Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 158 of 205
Found at i:47220353 original size:31 final size:31
Alignment explanation
Indices: 47220315--47220376 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
47220305 AGGCAAATTA
*
47220315 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTCAATCCTAATAAAACTCTTT
47220346 CAAGAGTAATTCAATCCTAATAAAACTCTTT
1 CAAGAGTAATTCAATCCTAATAAAACTCTTT
47220377 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTCAATCCTAATAAAACTCTTT
Found at i:47231433 original size:41 final size:41
Alignment explanation
Indices: 47231383--47231650 Score: 378
Period size: 41 Copynumber: 6.6 Consensus size: 41
47231373 TTAAACAGGT
* * * * *
47231383 TCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* * * *
47231424 TCATCGGCACTTAGCCTGCTAGGCTTATAGCCTAATCCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
*
47231465 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
*
47231506 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
47231547 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* * *
47231587 TTCACCGGCACTTAGCCTGCTAGGCTTA-AACTTGATTTAGA
1 -TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
*
47231628 TCACTGGCACTTAGCCTGCTAGG
1 TCACCGGCACTTAGCCTGCTAGG
47231651 TTTTAAAACC
Statistics
Matches: 204, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
40 30 0.15
41 174 0.85
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
Found at i:47234522 original size:21 final size:21
Alignment explanation
Indices: 47234498--47234540 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
47234488 CATGAGATTA
*
47234498 TAGGATTTCAACAATTCATTG
1 TAGGATTTCAAAAATTCATTG
47234519 TAGGATTTCAAAAATTCATTG
1 TAGGATTTCAAAAATTCATTG
47234540 T
1 T
47234541 GTTTCTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (21 bp):
TAGGATTTCAAAAATTCATTG
Found at i:47238925 original size:27 final size:27
Alignment explanation
Indices: 47238891--47238954 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
47238881 CATAAAATAT
*
47238891 ACAGTCATTTTATAACAT-AGGGGCATA
1 ACAGTCATTTTACAACATGA-GGGCATA
* *
47238918 ACAGTCATTTTACCACGTGAGGGCATA
1 ACAGTCATTTTACAACATGAGGGCATA
47238945 ACAGTCATTT
1 ACAGTCATTT
47238955 CATATCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
ACAGTCATTTTACAACATGAGGGCATA
Found at i:47248596 original size:41 final size:41
Alignment explanation
Indices: 47248528--47248799 Score: 395
Period size: 41 Copynumber: 6.6 Consensus size: 41
47248518 ACTATACGTT
* * *
47248528 TAGCAGGCTAAGTGTCGGTGATTTGAATCAGGTTATAAACC
1 TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACC
47248569 TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACC
1 TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACC
* *
47248610 TAGCAGGCTAAGTG-CTAGTGATCTGAATTAGGTTATAAACC
1 TAGCAGGCTAAGTGCCGA-TGATCTGAATCAGGTTATAAACC
47248651 TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACC
1 TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACC
* * *
47248692 TAGAAAGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACC
1 TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACC
* *
47248733 TAGCAGGCTAAGTGCC-AGTGATCTGAATCAGGCTATAAGCC
1 TAGCAGGCTAAGTGCCGA-TGATCTGAATCAGGTTATAAACC
* *
47248774 TAGCAGGCTATGTGCCGGTGAATCTG
1 TAGCAGGCTAAGTGCCGATG-ATCTG
47248800 TTAAATTAAG
Statistics
Matches: 209, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
40 2 0.01
41 200 0.96
42 7 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACC
Found at i:47248722 original size:123 final size:123
Alignment explanation
Indices: 47248528--47248799 Score: 436
Period size: 123 Copynumber: 2.2 Consensus size: 123
47248518 ACTATACGTT
* * * *
47248528 TAGCAGGCTAAGTGTCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGATGATCT
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGAAAGCTAAGTGCCGATGATCT
* * *
47248593 GAATCAGGTTATAAACCTAGCAGGCTAAGTGCTAGTGATCTGAATTAGGTTATAAACC
66 GAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAACC
* *
47248651 TAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAACCTAGAAAGCTAAGTGCCGGTGATCT
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGAAAGCTAAGTGCCGATGATCT
*
47248716 GAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGCC
66 GAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAACC
*
47248774 TAGCAGGCTATGTGCCGGTGAATCTG
1 TAGCAGGCTAAGTGCCGGTG-ATCTG
47248800 TTAAATTAAG
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
123 131 0.96
124 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (123 bp):
TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGAAAGCTAAGTGCCGATGATCT
GAATCAGGTTATAAACCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAACC
Found at i:47260817 original size:43 final size:43
Alignment explanation
Indices: 47260756--47260841 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
47260746 CACTAAAATT
47260756 ATATAAAACCCGTTTCATATTTATTTCGATTGGATCCTCTATG
1 ATATAAAACCCGTTTCATATTTATTTCGATTGGATCCTCTATG
*
47260799 ATATAAAACCCGTTTCATATTTATTTCGATTGGATTCTCTATG
1 ATATAAAACCCGTTTCATATTTATTTCGATTGGATCCTCTATG
47260842 TGTGCGCATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (43 bp):
ATATAAAACCCGTTTCATATTTATTTCGATTGGATCCTCTATG
Found at i:47269407 original size:24 final size:23
Alignment explanation
Indices: 47269362--47269407 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
47269352 TTTAATTTAA
*
47269362 AAAATAAAAAAAAACATTTTTTG
1 AAAATAAAAAAAAACATGTTTTG
47269385 AAAATGAAAATAAAAA-ATGTTTT
1 AAAAT-AAAA-AAAAACATGTTTT
47269408 CAGAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAATAAAAAAAAACATGTTTTG
Found at i:47281600 original size:16 final size:18
Alignment explanation
Indices: 47281568--47281600 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47281558 GTTAATAGAA
47281568 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
47281586 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
47281601 TATCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:47291112 original size:24 final size:24
Alignment explanation
Indices: 47291067--47291113 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
47291057 ATTACTACTG
*
47291067 TATATACATGCGCATAGGTTTTTT
1 TATATACATGCACATAGGTTTTTT
*
47291091 TATATA-ATGCACATATGTTTTTT
1 TATATACATGCACATAGGTTTTTT
47291114 AGTATATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (24 bp):
TATATACATGCACATAGGTTTTTT
Found at i:47291145 original size:25 final size:24
Alignment explanation
Indices: 47291103--47291149 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
47291093 TATAATGCAC
*
47291103 ATATGTTTTTTAGTATATGTTTAT
1 ATATATTTTTTAGTATATGTTTAT
*
47291127 ATATATTTTTTATTCATATGTTT
1 ATATATTTTTTAGT-ATATGTTT
47291150 TATTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (24 bp):
ATATATTTTTTAGTATATGTTTAT
Found at i:47302879 original size:44 final size:44
Alignment explanation
Indices: 47302809--47302916 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
47302799 CTAAAGTACC
* * *
47302809 TTTCCCAC-AAATGCCGCTAAAGAACATGACCTTTAGTGGCGCT
1 TTTCCCACAAAATGCCGCTAAACAACATGACCTTTAGCGGCACT
* *
47302852 TTTCCCACAAAACGCCGCTAAACAACATGATCTTTAGCGGCACT
1 TTTCCCACAAAATGCCGCTAAACAACATGACCTTTAGCGGCACT
* *
47302896 TTTACTA-AAAATGCCGCTAAA
1 TTTCCCACAAAATGCCGCTAAA
47302917 GGTCATATTC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 21 0.38
44 35 0.62
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (44 bp):
TTTCCCACAAAATGCCGCTAAACAACATGACCTTTAGCGGCACT
Found at i:47302929 original size:43 final size:42
Alignment explanation
Indices: 47302860--47302972 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
47302850 CTTTTCCCAC
*
47302860 AAAACGCCGCTAAACA-ACATGA-TCTTTAGCGGCACTTTTACTA
1 AAAACGCCGCTAAA-AGTCAT-ATTCTTT-GCGGCACTTTTACTA
* * * ** *
47302903 AAAATGCCGCTAAAGGTCATATTCTTTGCTGCGTTTTTAGTA
1 AAAACGCCGCTAAAAGTCATATTCTTTGCGGCACTTTTACTA
* *
47302945 AAAGCGCCGCTAAAAGTCATGTTCTTTG
1 AAAACGCCGCTAAAAGTCATATTCTTTG
47302973 GCAGCGTTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 36 0.63
43 21 0.37
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (42 bp):
AAAACGCCGCTAAAAGTCATATTCTTTGCGGCACTTTTACTA
Found at i:47303387 original size:66 final size:65
Alignment explanation
Indices: 47303270--47303407 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 65
47303260 TCATATTCTG
* * * * *
47303270 AAGTTGTAGCTGGAGTTCGTCATGTTTTCTACTTGCCTCTGCTTCCCTCGATGTTGCCTCCGCTT
1 AAGTTGTAGCTGGAATTCGTCATATTTTCTA-TTGCCTCTACTTCCCTCGATGCTGCCTCCACTT
47303335 T
65 T
* **
47303336 AAGTTGTAGCTGGAATTCTTCATATTTTCT-TTGAGCCTCTACTTCTGTCGATGCTGCCTCCACT
1 AAGTTGTAGCTGGAATTCGTCATATTTTCTATT--GCCTCTACTTCCCTCGATGCTGCCTCCACT
47303400 TT
64 TT
47303402 AAGTTG
1 AAGTTG
47303408 AGCAATTTGC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 2 0.03
66 60 0.97
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (65 bp):
