840387 GCGTTTTTATACAAACACCACAAGAGAGTCACA-TATAGTGGCGTTTTTCAACAAAAGCCGCAAT
1 GCGTTTTTATACAAACGCCACAAGAGACTCATACTATAGTGGCATTTTTCAACAAACG-CACTAT
* *
8840451 AGAGTAGTACTTTAGCG
65 AGACTCGTACTTTAGCG
* * * * * *
8840468 GCGTTTTTATACAAACGCCGCAATAGGATTCAT-CTATAGTGGCGTTTTTTCAACAAACGTAATA
1 GCGTTTTTATACAAACGCCACAAGA-GACTCATACTATAGTGGC-ATTTTTCAACAAACGCACT-
*
8840532 ATAGACTCGTACTTTAGTG
63 ATAGACTCGTACTTTAGCG
* * * * * * * * * *
8840551 GTGTTTTTTTACAAATGCCGCTATAGACTCTTACTTTAGTGG-AGTTTTTAAATAAACGCCACTA
1 GCGTTTTTATACAAACGCCACAAGAGACTCATACTATAGTGGCA-TTTTTCAACAAACG-CACTA
*
8840615 TAGACTCGTACTTTAGTG
64 TAGACTCGTACTTTAGCG
* * * ** * *
8840633 GTGTTTTTATACAAATGCCACTAA-AGACTCATACTTTAGTGGCATTTTTGGTTACAAACACTGC
1 GCGTTTTTATACAAACGCCAC-AAGAGACTCATACTATAGTGGCATTTTT--CAACAAACGC-AC
* *
8840697 TAAAGACTCGTACTTTAGTG
62 TATAGACTCGTACTTTAGCG
8840717 GCGTTT
1 GCGTTT
8840723 GTAAGTTTGT
Statistics
Matches: 268, Mismatches: 51, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
77 11 0.04
78 34 0.13
79 5 0.02
81 34 0.13
82 91 0.34
83 63 0.24
84 30 0.11
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (81 bp):
GCGTTTTTATACAAACGCCACAAGAGACTCATACTATAGTGGCATTTTTCAACAAACGCACTATA
GACTCGTACTTTAGCG
Found at i:8843395 original size:13 final size:13
Alignment explanation
Indices: 8843377--8843416 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
8843367 TTGACCCGAG
8843377 CTGACCTGTTGAC
1 CTGACCTGTTGAC
8843390 CTGACCTGTTGAC
1 CTGACCTGTTGAC
* *
8843403 CCGACCCGTTGAC
1 CTGACCTGTTGAC
8843416 C
1 C
8843417 GTTGACCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.38, G:0.23, T:0.25
Consensus pattern (13 bp):
CTGACCTGTTGAC
Found at i:8845979 original size:24 final size:24
Alignment explanation
Indices: 8845883--8845984 Score: 98
Period size: 24 Copynumber: 4.2 Consensus size: 24
8845873 GAATATTTTA
* *
8845883 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
8845907 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
8845931 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
8845955 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
*
8845979 TTTGAT
1 TCTGAT
8845985 TTTTGATATC
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 58 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.47
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:8847980 original size:23 final size:23
Alignment explanation
Indices: 8847954--8848001 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8847944 TGACCGGTCA
8847954 CGACCCGACCCGACCCGTTGACC
1 CGACCCGACCCGACCCGTTGACC
* *
8847977 CGACCCGACCCTACCTGTTGACC
1 CGACCCGACCCGACCCGTTGACC
8848000 CG
1 CG
8848002 TTGACCGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.50, G:0.21, T:0.12
Consensus pattern (23 bp):
CGACCCGACCCGACCCGTTGACC
Found at i:8848013 original size:15 final size:15
Alignment explanation
Indices: 8847993--8848039 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
8847983 GACCCTACCT
8847993 GTTGACCCGTTGACC
1 GTTGACCCGTTGACC
*
8848008 GTTGACCCATTGACC
1 GTTGACCCGTTGACC
8848023 GTTGACCGGCGTTGACC
1 GTTGACC--CGTTGACC
8848040 ACTGTTGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 21 0.75
17 7 0.25
ACGTcount: A:0.15, C:0.32, G:0.28, T:0.26
Consensus pattern (15 bp):
GTTGACCCGTTGACC
Found at i:8852676 original size:13 final size:13
Alignment explanation
Indices: 8852658--8852729 Score: 72
Period size: 13 Copynumber: 5.2 Consensus size: 13
8852648 CGACCCGACG
*
8852658 CGACCCGTTTACC
1 CGACCCGTTGACC
8852671 CGACCCGTTGACC
1 CGACCCGTTGACC
8852684 CGACCCAACCTGTTGACC
1 CGA--C--CC-GTTGACC
* *
8852702 TGACCTGTTGACC
1 CGACCCGTTGACC
8852715 CGACCCGTTGACC
1 CGACCCGTTGACC
8852728 CG
1 CG
8852730 TTGATCGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
13 35 0.71
14 1 0.02
15 1 0.02
16 1 0.02
17 2 0.04
