Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 57 of 93
Found at i:21796294 original size:21 final size:21
Alignment explanation
Indices: 21796270--21796329 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
21796260 GTTCACTAGT
* *
21796270 TTTTAGGTATTGTATGACTGG
1 TTTTATGTATTGCATGACTGG
* *
21796291 TTTTATGTATTACGTGACTGG
1 TTTTATGTATTGCATGACTGG
21796312 TTTTATGTATTGCATGAC
1 TTTTATGTATTGCATGAC
21796330 ATTGGGCCGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.08, G:0.23, T:0.48
Consensus pattern (21 bp):
TTTTATGTATTGCATGACTGG
Found at i:21796395 original size:201 final size:206
Alignment explanation
Indices: 21796115--21796531 Score: 567
Period size: 201 Copynumber: 2.0 Consensus size: 206
21796105 GTTGTTAGAG
* * * *
21796115 ATGTATTGCGTGACGTTGGGCCAGTACGTGACTGGTTATGTTGGCATAACGTGAGTGGATATTAG
1 ATGTATTGCATGACATTGGGCCAGTACGTGACTGGTTATGTTAGCATAACGTGAGTGGATATAAG
* *
21796180 GCATTGACTGACTTATTATTAGGTATTGCGAGACTGGTTGTGC-G-TGACTTGTGCAATTCACAT
66 GCATTAACTGACTTATTATTAGGTATTGCGAGACTGGTGGTGCGGATGACTTGTGCAATTCACAT
* * *
21796243 CTTGTTTTGAGGCTTTTGTTCACTAG-TTTTTAGGTATTGTATGACT-GGTTTTATGTATTACGT
131 CTTGTTTTAAGGCTTTTGTTCACTAGTTTTTTAGGCATTGTATGACTAGGTTTTATATATTACGT
21796306 GA-CTGGTT-TT
196 GACCT-GTTATT
* * *
21796316 ATGTATTGCATGACATTGGGCCGGTACGTGACTGGTTATGTTAGCATAATGTGAGTGGGTATAAG
1 ATGTATTGCATGACATTGGGCCAGTACGTGACTGGTTATGTTAGCATAACGTGAGTGGATATAAG
* * * * * *
21796381 GCATTAAGTGACTTATTCTTGGGTGTTGCGAGCCTGGTGGTGCGTGACTGACTTGTGCAATTCAT
66 GCATTAACTGACTTATTATTAGGTATTGCGAGACTGGTGGTGCG-GA-TGACTTGTGCAATTCAC
* * * *
21796446 GTCTTGTTTTAAGGCTTTTGTTCAGTAGTTTTTTAGGCATTGTGTGACTAGTTTTTATATATTAC
129 ATCTTGTTTTAAGGCTTTTGTTCACTAGTTTTTTAGGCATTGTATGACTAGGTTTTATATATTAC
21796511 GTGACCTGTTATT
194 GTGACCTGTTATT
21796524 ATGTATTG
1 ATGTATTG
21796532 TGAGACTGGT
Statistics
Matches: 186, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
201 94 0.51
203 1 0.01
205 41 0.22
206 18 0.10
207 20 0.11
208 12 0.06
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (206 bp):
ATGTATTGCATGACATTGGGCCAGTACGTGACTGGTTATGTTAGCATAACGTGAGTGGATATAAG
GCATTAACTGACTTATTATTAGGTATTGCGAGACTGGTGGTGCGGATGACTTGTGCAATTCACAT
CTTGTTTTAAGGCTTTTGTTCACTAGTTTTTTAGGCATTGTATGACTAGGTTTTATATATTACGT
GACCTGTTATT
Found at i:21799540 original size:26 final size:23
Alignment explanation
Indices: 21799479--21799538 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
21799469 TATGCGTATA
*
21799479 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
21799502 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
21799525 CACATCATCATCAT
1 CCCATCATCATCAT
21799539 CACCAGCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:21799624 original size:43 final size:43
Alignment explanation
Indices: 21799584--21799666 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
21799574 TAGGTCATCA
21799584 CCGGATTATGCT-CACTCCTTACTTGCACATAATCGAGTCATTC
1 CCGGATTATG-TGCACTCCTTACTTGCACATAATCGAGTCATTC
* * * *
21799627 TCGGCTTATGTGCACTCTTTACTTGCACATAGTCGAGTCA
1 CCGGATTATGTGCACTCCTTACTTGCACATAATCGAGTCA
21799667 ATATAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.34
Consensus pattern (43 bp):
CCGGATTATGTGCACTCCTTACTTGCACATAATCGAGTCATTC
Found at i:21806551 original size:23 final size:23
Alignment explanation
Indices: 21806524--21806580 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
21806514 ACTCAATATC
21806524 AACTAGTAACGTGATTCCATAAT
1 AACTAGTAACGTGATTCCATAAT
*
21806547 AACTAGTCACGTGATTCCATAAT
1 AACTAGTAACGTGATTCCATAAT
*
21806570 AACTACTAACG
1 AACTAGTAACG
21806581 CCACTCCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (23 bp):
AACTAGTAACGTGATTCCATAAT
Found at i:21806588 original size:23 final size:23
Alignment explanation
Indices: 21806539--21806599 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
21806529 GTAACGTGAT
* * ** *
21806539 TCCATAATAACTAGTCACGTGAT
1 TCCATAATAACTACTAACGCCAC
21806562 TCCATAATAACTACTAACGCCAC
1 TCCATAATAACTACTAACGCCAC
* *
21806585 TCCATATTGACTACT
1 TCCATAATAACTACT
21806600 CACATGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (23 bp):
TCCATAATAACTACTAACGCCAC
Found at i:21808152 original size:23 final size:23
Alignment explanation
Indices: 21808117--21808179 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
21808107 CCAAATCGAT
* *
21808117 TAGTCATGGGATTCCATATTAAC
1 TAGTCACGTGATTCCATATTAAC
** * * *
21808140 TAGTCACGTGATTTAAAATTCAG
1 TAGTCACGTGATTCCATATTAAC
*
21808163 TAGTCCCGTGATTCCAT
1 TAGTCACGTGATTCCAT
21808180 GTCAAATACT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGTCACGTGATTCCATATTAAC
Found at i:21808542 original size:26 final size:26
Alignment explanation
Indices: 21808485--21808546 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
21808475 CTTTTTTGTT
*
21808485 AAATGATACAAAAACGAAAAAAATGT
1 AAATGATACAAAAACGAAAAAAATGG
* *
21808511 AAATGATACAACAAA-GAATAATATGG
1 AAATGATACAA-AAACGAAAAAAATGG
*
21808537 ACATGATACA
1 AAATGATACA
21808547 GAACAATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.18
Consensus pattern (26 bp):
AAATGATACAAAAACGAAAAAAATGG
Found at i:21810933 original size:54 final size:54
Alignment explanation
Indices: 21810863--21811076 Score: 304
Period size: 54 Copynumber: 4.0 Consensus size: 54
21810853 TGATACTGTT
* *
21810863 CGGCTTTGTGCACGATGTGGTGGGATGCACATGAACTAGGTGAGATGGGATGAC
1 CGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGATGAC
* * * * *
21810917 CGGCTAGGTGAACGATGTGGTGGGATGCACATGAGCTAGGTGATATGGGTTGTC
1 CGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGATGAC
* * *
21810971 CGGCTATGTGCACGATGTGGTGAGATGCACATGAGCTGGGTGAGATGGGA-CATC
1 CGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGATGA-C
* *
21811025 CAGCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGATG
1 CGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGATG
21811077 TTTGCTGGAA
Statistics
Matches: 140, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
54 140 1.00
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.24
Consensus pattern (54 bp):
CGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGATGAC
Found at i:21826747 original size:38 final size:37
Alignment explanation
Indices: 21826695--21826770 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 37
21826685 AAAGCTTGTT
21826695 TCCCTGTTTAAAACACTTTACGTCTAATATATATATA
1 TCCCTGTTTAAAACACTTTACGTCTAATATATATATA
*
21826732 TNCCCTGTTTAAAACACTTTATGTCTAATATATATATA
1 T-CCCTGTTTAAAACACTTTACGTCTAATATATATATA
21826770 T
1 T
21826771 ATATATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.42
Consensus pattern (37 bp):
TCCCTGTTTAAAACACTTTACGTCTAATATATATATA
Found at i:21826766 original size:2 final size:2
Alignment explanation
Indices: 21826759--21826804 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
21826749 TTTATGTCTA
21826759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21826801 AT AT
1 AT AT
21826805 TACAAATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21827366 original size:26 final size:25
Alignment explanation
Indices: 21827294--21827382 Score: 115
Period size: 25 Copynumber: 3.4 Consensus size: 25
21827284 CCCATTTATT
* *
21827294 TTTATTTCCTATTGTGCCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
* *
21827319 CTTATTTTCTATTGGGTCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
21827344 TTTATTTTCTATTTGGGCCATGCCCA
1 TTTATTTTCTA-TTGGGCCATGCCCA
21827370 TTTTTATTTTCTA
1 --TTTATTTTCTA
21827383 CTTCTTTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
25 31 0.56
26 13 0.24
28 11 0.20
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.49
Consensus pattern (25 bp):
TTTATTTTCTATTGGGCCATGCCCA
Found at i:21827469 original size:22 final size:22
Alignment explanation
Indices: 21827439--21827481 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21827429 CATTACTCCC
* *
21827439 TTCAGCACCATGTCTTCCTCTT
1 TTCACCACCATGGCTTCCTCTT
*
21827461 TTCACCACCGTGGCTTCCTCT
1 TTCACCACCATGGCTTCCTCT
21827482 CTTCCTTTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.40, G:0.12, T:0.37
Consensus pattern (22 bp):
TTCACCACCATGGCTTCCTCTT
Found at i:21827696 original size:34 final size:33
Alignment explanation
Indices: 21827602--21827697 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 33
21827592 CTTCTCAATT
*
21827602 TTGGCAGCACAAAGCTGTCCAATTTTCCTGCACAAA
1 TTGGCAGCA-AAAGC--TCCAATTTTTCTGCACAAA
* **
21827638 CTACCAGCAAACAGCTCCAATTTTTCTGCACAAA
1 TTGGCAGCAAA-AGCTCCAATTTTTCTGCACAAA
21827672 TTGGCAGCAAATAGCTCCAATTTTTC
1 TTGGCAGCAAA-AGCTCCAATTTTTC
21827698 AGTAGCCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
34 40 0.78
35 2 0.04
36 9 0.18
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (33 bp):
TTGGCAGCAAAAGCTCCAATTTTTCTGCACAAA
Found at i:21827808 original size:25 final size:25
Alignment explanation
Indices: 21827761--21827808 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21827751 AAAAATCAGC
* *
21827761 TTTCTTACCTCAAAATTTTCAGCTT
1 TTTCTTACCTCAAAACTTGCAGCTT
21827786 TTTCTT-CCTCCAAAACTTGCAGC
1 TTTCTTACCT-CAAAACTTGCAGC
21827809 AAAAGGCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (25 bp):