AAGTTGTAGCTGGAATTCGTCATATTTTCTATTGCCTCTACTTCCCTCGATGCTGCCTCCACTTT
Found at i:47306895 original size:18 final size:20
Alignment explanation
Indices: 47306864--47306901 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
47306854 CAAATCAGAA
47306864 ATAAATAAATAAACAAAAAT
1 ATAAATAAATAAACAAAAAT
47306884 ATAAAT-AA-AAACAAAAAT
1 ATAAATAAATAAACAAAAAT
47306902 TATTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
ATAAATAAATAAACAAAAAT
Found at i:47308353 original size:23 final size:23
Alignment explanation
Indices: 47308327--47308399 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
47308317 GTTTCATTAC
47308327 TTTAAATTCATTCTATTTGTTCT
1 TTTAAATTCATTCTATTTGTTCT
* ** *
47308350 TTTAAA-TC-TACGT-TTCATTAT
1 TTTAAATTCATTC-TATTTGTTCT
*
47308371 TTTAAATTCATTCTATATGTTCT
1 TTTAAATTCATTCTATTTGTTCT
47308394 TTTAAA
1 TTTAAA
47308400 GCTATTATGT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 13 0.35
22 6 0.16
23 18 0.49
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTAAATTCATTCTATTTGTTCT
Found at i:47312064 original size:22 final size:23
Alignment explanation
Indices: 47312030--47312074 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
47312020 TTAAGGTTTT
**
47312030 AAAATTAATTAAATCAATTATTA
1 AAAATTAATTAAAAAAATTATTA
*
47312053 AAAATTTA-TAAAAAAATTATTA
1 AAAATTAATTAAAAAAATTATTA
47312075 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTAATTAAAAAAATTATTA
Found at i:47313475 original size:16 final size:16
Alignment explanation
Indices: 47313456--47313486 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47313446 CAGATACAAG
47313456 ATATGAAAATCACATT
1 ATATGAAAATCACATT
*
47313472 ATATTAAAATCACAT
1 ATATGAAAATCACAT
47313487 GACAAGCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (16 bp):
ATATGAAAATCACATT
Found at i:47315562 original size:23 final size:22
Alignment explanation
Indices: 47315531--47315573 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
47315521 TGAAGTATGG
* *
47315531 AAAAAAATAAGAATTAAAATGA
1 AAAAAAATAAAAAATAAAATGA
47315553 AAAAATAATAAAAAATAAAAT
1 AAAAA-AATAAAAAATAAAAT
47315574 AATACATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAAAAATAAAAAATAAAATGA
Found at i:47327057 original size:21 final size:21
Alignment explanation
Indices: 47327025--47327065 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
47327015 GAACATTTGG
47327025 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
47327046 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
47327066 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:47329577 original size:16 final size:19
Alignment explanation
Indices: 47329556--47329598 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 19
47329546 AAATATAAGG
47329556 ATTAAAATGAAAA-AA-A-
1 ATTAAAATGAAAATAATAC
47329572 ATTAAAATGAAAATAATAC
1 ATTAAAATGAAAATAATAC
47329591 ATTAAAAT
1 ATTAAAAT
47329599 TTTGTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.54
17 2 0.08
18 1 0.04
19 8 0.33
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
ATTAAAATGAAAATAATAC
Found at i:47336225 original size:55 final size:55
Alignment explanation
Indices: 47336154--47336265 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
47336144 TTAATAAACC
* * *
47336154 AATTTAGAATAGTATTTAGTATATTTTGGTGATGATTTCTATTAATGATAAATTT
1 AATTTAGAATAATATTTAGTAGATTTTGATGATGATTTCTATTAATGATAAATTT
*
47336209 AATTTGGAATAATATTTAGTAGATTTTGATGATGATTTCTATTAATGATAAATTT
1 AATTTAGAATAATATTTAGTAGATTTTGATGATGATTTCTATTAATGATAAATTT
47336264 AA
1 AA
47336266 GATTAACTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (55 bp):
AATTTAGAATAATATTTAGTAGATTTTGATGATGATTTCTATTAATGATAAATTT
Found at i:47336599 original size:22 final size:20
Alignment explanation
Indices: 47336564--47336605 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
47336554 TCATTGTTGA
*
47336564 GAAATTGAAGAATTAGGCTT
1 GAAATTGAAGAATTAAGCTT
47336584 GAAATTGATAGAAATTAAGCTT
1 GAAATTGA-AG-AATTAAGCTT
47336606 AGGTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (20 bp):
GAAATTGAAGAATTAAGCTT
Found at i:47339147 original size:21 final size:21
Alignment explanation
Indices: 47339118--47339158 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47339108 GGACAATGGA
47339118 TAGAAATATGT-TATATGATAT
1 TAGAAATATGTGTAT-TGATAT
*
47339139 TAGATATATGTGTATTGATA
1 TAGAAATATGTGTATTGATA
47339159 ATGAATTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (21 bp):
TAGAAATATGTGTATTGATAT
Found at i:47339446 original size:21 final size:21
Alignment explanation
Indices: 47339422--47339463 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47339412 TCAAGTCAAG
47339422 TTAGTAAGGATTATAAATGAA
1 TTAGTAAGGATTATAAATGAA
47339443 TTAGTAAGGATTATAAATGAA
1 TTAGTAAGGATTATAAATGAA
47339464 AGCTTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (21 bp):
TTAGTAAGGATTATAAATGAA
Found at i:47342149 original size:24 final size:22
Alignment explanation
Indices: 47342117--47342162 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
47342107 ACTTTCCATG
47342117 AAAAAATC-ATTACAAACAAACAT
1 AAAAAATCAATT--AAACAAACAT
47342140 AAAAATATCAATTAAACAAACAT
1 AAAAA-ATCAATTAAACAAACAT
47342163 GTGAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 15 0.71
24 3 0.14
25 3 0.14
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAAATCAATTAAACAAACAT
Found at i:47342359 original size:18 final size:20
Alignment explanation
Indices: 47342336--47342374 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
47342326 CCTTTTTTAA
*
47342336 TATATTTTTTC-AAG-TCTT
1 TATATTATTTCTAAGTTCTT
47342354 TATATTATTTCTAAGTTCTT
1 TATATTATTTCTAAGTTCTT
47342374 T
1 T
47342375 CTTCAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (20 bp):
TATATTATTTCTAAGTTCTT
Found at i:47343147 original size:12 final size:13
Alignment explanation
Indices: 47343130--47343161 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47343120 AGGGACACAC
47343130 GCCCGTGTCC-CA
1 GCCCGTGTCCGCA
47343142 GCCCGTGTCCGCA
1 GCCCGTGTCCGCA
47343155 -CCCGTGT
1 GCCCGTGT
47343162 AACTTACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 17 0.89
13 2 0.11
ACGTcount: A:0.06, C:0.47, G:0.28, T:0.19
Consensus pattern (13 bp):
GCCCGTGTCCGCA
Found at i:47349398 original size:21 final size:21
Alignment explanation
Indices: 47349363--47349402 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47349353 TAACTTTTTG
*
47349363 AATTTTATTTAATTTATTTATA
1 AATTTTATATAATTT-TTTATA
47349385 AATTTTA-ATAATTTTTTA
1 AATTTTATATAATTTTTTA
47349403 CAAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTATATAATTTTTTATA
Found at i:47352563 original size:41 final size:42
Alignment explanation
Indices: 47352500--47352582 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 42
47352490 CGCTCCCCCC
47352500 CCCCCAAAAAAAAAAAAAAAGAAAAAAGAAAAGGAAAAAGAA
1 CCCCCAAAAAAAAAAAAAAAGAAAAAAGAAAAGGAAAAAGAA
47352542 CCCCC-AAAAAAAAAAAAAAGAAAAAAGAAAAGGAAAAAGAA
1 CCCCCAAAAAAAAAAAAAAAGAAAAAAGAAAAGGAAAAAGAA
47352583 AAAGAAAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 36 0.88
42 5 0.12
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (42 bp):
CCCCCAAAAAAAAAAAAAAAGAAAAAAGAAAAGGAAAAAGAA
Found at i:47352577 original size:6 final size:6
Alignment explanation
Indices: 47352547--47352589 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
47352537 AAGAACCCCC
*
47352547 AAAA-A AAAA-A AAAAGAA AAAAGA AAAGGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AA
47352590 GATTGTTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 9 0.26
6 19 0.56
7 6 0.18
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:47365064 original size:34 final size:32
Alignment explanation
Indices: 47364964--47365074 Score: 122
Period size: 34 Copynumber: 3.5 Consensus size: 32
47364954 GATTTAGGAA
47364964 TTTAAAAAA--AA-TAAATTAGGGTTTATAGTT
1 TTTAAAAAATTAATTAAATTAGGGTTTAT-GTT
** * *
47364994 TTTAAAAAATTAATTAAATTAGATTTTAGGGAT
1 TTTAAAAAATTAATTAAATTAGGGTTTA-TGTT
47365027 TTTAAATAAATTAATTAAATTAGGGTTTATGTTT
1 TTTAAA-AAATTAATTAAATTAGGGTTTATG-TT
47365061 TTTAAAAAA-TAATT
1 TTTAAAAAATTAATT
47365075 TTGTGTTAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
30 9 0.13
32 7 0.10
33 24 0.36
34 27 0.40
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (32 bp):
TTTAAAAAATTAATTAAATTAGGGTTTATGTT
Found at i:47365307 original size:126 final size:126
Alignment explanation
Indices: 47365158--47365931 Score: 971
Period size: 126 Copynumber: 6.2 Consensus size: 126
47365148 AATTTTGTTT
* * * * * *
47365158 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAAAAGGTTCGGAAAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAAAAAATAGTGTCAAAA
* * * * *
47365223 ACGCTTCAAGCAGGATGTACTGTTAGTAAAATTACTGAATAAAGCTCCCACATGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
47365284 TTTTTCTAAAGTAGTTCATGAAAAAATAATTTAGAGAAGACAGTTCTG-AAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * * *
47365348 ATGTTTCAAGCAGGATGCACTATAAGCAAAATTATTGAAAAAAGCTCCCATGTCGATGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
47365409 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTCGA-AAAGACGGTTCTAAAAAAATAGTGTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAA-ACGGTTCTGAAAAAATAGTGTCAAA
47365473 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
47365535 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGA-AAAGACGGTTCTAAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAA-ACGGTTCTGAAAAAATAGTGTCAAA
* * * * *
47365599 AACGCTTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGTTCCCACGTGAAAGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
47365661 TTTTTCTACAGTAGTTCTTG-AAAAATAATTTTTAGAAGACGTTTTTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAAAAAATAGTGTCAAAA
* * * ** *
47365725 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGGTCACACGTGGGTGATC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
47365786 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTCAGAAGACGTTTTTGAAATAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAAAAAATAGTGTCAAAA
* ** * * ** **
47365851 ATGCTTCAAATAGGATGCACTGTCAGCAAAATTACTGAAAAATGGTCATACGTGGGTGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
47365912 TTTTTCTACAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
47365932 CTTGGCCTTA
Statistics
Matches: 574, Mismatches: 70, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
124 2 0.00
125 209 0.36
126 363 0.63
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:47365687 original size:251 final size:249
Alignment explanation
Indices: 47365158--47365928 Score: 997
Period size: 251 Copynumber: 3.1 Consensus size: 249
47365148 AATTTTGTTT
* * * *
47365158 TTTTTCTACAGTAGTT-TCAGAAAAATTAATTTTGAGAAA-AAGGTTCGGAAAAAATAATGTCAA
1 TTTTTCTACAGTAGTTCT-TGAAAAA-TAATTTTGA-AAAGACGGTTCTGAAAAAATAGTGTCAA
* * * * *
47365221 AAACGCTTCAAGCAGGATGTACTGTTAGTAAAATTACTGAATAAAGCTCCCACATGGACGCTCTT
63 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
* * * * *
47365286 TTTCTAAAGTAGTTCATGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAATAGTGTCAAAAATG
128 TTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAATG
* * * * *
47365351 TTTCAAGCAGGATGCACTATAAGCAAAATTATTGAAAAAAGCTCCCATGTCGATGCTT
193 CTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGT-GATGCTC
* * * *
47365409 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTCGAAAAGACGGTTCTAAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCTTG-AAAAATAATTTTGAAAAGACGGTTCTGAAAAAATAGTGTCAAAA
47365474 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
* *
47365539 TCTACAGTAGTTCCTGAAAAAATAATTTTGAAAAGACGGTTCTAAAAAAATAGTGTCAAAAACGC
130 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAAATGC
* * *
47365604 TTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGTTCCCACGTGAAAGCTC
194 TTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTG-ATGCTC
* * * *
47365661 TTTTTCTACAGTAGTTCTTGAAAAATAATTTTTAGAAGACGTTTTTGAAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAAAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* * * ** *
47365726 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGGTCACACGTGGGTGATCTTTTT
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTT
* * * *
47365791 CTACAGTAGTTCCTGAAAAAATAATTTTCAGAAGACGTTTTTGAAATAATAGTGTCAAAAATGCT
131 CTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAAATGCT
** * * * ** *
47365856 TCAAATAGGATGCACTGTCAGCAAAATTACTGAAAAATGGTCATACGTGGGTGCTC
195 TCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGT-GATGCTC
47365912 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
47365929 CTGCTTGGCC
Statistics
Matches: 455, Mismatches: 59, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
250 3 0.01
251 361 0.79
252 91 0.20
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (249 bp):
TTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAAAAGACGGTTCTGAAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTT
CTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAATGCTT
CAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGATGCTC
Found at i:47365859 original size:377 final size:377
Alignment explanation
Indices: 47365158--47365931 Score: 1034
Period size: 377 Copynumber: 2.1 Consensus size: 377
47365148 AATTTTGTTT
* * * *
47365158 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAAAAGGTTCGGAAAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAAAGGTTCGAAAAAAATAATGTCAAAA
* * * * * * * *
47365223 ACGCTTCAAGCAGGATGTACTGTTAGTAAAATTACTGAATAAAGCTCCCACATGGACGCTCTTTT
66 ACGCTTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGAAAGCTCTTTT
* *
47365288 TCTAAAGTAGTTCATGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAATAGTGTCAAAAATGTT
131 TCTAAAGTAGTTCATGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAATAGTGTCAAAAACGCT
* * * * *
47365353 TCAAGCAGGATGCACTATAAGCAAAATTATTGAAAAAAGCTCCCATGTCGATGCTTTTTTTCTAC
196 TCAAGCAGGATGCACTATAAGCAAAATTACTGAAAAAAGCTCACACGTCGATGATCTTTTTCTAC
47365418 AGTAGTTCCTGAAAAAATAATTTCGAAAAGACGGTTCTAAAAAAATAGTGTAAAAAACGCTTCAA
261 AGTAGTTCCTGAAAAAATAATTTCGAAAAGACGGTTCTAAAAAAATAGTGTAAAAAACGCTTCAA
* *
47365483 GCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
326 ACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
* * *
47365535 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGA-AAAGACGGTTCTAAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAA-AAGGTTCGAAAAAAATAATGTCAAA
* *
47365599 AACGCTTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGTTCCCACGTGAAAGCTCTTT
65 AACGCTTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGAAAGCTCTTT
* * ** *
47365664 TTCTACAGTAGTTCTTG-AAAAATAATTTTTAGAAGAC-GTTTTTGAAAAAATAGTGTCAAAAAC
130 TTCTAAAGTAGTTCATGAAAAAATAATTTAGAGAAGACAG-TTCTG-AAAAATAGTGTCAAAAAC
* * * * * *
47365727 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAATGGTCACACGTGGGTGATCTTTTTC
193 GCTTCAAGCAGGATGCACTATAAGCAAAATTACTGAAAAAAGCTCACACGTCGATGATCTTTTTC
* * * * * * *
47365792 TACAGTAGTTCCTGAAAAAATAATTTTC-AGAAGACGTTTTTGAAATAATAGTGTCAAAAATGCT
258 TACAGTAGTTCCTGAAAAAATAA-TTTCGAAAAGACGGTTCTAAAAAAATAGTGTAAAAAACGCT
* * * * **
47365856 TCAAATAGGATGCACTGTCAGCAAAATTACTGAAAAATGGTCATACGTGGGTGCTC
322 TCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
47365912 TTTTTCTACAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
47365932 CTTGGCCTTA
Statistics
Matches: 343, Mismatches: 50, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
375 1 0.00
376 25 0.07
377 313 0.91
378 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (377 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAAAGGTTCGAAAAAAATAATGTCAAAA
ACGCTTCAAGCAGAATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGAAAGCTCTTTT
TCTAAAGTAGTTCATGAAAAAATAATTTAGAGAAGACAGTTCTGAAAAATAGTGTCAAAAACGCT
TCAAGCAGGATGCACTATAAGCAAAATTACTGAAAAAAGCTCACACGTCGATGATCTTTTTCTAC
AGTAGTTCCTGAAAAAATAATTTCGAAAAGACGGTTCTAAAAAAATAGTGTAAAAAACGCTTCAA
ACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGACGCTC
Found at i:47367477 original size:41 final size:41
Alignment explanation
Indices: 47367420--47367581 Score: 279
Period size: 41 Copynumber: 4.0 Consensus size: 41
47367410 TGAGTTTTTG
47367420 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
47367461 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
47367502 AGACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
47367543 GGGCCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
47367582 CCGTTTTTGA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 114 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:47367969 original size:14 final size:14
Alignment explanation
Indices: 47367952--47367988 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
47367942 GGGTTTAATA
47367952 TATATGGTTTAGGG
1 TATATGGTTTAGGG
*
47367966 TATATGATTTAGGG
1 TATATGGTTTAGGG
47367980 TATATGGTT
1 TATATGGTT
47367989 AATTTAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:47368065 original size:14 final size:15
Alignment explanation
Indices: 47368037--47368069 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
47368027 AAGGTTTATA
47368037 GATTATGGAATTAGG
1 GATTATGGAATTAGG
47368052 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
47368066 GATT
1 GATT
47368070 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:47368311 original size:7 final size:7
Alignment explanation
Indices: 47368288--47368332 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
47368278 TAAATAAGAT
47368288 TTAGGGG
1 TTAGGGG
**
47368295 TTAGTAG
1 TTAGGGG
47368302 TTAGGGG
1 TTAGGGG
47368309 TTAGGGG
1 TTAGGGG
*
47368316 TTAGAGG
1 TTAGGGG
*
47368323 TTAGAGG
1 TTAGGGG
47368330 TTA
1 TTA
47368333 AGAGTTAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:47368312 original size:21 final size:21