18 9 0.18
ACGTcount: A:0.17, C:0.43, G:0.21, T:0.19
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:8852686 original size:31 final size:31
Alignment explanation
Indices: 8852649--8852720 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
8852639 GTCACGACCC
* * *
8852649 GACCCGACGCGACCCGTTTACCCGACCCGTT
1 GACCCGACCCAACCCGTTGACCCGACCCGTT
* * *
8852680 GACCCGACCCAACCTGTTGACCTGACCTGTT
1 GACCCGACCCAACCCGTTGACCCGACCCGTT
8852711 GACCCGACCC
1 GACCCGACCC
8852721 GTTGACCCGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.18, C:0.44, G:0.21, T:0.17
Consensus pattern (31 bp):
GACCCGACCCAACCCGTTGACCCGACCCGTT
Found at i:8852689 original size:18 final size:18
Alignment explanation
Indices: 8852668--8852706 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8852658 CGACCCGTTT
*
8852668 ACCCGACCCGTTGACCCG
1 ACCCAACCCGTTGACCCG
* *
8852686 ACCCAACCTGTTGACCTG
1 ACCCAACCCGTTGACCCG
8852704 ACC
1 ACC
8852707 TGTTGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.46, G:0.18, T:0.15
Consensus pattern (18 bp):
ACCCAACCCGTTGACCCG
Found at i:8852727 original size:8 final size:8
Alignment explanation
Indices: 8852716--8852767 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
8852706 CTGTTGACCC
8852716 GACCCGTT
1 GACCCGTT
8852724 GACCCGTT
1 GACCCGTT
*
8852732 GA-TCGTT
1 GACCCGTT
*
8852739 GACCCATT
1 GACCCGTT
8852747 GA-CCGTT
1 GACCCGTT
8852754 GACCGACGTT
1 GACC--CGTT
8852764 GACC
1 GACC
8852768 ACTGTTGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 12 0.33
8 16 0.44
10 8 0.22
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (8 bp):
GACCCGTT
Found at i:8852740 original size:15 final size:15
Alignment explanation
Indices: 8852719--8852757 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
8852709 TTGACCCGAC
*
8852719 CCGTTGACCCGTTGA
1 CCGTTGACCCATTGA
*
8852734 TCGTTGACCCATTGA
1 CCGTTGACCCATTGA
8852749 CCGTTGACC
1 CCGTTGACC
8852758 GACGTTGACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.28
Consensus pattern (15 bp):
CCGTTGACCCATTGA
Found at i:8858993 original size:5 final size:5
Alignment explanation
Indices: 8858975--8859032 Score: 62
Period size: 5 Copynumber: 11.2 Consensus size: 5
8858965 TATTAAGAGT
* * **
8858975 AAATA AAACAA AAATA AAACA AAATA AAATA TTATA ATAATA AAATA AAATA
1 AAATA AAA-TA AAATA AAATA AAATA AAATA AAATA A-AATA AAATA AAATA
8859027 AAATA A
1 AAATA A
8859033 TTATTATCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 35 0.81
6 8 0.19
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:8859004 original size:26 final size:26
Alignment explanation
Indices: 8858975--8859032 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
8858965 TATTAAGAGT
8858975 AAATAAAACAAAAATAAAACAAAATA
1 AAATAAAACAAAAATAAAACAAAATA
** * * *
8859001 AAATATTATAATAATAAAATAAAATA
1 AAATAAAACAAAAATAAAACAAAATA
8859027 AAATAA
1 AAATAA
8859033 TTATTATCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (26 bp):
AAATAAAACAAAAATAAAACAAAATA
Found at i:8859032 original size:21 final size:21
Alignment explanation
Indices: 8858975--8859033 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
8858965 TATTAAGAGT
*
8858975 AAATAAAACAAAAATAA-AACA
1 AAATAAAA-TAAAATAATAACA
** *
8858996 AAATAAAATATTATAATAATA
1 AAATAAAATAAAATAATAACA
8859017 AAATAAAATAAAATAAT
1 AAATAAAATAAAATAAT
8859034 TATTATCATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAAATAAAATAATAACA
Found at i:8861276 original size:138 final size:139
Alignment explanation
Indices: 8861075--8861364 Score: 397
Period size: 138 Copynumber: 2.1 Consensus size: 139
8861065 TGGACATGAT
* * *
8861075 TTTGGAGACAACACGGTTCCTTCATGATAAGGAAGTCTGGTTATATGAGGATGACGCTGCTCCTA
1 TTTGGAGACAACACGGTTCCTACATGATAAGGAAGTCTGATTATATGAGGATGACGATGCTCCTA
** * * *
8861140 TGTGTTGAGGAGATCTGGTC-GTGGA-AGACATTGTTCCTA-ATCGATGAGGACGTGTAGCTATC