TTTCTTACCTCAAAACTTGCAGCTT
Found at i:21843584 original size:17 final size:18
Alignment explanation
Indices: 21843557--21843607 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
21843547 AACTTGAAAT
21843557 GAAAGAAGAAAAAG-AGGA
1 GAAA-AAGAAAAAGCAGGA
21843575 GAAAAAGAAAGAAGCCAAGGA
1 GAAAAAGAAA-AAG-C-AGGA
*
21843596 GAGAAAGAAAAA
1 GAAAAAGAAAAA
21843608 TCTTACACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 6 0.21
18 7 0.25
20 2 0.07
21 13 0.46
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAAAAGCAGGA
Found at i:21846228 original size:42 final size:42
Alignment explanation
Indices: 21846179--21846278 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
21846169 TCATGCACAG
** * *
21846179 TCCCTACTCGCACATGGCTGGGTCATCATCGGTTATGCGCAC
1 TCCCTACTCGCACATAACCGGGTCATCATCGGCTATGCGCAC
* * *
21846221 TCCCTACTCGCACATAACCGGGTCATCCTTGGCTATGCGTAC
1 TCCCTACTCGCACATAACCGGGTCATCATCGGCTATGCGCAC
21846263 TCCCTACTCGCACATA
1 TCCCTACTCGCACATA
21846279 GCCGAGTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.26
Consensus pattern (42 bp):
TCCCTACTCGCACATAACCGGGTCATCATCGGCTATGCGCAC
Found at i:21846328 original size:29 final size:27
Alignment explanation
Indices: 21846299--21846351 Score: 97
Period size: 28 Copynumber: 1.9 Consensus size: 27
21846289 TATAATTACA
21846299 AAAACATTATATTCAAGCATAAATGNAC
1 AAAACATTATATTCAAGCATAAATG-AC
21846327 AAAACATTATATTCAAGCATAAATG
1 AAAACATTATATTCAAGCATAAATG
21846352 TATATCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAACATTATATTCAAGCATAAATGAC
Found at i:21856817 original size:37 final size:37
Alignment explanation
Indices: 21856735--21856828 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
21856725 CCTCAGCTCT
*
21856735 TGTGCACTCCCTACACGCACAGGGCAATACCACCATA
1 TGTGCACTCCCTACTCGCACAGGGCAATACCACCATA
* *** ** * *
21856772 TGTTCACTCCCTACTCGCACATTTCAATGTCATCATG
1 TGTGCACTCCCTACTCGCACAGGGCAATACCACCATA
21856809 TGTGCACTCCCTACTCGCAC
1 TGTGCACTCCCTACTCGCAC
21856829 CCCTCATTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.23, C:0.37, G:0.14, T:0.26
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACAGGGCAATACCACCATA
Found at i:21872142 original size:26 final size:25
Alignment explanation
Indices: 21872100--21872149 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
21872090 AAATCATTCA
*
21872100 AAAAAGTATAAACATTAAAACGAAAC
1 AAAAAGTAAAAACATTAAAA-GAAAC
*
21872126 AAAAAGTAAAAAGATTAAAAGAAA
1 AAAAAGTAAAAACATTAAAAGAAA
21872150 AAACTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.70, C:0.06, G:0.10, T:0.14
Consensus pattern (25 bp):
AAAAAGTAAAAACATTAAAAGAAAC
Found at i:21880649 original size:13 final size:13
Alignment explanation
Indices: 21880631--21880655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21880621 GGAAAATGAG
21880631 ATTTTATAAAATA
1 ATTTTATAAAATA
21880644 ATTTTATAAAAT
1 ATTTTATAAAAT
21880656 TTTTGCAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:21885265 original size:19 final size:20
Alignment explanation
Indices: 21885224--21885266 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
21885214 ATTATGTTAC
21885224 TTTTAAGTTAGTTATTTTAA
1 TTTTAAGTTAGTTATTTTAA
* * *
21885244 TTTTATGTT-GTTCTTTTTA
1 TTTTAAGTTAGTTATTTTAA
21885263 TTTT
1 TTTT
21885267 GGTTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (20 bp):
TTTTAAGTTAGTTATTTTAA
Found at i:21890125 original size:13 final size:13
Alignment explanation
Indices: 21890107--21890131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21890097 GGAGAAATTG
21890107 TGATTTTATAAAA
1 TGATTTTATAAAA
21890120 TGATTTTATAAA
1 TGATTTTATAAA
21890132 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:21891091 original size:17 final size:18
Alignment explanation
Indices: 21891071--21891105 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21891061 TTAATTTAGA
21891071 AAATATAA-TATTTTATT
1 AAATATAAGTATTTTATT
21891088 AAATATAAGTATTTTATT
1 AAATATAAGTATTTTATT
21891106 CAAACAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATATAAGTATTTTATT
Found at i:21897641 original size:18 final size:18
Alignment explanation
Indices: 21897620--21897654 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21897610 AAATTGAGGG
21897620 AGAAAAGTAAAAA-AAAAA
1 AGAAAAG-AAAAACAAAAA
21897638 AGAAAAGAAAAACAAAA
1 AGAAAAGAAAAACAAAA
21897655 GTGATGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (18 bp):
AGAAAAGAAAAACAAAAA
Found at i:21898930 original size:54 final size:54
Alignment explanation
Indices: 21898843--21899055 Score: 282
Period size: 54 Copynumber: 3.9 Consensus size: 54
21898833 ATTAGTATAC
* *
21898843 CACCACATCTCATCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTAAA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTAAA
* * **
21898897 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGTACATAGTTGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTAAA
* * *
21898951 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGT
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTA-A-A
* *** *
21899007 CATCGTGTCTCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAG
1 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAG
21899056 TCGGAGTCAT
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 95 0.69
56 43 0.31
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.21
Consensus pattern (54 bp):
CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTAAA
Found at i:21898985 original size:108 final size:110
Alignment explanation
Indices: 21898843--21899056 Score: 317
Period size: 108 Copynumber: 2.0 Consensus size: 110
21898833 ATTAGTATAC
*
21898843 CACCACATCTCATCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTA-A-ACACCCCATC
1 CACCACATCTCATCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGACACCCCATC
* *
21898906 TCACCCAGCTCATGTGCATCCCCCCACATCGTGTACATAGTTGGA
66 TCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAGTTGGA
* * * ***
21898951 CACCCCATCTCA-CCTAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGTCATCGTGT
1 CACCACATCTCATCC-AGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGACACCCCAT
21899015 CTCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAGT
65 CTCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAGT
21899057 CGGAGTCATC
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.50
109 1 0.01
110 44 0.47
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.21
Consensus pattern (110 bp):
CACCACATCTCATCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGACACCCCATC
TCACCCAGCTCATGTGCATCCCCCCACATCATGCACATAGTTGGA
Found at i:21899996 original size:24 final size:24
Alignment explanation
Indices: 21899969--21900024 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
21899959 GGGAGAAGAA
*
21899969 AAAAGCAAAA-AAAGAAAGGAAATG
1 AAAAG-AAAACAAAGAAAGAAAATG
*
21899993 AAAAGAAAACAACGAAAGAAAATG
1 AAAAGAAAACAAAGAAAGAAAATG
21900017 -AAAGAAAA
1 AAAAGAAAA
21900025 TTAACTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.04
Consensus pattern (24 bp):
AAAAGAAAACAAAGAAAGAAAATG
Found at i:21901131 original size:20 final size:19
Alignment explanation
Indices: 21901102--21901155 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
21901092 ATTAGGTTAC
21901102 TTTTAAGTTAGTTATTTTAA
1 TTTTAAGTTA-TTATTTTAA
* * *
21901122 TTTTATGTTATTCTTTTTA
1 TTTTAAGTTATTATTTTAA
*
21901141 TTTT-GGTTATTATTT
1 TTTTAAGTTATTATTT
21901156 ATTAGTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 9 0.31
19 11 0.38
20 9 0.31
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTTAAGTTATTATTTTAA
Found at i:21902281 original size:13 final size:14
Alignment explanation
Indices: 21902254--21902284 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21902244 ATAAATTTTG
21902254 GTTAATTAGATTTA
1 GTTAATTAGATTTA
21902268 GTTAATTA-ATTTA
1 GTTAATTAGATTTA
21902281 GTTA
1 GTTA
21902285 TTCGAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (14 bp):
GTTAATTAGATTTA
Found at i:21903076 original size:11 final size:11
Alignment explanation
Indices: 21903060--21903091 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
21903050 CAGACACAAC
21903060 AAACACGTTTA
1 AAACACGTTTA
21903071 AAACACGTTT-
1 AAACACGTTTA
21903081 AAACACGTTTA
1 AAACACGTTTA
21903092 CTTAATCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (11 bp):
AAACACGTTTA
Found at i:21903120 original size:18 final size:19
Alignment explanation
Indices: 21903093--21903142 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
21903083 ACACGTTTAC
*
21903093 TTAATCGTGTTAT-CGTGT
1 TTAAACGTGTTATACGTGT
*
21903111 TTAAATGTG-TATACGTGT
1 TTAAACGTGTTATACGTGT
21903129 TTAAACGTG-TATAC
1 TTAAACGTGTTATAC
21903143 ATGACACGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 3 0.11
18 25 0.89
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (19 bp):
TTAAACGTGTTATACGTGT
Found at i:21903407 original size:9 final size:9
Alignment explanation
Indices: 21903390--21903447 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
21903380 ATATTTTTAT
21903390 TTAATCGTG
1 TTAATCGTG
*
21903399 TTAAACGTG
1 TTAATCGTG
*
21903408 TTAATTGTG