Alignment explanation
Indices: 47368288--47368350 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
47368278 TAAATAAGAT
47368288 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGGGG
*
47368309 TTAGGGGTTAG-AGGTTAGAGG
1 TTAGGGGTTAGTA-GTTAGGGG
* * *
47368330 TTAAGAGTTAGTGATTTAGGG
1 TTAGGGGTTAGT-AGTTAGGG
47368351 TTTAAAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.79
22 5 0.15
23 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGGGG
Found at i:47369594 original size:30 final size:30
Alignment explanation
Indices: 47369541--47369597 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
47369531 CTGCAGAAGA
* * **
47369541 AGAAGAAACAGCTGTTGTTGAACAAGAACG
1 AGAAGAAACAACTGTCGCCGAACAAGAACG
47369571 AGAAGAAACAACTGTCGCCGAACAAGA
1 AGAAGAAACAACTGTCGCCGAACAAGA
47369598 GTCTGTTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.12
Consensus pattern (30 bp):
AGAAGAAACAACTGTCGCCGAACAAGAACG
Found at i:47374058 original size:43 final size:43
Alignment explanation
Indices: 47373997--47374108 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
47373987 GGAAAATCGT
* *
47373997 CGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTGGTAAAAGCGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTAGAAAAAGCGC
* *
47374040 CGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTAGAAAAAGCGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTAGAAAAAGCGC
* *
47374083 TGCTAAAAGTCTTGGTCTTTAGCGGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGC
47374109 TTTTTTTTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
CGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTAGAAAAAGCGC
Found at i:47374135 original size:43 final size:42
Alignment explanation
Indices: 47373997--47374134 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 42
47373987 GGAAAATCGT
* ** *
47373997 CGCTAAAGGTCTTGGTCTTTAGCGGCATTTGTGGTAAAAGCGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGC-TTTTTTATAAAAACGC
* * * *
47374040 CGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTAGAAAAAGCGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGCTTTTTTATAAAAA-CGC
* * *
47374083 TGCTAAAAGTCTTGGTCTTTAGCGGCTTTTTTTTCTAAAAACGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGC--TTTTTTATAAAAACGC
*
47374127 CACTAAAG
1 CGCTAAAG
47374135 TTAGCGACAC
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
42 6 0.08
43 51 0.69
44 8 0.11
45 9 0.12
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
CGCTAAAGGTCTTGGTCTTTAGCGGCTTTTTTATAAAAACGC
Found at i:47376660 original size:43 final size:43
Alignment explanation
Indices: 47376589--47376713 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
47376579 TAGGATTTCG
*
47376589 ATATATGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA
1 ATATATGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATC-A
* * *
47376633 CT-TGTGTTTACGTGTAAGACC-CTGTCTGGGATAG-TGGCATCA
1 ATATATGTTTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCA
* *
47376675 ATATATGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATATATGTTTACGTGTAAGACCACGTCTGGGACGTTGGC
47376714 GTTGTACGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
ATATATGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCA
Found at i:47376987 original size:36 final size:36
Alignment explanation
Indices: 47376919--47376992 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
47376909 ACAATTGAAC
* * * * *
47376919 TTATAAGTGATTTGACCTATTGATGTATTTGTAATA
1 TTATAAGTGATTCGACATAATGATATAATTGTAATA
*
47376955 TTATAAGTGATTCGGCATAATGATATAATTGTAATA
1 TTATAAGTGATTCGACATAATGATATAATTGTAATA
47376991 TT
1 TT
47376993 TAAAAATGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (36 bp):
TTATAAGTGATTCGACATAATGATATAATTGTAATA
Found at i:47379058 original size:18 final size:17
Alignment explanation
Indices: 47379025--47379063 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
47379015 TTTTATAAAT
47379025 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
47379043 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
47379060 TGTG
1 TGTG
47379064 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:47389269 original size:18 final size:18
Alignment explanation
Indices: 47389248--47389282 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47389238 AAAAGGAAAT
*
47389248 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
47389266 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
47389283 TGCACCTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.26
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:47390108 original size:32 final size:32
Alignment explanation
Indices: 47390070--47390133 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
47390060 ACCTAATTAA
47390070 ATAAATTTTTAGCATAAAATTATATTTTAAAT
1 ATAAATTTTTAGCATAAAATTATATTTTAAAT
47390102 ATAAATTTTTAGCATAAAATTATATTTTAAAT
1 ATAAATTTTTAGCATAAAATTATATTTTAAAT
47390134 CTATGTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
ATAAATTTTTAGCATAAAATTATATTTTAAAT
Found at i:47390128 original size:19 final size:19
Alignment explanation
Indices: 47390074--47390129 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
47390064 AATTAAATAA
47390074 ATTTTTAGCATAAAATTAT
1 ATTTTTAGCATAAAATTAT
* *
47390093 A-TTTT---A-AATA-TAA
1 ATTTTTAGCATAAAATTAT
47390106 ATTTTTAGCATAAAATTAT
1 ATTTTTAGCATAAAATTAT
47390125 ATTTT
1 ATTTT
47390130 AAATCTATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 1 0.04
17 1 0.04
18 7 0.26
19 8 0.30
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (19 bp):
ATTTTTAGCATAAAATTAT
Found at i:47394682 original size:14 final size:15
Alignment explanation
Indices: 47394646--47394682 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
47394636 CAAACATTTG
47394646 TCAACATTAATTATT
1 TCAACATTAATTATT
*
47394661 T-AATATTAATTATT
1 TCAACATTAATTATT
47394675 TCAA-ATTA
1 TCAACATTA
47394683 CATTTTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (15 bp):
TCAACATTAATTATT
Found at i:47394779 original size:16 final size:16
Alignment explanation
Indices: 47394758--47394804 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
47394748 TTATTAAATT
47394758 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
47394774 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
47394789 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
47394805 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:47394791 original size:120 final size:120
Alignment explanation
Indices: 47394653--47394921 Score: 488
Period size: 120 Copynumber: 2.2 Consensus size: 120
47394643 TTGTCAACAT
*
47394653 TAAT-TATTTAATATTAATTAT-TTCAAATTACATTTTATAGTATCATATATTATGATTTGAGTA
1 TAATATATTTAATAATAATTATGTT-AAATTACATTTTATAGTATCATATATTATGATTTGAGTA
47394716 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
47394772 TAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAA
1 TAATATATTTAATAATAATTATGTTAAATTACATTTTATAGTATCATATATTATGATTTGAGTAA
47394837 ATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
66 ATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
47394892 TAATATATTTAATAATAATTATGTTTAAAT
1 TAATATATTTAATAATAATTATG-TTAAAT
47394922 ATGATTAAAT
Statistics
Matches: 145, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
119 4 0.03
120 133 0.92
121 8 0.06
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
TAATATATTTAATAATAATTATGTTAAATTACATTTTATAGTATCATATATTATGATTTGAGTAA
ATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:47394882 original size:61 final size:61
Alignment explanation
Indices: 47394697--47394884 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
47394687 TTATAGTATC
47394697 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * *
47394758 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA-AAT
*
47394816 C
61 T
47394817 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
47394878 ATATATT
1 ATATATT
47394885 TTAATTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
58 3 0.03
59 32 0.33
60 20 0.21
61 39 0.40
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:47394899 original size:16 final size:16
Alignment explanation
Indices: 47394878--47394919 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47394868 TTATTAAATT
*
47394878 ATATATTTTAATTATA
1 ATATATTTTAATAATA
47394894 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
47394909 AT-TATGTTTAA
1 ATATAT-TTTAA
47394920 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:47394904 original size:15 final size:15
Alignment explanation
Indices: 47394869--47394910 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47394859 TTAAGAATTT
*
47394869 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47394883 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47394897 TATTTAATAATAAT
1 TATTTAATTATAAT