66 TACGTTGAGAAGATCTGGTCTGTGGATA-ACATTGTTCCTACAT-GATGAAGACGTGTAGCCATC
8861202 TTTAGGGATAA
129 TTTAGGGATAA
* * * * *
8861213 TTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTGTCTGGGGATGACGATGCTCCTA
1 TTTGGAGACAACACGGTTCCTACATGATAAGGAAGTCTGATTATATGAGGATGACGATGCTCCTA
* * *
8861278 TACGTTGAGAAGATCTGGTCTGTGGATAACATTGTTCCTACATGATGAATATGTGTATCCATCTT
66 TACGTTGAGAAGATCTGGTCTGTGGATAACATTGTTCCTACATGATGAAGACGTGTAGCCATCTT
8861343 TAGGGATAA
131 TAGGGATAA
8861352 TTTGGAGACAACA
1 TTTGGAGACAACA
8861365 ATCTGAAGTG
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
138 74 0.56
139 56 0.42
140 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (139 bp):
TTTGGAGACAACACGGTTCCTACATGATAAGGAAGTCTGATTATATGAGGATGACGATGCTCCTA
TACGTTGAGAAGATCTGGTCTGTGGATAACATTGTTCCTACATGATGAAGACGTGTAGCCATCTT
TAGGGATAA
Found at i:8861431 original size:36 final size:36
Alignment explanation
Indices: 8861380--8861678 Score: 174
Period size: 36 Copynumber: 8.8 Consensus size: 36
8861370 AAGTGAGGTT
*
8861380 AATTTTTTTCAAGAGAAACTATCTCAAGTGAGACAA
1 AATTTGTTTCAAGAGAAACTATCTCAAGTGAGACAA
* * * * *
8861416 AATTTGTTTCGAGAGAAATTGTCTCAAGCGAGATGAA
1 AATTTGTTTCAAGAGAAACTATCTCAAGTGAGA-CAA
* *
8861453 ACTTTGTTTCAAGAGAAACAATCTCAA---AG----
1 AATTTGTTTCAAGAGAAACTATCTCAAGTGAGACAA
** *
8861482 GTTTATGTTTCAAGAGAAACTTTCTCAAGTGAGACAA
1 AATT-TGTTTCAAGAGAAACTATCTCAAGTGAGACAA
*
8861519 AATTTGTTTCAAGAGAAACAATCTCAA---AG----
1 AATTTGTTTCAAGAGAAACTATCTCAAGTGAGACAA
** * * *
8861548 GTTTATGTTTTAAGAGAAACTATCTCAAGCGTGACAA
1 AATT-TGTTTCAAGAGAAACTATCTCAAGTGAGACAA
* *
8861585 AATTTATTTCAACG-GAAACAATCTCAA---AG----
1 AATTTGTTTCAA-GAGAAACTATCTCAAGTGAGACAA
**
8861614 GTTTATGTTTCAAGAGAAACTATCTCAAGTGAGACAA
1 AATT-TGTTTCAAGAGAAACTATCTCAAGTGAGACAA
** *
8861651 AACTTTGTTTTGAGAGAAACAATCTCAA
1 AA-TTTGTTTCAAGAGAAACTATCTCAA
8861679 AGGTTTATCA
Statistics
Matches: 196, Mismatches: 39, Indels: 55
0.68 0.13 0.19
Matches are distributed among these distances:
29 7 0.04
30 61 0.31
33 8 0.04
34 2 0.01
36 67 0.34
37 49 0.25
38 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (36 bp):
AATTTGTTTCAAGAGAAACTATCTCAAGTGAGACAA
Found at i:8861493 original size:30 final size:30
Alignment explanation
Indices: 8861457--8861641 Score: 126
Period size: 30 Copynumber: 5.8 Consensus size: 30
8861447 GATGAAACTT
8861457 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
** **
8861487 TGTTTCAAGAGAAACTTTCTCAAGTGAGACAAAATT-
1 TGTTTCAAGAGAAACAATCTCAA---AG----GTTTA
8861523 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTA
* *
8861553 TGTTTTAAGAGAAACTATCTC-AAGCGTGACAAAATT-
1 TGTTTCAAGAGAAACAATCTCAAAG-GT-------TTA
*
8861589 TATTTCAACG-GAAACAATCTCAAAGGTTTA
1 TGTTTCAA-GAGAAACAATCTCAAAGGTTTA
*
8861619 TGTTTCAAGAGAAACTATCTCAA
1 TGTTTCAAGAGAAACAATCTCAA
8861642 GTGAGACAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 40
0.69 0.09 0.23
Matches are distributed among these distances:
29 8 0.07
30 61 0.51
33 4 0.03
36 39 0.32
37 8 0.07
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTA
Found at i:8861540 original size:66 final size:66
Alignment explanation
Indices: 8861420--8861686 Score: 383
Period size: 66 Copynumber: 4.0 Consensus size: 66
8861410 AGACAAAATT
* * * * *
8861420 TGTTTCGAGAGAAATTGTCTCAAGCGAGATGAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGA-CAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTT
8861485 TA
65 TA
* *
8861487 TGTTTCAAGAGAAACTTTCTCAAGTGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
8861552 A
66 A
* * *
8861553 TGTTTTAAGAGAAACTATCTCAAGCGTGACAAAATTTATTTCAACG-GAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTTGTTTCAA-GAGAAACAATCTCAAAGGTT
8861617 TA
65 TA
* **
8861619 TGTTTCAAGAGAAACTATCTCAAGTGAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAA-TTTGTTTCAAGAGAAACAATCTCAAAGGTT