1 TTAATCGTG
21903417 TTAATCGTG
1 TTAATCGTG
*
21903426 TTAAACGTG
1 TTAATCGTG
21903435 TTAATCGTG
1 TTAATCGTG
21903444 TTAA
1 TTAA
21903448 ATGTATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
TTAATCGTG
Found at i:21903420 original size:27 final size:27
Alignment explanation
Indices: 21903390--21903447 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
21903380 ATATTTTTAT
*
21903390 TTAATCGTGTTAAACGTGTTAATTGTG
1 TTAATCGTGTTAAACGTGTTAATCGTG
21903417 TTAATCGTGTTAAACGTGTTAATCGTG
1 TTAATCGTGTTAAACGTGTTAATCGTG
21903444 TTAA
1 TTAA
21903448 ATGTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (27 bp):
TTAATCGTGTTAAACGTGTTAATCGTG
Found at i:21906266 original size:13 final size:13
Alignment explanation
Indices: 21906248--21906272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21906238 TTCCAAAAAA
21906248 TTTATAAAATCAT
1 TTTATAAAATCAT
21906261 TTTATAAAATCA
1 TTTATAAAATCA
21906273 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:21911686 original size:43 final size:43
Alignment explanation
Indices: 21911622--21911800 Score: 225
Period size: 43 Copynumber: 4.2 Consensus size: 43
21911612 AGCCGGGTCA
* * *
21911622 TCATCATCGGCTTATGAGCACTCCCTACTCGAACATAACCCGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCGAACATAGCCGGG
* * *
21911665 TCATCATCGGCTTATGCGCACTTCCTACTCGTACATAGCCGGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCGAACATAGCCGGG
* *
21911708 TCATCATCGGCTTATGTGCACTCCCTACTCGCACATAGTCGGG
1 TCATCATCGGCTTATGTGCACTCCCTACTCGAACATAGCCGGG
* * * **
21911751 TCATCATCAGCTCATGTGCACTCCC-ACATCGCACATAGCTAGG
1 TCATCATCGGCTTATGTGCACTCCCTAC-TCGAACATAGCCGGG
21911794 TCATCAT
1 TCATCAT
21911801 TATCACACAA
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
42 2 0.02
43 119 0.98
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (43 bp):
TCATCATCGGCTTATGTGCACTCCCTACTCGAACATAGCCGGG
Found at i:21918404 original size:22 final size:22
Alignment explanation
Indices: 21918379--21918421 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21918369 GAGTTTCTCA
*
21918379 CTGCAGCAAGAATCCAATTTCG
1 CTGCAACAAGAATCCAATTTCG
*
21918401 CTGCAACGAGAATCCAATTTC
1 CTGCAACAAGAATCCAATTTC
21918422 ATTGTAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (22 bp):
CTGCAACAAGAATCCAATTTCG
Found at i:21918798 original size:43 final size:42
Alignment explanation
Indices: 21918740--21918875 Score: 164
Period size: 43 Copynumber: 3.2 Consensus size: 42
21918730 AGTCGGGTCA
* * *
21918740 TCATCATCGGCTTATGCGCACTCCTTACTCGCAGATAGCTGGG
1 TCATCATCAGCTTATGTGCACTCC-TACTCGCACATAGCTGGG
* * **
21918783 TCATCATCAGCTTATGTACACTCCCTACTTGCACATAGCCAGG
1 TCATCATCAGCTTATGTGCACT-CCTACTCGCACATAGCTGGG
* *
21918826 TCATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGGG
1 TCATCATCAGCTTATGTGCACTCCTAC-TCGCACATAGCTGGG
21918869 TCATCAT
1 TCATCAT
21918876 TATCACACAA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.05
43 72 0.92
44 2 0.03
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (42 bp):
TCATCATCAGCTTATGTGCACTCCTACTCGCACATAGCTGGG
Found at i:21921145 original size:2 final size:2
Alignment explanation
Indices: 21921132--21921166 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21921122 NTTAACTTAC
*
21921132 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21921167 CGTATACACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21930058 original size:18 final size:18
Alignment explanation
Indices: 21930035--21930069 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21930025 TGTGTGTGTG
21930035 TGTATGCATATATATATA
1 TGTATGCATATATATATA
* *
21930053 TGTATGCGTATGTATAT
1 TGTATGCATATATATAT
21930070 GTATGTTTGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (18 bp):
TGTATGCATATATATATA
Found at i:21936076 original size:22 final size:22
Alignment explanation
Indices: 21936048--21936090 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21936038 AGTTAGAAGA
*
21936048 ATTCTTGTTACAACGAAAATCC
1 ATTCTTGCTACAACGAAAATCC
* *
21936070 ATTCTTGCTGCAATGAAAATC
1 ATTCTTGCTACAACGAAAATC
21936091 AATTTGGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (22 bp):
ATTCTTGCTACAACGAAAATCC
Found at i:21936242 original size:36 final size:36
Alignment explanation
Indices: 21936202--21936315 Score: 142
Period size: 36 Copynumber: 3.2 Consensus size: 36
21936192 GCTCACCAGC
21936202 TCATGTGCACTCCCACACCACACATAGCTGAA-ATCA
1 TCATGTGCACTCCCACACCACACATAGCT-AAGATCA
* *
21936238 TCATGTGCACTCCCATACCTCACATAGCTAAGA-CTA
1 TCATGTGCACTCCCACACCACACATAGCTAAGATC-A
* * * *
21936274 TCATGTGCACTCCCACACCGCACATGGCAAATATCA
1 TCATGTGCACTCCCACACCACACATAGCTAAGATCA
21936310 TCATGT
1 TCATGT
21936316 ACACACCATC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 3 0.04
36 64 0.94
37 1 0.01
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.23
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCACACATAGCTAAGATCA
Found at i:21946637 original size:22 final size:22
Alignment explanation
Indices: 21946612--21946654 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21946602 AGTTAGAAGA
*
21946612 ATTCTTGTTACAAAGAAAATCC
1 ATTCTTGCTACAAAGAAAATCC
* *
21946634 ATTCTTGCTGCAATGAAAATC
1 ATTCTTGCTACAAAGAAAATC
21946655 AATTTGGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (22 bp):
ATTCTTGCTACAAAGAAAATCC
Found at i:21946815 original size:36 final size:36
Alignment explanation
Indices: 21946767--21946852 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
21946757 TCACCAACTC
*
21946767 GTGCACTCCCACACTGCACATAGCTAAAA-TCATCAT
1 GTGCACTCCCACACTACACATAGCTAAAACT-ATCAT
* *
21946803 TTGCACTCCCACACTACACATAGCTAATACTATCAT
1 GTGCACTCCCACACTACACATAGCTAAAACTATCAT
21946839 GTGCACTCCCACAC
1 GTGCACTCCCACAC
21946853 CGCATGTCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.31, C:0.36, G:0.09, T:0.23
Consensus pattern (36 bp):
GTGCACTCCCACACTACACATAGCTAAAACTATCAT
Found at i:21951284 original size:14 final size:14
Alignment explanation
Indices: 21951267--21951293 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21951257 CAAAATTAAT
21951267 TAATTAACTAAAAC
1 TAATTAACTAAAAC
21951281 TAATTAACTAAAA
1 TAATTAACTAAAA
21951294 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:21953254 original size:44 final size:44
Alignment explanation
Indices: 21953191--21953279 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
21953181 TGTGTTTTGT
* *
21953191 TTTTTTTTCAGACCTTTCTCTATCAATTTATCTTTAAGCTCAAA
1 TTTTTTTTCACACCTTTCTCCATCAATTTATCTTTAAGCTCAAA
*
21953235 TTTTTTTTCACACCTTTCTCCCTCAATTTATCTTTAAGCTCAAA
1 TTTTTTTTCACACCTTTCTCCATCAATTTATCTTTAAGCTCAAA
21953279 T
1 T
21953280 CATTCTTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (44 bp):
TTTTTTTTCACACCTTTCTCCATCAATTTATCTTTAAGCTCAAA
Found at i:21957605 original size:14 final size:14
Alignment explanation
Indices: 21957588--21957614 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21957578 CAAAATTAAT
21957588 TAATTAACTAAAAC
1 TAATTAACTAAAAC
21957602 TAATTAACTAAAA
1 TAATTAACTAAAA
21957615 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:21967825 original size:19 final size:21
Alignment explanation
Indices: 21967783--21967826 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
21967773 AGGGAAGAAG
*
21967783 AAGACAGCTGTTGGAAATTTC
1 AAGACAGCTGCTGGAAATTTC
21967804 AAGA-AGCTGCTGGAAA-TTC
1 AAGACAGCTGCTGGAAATTTC
21967823 AAGA
1 AAGA
21967827 TATTTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (21 bp):
AAGACAGCTGCTGGAAATTTC
Found at i:21970014 original size:21 final size:20
Alignment explanation
Indices: 21969973--21970017 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
21969963 TAACTCTTCT
21969973 TAAAGTAAATTAAAAACAAAA
1 TAAAGTAAATT-AAAACAAAA
21969994 TAAAGTAAAATT-AAACTAAAA
1 TAAAGT-AAATTAAAAC-AAAA
21970015 TAA
1 TAA
21970018 CTTAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 13 0.59
22 5 0.23
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
TAAAGTAAATTAAAACAAAA
Found at i:21975601 original size:84 final size:84
Alignment explanation
Indices: 21975492--21975655 Score: 274
Period size: 84 Copynumber: 2.0 Consensus size: 84
21975482 CTGCAATGAG
* * *
21975492 ATTTATTCTCGCTGCAGCGAGAATCAAGCCAGTGTGACCCCCAAAACTCGAGAGTTTCTTGTTGC
1 ATTTATTCTCGCTGCAGCGAAAATCAAGCCAGTGTGACCCCCAAAACTCGAGAGTTTCTCGCTGC
* *
21975557 AGCGAAATTGAATCTTGCT
66 AGAGAAAATGAATCTTGCT
*
21975576 ATTTATTCTCGCTGCAGTGAAAATCAAGCCAGTGTGACCCCCAAAACTCGAGAGTTTCTCGCTGC
1 ATTTATTCTCGCTGCAGCGAAAATCAAGCCAGTGTGACCCCCAAAACTCGAGAGTTTCTCGCTGC
21975641 AGAGAAAATGAATCT
66 AGAGAAAATGAATCT
21975656 CGCTGCAGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (84 bp):
ATTTATTCTCGCTGCAGCGAAAATCAAGCCAGTGTGACCCCCAAAACTCGAGAGTTTCTCGCTGC
AGAGAAAATGAATCTTGCT
Found at i:21975869 original size:37 final size:37
Alignment explanation
Indices: 21975828--21975942 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
21975818 CATATGCATT
*
21975828 CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
21975865 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
21975902 CATCATCATGTGTGCACTCTCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