47394911 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:47403451 original size:18 final size:19
Alignment explanation
Indices: 47403411--47403452 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47403401 GTTGTAAGAT
*
47403411 GAAAAAGTTCAGATAATAG
1 GAAAAAGTTCAGAAAATAG
47403430 GAAAAAGGTTC-GAAAATA-
1 GAAAAA-GTTCAGAAAATAG
47403448 GAAAA
1 GAAAA
47403453 GAGAGATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (19 bp):
GAAAAAGTTCAGAAAATAG
Found at i:47407027 original size:104 final size:104
Alignment explanation
Indices: 47406907--47407338 Score: 785
Period size: 104 Copynumber: 4.2 Consensus size: 104
47406897 AATGGATATC
*
47406907 GCACTTAGCAACCCCTCGGAGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
47406972 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
47407011 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
47407076 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
47407115 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
47407180 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
47407219 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* * * *
47407284 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
**
47407323 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
47407339 TTTATATACA
Statistics
Matches: 320, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
104 319 1.00
105 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
Found at i:47407700 original size:29 final size:29
Alignment explanation
Indices: 47407667--47407730 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47407657 TAATCCACCA
47407667 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
47407696 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
47407726 CCCAA
1 CCCAA
47407731 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:47407704 original size:30 final size:30
Alignment explanation
Indices: 47407674--47407730 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47407664 CCACCCAACT
47407674 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
47407703 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
47407731 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:47413066 original size:17 final size:17
Alignment explanation
Indices: 47413033--47413066 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47413023 GTGATTAATG
* *
47413033 GCAAAATTATAATAAAA
1 GCAAAATTAAAACAAAA
47413050 GCAAAATTAAAACAAAA
1 GCAAAATTAAAACAAAA
47413067 TTAAAGAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.09, G:0.06, T:0.18
Consensus pattern (17 bp):
GCAAAATTAAAACAAAA
Found at i:47413906 original size:39 final size:40
Alignment explanation
Indices: 47413829--47413951 Score: 169
Period size: 39 Copynumber: 3.1 Consensus size: 40
47413819 AATTATTGTA
*
47413829 TGAATGCACATATGTGCTCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATATGTGCTCCTGTTTGTACTTCAATACCCC
47413869 TGAATGCACATATGTGCTCCT-TTTGTACTTCAATACCCC
1 TGAATGCACATATGTGCTCCTGTTTGTACTTCAATACCCC
* * * ** *
47413908 TAAATACACATACGTGCT-CTGTTTGTACTTTGATAACCC
1 TGAATGCACATATGTGCTCCTGTTTGTACTTCAATACCCC
47413947 TGAAT
1 TGAAT
47413952 CAAATAATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.03
39 51 0.69
40 21 0.28
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (40 bp):
TGAATGCACATATGTGCTCCTGTTTGTACTTCAATACCCC
Found at i:47416078 original size:20 final size:21
Alignment explanation
Indices: 47416036--47416078 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47416026 ATAAATTTTT
* *
47416036 AAAAAATAATTTCTTTTGCTA
1 AAAAAATAATTTCCTTTGATA
47416057 AAAAAATAATTTCCTTT-ATA
1 AAAAAATAATTTCCTTTGATA
47416077 AA
1 AA
47416079 CTATGACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAAATAATTTCCTTTGATA
Found at i:47420357 original size:19 final size:19
Alignment explanation
Indices: 47420315--47420355 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
47420305 ATTAAAATAC
* *
47420315 TTTTAAATAATATAATTTA
1 TTTTAAATAATAAAAATTA
47420334 TTTTAAAT-ATAAAAATTA
1 TTTTAAATAATAAAAATTA
47420352 TTTT
1 TTTT
47420356 TATAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAAATAATAAAAATTA
Found at i:47420820 original size:23 final size:21
Alignment explanation
Indices: 47420794--47420846 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
47420784 TATTCCACTT
*
47420794 AATATTATTATTTATTTAATATA
1 AATATTATT-TTAATTT-ATATA
47420817 AATATTACTTTTAATTTATATA
1 AATATTA-TTTTAATTTATATA
47420839 AATATTAT
1 AATATTAT
47420847 CATGAGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 1 0.04
22 12 0.43
23 13 0.46
24 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTATTTTAATTTATATA
Found at i:47420829 original size:22 final size:23
Alignment explanation
Indices: 47420794--47420845 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
47420784 TATTCCACTT
*
47420794 AATATTATTATTT-ATTTAATATA
1 AATATTACTATTTAATTT-ATATA
47420817 AATATTACT-TTTAATTTATATA
1 AATATTACTATTTAATTTATATA
47420839 AATATTA
1 AATATTA
47420846 TCATGAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTACTATTTAATTTATATA
Found at i:47426730 original size:32 final size:32
Alignment explanation
Indices: 47426665--47426735 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
47426655 GAAAATAATC
*
47426665 TTCAAATTTTCATAATATTTATATAATTTTTT
1 TTCAAATTTTCATAATATATATATAATTTTTT
*
47426697 TTCAAATTTTTATAA-ATATATA-AATATTATTT
1 TTCAAATTTTCATAATATATATATAAT-TT-TTT
*
47426729 TTAAAAT
1 TTCAAAT
47426736 ATATAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.09
31 8 0.24
32 23 0.68
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (32 bp):
TTCAAATTTTCATAATATATATATAATTTTTT
Found at i:47427047 original size:21 final size:20
Alignment explanation
Indices: 47427009--47427055 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
47426999 TTTACTCAAA
*
47427009 TAAA-TTTATTTGAATGGACT
1 TAAATTTTATTTCAATGGA-T
*
47427029 TAAATTTTATTTCATTGGAT
1 TAAATTTTATTTCAATGGAT
*
47427049 TCAATTT
1 TAAATTT
47427056 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (20 bp):
TAAATTTTATTTCAATGGAT
Found at i:47436276 original size:22 final size:21
Alignment explanation
Indices: 47436227--47436316 Score: 135
Period size: 21 Copynumber: 4.2 Consensus size: 21
47436217 TAGGGTTATG
* * *
47436227 GGGTTTTTATGTTAAGGGTTG
1 GGGTTTTTAAGTTAACGGTTA
47436248 GGGTTTTTAAGTTAACGGTTA
1 GGGTTTTTAAGTTAACGGTTA
*
47436269 GGGTTTTTAAGTTAAGGGTTTA
1 GGGTTTTTAAGTTAACGG-TTA
47436291 GGGTTTTTAAGTTAACGGTTA
1 GGGTTTTTAAGTTAACGGTTA
47436312 GGGTT
1 GGGTT
47436317 AGGGTTTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 43 0.68
22 20 0.32
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.44
Consensus pattern (21 bp):
GGGTTTTTAAGTTAACGGTTA
Found at i:47436309 original size:43 final size:42
Alignment explanation
Indices: 47436227--47436316 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 42
47436217 TAGGGTTATG
* *
47436227 GGGTTTTTATGTTAAGGGTTGGGGTTTTTAAGTTAACGGTTA
1 GGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAACGGTTA
47436269 GGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAACGGTTA
1 GGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAACGGTTA
47436312 GGGTT
1 GGGTT
47436317 AGGGTTTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 17 0.38
43 28 0.62
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.44
Consensus pattern (42 bp):
GGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAACGGTTA
Found at i:47436401 original size:21 final size:21
Alignment explanation
Indices: 47436377--47436426 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
47436367 ATAAATTAGT
*
47436377 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGAG
*
47436398 TTAGAGTTTTTAAGTTAAGAG
1 TTAGGGTTTTTAAGTTAAGAG
47436419 TTAGGGTT
1 TTAGGGTT
47436427 AGGGTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGAG
Found at i:47436464 original size:110 final size:111
Alignment explanation
Indices: 47436266--47436466 Score: 336
Period size: 110 Copynumber: 1.8 Consensus size: 111
47436256 AAGTTAACGG
*
47436266 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAACGGTTAGGGTTAGGGTTTTTGTTAG
1 TTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAAGTTAACGGTTAGGGTTAGGGTTTTTGTTAG
*
47436331 GGTTTGTCAAATAAATTATAAATTTATAAATTTTTAATAAATTAGT
66 GGTTTGTCAAATAAATCATAAATTTATAAATTTTTAATAAATTAGT
47436377 TTAGGGTTTTTAAGTTAAGGG-TTAGAGTTTTTAAGTTAA-GAGTTAGGGTTAGGGTTTTTGTTA
1 TTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAAGTTAACG-GTTAGGGTTAGGGTTTTTGTTA
*
47436440 GGGTTTGTCAATTAATATCA-AAATTTA
65 GGGTTTGTCAAATAA-ATCATAAATTTA
47436467 ATTATAAATT
Statistics
Matches: 85, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
109 1 0.01
110 60 0.71
111 24 0.28
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (111 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAAGTTAACGGTTAGGGTTAGGGTTTTTGTTAG