8861684 TA
65 TA
8861686 T
1 T
8861687 CAATTTTGTT
Statistics
Matches: 180, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
66 126 0.70
67 54 0.30
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTT
A
Found at i:8862028 original size:67 final size:66
Alignment explanation
Indices: 8861924--8862238 Score: 265
Period size: 67 Copynumber: 4.8 Consensus size: 66
8861914 TATTTCTAAG
* *
8861924 GGAAACTGGCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTCAATTGT-TCTTGTCTT
1 GGAAGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTCAATT-TATCTTGTCTT
8861988 AA
65 AA
* *
8861990 GGAAGGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATATCAAATATTATCAATTT
1 GGAA-GCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTC-AAT-TTATC--TTG
*
8862055 TGTT--
61 TCTTAA
** ** *** * * ** * *
8862059 TTAAG-TG-AACAA-TTTTA-G-AATTTGTGTTTCGAAGAAAATCAATCAAAATTTGTATT-TC-
1 GGAAGCTGTCTCAAGTGAGACGAAATTTGT-TTT-TAAGAAAAACAATCTCAATTTATCTTGTCT
8862117 TAA
64 TAA
* *
8862120 GGGAAACTGGCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTCAATTGT-TCTTGTCT
1 -GGAAGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTCAATT-TATCTTGTCT
8862184 TAA
64 TAA
*
8862187 GGAAGGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATATCAA
1 GGAA-GCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTCAA
8862239 ATATTATCAA
Statistics
Matches: 193, Mismatches: 36, Indels: 39
0.72 0.13 0.15
Matches are distributed among these distances:
59 1 0.01
60 1 0.01
61 2 0.01
62 2 0.01
63 12 0.06
64 10 0.05
65 34 0.18
66 18 0.09
67 98 0.51
68 5 0.03
69 5 0.03
71 5 0.03
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (66 bp):
GGAAGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACAATCTCAATTTATCTTGTCTTA
A
Found at i:8862128 original size:197 final size:198
Alignment explanation
Indices: 8861900--8862294 Score: 783
Period size: 197 Copynumber: 2.0 Consensus size: 198
8861890 AAATTTTGTT
8861900 TCAATCAAAATTTGTATTTCTAAGGGAAACTGGCTCAAGTGAGACGAAATTTGTTTTTAAGAAAA
1 TCAATCAAAATTTGTATTTCTAAGGGAAACTGGCTCAAGTGAGACGAAATTTGTTTTTAAGAAAA
8861965 ACAATCTCAATTGTTCTTGTCTTAAGGAAGGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAA
66 ACAATCTCAATTGTTCTTGTCTTAAGGAAGGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAA
8862030 AAACAATATCAAATATTATCAATTTTGTTTTAAGTG-AACAATTTTAGAATTTGTGTTTCGAAGA
131 AAACAATATCAAATATTATCAATTTTGTTTTAAGTGAAACAATTTTAGAATTTGTGTTTCGAAGA
8862094 AAA
196 AAA
8862097 TCAATCAAAATTTGTATTTCTAAGGGAAACTGGCTCAAGTGAGACGAAATTTGTTTTTAAGAAAA
1 TCAATCAAAATTTGTATTTCTAAGGGAAACTGGCTCAAGTGAGACGAAATTTGTTTTTAAGAAAA
8862162 ACAATCTCAATTGTTCTTGTCTTAAGGAAGGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAA
66 ACAATCTCAATTGTTCTTGTCTTAAGGAAGGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAA
8862227 AAACAATATCAAATATTATCAATTTTGTTTTAAGTGAAACAATTTTAGAATTTGTGTTTCGAAGA
131 AAACAATATCAAATATTATCAATTTTGTTTTAAGTGAAACAATTTTAGAATTTGTGTTTCGAAGA
8862292 AAA
196 AAA
8862295 ACTGTCCCAA
Statistics
Matches: 197, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
197 166 0.84
198 31 0.16
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (198 bp):
TCAATCAAAATTTGTATTTCTAAGGGAAACTGGCTCAAGTGAGACGAAATTTGTTTTTAAGAAAA
ACAATCTCAATTGTTCTTGTCTTAAGGAAGGCTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAA
AAACAATATCAAATATTATCAATTTTGTTTTAAGTGAAACAATTTTAGAATTTGTGTTTCGAAGA
AAA
Found at i:8865120 original size:23 final size:23
Alignment explanation
Indices: 8865085--8865129 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8865075 GAGTCAAGGG
8865085 TTCTACGCAGTCCTTCGGGACAA
1 TTCTACGCAGTCCTTCGGGACAA
** *
8865108 TTCTACGTGGTCCTTTGGGACA
1 TTCTACGCAGTCCTTCGGGACA
8865130 TATATGTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (23 bp):