21975939 CATC
1 CATC
21975943 CTCACACAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
36 2 0.03
37 70 0.95
38 2 0.03
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:21976846 original size:16 final size:17
Alignment explanation
Indices: 21976821--21976860 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21976811 AAAACCCCTC
*
21976821 GTTAAACCC-TTAAATG
1 GTTAATCCCTTTAAATG
21976837 GTTAATCCCTTTAAATG
1 GTTAATCCCTTTAAATG
*
21976854 GCTAATC
1 GTTAATC
21976861 ATTCGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (17 bp):
GTTAATCCCTTTAAATG
Found at i:21977230 original size:40 final size:40
Alignment explanation
Indices: 21977171--21977260 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
21977161 AACGAGATTC
* *
21977171 TTTCTTGCTGTAGCAAAATTCAAGTGGCCAAAACAGAATG
1 TTTCTCGCTGCAGCAAAATTCAAGTGGCCAAAACAGAATG
*
21977211 TTTCTCGCTGCAGCGAAATTCAAGTGGCCAAAACAGAATG
1 TTTCTCGCTGCAGCAAAATTCAAGTGGCCAAAACAGAATG
*
21977251 TTTTTCGCTG
1 TTTCTCGCTG
21977261 TAGTGAGAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
TTTCTCGCTGCAGCAAAATTCAAGTGGCCAAAACAGAATG
Found at i:21977647 original size:40 final size:38
Alignment explanation
Indices: 21977591--21977693 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
21977581 ACCCAGCTCA
* *
21977591 TGTGCATCCCCCCACATTGTGCACATAGCCGGGGTCATCG
1 TGTGCATCCCCCCACATCGTGCACA-A-CCAGGGTCATCG
* ** *
21977631 TGTGCATCCCCTCACATCGTGCACAATTAGTGTCATCG
1 TGTGCATCCCCCCACATCGTGCACAACCAGGGTCATCG
21977669 TGTGCATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
21977694 CGGGCACTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 32 0.57
39 1 0.02
40 23 0.41
ACGTcount: A:0.19, C:0.36, G:0.20, T:0.24
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACAACCAGGGTCATCG
Found at i:21977817 original size:2 final size:2
Alignment explanation
Indices: 21977810--21977835 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21977800 AATGCACAAC
21977810 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
21977836 CAACATAATG
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:21981354 original size:35 final size:35
Alignment explanation
Indices: 21981307--21981422 Score: 132
Period size: 35 Copynumber: 3.4 Consensus size: 35
21981297 CCAAGTTTTT
*
21981307 ACAATGGCTTTTCACAAGCTCAGCCACAACCTTTA
1 ACAATGGCTTTTCACAAGCTCAACCACAACCTTTA
* * * * *
21981342 ACAATGGTTTTTCACGAGATCAACCAAAACC--CA
1 ACAATGGCTTTTCACAAGCTCAACCACAACCTTTA
21981375 A-AATGGCTTTTCA-AAGGCTCAACCACAACCTTTA
1 ACAATGGCTTTTCACAA-GCTCAACCACAACCTTTA
*
21981409 ACAATGGTTTTTCA
1 ACAATGGCTTTTCA
21981423 TGGGATCAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
31 1 0.02
32 23 0.35
33 2 0.03
34 2 0.03
35 37 0.57
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (35 bp):
ACAATGGCTTTTCACAAGCTCAACCACAACCTTTA
Found at i:21981387 original size:67 final size:67
Alignment explanation
Indices: 21981309--21981444 Score: 220
Period size: 67 Copynumber: 2.0 Consensus size: 67
21981299 AAGTTTTTAC
*
21981309 AATGGCTTTTCACAA-GCTCAGCCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAACC
1 AATGGCTTTTCA-AAGGCTCAACCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAACC
21981373 CAA
65 CAA
* * *
21981376 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCATGGGATCAACCAAAATCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAACCC
21981441 AA
66 AA
21981443 AA
1 AA
21981445 CTAACTTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 2 0.03
67 62 0.97
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (67 bp):
AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTCACGAGATCAACCAAAACCC
AA
Found at i:21981432 original size:35 final size:35
Alignment explanation
Indices: 21981330--21981434 Score: 117
Period size: 35 Copynumber: 3.1 Consensus size: 35
21981320 ACAAGCTCAG
* *
21981330 CCACAACCTTTAACAATGGTTTTTCACGAGATCAA
1 CCACAACCTTTAACAATGGTTTTTCAAGGGATCAA
* * * * *
21981365 CCAAAACC--CAA-AATGGCTTTTCAAAGGCTCAA
1 CCACAACCTTTAACAATGGTTTTTCAAGGGATCAA
*
21981397 CCACAACCTTTAACAATGGTTTTTCATGGGATCAA
1 CCACAACCTTTAACAATGGTTTTTCAAGGGATCAA
21981432 CCA
1 CCA
21981435 AAATCCAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
32 23 0.43
33 2 0.04
34 2 0.04
35 27 0.50
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (35 bp):
CCACAACCTTTAACAATGGTTTTTCAAGGGATCAA
Found at i:21982023 original size:73 final size:73
Alignment explanation
Indices: 21981829--21982030 Score: 269
Period size: 73 Copynumber: 2.8 Consensus size: 73
21981819 TAACAGAATA
* * * * *
21981829 CTCTTAGTCGACTAACTATGTTTCTTAGTCGATTAAGTTGTCTCTATTTTTAAACCCAGTCTCTA
1 CTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTGTTTTTGAACCCAGTCTCTA
*
21981894 GCAGTAAG
66 GCAATAAG
* * * * * *
21981902 CTCTTAGTCAACTAACAATGCTTCTTAGTCGATTAAGTCATCTTTGTTTTTGAACCTAGTTTTTA
1 CTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTGTTTTTGAACCCAGTCTCTA
21981967 GCAATAAG
66 GCAATAAG
* * *
21981975 CTCTTAGTTGACTAACAATGCTTCTTAATCGATTAAGTCGTCTCTGTTTCTGAACC
1 CTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTGTTTTTGAACC
21982031 GGCCATCTTC
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (73 bp):
CTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCGTCTCTGTTTTTGAACCCAGTCTCTA
GCAATAAG
Found at i:21982700 original size:34 final size:34
Alignment explanation
Indices: 21982660--21982728 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
21982650 TAAGTCAGAC
21982660 TTTAATGAATGAGAATCATAAGCACTCATACACT
1 TTTAATGAATGAGAATCATAAGCACTCATACACT
*
21982694 TTTAATGAATGAGAATCATAAGTACTCATACACT
1 TTTAATGAATGAGAATCATAAGCACTCATACACT
21982728 T
1 T
21982729 AAGTCATACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (34 bp):
TTTAATGAATGAGAATCATAAGCACTCATACACT
Found at i:21987155 original size:19 final size:20
Alignment explanation
Indices: 21987131--21987170 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
21987121 CCATTTGACT
*
21987131 TATTGGAGTATGATTT-AAG
1 TATTGGAATATGATTTGAAG
21987150 TATTGGAATATGATTTGAAG
1 TATTGGAATATGATTTGAAG
21987170 T
1 T
21987171 TTAGAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (20 bp):
TATTGGAATATGATTTGAAG
Found at i:21989846 original size:32 final size:32
Alignment explanation
Indices: 21989804--21989904 Score: 87
Period size: 32 Copynumber: 3.1 Consensus size: 32
21989794 AACCTTTAAC
*
21989804 AATGGTTTTTCACAAGATCAACCAAAACCCAA
1 AATGGATTTTCACAAGATCAACCAAAACCCAA
* * * * *
21989836 AATGGCTTTTCA-AAGGCTCAATCACAACCTTTAA
1 AATGGATTTTCACAA-GATCAACCAAAACC--CAA
* *
21989870 TAATGGATTTTCACAGGATCAACCAAAACTCAA
1 -AATGGATTTTCACAAGATCAACCAAAACCCAA
21989903 AA
1 AA
21989905 CTAACTTTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
31 2 0.04
32 24 0.46
33 2 0.04
34 2 0.04
35 21 0.40
36 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.25
Consensus pattern (32 bp):
AATGGATTTTCACAAGATCAACCAAAACCCAA
Found at i:21989854 original size:67 final size:67
Alignment explanation
Indices: 21989769--21989904 Score: 200
Period size: 67 Copynumber: 2.0 Consensus size: 67
21989759 AAGCTTTTAC
** * *
21989769 AATGGCTTTTCATTGGCTCAGCCACAACCTTTAACAATGGTTTTTCACAAGATCAACCAAAACCC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGATTTTCACAAGATCAACCAAAACCC
21989834 AA
66 AA
* * * *
21989836 AATGGCTTTTCAAAGGCTCAATCACAACCTTTAATAATGGATTTTCACAGGATCAACCAAAACTC
1 AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGATTTTCACAAGATCAACCAAAACCC
21989901 AA
66 AA
21989903 AA
1 AA
21989905 CTAACTTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (67 bp):
AATGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGATTTTCACAAGATCAACCAAAACCC
AA
Found at i:21992004 original size:23 final size:23
Alignment explanation
Indices: 21991974--21992053 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
21991964 TATATGTATA
21991974 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
21991997 CCCATCAT--T-ATGCACACCAT
1 CCCATCATCATCATGCACACCAT
*
21992017 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATGCACACCAT
*
21992040 CACATCATCATCAT
1 CCCATCATCATCAT
21992054 CACCAGCTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
20 19 0.37
21 1 0.02
22 1 0.02
23 31 0.60
ACGTcount: A:0.33, C:0.41, G:0.03, T:0.24
Consensus pattern (23 bp):
CCCATCATCATCATGCACACCAT
Found at i:21992058 original size:20 final size:20
Alignment explanation
Indices: 21991979--21992050 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
21991969 GTATACCCAT
21991979 CATCATCATGCACACCATCC
1 CATCATCATGCACACCATCC
*
21991999 CATCATTATGCACACCATCCC
1 CATCATCATGCACACCAT-CC
* *
21992020 ATCATCATCATACACACCATCA
1 --CATCATCATGCACACCATCC
21992042 CATCATCAT
1 CATCATCAT
21992051 CATCACCAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 26 0.58
21 2 0.04
22 1 0.02
23 16 0.36
ACGTcount: A:0.33, C:0.40, G:0.03, T:0.24
Consensus pattern (20 bp):
CATCATCATGCACACCATCC
Found at i:21992058 original size:43 final size:43
Alignment explanation
Indices: 21991974--21992058 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
21991964 TATATGTATA
* * *
21991974 CCCATCATCATCATGCACACCATCCCATCATTATGCACACCAT