GGTTTGTCAAATAAATCATAAATTTATAAATTTTTAATAAATTAGT
Found at i:47436971 original size:17 final size:19
Alignment explanation
Indices: 47436939--47436981 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
47436929 GACTCGAAAA
* *
47436939 AGGAAACATATAA-GGGTT
1 AGGATACATATAAGGGGCT
47436957 AGGATACAT-TAAGGGGCT
1 AGGATACATATAAGGGGCT
47436975 AGGATAC
1 AGGATAC
47436982 GCACCTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (19 bp):
AGGATACATATAAGGGGCT
Found at i:47437641 original size:7 final size:7
Alignment explanation
Indices: 47437629--47437675 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
47437619 TTATATATAT
47437629 AATACTA
1 AATACTA
47437636 AATACTA
1 AATACTA
47437643 AATACTA
1 AATACTA
47437650 AATACTA
1 AATACTA
47437657 AATACTA
1 AATACTA
47437664 AATACTA
1 AATACTA
47437671 AATAC
1 AATAC
47437676 CAATCGACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:47438856 original size:11 final size:11
Alignment explanation
Indices: 47438821--47438884 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
47438811 AAATATGGAT
*
47438821 TTGAGAGAAAT
1 TTGAGAGAAAA
*
47438832 TTG-GAAGGAAA
1 TTGAG-AGAAAA
*
47438843 TTGAGAGCAAA
1 TTGAGAGAAAA
47438854 TTGAGAGAAAA
1 TTGAGAGAAAA
*
47438865 TTGAGAAAATAA
1 TTGAGAGAA-AA
47438877 TTGAGAGA
1 TTGAGAGA
47438885 GGATTAGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
10 1 0.02
11 33 0.75
12 10 0.23
ACGTcount: A:0.48, C:0.02, G:0.28, T:0.22
Consensus pattern (11 bp):
TTGAGAGAAAA
Found at i:47439145 original size:13 final size:13
Alignment explanation
Indices: 47439127--47439155 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
47439117 CGCTCCTAAG
47439127 GACGCGTTTTGCT
1 GACGCGTTTTGCT
47439140 GACGCGTTTTGCT
1 GACGCGTTTTGCT
47439153 GAC
1 GAC
47439156 ACCGCACTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.24, G:0.31, T:0.34
Consensus pattern (13 bp):
GACGCGTTTTGCT
Found at i:47440102 original size:25 final size:28
Alignment explanation
Indices: 47440073--47440126 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
47440063 TATCTTTGAT
47440073 TAATAAAA-TA-A-TAGTGATAACGAAA
1 TAATAAAATTACATTAGTGATAACGAAA
47440098 TAATAAAATTACATTAGTGATAACGAAA
1 TAATAAAATTACATTAGTGATAACGAAA
47440126 T
1 T
47440127 CTCAACGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 8 0.31
26 2 0.08
27 1 0.04
28 15 0.58
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (28 bp):
TAATAAAATTACATTAGTGATAACGAAA
Found at i:47441804 original size:28 final size:28
Alignment explanation
Indices: 47441772--47441832 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
47441762 CCGATAACCC
*
47441772 GTACCATGAAATTAATCTATTTTGGTAA
1 GTACCACGAAATTAATCTATTTTGGTAA
*
47441800 GTACCACGAGATTAATCTATTTTGGTAA
1 GTACCACGAAATTAATCTATTTTGGTAA
47441828 GTACC
1 GTACC
47441833 GCATCCAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (28 bp):
GTACCACGAAATTAATCTATTTTGGTAA
Found at i:47442983 original size:6 final size:6
Alignment explanation
Indices: 47442965--47443004 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
47442955 TTGTATATGG
*
47442965 ATACAT ATGCAT ATACAT ATACAT ATACAT ATACAT ATAC
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATAC
47443005 CTATTCCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:47444665 original size:21 final size:21
Alignment explanation
Indices: 47444635--47444674 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47444625 TAACTGGACC
47444635 GCTGACGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
47444656 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
47444675 TTGCCACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:47445161 original size:6 final size:6
Alignment explanation
Indices: 47445140--47445206 Score: 80
Period size: 6 Copynumber: 11.2 Consensus size: 6
47445130 ATTTAGGGTT
** * * *
47445140 ATTTTG ATTTCA ATTTTG ATTTCG ATTCTG ATTCTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
*
47445188 ATTTCG ATTTTG ATTTTG A
1 ATTTTG ATTTTG ATTTTG A
47445207 AACACTCACT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.19, C:0.07, G:0.15, T:0.58
Consensus pattern (6 bp):
ATTTTG
Found at i:47445232 original size:6 final size:6
Alignment explanation
Indices: 47445223--47445281 Score: 66
Period size: 6 Copynumber: 9.8 Consensus size: 6
47445213 CACTGATTCT
* * *
47445223 GATTTA GATTTA GATTTCA -ATTTT GATCTC GATTTA GATTTA GATTTA
1 GATTTA GATTTA GATTT-A GATTTA GATTTA GATTTA GATTTA GATTTA
*
47445271 GATTTT GATTT
1 GATTTA GATTT
47445282 CAGTTTGGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
6 44 0.98
7 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (6 bp):
GATTTA
Found at i:47445257 original size:30 final size:30
Alignment explanation
Indices: 47445223--47445279 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
47445213 CACTGATTCT
47445223 GATTTAGATTTAGATTTCA-ATTTTGATCTC
1 GATTTAGATTTAGATTT-AGATTTTGATCTC
47445253 GATTTAGATTTAGATTTAGATTTTGAT
1 GATTTAGATTTAGATTTAGATTTTGAT
47445280 TTCAGTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.51
Consensus pattern (30 bp):
GATTTAGATTTAGATTTAGATTTTGATCTC
Found at i:47449335 original size:18 final size:18
Alignment explanation
Indices: 47449312--47449349 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
47449302 AGCATCTCTA
47449312 TTTTTCCTCTTCTCCTTC
1 TTTTTCCTCTTCTCCTTC
*
47449330 TTTTTCTTCTTCTCCTTC
1 TTTTTCCTCTTCTCCTTC
47449348 TT
1 TT
47449350 CTTCTCCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTCCTCTTCTCCTTC
Found at i:47449354 original size:18 final size:18
Alignment explanation
Indices: 47449319--47449354 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47449309 CTATTTTTCC
*
47449319 TCTTCTCCTTCTTTTTCT
1 TCTTCTCCTTCTTCTTCT
47449337 TCTTCTCCTTCTTCTTCT
1 TCTTCTCCTTCTTCTTCT
47449355 CCACCTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
TCTTCTCCTTCTTCTTCT
Found at i:47453762 original size:24 final size:24
Alignment explanation
Indices: 47453730--47453778 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
47453720 TTTAGGTCAC
47453730 TTGTAACAATTTTTTTAACTACAA
1 TTGTAACAATTTTTTTAACTACAA
*
47453754 TTGTTACAATTTTTTTAACTACAA
1 TTGTAACAATTTTTTTAACTACAA
47453778 T
1 T
47453779 GTAGGTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (24 bp):
TTGTAACAATTTTTTTAACTACAA
Found at i:47462090 original size:21 final size:21
Alignment explanation
Indices: 47462066--47462218 Score: 104
Period size: 21 Copynumber: 7.4 Consensus size: 21
47462056 TTTTTCAACA
*
47462066 TTTAGTTATAACTTTTTTGTT
1 TTTAGTTGTAACTTTTTTGTT
* *
47462087 TTTATTTGT-ACTTTTTTAGTCA
1 TTTAGTTGTAACTTTTTT-GT-T
47462109 TTTAGTTGTAACTTTTTTGTT
1 TTTAGTTGTAACTTTTTTGTT
* * **
47462130 TTTACTTGT-ACTTTTAAT-CA
1 TTTAGTTGTAACTTTT-TTGTT
47462150 TTTAGTTGTAAC--TTTT-TT
1 TTTAGTTGTAACTTTTTTGTT
* *
47462168 TTTAGTTGT-ACTTTTTTATCA
1 TTTAGTTGTAACTTTTTTGT-T
* ** *
47462189 TTTAATTGTATGTTTTTGGTT
1 TTTAGTTGTAACTTTTTTGTT
47462210 TTTAGTTGT
1 TTTAGTTGT
47462219 TTATTATTAT
Statistics
Matches: 101, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
17 2 0.02
18 10 0.10
19 6 0.06
20 23 0.23
21 36 0.36
22 16 0.16
23 8 0.08
ACGTcount: A:0.18, C:0.07, G:0.12, T:0.64
Consensus pattern (21 bp):
TTTAGTTGTAACTTTTTTGTT
Found at i:47462102 original size:43 final size:42
Alignment explanation
Indices: 47462055--47462218 Score: 176
Period size: 43 Copynumber: 4.0 Consensus size: 42
47462045 GAGTTGCATT
* *
47462055 TTTTTTCAACATTTAGTTATAACTTTTTTGTTTTTATTTGTAC
1 TTTTTT-AACATTTAGTTGTAACTTTTTTGTTTTTACTTGTAC
*
47462098 TTTTTTAGTCATTTAGTTGTAACTTTTTTGTTTTTACTTGTAC
1 TTTTTTA-ACATTTAGTTGTAACTTTTTTGTTTTTACTTGTAC
*
47462141 --TTTTAATCATTTAGTTGTAAC--TTTT-TTTTTAGTTGTAC
1 TTTTTTAA-CATTTAGTTGTAACTTTTTTGTTTTTACTTGTAC
* * ** * *
47462179 TTTTTTATCATTTAATTGTATGTTTTTGGTTTTTAGTTGT
1 TTTTTTAACATTTAGTTGTAACTTTTTTGTTTTTACTTGT
47462219 TTATTATTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
38 12 0.12
39 15 0.14
40 5 0.05
41 22 0.21
42 12 0.12
43 38 0.37
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.63
Consensus pattern (42 bp):
TTTTTTAACATTTAGTTGTAACTTTTTTGTTTTTACTTGTAC
Found at i:47462205 original size:80 final size:83
Alignment explanation
Indices: 47462064--47462218 Score: 217
Period size: 80 Copynumber: 1.9 Consensus size: 83
47462054 TTTTTTTCAA
* * *
47462064 CATTTAGTTATAACTTTTTTGTTTTTATTTGTACTTTTTTAGTCATTTAGTTGTAACTTTTTTGT
1 CATTTAGTTATAAC-TTTTTGTTTTTAGTTGTACTTTTTTAGTCATTTAATTGTAACTTTTTGGT
47462129 TTTTACTTGTACTTTTAAT
65 TTTTACTTGTACTTTTAAT
* **
47462148 CATTTAGTTGTAAC-TTTT-TTTTTAGTTGTACTTTTTTA-TCATTTAATTGTATGTTTTTGGTT
1 CATTTAGTTATAACTTTTTGTTTTTAGTTGTACTTTTTTAGTCATTTAATTGTAACTTTTTGGTT
*
47462210 TTTAGTTGT
66 TTTACTTGT
47462219 TTATTATTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 28 0.44
81 19 0.30
82 4 0.06
84 13 0.20
ACGTcount: A:0.18, C:0.07, G:0.12, T:0.63