TTCTACGCAGTCCTTCGGGACAA
Found at i:8865174 original size:22 final size:22
Alignment explanation
Indices: 8865149--8865202 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
8865139 TCCTTAGGGA
*
8865149 CATTTTATGTGACACTTCGGTG
1 CATTTTATGCGACACTTCGGTG
* *
8865171 CATTTTTTACGCGACACTTTGGTG
1 CA--TTTTATGCGACACTTCGGTG
8865195 CATTTTAT
1 CATTTTAT
8865203 ATGTGCTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.27
24 19 0.73
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (22 bp):
CATTTTATGCGACACTTCGGTG
Found at i:8873956 original size:21 final size:22
Alignment explanation
Indices: 8873909--8873950 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
8873899 TTAGAATAAG
8873909 AAGTATAAAGTGTTAAAAATGA
1 AAGTATAAAGTGTTAAAAATGA
8873931 AAGTATAACA-TGTTAAAAAT
1 AAGTATAA-AGTGTTAAAAAT
8873951 TTAGTAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.29
Consensus pattern (22 bp):
AAGTATAAAGTGTTAAAAATGA
Found at i:8875062 original size:21 final size:22
Alignment explanation
Indices: 8875007--8875087 Score: 94
Period size: 21 Copynumber: 3.7 Consensus size: 22
8874997 TAGTCAAGGG
*
8875007 TTCTACGTGGTCATTTGGGACAA
1 TTCTATGTGGTCATTTGGGAC-A
* *
8875030 TTCTACGTGGTCCTTTGGGACA
1 TTCTATGTGGTCATTTGGGACA
* *
8875052 -TATATGTGGTCATTCGGGACA
1 TTCTATGTGGTCATTTGGGACA
8875073 TTCTATGTGG-CATTT
1 TTCTATGTGGTCATTT
8875088 CAGTGCATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.42
22 9 0.18
23 20 0.40
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (22 bp):
TTCTATGTGGTCATTTGGGACA
Found at i:8876329 original size:25 final size:23
Alignment explanation
Indices: 8876299--8876363 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
8876289 TTTTATTTTT
8876299 AAAATTTTGAAAAATATCAATTAA
1 AAAATTTTGAAAAATATCAA-TAA
* *
8876323 AATAATTTTGAAAAATGTTTAATAA
1 AA-AATTTTGAAAAAT-ATCAATAA
8876348 AAAA-TTTGAAAAATAT
1 AAAATTTTGAAAAATAT
8876364 TACCCATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 1 0.03
23 10 0.28
24 4 0.11
25 18 0.50
26 3 0.08
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (23 bp):
AAAATTTTGAAAAATATCAATAA
Found at i:8877270 original size:21 final size:22
Alignment explanation
Indices: 8877244--8877297 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
8877234 GCTATTTTTC
8877244 TCTTTGCTCTTTCTTT-TTCAT
1 TCTTTGCTCTTTCTTTCTTCAT
* *
8877265 TCTTTGCTTTTTCTTTCTTTAT
1 TCTTTGCTCTTTCTTTCTTCAT
*
8877287 T-TTTTCTCTTT
1 TCTTTGCTCTTT
8877298 GATTTGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (22 bp):
TCTTTGCTCTTTCTTTCTTCAT
Found at i:8877289 original size:14 final size:14
Alignment explanation
Indices: 8877251--8877290 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
8877241 TTCTCTTTGC
8877251 TCTTTCTTTTTCAT
1 TCTTTCTTTTTCAT
*
8877265 TCTTTGCTTTTTCTT
1 TCTTT-CTTTTTCAT
*
8877280 TCTTTATTTTT
1 TCTTTCTTTTT
8877291 TCTCTTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (14 bp):
TCTTTCTTTTTCAT
Found at i:8880342 original size:102 final size:101
Alignment explanation
Indices: 8880220--8880423 Score: 309
Period size: 102 Copynumber: 2.0 Consensus size: 101
8880210 TTCAACTCTC
* * * * *
8880220 TTTTTTTAAGCATACTTTAAGGGGAGTCATCTCATCACACTGCCATTCCAAACTCTAAGTGAAAG
1 TTTTTTTAAGAATACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCAAACTCTAAGTGAAAG
* **
8880285 GGAGCATACCTTCCACCCTGGAGCTAGTCCTGTAGAG
66 GGAGAATACCTTCCACCCT-GAGCTAGTCAGGTAGAG
* *
8880322 TTTTTTTAAGAATATTTTAAGGGGAGTAAGCTCATCACACTACCATCCCACACTCTAAGTGAAAG
1 TTTTTTTAAGAATACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCAAACTCTAAGTGAAAG
8880387 GGAGAATACCTTCCACCCTGAGCTAGTCAGGTAGAG
66 GGAGAATACCTTCCACCCTGAGCTAGTCAGGTAGAG
8880423 T
1 T
8880424 CATCCCGTGA
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 16 0.17
102 76 0.83
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (101 bp):
TTTTTTTAAGAATACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCAAACTCTAAGTGAAAG
GGAGAATACCTTCCACCCTGAGCTAGTCAGGTAGAG
Found at i:8882864 original size:539 final size:539
Alignment explanation
Indices: 8881840--8882917 Score: 2084
Period size: 539 Copynumber: 2.0 Consensus size: 539
8881830 TATATTAGGC
8881840 TTAATGATCTCAGTATCACTAGGGAGGCTTCCTTGTGGGGAAGAATGTAATGCCGTGACAATTTC
1 TTAATGATCTCAGTATCACTAGGGAGGCTTCCTTGTGGGGAAGAATGTAATGCCGTGACAATTTC
8881905 GCTCACTTGGTTCTCCAATGCTCTCAAAGATGAGCTATGACTTTGTAATAAAGTTGTCTGACTTT
66 GCTCACTTGGTTCTCCAATGCTCTCAAAGATGAGCTATGACTTTGTAATAAAGTTGTCTGACTTT
*
8881970 GCAACATTATGCCTTAGCTTTTAATTATTGAAGAGTGTTCGAGCATCAAGGCCTTAGTTGAAGTC
131 GCAACAGTATGCCTTAGCTTTTAATTATTGAAGAGTGTTCGAGCATCAAGGCCTTAGTTGAAGTC
8882035 GTGAAATCTTTTGTCTGACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCACACTCTAAGTG
196 GTGAAATCTTTTGTCTGACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCACACTCTAAGTG
8882100 AAAGGGAGAATACCTTCCACCCCGAGCTAGTCAGGTAGAGTCATCCCGTGACTGCTTTCATTCAC
261 AAAGGGAGAATACCTTCCACCCCGAGCTAGTCAGGTAGAGTCATCCCGTGACTGCTTTCATTCAC
*
8882165 TTATATACCGAGGTAACCATTTATTTGTTGGATTTTTCCAGGTCATGCCATCGCACAGAGGAGTG
326 TTATATACCGAGGCAACCATTTATTTGTTGGATTTTTCCAGGTCATGCCATCGCACAGAGGAGTG
*
8882230 TCCAACTATAGTTATGATGAGGCATTATTTGTAATTCATCATAGTTCAAAACATTAAGGAGTTCA
391 TCCAACTATAGTTATGATGAGGCATTATTTGTAATTCAACATAGTTCAAAACATTAAGGAGTTCA
8882295 ATTTAGCCTATCAAACATTTAATGCCATGACGAGCAAAAAGTTCTTTCCTAAAATTTTCTAAGCA
456 ATTTAGCCTATCAAACATTTAATGCCATGACGAGCAAAAAGTTCTTTCCTAAAATTTTCTAAGCA
8882360 CCTTAAGCAGAGAAAACAT
521 CCTTAAGCAGAGAAAACAT
*
8882379 TTAATGATCTCAGTATCACTAGGGAGGCTTCCTTGTGGGGAAGAATGTAATGTCGTGACAATTTC
1 TTAATGATCTCAGTATCACTAGGGAGGCTTCCTTGTGGGGAAGAATGTAATGCCGTGACAATTTC
*
8882444 GCTCACTTGGTTCTCTAATGCTCTCAAAGATGAGCTATGACTTTGTAATAAAGTTGTCTGACTTT
66 GCTCACTTGGTTCTCCAATGCTCTCAAAGATGAGCTATGACTTTGTAATAAAGTTGTCTGACTTT
* *
8882509 GCAACAGTATGCCTTAGCTTTTTATTGTTGAAGAGTGTTCGAGCATCAAGGCCTTAGTTGAAGTC
131 GCAACAGTATGCCTTAGCTTTTAATTATTGAAGAGTGTTCGAGCATCAAGGCCTTAGTTGAAGTC
8882574 GTGAAATCTTTTGTCTGACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCACACTCTAAGTG
196 GTGAAATCTTTTGTCTGACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCACACTCTAAGTG
8882639 AAAGGGAGAATACCTTCCACCCCGAGCTAGTCAGGTAGAGTCATCCCGTGACTGCTTTCATTCAC
261 AAAGGGAGAATACCTTCCACCCCGAGCTAGTCAGGTAGAGTCATCCCGTGACTGCTTTCATTCAC
8882704 TTATATACCGAGGCAACCATTTATTTGTTGGATTTTTCCAGGTCATGCCATCGCACAGAGGAGTG
326 TTATATACCGAGGCAACCATTTATTTGTTGGATTTTTCCAGGTCATGCCATCGCACAGAGGAGTG
8882769 TCCAACTATAGTTATGATGAGGCATTATTTGTAATTCAACATAGTTCAAAACATTAAGGAGTTCA
391 TCCAACTATAGTTATGATGAGGCATTATTTGTAATTCAACATAGTTCAAAACATTAAGGAGTTCA
*
8882834 ATTTAGCCTATCAAACATTTAATTCCATGACGAGCAAAAAGTTCTTTCCTAAAATTTTCTAAGCA
456 ATTTAGCCTATCAAACATTTAATGCCATGACGAGCAAAAAGTTCTTTCCTAAAATTTTCTAAGCA
8882899 CCTTAAGCAGAGAAAACAT
521 CCTTAAGCAGAGAAAACAT
8882918 ACAATCGTGT
Statistics
Matches: 531, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
539 531 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (539 bp):
TTAATGATCTCAGTATCACTAGGGAGGCTTCCTTGTGGGGAAGAATGTAATGCCGTGACAATTTC
GCTCACTTGGTTCTCCAATGCTCTCAAAGATGAGCTATGACTTTGTAATAAAGTTGTCTGACTTT
GCAACAGTATGCCTTAGCTTTTAATTATTGAAGAGTGTTCGAGCATCAAGGCCTTAGTTGAAGTC
GTGAAATCTTTTGTCTGACTTTAAGGGGAGTAAGCTCATCACACTACCATCCCACACTCTAAGTG
AAAGGGAGAATACCTTCCACCCCGAGCTAGTCAGGTAGAGTCATCCCGTGACTGCTTTCATTCAC
TTATATACCGAGGCAACCATTTATTTGTTGGATTTTTCCAGGTCATGCCATCGCACAGAGGAGTG
TCCAACTATAGTTATGATGAGGCATTATTTGTAATTCAACATAGTTCAAAACATTAAGGAGTTCA
ATTTAGCCTATCAAACATTTAATGCCATGACGAGCAAAAAGTTCTTTCCTAAAATTTTCTAAGCA
CCTTAAGCAGAGAAAACAT
Found at i:8887194 original size:17 final size:17
Alignment explanation
Indices: 8887166--8887198 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8887156 ACTGGCCCTA