1 CCCATCATCATCATACACACCATCACATCATCATGCACACCAT
21992017 CCCATCATCATCATACACACCATCACATCATCAT-CATCACCA
1 CCCATCATCATCATACACACCATCACATCATCATGCA-CACCA
21992059 GCTCATGCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.22
Consensus pattern (43 bp):
CCCATCATCATCATACACACCATCACATCATCATGCACACCAT
Found at i:21992139 original size:43 final size:43
Alignment explanation
Indices: 21992099--21992181 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
21992089 TAGGTCATCA
*
21992099 TCGGGTTATGCGCACTCCCTACTCACACATAACCGAGTCATTC
1 TCGGCTTATGCGCACTCCCTACTCACACATAACCGAGTCATTC
* * *
21992142 TTGGCTTATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 TCGGCTTATGCGCACTCCCTACTCACACATAACCGAGTCA
21992182 ATATAATTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (43 bp):
TCGGCTTATGCGCACTCCCTACTCACACATAACCGAGTCATTC
Found at i:21993762 original size:43 final size:43
Alignment explanation
Indices: 21993685--21993775 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
21993675 GTAATTATAT
* * * *
21993685 TGACTCGGCTATGTGCGAGTACGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTACGGAGTACACATAACCCG-GTGA
* *
21993728 TGACCCGGTTATGTGCGAGTAGGGAGTACACATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTACGGAGTACACATAACCCGGTGA
21993771 TGACC
1 TGACC
21993776 TAACCATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.24, C:0.22, G:0.34, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTACGGAGTACACATAACCCGGTGA
Found at i:21996504 original size:37 final size:37
Alignment explanation
Indices: 21996463--21996536 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
21996453 CATCAGCATC
*
21996463 CAAATCCTAACCATCAACAATTATCATAGCAGAATGT
1 CAAATCCTAACCATCAACAATTATCACAGCAGAATGT
* *
21996500 CAAATTCTAACCATCAGCAATTATCACAGCAGAATGT
1 CAAATCCTAACCATCAACAATTATCACAGCAGAATGT
21996537 TATAAGTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (37 bp):
CAAATCCTAACCATCAACAATTATCACAGCAGAATGT
Found at i:22005837 original size:33 final size:33
Alignment explanation
Indices: 22005800--22005875 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
22005790 AAATGGGTGT
22005800 TTAGAAATAAGGTAGATGAGCAAGGAAATGTAG
1 TTAGAAATAAGGTAGATGAGCAAGGAAATGTAG
*
22005833 TTAGAAATAAGGTAGATGAGCAAGGAAATTTAG
1 TTAGAAATAAGGTAGATGAGCAAGGAAATGTAG
22005866 TTAGAAATAA
1 TTAGAAATAA
22005876 AACTAGGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.47, C:0.03, G:0.26, T:0.24
Consensus pattern (33 bp):
TTAGAAATAAGGTAGATGAGCAAGGAAATGTAG
Found at i:22015710 original size:40 final size:40
Alignment explanation
Indices: 22015666--22015744 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
22015656 TAGAAGACCA
*
22015666 TAGCAAAAGTAATGCATGTAAGGCTTGTAGATACACATGG
1 TAGCAAAAGTAATGCATGTAAGACTTGTAGATACACATGG
* *
22015706 TAGCAAAAGTAATGCATGTAATACTTGTGGATACACATG
1 TAGCAAAAGTAATGCATGTAAGACTTGTAGATACACATG
22015745 ATAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (40 bp):
TAGCAAAAGTAATGCATGTAAGACTTGTAGATACACATGG
Found at i:22018122 original size:28 final size:29
Alignment explanation
Indices: 22018081--22018145 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
22018071 GTCTATGGAC
* *
22018081 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAAGGGGCAAAAATGT
* *
22018109 AATTTTTGACTTTTACAGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-AGGGGCAAAAATGT
*
22018139 AAATTTT
1 AATTTTT
22018146 AAAAAATTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (29 bp):
AATTTTTCACTTTTAAGGGGCAAAAATGT
Found at i:22021622 original size:17 final size:16
Alignment explanation
Indices: 22021582--22021625 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
22021572 TATATTTTAA
*
22021582 ATGATATAAATTATAT
1 ATGATATTAATTATAT
*
22021598 ATTAATATTAATTAATAT
1 A-TGATATTAATT-ATAT
22021616 ATGATATTAA
1 ATGATATTAA
22021626 GCATAAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 17 0.74
18 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
ATGATATTAATTATAT
Found at i:22021822 original size:16 final size:17
Alignment explanation
Indices: 22021796--22021828 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
22021786 AAAATAAACA
22021796 TTTATTTAATCAATTTT
1 TTTATTTAATCAATTTT
22021813 TTTA-TTAATCAATTTT
1 TTTATTTAATCAATTTT
22021829 CATACATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTTAATCAATTTT
Found at i:22024050 original size:33 final size:33
Alignment explanation
Indices: 22024013--22024079 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
22024003 ACTAAAGTTT
22024013 ATAGTAAAATGAAGTTGAACGAACTAAGTAGAA
1 ATAGTAAAATGAAGTTGAACGAACTAAGTAGAA
22024046 ATAGTAAAATGAAGTTGAACGAACTAAGTAGAA
1 ATAGTAAAATGAAGTTGAACGAACTAAGTAGAA
22024079 A
1 A
22024080 CAGCTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.06, G:0.21, T:0.21
Consensus pattern (33 bp):
ATAGTAAAATGAAGTTGAACGAACTAAGTAGAA
Found at i:22024450 original size:2 final size:2
Alignment explanation
Indices: 22024443--22024468 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22024433 AAAATAATGA
22024443 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
22024469 GCTTGATTGT
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:22027600 original size:28 final size:29
Alignment explanation
Indices: 22027559--22027618 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
22027549 GTCTATGGGC
*
22027559 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
22027587 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
22027617 AA
1 AA
22027619 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:22032290 original size:506 final size:504
Alignment explanation
Indices: 22031340--22032353 Score: 1920
Period size: 506 Copynumber: 2.0 Consensus size: 504
22031330 AGCATTTTTA
22031340 ATTTTAATCTAGACTTTTCTTTTCTTTAATTTTTTAGGTACTTTTGGTCGTTGTACGCGAAGAGC
1 ATTTTAATCTAGACTTTTCTTTTCTTTAATTTTTTAGGTACTTTTGGTCGTTGTACGCGAAGAGC
22031405 CCAAAATTTGAAAATTGTTCCTTTTGATCCAGAAATCGAAAAACTTTTCGAAAACTCCAGAGGAA
66 CCAAAATTTGAAAATTGTTCCTTTTGATCCAGAAATCGAAAAACTTTTCGAAAACTCCAGAGGAA
22031470 AAATAAAAAAAAAATTCTACTCCAAGTAAAACAATGGCTGATCAATAAGAGGAAGAGACCAAGCC
131 AAATAAAAAAAAAATTCTACTCCAAGTAAAACAATGGCTGATCAATAAGAGGAAGAGACCAAGCC
*
22031535 TTTGAGGGATTATGCAGTCCCACAAGTAAAAATCTCCACTCTAGTATCCGAAGACCTTCTATTCA
196 TTTGAGGGATTATGCAGTCCCACAAGTAAAAATCTCCACTCTAGTATCCAAAGACCTTCTATTCA
*
22031600 AGCCAACAACTTTGAAATTAAGTCATCAATCATTCAAATGATTCATATTGCTATTCAGTTTGGGG
261 AGCCAACAACTTTGAAATTAAGTCATCAATCATTCAAATGATTCAAATTGCTATTCAGTTTGGGG
*
22031665 GTTTGCCTAATGATGATCCGAATGCTCATATTGTAAATTTTCAGAAAATCTGCAATACATTCAAG
326 GTTTGCCTAATGATGATCCGAATGCTCATATTGTAAATTTCCAGAAAATCTGCAATACATTCAAG
*
22031730 GCTAATGGTATTACTAATGATGCCATAAGATCAAGGTTTTTCCCTTTTTTATTTTGAGATAAGCA
391 GCTAATGGTATTACTAATGATGCCATAAGATCAAGGCTTTTCCCTTTTTTATTTTGAGATAAGCA
*
22031795 AAGAGTTGGTTAAATTCGCTTCTTGCTGGTTCCATTAATACTTGGACTG
456 AAGAGTTGGTTAAATTCGCTTCTTGCTGGTTCCATTAATACTTGGAATG
*
22031844 ATTTTAATCTAGATTTTTCTTTTCTTTAATTTTTTAGGTACTTTTGGTCGTTGTACGCGAAGAGC
1 ATTTTAATCTAGACTTTTCTTTTCTTTAATTTTTTAGGTACTTTTGGTCGTTGTACGCGAAGAGC
22031909 CCAAAATTTGAAAATTGTTCCTTTTGATCCAGAAATCGAAAAACTTTTCGAAAACTCCAGAGGAA
66 CCAAAATTTGAAAATTGTTCCTTTTGATCCAGAAATCGAAAAACTTTTCGAAAACTCCAGAGGAA
22031974 AAATAATAAAAAAAATTCTACTCCAAGTAAAACAATGGCTGATCAATAAGAGGAAGAGACCAAGC
131 AAATAA-AAAAAAAATTCTACTCCAAGTAAAACAATGGCTGATCAATAAGAGGAAGAGACCAAGC
* *
22032039 CTTTGAGGGATTATGCGGTCCCACAAGTACAAAATCTCCACTCTAGTATCTAAAGACCTTCTATT
195 CTTTGAGGGATTATGCAGTCCCACAAGTA-AAAATCTCCACTCTAGTATCCAAAGACCTTCTATT
22032104 CAAGCCAACAACTTTGAAATTAAGTCATCAATCATTCAAATGATTCAAATTGCTATTCAGTTTGG
259 CAAGCCAACAACTTTGAAATTAAGTCATCAATCATTCAAATGATTCAAATTGCTATTCAGTTTGG
*
22032169 GGGTTTGCCTAATGATGATCCGAATGCTCATATTGTAAATTTCCTGAAAATCTGCAATACATTCA
324 GGGTTTGCCTAATGATGATCCGAATGCTCATATTGTAAATTTCCAGAAAATCTGCAATACATTCA
*
22032234 AGGCTAATGGTATTACTGATGATGCCATAAGATCAAGGCTTTTCCCTTTTTTATTTTGAGATAAG
389 AGGCTAATGGTATTACTAATGATGCCATAAGATCAAGGCTTTTCCCTTTTTTATTTTGAGATAAG
22032299 CAAAGAGTTGGTTAAATTCGCTTCTTGCTGGTTCCATTAATACTTGGAATG
454 CAAAGAGTTGGTTAAATTCGCTTCTTGCTGGTTCCATTAATACTTGGAATG
22032350 ATTT
1 ATTT
22032354 GGCTCAAACT
Statistics
Matches: 498, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
504 135 0.27
505 86 0.17
506 277 0.56
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (504 bp):
ATTTTAATCTAGACTTTTCTTTTCTTTAATTTTTTAGGTACTTTTGGTCGTTGTACGCGAAGAGC
CCAAAATTTGAAAATTGTTCCTTTTGATCCAGAAATCGAAAAACTTTTCGAAAACTCCAGAGGAA
AAATAAAAAAAAAATTCTACTCCAAGTAAAACAATGGCTGATCAATAAGAGGAAGAGACCAAGCC
TTTGAGGGATTATGCAGTCCCACAAGTAAAAATCTCCACTCTAGTATCCAAAGACCTTCTATTCA
AGCCAACAACTTTGAAATTAAGTCATCAATCATTCAAATGATTCAAATTGCTATTCAGTTTGGGG
GTTTGCCTAATGATGATCCGAATGCTCATATTGTAAATTTCCAGAAAATCTGCAATACATTCAAG
GCTAATGGTATTACTAATGATGCCATAAGATCAAGGCTTTTCCCTTTTTTATTTTGAGATAAGCA
AAGAGTTGGTTAAATTCGCTTCTTGCTGGTTCCATTAATACTTGGAATG
Found at i:22033076 original size:21 final size:21
Alignment explanation
Indices: 22033052--22033104 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
22033042 GTTCATGTAG
* *
22033052 TTCATGACAAAGGCTAATACA
1 TTCATAACAAAGACTAATACA
* *