Consensus pattern (83 bp):
CATTTAGTTATAACTTTTTGTTTTTAGTTGTACTTTTTTAGTCATTTAATTGTAACTTTTTGGTT
TTTACTTGTACTTTTAAT
Found at i:47462244 original size:19 final size:18
Alignment explanation
Indices: 47462208--47462249 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
47462198 ATGTTTTTGG
*
47462208 TTTTTAGTTGTTTATTAT
1 TTTTTAGTTGTATATTAT
*
47462226 TATTTTAGTTGTATCTTAT
1 T-TTTTAGTTGTATATTAT
47462245 TTTTT
1 TTTTT
47462250 GTTTTTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (18 bp):
TTTTTAGTTGTATATTAT
Found at i:47462248 original size:80 final size:80
Alignment explanation
Indices: 47462064--47462249 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 80
47462054 TTTTTTTCAA
* * * *
47462064 CATTTAGTTATAACTTTTTTGTTTTTATTTGTACTTTTTTAGTCATTTAGTTGTAACTTTTTTGT
1 CATTTAGTTGTAAC--TTTT-TTTTTAGTTGTACTTTTTTAGTCATTTAATTGTAACTTTTTGGT
47462129 TTTTACTTGTACTTTTAAT
63 TTTTACTTGTA-TTTTAAT
**
47462148 CATTTAGTTGTAACTTTTTTTTTAGTTGTACTTTTTTA-TCATTTAATTGTATGTTTTTGGTTTT
1 CATTTAGTTGTAACTTTTTTTTTAGTTGTACTTTTTTAGTCATTTAATTGTAACTTTTTGGTTTT
*
47462212 TAGTTGT-TTATT-AT
66 TACTTGTATT-TTAAT
* * *
47462226 TATTTTAGTTGTATCTTATTTTTT
1 CA-TTTAGTTGTAACTTTTTTTTT
47462250 GTTTTTAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 5 0.06
79 21 0.23
80 28 0.31
81 19 0.21
82 4 0.04
84 13 0.14
ACGTcount: A:0.18, C:0.06, G:0.11, T:0.65
Consensus pattern (80 bp):
CATTTAGTTGTAACTTTTTTTTTAGTTGTACTTTTTTAGTCATTTAATTGTAACTTTTTGGTTTT
TACTTGTATTTTAAT
Found at i:47463580 original size:22 final size:22
Alignment explanation
Indices: 47463554--47463627 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
47463544 ATTATACAAG
47463554 TAATACCAAAAAAACTGTTAAA
1 TAATACCAAAAAAACTGTTAAA
47463576 TAATACC---AAAACTG-TAAA
1 TAATACCAAAAAAACTGTTAAA
* *
47463594 -AAAACTGCAAAAAAACTGTCAAA
1 TAATAC--CAAAAAAACTGTTAAA
47463617 TAATACCAAAA
1 TAATACCAAAA
47463628 CTGTCAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
17 4 0.10
18 4 0.10
19 8 0.19
22 19 0.45
23 3 0.07
24 4 0.10
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.19
Consensus pattern (22 bp):
TAATACCAAAAAAACTGTTAAA
Found at i:47463599 original size:11 final size:11
Alignment explanation
Indices: 47463583--47463612 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47463573 AAATAATACC
47463583 AAAACTGTAAA
1 AAAACTGTAAA
*
47463594 AAAACTGCAAA
1 AAAACTGTAAA
47463605 AAAACTGT
1 AAAACTGT
47463613 CAAATAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.10, T:0.17
Consensus pattern (11 bp):
AAAACTGTAAA
Found at i:47463632 original size:19 final size:19
Alignment explanation
Indices: 47463564--47463634 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
47463554 TAATACCAAA
*
47463564 AAAACTGTTAAATAATACC
1 AAAACTGTCAAATAATACC
* * **
47463583 AAAACTGTAAAAAAACTGCAAA
1 AAAACTGTCAAATAA-T--ACC
47463605 AAAACTGTCAAATAATACC
1 AAAACTGTCAAATAATACC
47463624 AAAACTGTCAA
1 AAAACTGTCAA
47463635 TTTAAATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
19 25 0.61
20 1 0.02
21 1 0.02
22 14 0.34
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.20
Consensus pattern (19 bp):
AAAACTGTCAAATAATACC
Found at i:47464063 original size:9 final size:9
Alignment explanation
Indices: 47464019--47464064 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
47464009 CGAAGAAACA
*
47464019 TCATCATCC
1 TCATCGTCC
*
47464028 TCATCGTCG
1 TCATCGTCC
*
47464037 TCATCGTCG
1 TCATCGTCC
47464046 TCATCGTCC
1 TCATCGTCC
47464055 TCATCGTCC
1 TCATCGTCC
47464064 T
1 T
47464065 TTTTGCAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.13, C:0.39, G:0.13, T:0.35
Consensus pattern (9 bp):
TCATCGTCC
Found at i:47470771 original size:16 final size:19
Alignment explanation
Indices: 47470750--47470788 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
47470740 TATTAAAGGT
47470750 TAAATAA-GTA-AAT-TAA
1 TAAATAATGTATAATATAA
47470766 TAAATAATGTATAATATAA
1 TAAATAATGTATAATATAA
47470785 TAAA
1 TAAA
47470789 ACAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATAATGTATAATATAA
Found at i:47472424 original size:41 final size:41
Alignment explanation
Indices: 47472344--47472442 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
47472334 AGGCTAAGCG
* ** *
47472344 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAA
*
47472385 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAA
* * *
47472426 TCTAGCAGTCTATGTGC
1 CCTAGCAGGCTACGTGC
47472443 TGTTGAATCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAA
Found at i:47474658 original size:20 final size:19
Alignment explanation
Indices: 47474632--47474683 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 19
47474622 AGCAATGAAT
47474632 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
*
47474652 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
47474669 CTGTTCATCAAGAGA
1 CTGTTCA-CAAGAGA
47474684 AAGAACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:47483554 original size:59 final size:58
Alignment explanation
Indices: 47483374--47483657 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
47483364 ATGATAAATT
* ** * *
47483374 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
47483433 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
47483494 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
47483553 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
47483615 T
58 C
*
47483616 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
47483658 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:47483581 original size:120 final size:122
Alignment explanation
Indices: 47483367--47483657 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
47483357 TAGTATGATG
* **
47483367 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
47483432 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
47483488 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
47483551 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
47483609 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
47483658 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:47483636 original size:18 final size:19
Alignment explanation
Indices: 47483601--47483637 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
47483591 ATTATTAAGA
47483601 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
47483620 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
47483638 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:47483867 original size:44 final size:45
Alignment explanation
Indices: 47483802--47483887 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
47483792 ACCTCTATTC
* *
47483802 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTA
***
47483846 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCA
47483888 ATCACCTCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.28
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTA
Found at i:47483895 original size:15 final size:15
Alignment explanation
Indices: 47483875--47483904 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47483865 TTAGCTATTA
47483875 CACCTCTAATCCAAT
1 CACCTCTAATCCAAT
47483890 CACCTCTAATCCAAT
1 CACCTCTAATCCAAT
47483905 ACAGCGAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (15 bp):
CACCTCTAATCCAAT
Found at i:47489409 original size:14 final size:15
Alignment explanation
Indices: 47489376--47489412 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
47489366 TGAATTTGAT
47489376 TGTTTGAAATTTTCG
1 TGTTTGAAATTTTCG
47489391 TGTTT-AAATTTT-G
1 TGTTTGAAATTTTCG
47489404 TCGTTTGAA
1 T-GTTTGAA
47489413 TGACCGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 11 0.55
15 7 0.35
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.54
Consensus pattern (15 bp):
TGTTTGAAATTTTCG
Found at i:47496011 original size:38 final size:38
Alignment explanation
Indices: 47495938--47496017 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
47495928 GCGGAAACAT
* * *
47495938 ATCTGAATCTATTGTTGGAGATTGTCCAGAAGGTTTTC
1 ATCTAAATCCATTGTTGGAGATTGTCCAGAAGGTTTTA
47495976 ATCTAAATCCATTGTTGGAGATTG-CTCA-AAGGGTTTTA
1 ATCTAAATCCATTGTTGGAGATTGTC-CAGAA-GGTTTTA
47496014 ATCT
1 ATCT
47496018 TCCAATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 3 0.08
38 34 0.92
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (38 bp):
ATCTAAATCCATTGTTGGAGATTGTCCAGAAGGTTTTA
Found at i:47496835 original size:30 final size:32
Alignment explanation
Indices: 47496783--47496846 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
47496773 CATTAAAAAA
**
47496783 ATTAAGAAAATTAACATCACAAAC-AAAATCC
1 ATTAAGAAAATTAACAGAACAAACAAAAATCC
*
47496814 ATTAA-AAATTTAACAGAACAAACAAAAATCC
1 ATTAAGAAAATTAACAGAACAAACAAAAATCC
47496845 AT
1 AT
47496847 CAATCTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.59, C:0.17, G:0.03, T:0.20
Consensus pattern (32 bp):
ATTAAGAAAATTAACAGAACAAACAAAAATCC