8887166 GCAAATTAATTTATTTCG
1 GCAAATTAATTT-TTTCG
8887184 GCAAA-TAATTTTTTC
1 GCAAATTAATTTTTTC
8887199 CTCAGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (17 bp):
GCAAATTAATTTTTTCG
Found at i:8888452 original size:17 final size:18
Alignment explanation
Indices: 8888420--8888454 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8888410 CTTACCTTTG
*
8888420 GTATCGATCCCTACTTCA
1 GTATCGATCACTACTTCA
8888438 GTATCGAT-ACTACTTCA
1 GTATCGATCACTACTTCA
8888455 ATAAGTACCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (18 bp):
GTATCGATCACTACTTCA
Found at i:8900482 original size:12 final size:12
Alignment explanation
Indices: 8900437--8900486 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
8900427 AAGAGTTAAT
*
8900437 AAAACAAAAT-A
1 AAAATAAAATAA
8900448 AAAATAAAATAA
1 AAAATAAAATAA
* * *
8900460 ATATTATAATAA
1 AAAATAAAATAA
8900472 AAAATAAAATAA
1 AAAATAAAATAA
8900484 AAA
1 AAA
8900487 TATTATTATC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:8901235 original size:3 final size:3
Alignment explanation
Indices: 8901227--8901253 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8901217 TAGAACATGC
8901227 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
8901254 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8901258 original size:3 final size:3
Alignment explanation
Indices: 8901252--8901298 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8901242 AATAATAATA
8901252 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8901299 AGTAATAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8902348 original size:33 final size:33
Alignment explanation
Indices: 8902304--8902378 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
8902294 ATGCTAAAAG
8902304 TATCAACCTAATTCCTACGATTACACTTGTAAA
1 TATCAACCTAATTCCTACGATTACACTTGTAAA
* * *
8902337 TATCAATCTAATTTCTACGATTACACTTGTAAG
1 TATCAACCTAATTCCTACGATTACACTTGTAAA
8902370 TATCAACCT
1 TATCAACCT
8902379 TTGATAGTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.36
Consensus pattern (33 bp):
TATCAACCTAATTCCTACGATTACACTTGTAAA
Found at i:8903152 original size:33 final size:33
Alignment explanation
Indices: 8903086--8903152 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
8903076 TAGGACTATC
* * *
8903086 TTAGGTTGATACTTACAAGTGTAATCCTTGGAA
1 TTAGGTTGATACTTAAAAGTGTAAGCCTGGGAA
*
8903119 TTAGGTTGATACTTAAAAGTGTAAGCGTGGGAA
1 TTAGGTTGATACTTAAAAGTGTAAGCCTGGGAA
8903152 T
1 T
8903153 AAGAGTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (33 bp):
TTAGGTTGATACTTAAAAGTGTAAGCCTGGGAA
Found at i:8907753 original size:26 final size:26
Alignment explanation
Indices: 8907724--8907782 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
8907714 TTTTATTTTG
*
8907724 TAATTTTTTAAAAGAAAATTAAAAAA
1 TAATATTTTAAAAGAAAATTAAAAAA
*
8907750 TAATATTTTAAACGAAAATTAAAAAA
1 TAATATTTTAAAAGAAAATTAAAAAA
8907776 TAATATT
1 TAATATT
8907783 ATATTCCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (26 bp):
TAATATTTTAAAAGAAAATTAAAAAA
Found at i:8911469 original size:30 final size:30
Alignment explanation
Indices: 8911433--8911500 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
8911423 CAAAATGAAA
*
8911433 ACAACCCAGTGGACAAAAACAAACCAACTC
1 ACAACCCAGAGGACAAAAACAAACCAACTC
* * * * *
8911463 ACAACCCAGAGGATAGAAGCAAACTAATTC
1 ACAACCCAGAGGACAAAAACAAACCAACTC
8911493 ACAACCCA
1 ACAACCCA
8911501 AAACAGATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.49, C:0.31, G:0.12, T:0.09
Consensus pattern (30 bp):
ACAACCCAGAGGACAAAAACAAACCAACTC
Found at i:8922346 original size:30 final size:30
Alignment explanation
Indices: 8922265--8922360 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 30
8922255 TAATTAGCAC
* *
8922265 AAAAAATAATTAATTA-ATAA--ATTTAAAT
1 AAAAAATAA-TATTTATATAATTATTTTAAT