22033073 TTCATAACAAAGACTCATGCA
1 TTCATAACAAAGACTAATACA
22033094 TTCATAACAAA
1 TTCATAACAAA
22033105 AATCGATGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (21 bp):
TTCATAACAAAGACTAATACA
Found at i:22033113 original size:21 final size:21
Alignment explanation
Indices: 22033071--22033116 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22033061 AAGGCTAATA
*
22033071 CATTCATAACAAAGACTCATG
1 CATTCATAACAAAGAATCATG
22033092 CATTCATAACAAA-AATCGATG
1 CATTCATAACAAAGAATC-ATG
22033113 CATT
1 CATT
22033117 TATGATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (21 bp):
CATTCATAACAAAGAATCATG
Found at i:22036649 original size:18 final size:17
Alignment explanation
Indices: 22036613--22036649 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22036603 AAATACGAAT
*
22036613 TTATAAAATAAATGGAA
1 TTATAAAATAAATGAAA
22036630 TTATAAAATAAATTGAAA
1 TTATAAAATAAA-TGAAA
22036648 TT
1 TT
22036650 TTTATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (17 bp):
TTATAAAATAAATGAAA
Found at i:22038096 original size:16 final size:15
Alignment explanation
Indices: 22038053--22038100 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
22038043 ACCCTTTTTC
*
22038053 TTTATTTATTTTCTT
1 TTTATTTATTTTATT
*
22038068 TTTAGTTATTTTTATT
1 TTTATTTA-TTTTATT
22038084 TATTATTTATTTTATT
1 T-TTATTTATTTTATT
22038100 T
1 T
22038101 CTCTACATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.25
16 15 0.54
17 6 0.21
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTTATT
Found at i:22039540 original size:3 final size:3
Alignment explanation
Indices: 22039532--22039572 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
22039522 ACTTTATCTC
* * *
22039532 TAG TAG TAG TAG TAG TAG TAG TAA TAG TAA CAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
22039573 ATAATTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (3 bp):
TAG
Found at i:22045034 original size:3 final size:3
Alignment explanation
Indices: 22045026--22045051 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22045016 TTGTTTAACT
22045026 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
22045052 GAAAAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22045250 original size:110 final size:110
Alignment explanation
Indices: 22045117--22045326 Score: 341
Period size: 110 Copynumber: 1.9 Consensus size: 110
22045107 GTTAGAATGG
* * * *
22045117 CATGTTTTTGTTAATATTTTTTATTGTAAACATGTATGAGAATTAGTCTTGATTCCTACATTTTG
1 CATGTTTTTGTTAACATTTTTTATAGTAAACATGAATGAGAATTAGTCTTAATTCCTACATTTTG
22045182 ATGATGATTTTGATAGTTTGTTTCAATTTT-TTTTAGCATGGCTTC
66 ATGATGATTTTGATAGTTTGTTTC-ATTTTCTTTTAGCATGGCTTC
* * *
22045227 CATGTTTTTGTTAACATTTTTTATAGTAAACATGAATGGGAATTAGTCTTAATTCTTATATTTTG
1 CATGTTTTTGTTAACATTTTTTATAGTAAACATGAATGAGAATTAGTCTTAATTCCTACATTTTG
22045292 ATGATGATTTTGATAGTTTGTTTCATTTTCTTTTA
66 ATGATGATTTTGATAGTTTGTTTCATTTTCTTTTA
22045327 ACTTATGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 5 0.05
110 87 0.95
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (110 bp):
CATGTTTTTGTTAACATTTTTTATAGTAAACATGAATGAGAATTAGTCTTAATTCCTACATTTTG
ATGATGATTTTGATAGTTTGTTTCATTTTCTTTTAGCATGGCTTC
Found at i:22047627 original size:28 final size:30
Alignment explanation
Indices: 22047591--22047653 Score: 101
Period size: 32 Copynumber: 2.1 Consensus size: 30
22047581 ACATATCTCC
22047591 TATAT-ATGACTCTTCATACAAATGTATTT
1 TATATAATGACTCTTCATACAAATGTATTT
22047620 TANTATGAATGACTCTTCATACAAATGTATTT
1 TA-TAT-AATGACTCTTCATACAAATGTATTT
22047652 TA
1 TA
22047654 ATATCTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 2 0.06
30 3 0.10
32 26 0.84
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.43
Consensus pattern (30 bp):
TATATAATGACTCTTCATACAAATGTATTT
Found at i:22064797 original size:2 final size:2
Alignment explanation
Indices: 22064790--22064828 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22064780 GAAAATGAAG
22064790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22064829 ATTATCATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22069971 original size:32 final size:32
Alignment explanation
Indices: 22069899--22069976 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
22069889 AACATGACAC
* *
22069899 CTAC-ATGATGACGTGGCATGCCACGTGGCAT
1 CTACTATGATGACATGACATGCCACGTGGCAT
* *
22069930 CGA-TGTGATGACATGACAATGCCACGTGGCA-
1 CTACTATGATGACATGAC-ATGCCACGTGGCAT
22069961 CTACTATGATGACATG
1 CTACTATGATGACATG
22069977 GCATTGACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
31 14 0.37
32 24 0.63
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (32 bp):
CTACTATGATGACATGACATGCCACGTGGCAT
Found at i:22070084 original size:31 final size:31
Alignment explanation
Indices: 22070045--22070125 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
22070035 GTGACATCAT
*
22070045 AGGGACTAAATTGAACAAAAAT-ATATAGTATG
1 AGGGACTAAATTGAACAAAAATGAGAT-GT-TG
*
22070077 -GGGACTAAATTGAACAAAATTGAGATGTTG
1 AGGGACTAAATTGAACAAAAATGAGATGTTG
22070107 AGGGACTAAATTGAA-AAAA
1 AGGGACTAAATTGAACAAAA
22070126 TATTTGAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 6 0.13
31 36 0.80
32 3 0.07
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.23
Consensus pattern (31 bp):
AGGGACTAAATTGAACAAAAATGAGATGTTG
Found at i:22071380 original size:2 final size:2
Alignment explanation
Indices: 22071373--22071404 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22071363 TCTTGGTCAT
22071373 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22071405 GCCCTCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22081599 original size:114 final size:113
Alignment explanation
Indices: 22081465--22081683 Score: 366
Period size: 114 Copynumber: 1.9 Consensus size: 113
22081455 TGAGGGTGAT
* * *
22081465 TATGAGATTGTGCCTCTAATCCTCCTATACTTCAAGTTTCTCATTTAAAGATTACTCGCTTAATT
1 TATGAGATTGTGCCTCTAATCCTCCTATACTTAAAGTTTCTCATTTAAAAAGTACTCGCTTAATT
*
22081530 TCCCAGTTACATTCATAGCTGTTTGTGCCTCTCTATGCTTTTGTGCCTC
66 TCCCAGTT-CATTCATAGCTGTTTGTGCCTCTCTACGCTTTTGTGCCTC
22081579 TATGAGATTGTGCCTCTAATCCTCCTATACTTAAAGTTTCTCATTTAAAAAGTACTCGCTTAATT
1 TATGAGATTGTGCCTCTAATCCTCCTATACTTAAAGTTTCTCATTTAAAAAGTACTCGCTTAATT
* * *
22081644 TCCCAGTTCATTTATAGCTTTTTGTGGCTCTCTACGCTTT
66 TCCCAGTTCATTCATAGCTGTTTGTGCCTCTCTACGCTTT
22081684 CTTTATTTGA
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
113 28 0.29
114 70 0.71
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.42
Consensus pattern (113 bp):
TATGAGATTGTGCCTCTAATCCTCCTATACTTAAAGTTTCTCATTTAAAAAGTACTCGCTTAATT
TCCCAGTTCATTCATAGCTGTTTGTGCCTCTCTACGCTTTTGTGCCTC
Found at i:22084512 original size:18 final size:18
Alignment explanation
Indices: 22084485--22084519 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22084475 AACATGTTCA
*
22084485 ATATCTATAAACATAAAC
1 ATATCCATAAACATAAAC
22084503 ATATCCATAAACATAAA
1 ATATCCATAAACATAAA
22084520 AACCAATTCG
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:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (18 bp):
ATATCCATAAACATAAAC
Found at i:22094517 original size:2 final size:2
Alignment explanation
Indices: 22094510--22094551 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
22094500 NNNNNNNNNN
22094510 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22094552 CACTACACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22096876 original size:22 final size:21
Alignment explanation
Indices: 22096845--22096894 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
22096835 ATAAGGAAAG
*
22096845 ATTTTGAAAACACGATGC-ACTT
1 ATTTT-AAAA-ACAATGCAACTT
*
22096867 ATTTTAAAAACAATGCAATTT
1 ATTTTAAAAACAATGCAACTT
22096888 ATTTTAA
1 ATTTTAA
22096895 TTTCTTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 14 0.56
22 5 0.20
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (21 bp):
ATTTTAAAAACAATGCAACTT
Found at i:22097584 original size:2 final size:2
Alignment explanation
Indices: 22097577--22097622 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
22097567 ACATTTTAGG
22097577 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
22097619 GA GA
1 GA GA
22097623 AGAAGTANNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22097708 original size:2 final size:2
Alignment explanation
Indices: 22097701--22097728 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22097691 NNNNNNNNNN
22097701 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
22097729 AAGATTGTCC
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22100245 original size:21 final size:22
Alignment explanation
Indices: 22100220--22100260 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22100210 CCTAGGTGGA
*
22100220 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAATAAGTGTG
22100241 AAAATTCAAGGAAATAAGTG
1 AAAATTCAAGGAAATAAGTG
22100261 AAAAAGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.24, T:0.20
Consensus pattern (22 bp):
AAAATTCAAGGAAATAAGTGTG
Found at i:22100261 original size:20 final size:21
Alignment explanation
Indices: 22100220--22100264 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
22100210 CCTAGGTGGA
*