Found at i:47500395 original size:9 final size:9
Alignment explanation
Indices: 47500381--47500407 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
47500371 TCTGGTTAAA
47500381 AATTAACCG
1 AATTAACCG
47500390 AATTAACCG
1 AATTAACCG
47500399 AATTAACCG
1 AATTAACCG
47500408 TTTTTAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:47501962 original size:17 final size:18
Alignment explanation
Indices: 47501930--47501964 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47501920 TTTACCCTAC
47501930 AAAATTCGGTTAAACCGA
1 AAAATTCGGTTAAACCGA
47501948 AAAATTCGGTT-AACCGA
1 AAAATTCGGTTAAACCGA
47501965 CCGGTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (18 bp):
AAAATTCGGTTAAACCGA
Found at i:47505129 original size:25 final size:26
Alignment explanation
Indices: 47505087--47505199 Score: 83
Period size: 25 Copynumber: 4.5 Consensus size: 26
47505077 AGCATGTAAA
*
47505087 CGGGAAGCTC-TTTCGAGCCATATAAT
1 CGGGAAGCTCATGT-GAGCCATATAAT
**
47505113 -GGGAAGCTCATGTGAGCTGTAT-AT
1 CGGGAAGCTCATGTGAGCCATATAAT
* * * *
47505137 TGGGAAGCTCTTGCGAGCCAAAT-AT
1 CGGGAAGCTCATGTGAGCCATATAAT
* * *
47505162 CGGGAAGCTCAAGAGAGCTAT-TAAT
1 CGGGAAGCTCATGTGAGCCATATAAT
*
47505187 CGGAAAGCTCATG
1 CGGGAAGCTCATG
47505200 AAAGCTAAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 7
0.75 0.18 0.08
Matches are distributed among these distances:
24 3 0.04
25 63 0.93
26 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (26 bp):
CGGGAAGCTCATGTGAGCCATATAAT
Found at i:47505195 original size:50 final size:50
Alignment explanation
Indices: 47505091--47505228 Score: 118
Period size: 50 Copynumber: 2.8 Consensus size: 50
47505081 TGTAAACGGG
* * * * * *
47505091 AAGCTCTTTCGAGCCATATAAT-GGGAAGCTCATGTGAGCTGTATATTGGG
1 AAGCTCTTGCGAGCCAAAT-ATCGGGAAGCTCAAGAGAGCTGTATATCGGA
*
47505141 AAGCTCTTGCGAGCCAAATATCGGGAAGCTCAAGAGAGCTAT-TAATCGGA
1 AAGCTCTTGCGAGCCAAATATCGGGAAGCTCAAGAGAGCTGTAT-ATCGGA
* ** * * * *
47505191 AAGCTCATGAAAGCTAAGTATCAGGAAGCTCAAAAGAG
1 AAGCTCTTGCGAGCCAAATATCGGGAAGCTCAAGAGAG
47505229 TTATAGTGTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 3 0.04
50 69 0.96
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (50 bp):
AAGCTCTTGCGAGCCAAATATCGGGAAGCTCAAGAGAGCTGTATATCGGA
Found at i:47510172 original size:16 final size:15
Alignment explanation
Indices: 47510148--47510181 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
47510138 AAGTTATTAA
47510148 TTTAATCTTTTGTATT
1 TTTAATC-TTTGTATT
*
47510164 TTTAGTCTTTGTATT
1 TTTAATCTTTGTATT
47510179 TTT
1 TTT
47510182 CAAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (15 bp):
TTTAATCTTTGTATT
Found at i:47513877 original size:14 final size:15
Alignment explanation
Indices: 47513855--47513894 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
47513845 TGGTTTTATA
47513855 AATTGTGTTTTCAAT
1 AATTGTGTTTTCAAT
47513870 AATT-TGTTTTC-A-
1 AATTGTGTTTTCAAT
*
47513882 AGTTGTGTTTTCA
1 AATTGTGTTTTCA
47513895 TAAGCTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
12 3 0.14
13 8 0.36
14 7 0.32
15 4 0.18
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (15 bp):
AATTGTGTTTTCAAT
Found at i:47515683 original size:13 final size:13
Alignment explanation
Indices: 47515665--47515690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47515655 CATGATCATA
47515665 ATTATAATAATTT
1 ATTATAATAATTT
47515678 ATTATAATAATTT
1 ATTATAATAATTT
47515691 TAGTAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:47522780 original size:19 final size:19
Alignment explanation
Indices: 47522756--47522793 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47522746 GTAATTAAAC
*
47522756 TTGAAAATTGAATCAGAGA
1 TTGAAAATTGAACCAGAGA
47522775 TTGAAAATTGAACCAGAGA
1 TTGAAAATTGAACCAGAGA
47522794 ACCAAAACCG
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:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (19 bp):
TTGAAAATTGAACCAGAGA
Found at i:47523186 original size:31 final size:31
Alignment explanation
Indices: 47523105--47523193 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 31
47523095 AAAATAATAT
* *
47523105 TATTTTAATAAATTTAATATTTATCTAGATAT
1 TATTTT-ATTAATTTAATATTTATCTAGATAG
47523137 TAATATGATATATTTAATTTAATATTTATCTAGATAG
1 T-AT-T--T-TA-TTAATTTAATATTTATCTAGATAG
47523174 TATTTTATTAATTTAATATT
1 TATTTTATTAATTTAATATT
47523194 AATGTGATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
31 13 0.27
32 3 0.06
33 3 0.06
34 1 0.02
35 1 0.02
36 4 0.08
37 24 0.49
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTTTATTAATTTAATATTTATCTAGATAG
Found at i:47523195 original size:11 final size:11
Alignment explanation
Indices: 47523099--47523196 Score: 53
Period size: 11 Copynumber: 8.9 Consensus size: 11
47523089 TTTCCAAAAA
*
47523099 TAATATTATTT
1 TAATATTAATT
47523110 TAATA--AATT
1 TAATATTAATT
* *
47523119 TAATATTTATC
1 TAATATTAATT
47523130 TAGATATTAATAT
1 TA-ATATTAAT-T
*
47523143 GATATATTTAATT
1 TA-ATA-TTAATT
* *
47523156 TAATATTTATC
1 TAATATTAATT
*
47523167 TAGATAGT-ATT
1 TA-ATATTAATT
47523178 T--TATTAATT
1 TAATATTAATT
47523187 TAATATTAAT
1 TAATATTAAT
47523197 GTGATTAATT
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
8 3 0.05
9 12 0.18
11 25 0.38
12 14 0.22
13 6 0.09
14 5 0.08
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:47524223 original size:80 final size:80
Alignment explanation
Indices: 47524116--47524277 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
47524106 CTGTAATAAT
*
47524116 TTACATTTACCTATCATACCTTGTGTTTGGTCACATTTGCATTTCCGTATCTTGTACACTATTCT
1 TTACATTTACCTATCATACCTTCTGTTTGGTCACATTTGCATTTCCGTATCTTGTACACTATTCT
47524181 ATCATATAACAATCA
66 ATCATATAACAATCA
47524196 TTACATTTACCTATCATACCTTCTGTTTGGTCACATTTGCATTTCCGTATCTTGTACACTATTCT
1 TTACATTTACCTATCATACCTTCTGTTTGGTCACATTTGCATTTCCGTATCTTGTACACTATTCT
47524261 ATCATATAACAATCA
66 ATCATATAACAATCA
47524276 TT
1 TT
47524278 TGTCATTTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (80 bp):
TTACATTTACCTATCATACCTTCTGTTTGGTCACATTTGCATTTCCGTATCTTGTACACTATTCT
ATCATATAACAATCA
Found at i:47526642 original size:82 final size:81
Alignment explanation
Indices: 47526529--47526684 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 81
47526519 AAATTGTACA
* * * *
47526529 GCACTAAGTTTGCAATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAATATGAT-GCACTAAGT
1 GCACTAAGTGTGCAAGTCGACTATGTAGCACTAAGTGTGC-AAATCGAATACG-TGGCACTAAGT
47526592 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
* * *
47526610 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCAATTCGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCAAGTC-GACTATGTAGCACTAAGTGTGCAAATCGAATACGTGGCACTAAGTG
*
47526675 TGCGAGTTGA
65 TGCGAATTGA
47526685 TTATATAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
81 19 0.30
82 45 0.70
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCAAGTCGACTATGTAGCACTAAGTGTGCAAATCGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47526686 original size:27 final size:27
Alignment explanation
Indices: 47526528--47526705 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
47526518 TAAATTGTAC
*
47526528 AGCACTAAGTTTGC-AATTCGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
* * *
47526555 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
47526581 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
47526609 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAAT-TGACTATGT
* *
47526637 AGCACTAAGTGTGC-AATTCGATTACGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
* * * *
47526664 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47526691 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47526706 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.01
27 96 0.78
28 26 0.21
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:47526696 original size:82 final size:81
Alignment explanation
Indices: 47526525--47526705 Score: 195
Period size: 82 Copynumber: 2.2 Consensus size: 81
47526515 GATTAAATTG
* * * * *
47526525 TACAGCACTAAGTTTGCAATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47526590 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
47526606 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGC-AATTCGATTACG-TGGCAC
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAAT-GAATACGAT-GCAC
* **
47526669 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
47526688 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47526706 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47529237 original size:18 final size:19
Alignment explanation
Indices: 47529214--47529252 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
47529204 GCGAAGGGTG
47529214 TTACT-ATTTAGTCTCTTC
1 TTACTAATTTAGTCTCTTC
47529232 TTACTACAATTTAGTCTCTTC
1 TTACT--AATTTAGTCTCTTC
47529253 ATTCAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (19 bp):
TTACTAATTTAGTCTCTTC
Done.