* * *
8922293 AAATAATAAT-TATATAAATATTATTTTAAT
1 AAAAAATAATATTTATATA-ATTATTTTAAT
* *
8922323 AAAAAATAATATTTATATAATTATATTACT
1 AAAAAATAATATTTATATAATTATTTTAAT
*
8922353 ATAAAATA
1 AAAAAATA
8922361 TAAAAACTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 9 0.17
30 32 0.62
31 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAAAATAATATTTATATAATTATTTTAAT
Found at i:8923590 original size:30 final size:31
Alignment explanation
Indices: 8923524--8923597 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
8923514 TTCAATGTTC
*
8923524 AAGTGACCAAAACTTAATAAAACGATAATGT
1 AAGTGACCAAAACTTAATAAAACGATAAGGT
* * *
8923555 GAGTGACCAAAACTTTAT-AAATGATAAGGT
1 AAGTGACCAAAACTTAATAAAACGATAAGGT
8923585 AAGTGACCAAAAC
1 AAGTGACCAAAAC
8923598 ATATATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 22 0.58
31 16 0.42
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACGATAAGGT
Found at i:8923926 original size:2 final size:2
Alignment explanation
Indices: 8923919--8923946 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8923909 TATAGGACTA
8923919 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
8923947 TCACTATCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8926082 original size:28 final size:28
Alignment explanation
Indices: 8926051--8926107 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
8926041 CCATTATTAA
8926051 CCCAGTTGAGCCATGTAACAAACGAAAC
1 CCCAGTTGAGCCATGTAACAAACGAAAC
8926079 CCCAGTTGAGCCATGTAACAAACGAAAC
1 CCCAGTTGAGCCATGTAACAAACGAAAC
8926107 C
1 C
8926108 AGTGTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.14
Consensus pattern (28 bp):
CCCAGTTGAGCCATGTAACAAACGAAAC
Found at i:8932549 original size:14 final size:14
Alignment explanation
Indices: 8932532--8932577 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
8932522 TGTTCTGGTT
8932532 TAAGTGTTATGTAG
1 TAAGTGTTATGTAG
8932546 TAAGTGTTATGTA-
1 TAAGTGTTATGTAG
* *
8932559 TCAAATGTTATGTTG
1 T-AAGTGTTATGTAG
8932574 TAAG
1 TAAG
8932578 CAGTTAGTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (14 bp):
TAAGTGTTATGTAG
Found at i:8943310 original size:12 final size:12
Alignment explanation
Indices: 8943293--8943332 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
8943283 AGTATAAATA
*
8943293 GTATCGAGTCGG
1 GTATCGAGCCGG
8943305 GTATCGAGCCGG
1 GTATCGAGCCGG
*
8943317 GTATCGGGCCGG
1 GTATCGAGCCGG
8943329 GTAT
1 GTAT
8943333 ATATATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.15, C:0.20, G:0.42, T:0.23
Consensus pattern (12 bp):
GTATCGAGCCGG
Found at i:8943564 original size:36 final size:36
Alignment explanation
Indices: 8943494--8943562 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
8943484 AAATTTGTTC
*
8943494 CCGTCCCCGTCCCCGTTTAACATAAACGGTTTTTCT
1 CCGTCCCCGTCCCAGTTTAACATAAACGGTTTTTCT
*
8943530 CCGT-CCCGTTCCAGTTTAACATAAACGGTTTTT
1 CCGTCCCCGTCCCAGTTTAACATAAACGGTTTTT
8943563 TCCCATCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (36 bp):
CCGTCCCCGTCCCAGTTTAACATAAACGGTTTTTCT
Found at i:8946916 original size:13 final size:13
Alignment explanation
Indices: 8946898--8946924 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8946888 TTTTTCAGAT
8946898 TACCATTCAAGTC
1 TACCATTCAAGTC
8946911 TACCATTCAAGTC
1 TACCATTCAAGTC
8946924 T
1 T
8946925 GCTAGTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (13 bp):
TACCATTCAAGTC
Found at i:8960932 original size:18 final size:18
Alignment explanation
Indices: 8960895--8960951 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
8960885 ACTAAAAATT
* *
8960895 TGTCCCGAATGGATCACTA
1 TGTCCC-AAAGGACCACTA
*
8960914 TGTCCTAAAGGACCACTA
1 TGTCCCAAAGGACCACTA
* *
8960932 TATCCCGAAGGACCACTA
1 TGTCCCAAAGGACCACTA
8960950 TG
1 TG
8960952 AACCCTCGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Done.