22100220 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
22100241 AAAATTCAA-GGAAATA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
22100261 AAAA
1 AAAA
22100265 AGGTAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.04, G:0.22, T:0.18
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:22100265 original size:21 final size:20
Alignment explanation
Indices: 22100218--22100265 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
22100208 ACCCTAGGTG
*
22100218 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
22100238 GTGAAAATTCAAGGAAATAAGT
1 G-AAAAATTCAAGGAAA-AAGT
22100260 GAAAAA
1 GAAAAA
22100266 GGTAAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.04, G:0.23, T:0.17
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:22106621 original size:778 final size:778
Alignment explanation
Indices: 22105483--22106986 Score: 2199
Period size: 778 Copynumber: 1.9 Consensus size: 778
22105473 ACTTGTTTTC
*
22105483 CTTGATTTTCCACACTTTTTCTCTTGAAATTCTCCACCTAAGGTTTGTTCTTTCTTTTCATTCCT
1 CTTGATTTTCCACACTTTTTCCCTTGAAATTCTCCACCTAAGGTTTGTTCTTTCTTTTCATTCCT
* *
22105548 TTGTTCTTCCTTTGGCCGGCCATATGAATGAGAAATGGGCTGATTTTGTACTAATTTATAAGGAA
66 TTGTTCTTCCTATGGCCAGCCATATGAATGAGAAATGGGCTGATTTTGTACTAATTTATAAGGAA
22105613 AATAATGAATGGATGAGATTTTGACACATATCACCATTCCACTAGTCCATGTGTCATACTTAGCC
131 AATAATGAATGGATGAGATTTTGACACATATCACCATTCCACTAGTCCATGTGTCATACTTAGCC
**
22105678 ATTAAGCAATCTCTCTCCACCACTTAAATTTTTTCAATTATCCATGATAATATTGGGTAAAATCC
196 ATTAAGCAATCTCTCTCCACCACTTAAATTTCCTCAATTATCCATGATAATATTGGGTAAAATCC
* *
22105743 ATGTGCTGGACAAGTGTTGGGTGGTGTAAAATTACGATTTTACCCTTGGGCTGCAAAATGACTAT
261 ATGTGCTGGACAAGTGTTGGGTGGTGTAAAATTACAATTTTACCCTAGGGCTGCAAAATGACTAT
* ** *** * * *
22105808 TTTGCCCCTATGCTAGGAAAAATGCCGGCATTAAAATTTTTTACTTCTCAAACTCAAATTAT-GT
326 TTTACCCCTATGCTAGGAAAAACACCAAAATTAAAATTCTTCACTTCTCAAACTCAAATTATACT
* ** * *
22105872 CTAAAT-AGTC-AATCTTAGTCAAAAAATTTCATCCAACACTC-ACATCTTAAT-CTCGGGTGGC
391 C-AAATAAGTCAAATCTGA-TCAAAAAATTTCA-AAAAAACTCTA-AT-TT-ATCCTCGAGTGGC
* * *
22105933 AAAATGACCATTTCGCCCCTAGGTCA-TGAAAATTCTAATTTGACTCCAAATCTGTCCTCGAACT
450 AAAATGACCATTTCACCCCTAGAT-AGTGAAAATTCTAATTTGACTCCAAATCGGTCCTCGAACT
* *** *
22105997 CCGAATCACCATTTTAAGTCATTCTGGGGTTTTAAAATTCTCAATTTCATCTTAAAATCTCTATT
514 CCGAAACACCATTTTAAGTCATTCTAAAGTTTTAAAATTCTCAATTTAATCTTAAAATCTCTATT
** * * *
22106062 TGGACTAGTTCGAGGCTTAATTCAACTTAATTGTACCATTTGGTACATTACCGTCCTTTATCGAT
579 CAGACTAGTTCGAGGCTTAATTCAACTTAATTGTACCAGTTGGTACAATACCGTCCTTTAACGAT
* * *
22106127 TTTCAAGGTACCCAAGTAAGCAAACATGCATTCTTCTGTATGAAGGGCATAATAAACATATTGTA
644 TTTCAAGGTACCCAAGTAAGCAAACATGCATTCTTATGTAAGAAGGACATAATAAACATATTGTA
22106192 GAG-CTGGGCTTGACAGGAAAGGTAGATCACAAGTCAAAATCAAGAAATTTTACCTTTGATTGCT
709 GAGTC-GGGCTTGACAGGAAAGGTAGATCACAAGTCAAAATCAAGAAATTTTACCTTTGATTGCT
22106256 TAATTA
773 TAATTA
* * *
22106262 CTTGAATTTT-CACA-TTTTTCCCTTGAATTTTTCCACCTAGGGTTTGTGT-TCTTCTTTTC-TT
1 CTTG-ATTTTCCACACTTTTTCCCTTGAAATTCTCCACCTAAGGTTTGT-TCT-TTCTTTTCATT
* *
22106323 CCTTTGTTCTTGCTATGGCCAGTCATAATGAA-GAGAAATGGGCTGATTTTGTACTAATTTATAA
63 CCTTTGTTCTTCCTATGGCCAGCCAT-ATGAATGAGAAATGGGCTGATTTTGTACTAATTTATAA
* * *
22106387 GGAAAATAATGAATGGATGAGATTTTGACACATGTCACCATTCCATTGGTCCATGTGTCATACTT
127 GGAAAATAATGAATGGATGAGATTTTGACACATATCACCATTCCACTAGTCCATGTGTCATACTT
22106452 AGCCATTAAGCAATCTCTCTCCACCACTTAAATTTCCTCAATTATCCATGATAATATTGGGTAAA
192 AGCCATTAAGCAATCTCTCTCCACCACTTAAATTTCCTCAATTATCCATGATAATATTGGGTAAA
* * *
22106517 ATTCATGTGCTGGACGAGTGTTGGGTGGTGTAAAATTATAATTTTACCCCTAGGG-TGGCAAAAT
257 ATCCATGTGCTGGACAAGTGTTGGGTGGTGTAAAATTACAATTTTA-CCCTAGGGCT-GCAAAAT
*
22106581 GACTATTTTACCCCTATGCT-TGAAAAACACCAAAATTAAAATTCTTCACTTCTCAAACTCAAAT
320 GACTATTTTACCCCTATGCTAGGAAAAACACCAAAATTAAAATTCTTCACTTCTCAAACTCAAAT
* * ** * *
22106645 TATACTCCAATAAGTCAAATGTGATCAAAATCTTTCAAAAAAATTCTAATTTCTCCTCGAGTGGC
385 TATACTCAAATAAGTCAAATCTGATCAAAAAATTTCAAAAAAACTCTAATTTATCCTCGAGTGGC
* * * * * * *
22106710 AAAATTACCATTTTACCCCTAGATAGTGAAATTTTTGATTTGACTCCAAATCGGTCTTTGAACTC
450 AAAATGACCATTTCACCCCTAGATAGTGAAAATTCTAATTTGACTCCAAATCGGTCCTCGAACTC
*
22106775 CGAAACACCATTTTAAGTCATTCTAAAGTTTTAAAATTCTCAATTTAATTTTAAAATCTCTATTC
515 CGAAACACCATTTTAAGTCATTCTAAAGTTTTAAAATTCTCAATTTAATCTTAAAATCTCTATTC
22106840 AGACTAGTTCGAGGCTTAATTCAACTTAATTGTACCAGTTGGTACAATACCGTCCTTTAACGATT
580 AGACTAGTTCGAGGCTTAATTCAACTTAATTGTACCAGTTGGTACAATACCGTCCTTTAACGATT
* *
22106905 TTCAAGGTACCCAAGTAAGCAAATATGCATTCTTATGTAAGAATGACATAATAAACATATTGTAG
645 TTCAAGGTACCCAAGTAAGCAAACATGCATTCTTATGTAAGAAGGACATAATAAACATATTGTAG
22106970 AGTCGGGCTTGACAGGA
710 AGTCGGGCTTGACAGGA
22106987 GTACTCAGAA
Statistics
Matches: 647, Mismatches: 65, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
776 2 0.00
777 258 0.40
778 304 0.47
779 73 0.11
780 10 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (778 bp):
CTTGATTTTCCACACTTTTTCCCTTGAAATTCTCCACCTAAGGTTTGTTCTTTCTTTTCATTCCT
TTGTTCTTCCTATGGCCAGCCATATGAATGAGAAATGGGCTGATTTTGTACTAATTTATAAGGAA
AATAATGAATGGATGAGATTTTGACACATATCACCATTCCACTAGTCCATGTGTCATACTTAGCC
ATTAAGCAATCTCTCTCCACCACTTAAATTTCCTCAATTATCCATGATAATATTGGGTAAAATCC
ATGTGCTGGACAAGTGTTGGGTGGTGTAAAATTACAATTTTACCCTAGGGCTGCAAAATGACTAT
TTTACCCCTATGCTAGGAAAAACACCAAAATTAAAATTCTTCACTTCTCAAACTCAAATTATACT
CAAATAAGTCAAATCTGATCAAAAAATTTCAAAAAAACTCTAATTTATCCTCGAGTGGCAAAATG
ACCATTTCACCCCTAGATAGTGAAAATTCTAATTTGACTCCAAATCGGTCCTCGAACTCCGAAAC
ACCATTTTAAGTCATTCTAAAGTTTTAAAATTCTCAATTTAATCTTAAAATCTCTATTCAGACTA
GTTCGAGGCTTAATTCAACTTAATTGTACCAGTTGGTACAATACCGTCCTTTAACGATTTTCAAG
GTACCCAAGTAAGCAAACATGCATTCTTATGTAAGAAGGACATAATAAACATATTGTAGAGTCGG
GCTTGACAGGAAAGGTAGATCACAAGTCAAAATCAAGAAATTTTACCTTTGATTGCTTAATTA
Found at i:22108760 original size:35 final size:35
Alignment explanation
Indices: 22108668--22108769 Score: 150
Period size: 35 Copynumber: 2.9 Consensus size: 35
22108658 TACTCAGCTT
* *** *
22108668 ATGTGCACTCCCTACACACACAAGGCAATATCATT
1 ATGTGCACTCCCTACACGCACATTTCAATATCATC
*
22108703 ATGTTCACTCCCTACACGCACATTTCAATATCATC
1 ATGTGCACTCCCTACACGCACATTTCAATATCATC
22108738 ATGTGCACTCCCTACACGCACATTTCAATATC
1 ATGTGCACTCCCTACACGCACATTTCAATATC
22108770 TTCACGCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.27
Consensus pattern (35 bp):
ATGTGCACTCCCTACACGCACATTTCAATATCATC
Found at i:22108781 original size:35 final size:35
Alignment explanation
Indices: 22108672--22108782 Score: 123
Period size: 35 Copynumber: 3.2 Consensus size: 35
22108662 CAGCTTATGT
* *** * * *
22108672 GCACTCCCTACACACACAAGGCAATATCATTATGT
1 GCACTCCCTACACGCACATTTCAATATCATCACGC
* * *
22108707 TCACTCCCTACACGCACATTTCAATATCATCATGT
1 GCACTCCCTACACGCACATTTCAATATCATCACGC
*
22108742 GCACTCCCTACACGCACATTTCAATATCTTCACGC
1 GCACTCCCTACACGCACATTTCAATATCATCACGC
22108777 GCACTC
1 GCACTC
22108783 TAGCCCACAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.26
Consensus pattern (35 bp):
GCACTCCCTACACGCACATTTCAATATCATCACGC
Found at i:22109829 original size:14 final size:13
Alignment explanation
Indices: 22109810--22109862 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 13
22109800 GTCGATTAGT
22109810 GAAGAAGAAAAAG
1 GAAGAAGAAAAAG
*
22109823 AGAAGAAAAATAAAG
1 -GAAGAAGAA-AAAG
*
22109838 GAAGAA-AAAAAT
1 GAAGAAGAAAAAG
22109850 GAAG-AGAAAAAG
1 GAAGAAGAAAAAG
22109862 G
1 G
22109863 GAGAGAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.03
12 13 0.38
13 2 0.06
14 14 0.41
15 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (13 bp):
GAAGAAGAAAAAG
Found at i:22109859 original size:12 final size:12
Alignment explanation
Indices: 22109810--22109870 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
22109800 GTCGATTAGT
22109810 GAAGAAGAAAAAG
1 GAAG-AGAAAAAG
*
22109823 AGAAGAAAAATAAAG
1 -GAAG-AGAA-AAAG
* *
22109838 GAAGAAAAAAAT
1 GAAGAGAAAAAG
22109850 GAAGAGAAAAAG
1 GAAGAGAAAAAG
*
22109862 GGAGAGAAA
1 GAAGAGAAA
22109871 GAACCGTGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 21 0.51
13 4 0.10
14 12 0.29
15 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (12 bp):
GAAGAGAAAAAG
Found at i:22110102 original size:47 final size:47
Alignment explanation
Indices: 22110051--22110228 Score: 284
Period size: 47 Copynumber: 3.8 Consensus size: 47
22110041 TTGGATGTAG
* *
22110051 AAAATTGGAGCTGTTTGTTGCCAATGTGTGCAAAAAAATTGTGCAGA
1 AAAATTGGAGCTGGTTGTTGCCAATTTGTGCAAAAAAATTGTGCAGA
22110098 AAAATTGGAGCTGGTTGTTGCCAATTTGTGCAAAAAAATTGTGCAGA
1 AAAATTGGAGCTGGTTGTTGCCAATTTGTGCAAAAAAATTGTGCAGA
* * *
22110145 AAAATTGGAGCTGGTTGTTGCCAATTTGTGTAGAAAAATTATGCAGA
1 AAAATTGGAGCTGGTTGTTGCCAATTTGTGCAAAAAAATTGTGCAGA
* * *
22110192 AAAATTGGAGCTGTTTGCTGCCAATTTGTGCAGAAAA
1 AAAATTGGAGCTGGTTGTTGCCAATTTGTGCAAAAAA
22110229 TTGGACAGCT
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 123 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (47 bp):
AAAATTGGAGCTGGTTGTTGCCAATTTGTGCAAAAAAATTGTGCAGA
Found at i:22110394 original size:22 final size:22
Alignment explanation
Indices: 22110366--22110435 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
22110356 GAGAGGAAAG
*
22110366 GAAGAGAGGAAGCCACGGTGAT
1 GAAGAGAGGAAGCCACGGTGGT
* *
22110388 GAAGAGATGAAGCCATGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
*
22110410 GAAGAGAGGAAGCCACCGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
22110432 GAAG
1 GAAG
22110436 GGAAGCCACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.41, T:0.11
Consensus pattern (22 bp):
GAAGAGAGGAAGCCACGGTGGT
Found at i:22110504 original size:17 final size:17
Alignment explanation
Indices: 22110482--22110519 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
22110472 CATGGAAGAG
22110482 GAAAAAAG-AAAGAAAAA
1 GAAAAAAGAAAAG-AAAA
22110499 GAAAAAAGAAAAGAAAA
1 GAAAAAAGAAAAGAAAA
22110516 GAAA
1 GAAA
22110520 TAGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAAAGAAAA
Found at i:22110550 original size:25 final size:25
Alignment explanation
Indices: 22110518--22110588 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
22110508 AAAGAAAAGA
* *
22110518 AATAGAAAATAAATGGGCATGACCT
1 AATAGAAAATAAGTGGGCATGACCG
*
22110543 AATGGAAAATAAGTGGGCATGACCG
1 AATAGAAAATAAGTGGGCATGACCG
22110568 AATAGAAAATAAGTGGGCATG
1 AATAGAAAATAAGTGGGCATG
22110589 GCCCAATAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.27, T:0.18
Consensus pattern (25 bp):
AATAGAAAATAAGTGGGCATGACCG
Found at i:22110604 original size:25 final size:25
Alignment explanation
Indices: 22110518--22110601 Score: 114
Period size: 25 Copynumber: 3.3 Consensus size: 25
22110508 AAAGAAAAGA
* *
22110518 AATAGAAAATAAATGGGCATGACCT
1 AATAGAAAATAAGTGGGCATGACCC
* *
22110543 AATGGAAAATAAGTGGGCATGACCG
1 AATAGAAAATAAGTGGGCATGACCC
*
22110568 AATAGAAAATAAGTGGGCATGGCCC
1 AATAGAAAATAAGTGGGCATGACCC
22110593 AATAAGAAA
1 AAT-AGAAA
22110602 TAAAAATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 47 0.90
26 5 0.10
ACGTcount: A:0.46, C:0.12, G:0.25, T:0.17
Consensus pattern (25 bp):
AATAGAAAATAAGTGGGCATGACCC
Found at i:22113601 original size:20 final size:20
Alignment explanation
Indices: 22113550--22113601 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
22113540 GGAAAGGATG
*
22113550 GGAAG-AAGAAGAAGCTGCT
1 GGAAGAAAGGAGAAGCTGCT
** *
22113569 GGAAGTGAGGAGAAGTTGCT
1 GGAAGAAAGGAGAAGCTGCT
*
22113589 GGAAGAAATGAGA
1 GGAAGAAAGGAGA
22113602 TATTTATCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.40, C:0.06, G:0.40, T:0.13
Consensus pattern (20 bp):
GGAAGAAAGGAGAAGCTGCT
Found at i:22114716 original size:71 final size:68
Alignment explanation
Indices: 22114590--22114810 Score: 264
Period size: 71 Copynumber: 3.2 Consensus size: 68
22114580 TCTCAAGCAC
* *
22114590 TTGATTAAAATTATTTAATTAAG-TTGTGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGC
1 TTGATT-AAATTGTTTAATTAAGTTTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGC
22114654 CTAA
65 CTAA
* * * *
22114658 TTAATTAAATTGTTTAATTAAGTCATTGGGCCTAGTTGATTAAAATTTTTTAATTAAGTCATTGG
1 TTGATTAAATTGTTTAATTAAGT--TTGGGCCTAATTAATT-AAATTGTTTAATTAAGTCATTGG
*
22114723 GCCTAG
63 GCCTAA
* * * * *
22114729 TTGATTAAAATTGTTTAATTAAATTGTTGGGCTTAATTAATTATATTGTGTAATTAAGTTATTGG
1 TTGATT-AAATTGTTTAATT-AAGT-TTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGG
22114794 GCCTAA
63 GCCTAA
22114800 TTGATTAAATT
1 TTGATTAAATT
22114811 AAACAATTAA
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
67 15 0.12
68 5 0.04
70 18 0.14
71 62 0.48
72 26 0.20
73 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (68 bp):
TTGATTAAATTGTTTAATTAAGTTTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
TAA
Found at i:22114771 original size:107 final size:103
Alignment explanation
Indices: 22114590--22114808 Score: 294
Period size: 107 Copynumber: 2.1 Consensus size: 103
22114580 TCTCAAGCAC
* *
22114590 TTGATTAAAATTATTTAATTAAGTTGTGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCC
1 TTGATTAAAATTATTTAATTAAGTTGGGCCTAATTAATTAAATTGTTTAATTAAATCATTGGGCC
* *
22114655 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAG
66 TAATTAATTAAATTGTGTAATTAAGTCATTGGGCCTAA
* * * **
22114693 TTGATTAAAATTTTTTAATTAAGTCATTGGGCCTAGTTGATTAAAATTGTTTAATTAAATTGTTG
1 TTGATTAAAATTATTTAATTAAG---TTGGGCCTAATTAATT-AAATTGTTTAATTAAATCATTG
* * *
22114758 GGCTTAATTAATTATATTGTGTAATTAAGTTATTGGGCCTAA
62 GGCCTAATTAATTAAATTGTGTAATTAAGTCATTGGGCCTAA
22114800 TTGATTAAA
1 TTGATTAAA
22114809 TTAAACAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
103 22 0.22
106 13 0.13
107 65 0.65
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (103 bp):
TTGATTAAAATTATTTAATTAAGTTGGGCCTAATTAATTAAATTGTTTAATTAAATCATTGGGCC
TAATTAATTAAATTGTGTAATTAAGTCATTGGGCCTAA
Found at i:22114824 original size:35 final size:35
Alignment explanation
Indices: 22114590--22114810 Score: 259
Period size: 35 Copynumber: 6.3 Consensus size: 35
22114580 TCTCAAGCAC
* *
22114590 TTGATTAAAATTATTTAATTAAG---TTGTGCCTAA
1 TTGATT-AAATTGTTTAATTAAGTCATTGGGCCTAA
*
22114623 TTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTCATTGGGCCTAA
* *
22114658 TTAATTAAATTGTTTAATTAAGTCATTGGGCCTAG
1 TTGATTAAATTGTTTAATTAAGTCATTGGGCCTAA
* *
22114693 TTGATTAAAATTTTTTAATTAAGTCATTGGGCCTAG
1 TTGATT-AAATTGTTTAATTAAGTCATTGGGCCTAA
* ** *
22114729 TTGATTAAAATTGTTTAATTAAATTGTTGGGCTTAA
1 TTGATT-AAATTGTTTAATTAAGTCATTGGGCCTAA
* * * *
22114765 TTAATTATATTGTGTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTCATTGGGCCTAA
22114800 TTGATTAAATT
1 TTGATTAAATT
22114811 AAACAATTAA
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
32 15 0.09
33 5 0.03
35 81 0.49
36 63 0.38
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTCATTGGGCCTAA
Found at i:22114831 original size:107 final size:107
Alignment explanation
Indices: 22114629--22114831 Score: 264
Period size: 107 Copynumber: 1.9 Consensus size: 107
22114619 CTAATTAATT
* * *
22114629 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAGT
1 AAATTGTTTAATTAAATCATTGGGCCTAATTAATTAAATTGTGTAATTAAGTCATTGGGCCTAAT
**** * *
22114694 TGATTAAAATTTTTTAATTAAGTCATTGGGCCTAGTTGATTA
66 TGATTAAAATTAAACAATTAAGTAACTGGGCCTAGTTGATTA
** * * *
22114736 AAATTGTTTAATTAAATTGTTGGGCTTAATTAATTATATTGTGTAATTAAGTTATTGGGCCTAAT
1 AAATTGTTTAATTAAATCATTGGGCCTAATTAATTAAATTGTGTAATTAAGTCATTGGGCCTAAT
22114801 TGATT-AAATTAAACAATTAAGTTAACTGGGC
66 TGATTAAAATTAAACAATTAAG-TAACTGGGC
22114832 TTTTTAAGGA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
106 12 0.15
107 69 0.85
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (107 bp):
AAATTGTTTAATTAAATCATTGGGCCTAATTAATTAAATTGTGTAATTAAGTCATTGGGCCTAAT
TGATTAAAATTAAACAATTAAGTAACTGGGCCTAGTTGATTA
Found at i:22115341 original size:2 final size:2
Alignment explanation
Indices: 22115334--22115364 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22115324 GATATGATCT
*
22115334 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22115365 TATTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:22117997 original size:21 final size:21
Alignment explanation
Indices: 22117950--22117998 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
22117940 TTAATTTTAT
22117950 CTAAAAAATTAAATTTAAAAA
1 CTAAAAAATTAAATTTAAAAA
** *
22117971 AGAAAAATTTAAA-TTAATAAA
1 CTAAAAAATTAAATTTAA-AAA
22117992 CTAAAAA
1 CTAAAAA
22117999 CTAAAACTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
CTAAAAAATTAAATTTAAAAA
Found at i:22119278 original size:22 final size:22
Alignment explanation
Indices: 22119253--22119297 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22119243 ATTTTTATGC
22119253 ATTACTA-CAAGAACTAAGCTCA
1 ATTACTATCAA-AACTAAGCTCA
*
22119275 ATTACTATCAAAATTAAGCTCA
1 ATTACTATCAAAACTAAGCTCA
22119297 A
1 A
22119298 ATAACTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (22 bp):
ATTACTATCAAAACTAAGCTCA
Found at i:22122465 original size:21 final size:21
Alignment explanation
Indices: 22122440--22122482 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22122430 GCTATAAATA
*
22122440 TCATTTTTCAGTAGCTTCTTC
1 TCATTTTTCAATAGCTTCTTC
22122461 TCATTTTTCAATAGCTTCTTC
1 TCATTTTTCAATAGCTTCTTC
22122482 T
1 T
22122483 TCTTCTCCCT
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:0.16, C:0.23, G:0.07, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATAGCTTCTTC
Found at i:22126315 original size:42 final size:41
Alignment explanation
Indices: 22126253--22126345 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 41
22126243 TTCTTTTGTG
* * *
22126253 TGATAATGATGACCCAGCTATGTGTGTGT-GGGAGTGCACA
1 TGATGATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACA
*
22126293 TGAGCTGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACA
1 TGA--TGATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACA
22126336 TGATGATGAT
1 TGATGATGAT
22126346 ATTGCATTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 3 0.07
41 7 0.15
42 22 0.48
43 14 0.30
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (41 bp):
TGATGATGATGACCCAGCTATGTGCGAGTAGGGAGTGCACA
Found at i:22129772 original size:17 final size:17
Alignment explanation
Indices: 22129742--22129774 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22129732 TTCTTGATAA
22129742 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
22129759 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
22129775 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Done.