Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 36 of 235
Found at i:11683631 original size:30 final size:30
Alignment explanation
Indices: 11683542--11683652 Score: 104
Period size: 30 Copynumber: 3.8 Consensus size: 30
11683532 TTAGATTTTC
* * *
11683542 TATAATTTTCTTATGA-CTTTATAAACTTT
1 TATAATTTTTTTATGATTTTTATAAAATTT
* *
11683571 TATAATTTTTTTCTAT-ATTTCTAT-ATATTT
1 TATAA-TTTTTT-TATGATTTTTATAAAATTT
*
11683601 TATAATTTTTTTATGATTTTTGTAAAATTT
1 TATAATTTTTTTATGATTTTTATAAAATTT
* *
11683631 TATAAATTTTAT-TGATTTTTAT
1 TATAATTTTTTTATGATTTTTAT
11683653 CATTTTTTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
28 3 0.05
29 26 0.39
30 30 0.45
31 7 0.11
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.62
Consensus pattern (30 bp):
TATAATTTTTTTATGATTTTTATAAAATTT
Found at i:11686534 original size:30 final size:29
Alignment explanation
Indices: 11686471--11686544 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
11686461 CTTAGTGACA
* *
11686471 TAAATAAAAACTTTTAAATAATTCAGTATT
1 TAAATAAAAA-TTTTAAATAATTCAATAAT
* *
11686501 TAAATAAAAATTTTCGAATAATTTAATAAT
1 TAAATAAAAATTTT-AAATAATTCAATAAT
* *
11686531 TAAATTATAATTTT
1 TAAATAAAAATTTT
11686545 TTAATTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAATAAAAATTTTAAATAATTCAATAAT
Found at i:11686540 original size:19 final size:19
Alignment explanation
Indices: 11686518--11686554 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11686508 AAATTTTCGA
11686518 ATAATTTAATAATTAAATT
1 ATAATTTAATAATTAAATT
**
11686537 ATAATTTTTTAATTAAAT
1 ATAATTTAATAATTAAAT
11686555 GACTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATTTAATAATTAAATT
Found at i:11690077 original size:101 final size:101
Alignment explanation
Indices: 11689902--11690106 Score: 356
Period size: 101 Copynumber: 2.0 Consensus size: 101
11689892 TGATCTTATT
*
11689902 CTTAGTTCTAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
1 CTTAGTTCAAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
11689967 ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
66 ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
* * *
11690003 CTTAGTTCAAGTTTCATGCATTATGTTGGGAAGAGTATCTTGCATCCTAGATAAGTCTTTTTTCT
1 CTTAGTTCAAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
* *
11690068 ACTTTAGGATTGAGCATATCCTGCAGGCATGCAATC
66 ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
11690104 CTT
1 CTT
11690107 CTGTTGCTGT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (101 bp):
CTTAGTTCAAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
Found at i:11691397 original size:29 final size:29
Alignment explanation
Indices: 11691365--11691461 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
11691355 ATAGGTTAGA
11691365 GGCTTATTTAACTACAAAAATAGTATAAG
1 GGCTTATTTAACTACAAAAATAGTATAAG
* ** *
11691394 GGCTTCTTTAA--A-AAAATTATAGGCTAGG
1 GGCTTATTTAACTACAAAA--ATAGTATAAG
*
11691422 GGCTTATTTAACTACGAAAATAGTATAAG
1 GGCTTATTTAACTACAAAAATAGTATAAG
*
11691451 GGCTTCTTTAA
1 GGCTTATTTAA
11691462 ACAAAGAGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 17 0.32
29 27 0.51
30 1 0.02
31 3 0.06
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (29 bp):
GGCTTATTTAACTACAAAAATAGTATAAG
Found at i:11691415 original size:57 final size:57
Alignment explanation
Indices: 11691352--11691462 Score: 195
Period size: 57 Copynumber: 1.9 Consensus size: 57
11691342 ATGGGTAAAC
*
11691352 ATTATAGGTTAGAGGCTTATTTAACTACAAAAATAGTATAAGGGCTTCTTTAAAAAA
1 ATTATAGGCTAGAGGCTTATTTAACTACAAAAATAGTATAAGGGCTTCTTTAAAAAA
* *
11691409 ATTATAGGCTAGGGGCTTATTTAACTACGAAAATAGTATAAGGGCTTCTTTAAA
1 ATTATAGGCTAGAGGCTTATTTAACTACAAAAATAGTATAAGGGCTTCTTTAAA
11691463 CAAAGAGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (57 bp):
ATTATAGGCTAGAGGCTTATTTAACTACAAAAATAGTATAAGGGCTTCTTTAAAAAA
Found at i:11702053 original size:51 final size:50
Alignment explanation
Indices: 11701991--11702117 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 50
11701981 CATACCTTAA
*
11701991 TTCACACATAGAACTTTACATAATTAGTA-CACGTATATCTTGCATTCACTG
1 TTCACACATAGAACTTTACATAATTAGTAGCAC--ATATCTTGCATTCACAG
* *
11702042 TTTACACATAGAACTTTACATAATCAGTATGCACATATCTTGCATTCACAG
1 TTCACACATAGAACTTTACATAATTAGTA-GCACATATCTTGCATTCACAG
*
11702093 TTCATACATAGAACTTTACATAATT
1 TTCACACATAGAACTTTACATAATT
11702118 GATCGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
51 65 0.96
53 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (50 bp):
TTCACACATAGAACTTTACATAATTAGTAGCACATATCTTGCATTCACAG
Found at i:11714181 original size:17 final size:18
Alignment explanation
Indices: 11714161--11714225 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 18
11714151 AGCTCATGCA
11714161 AAATAATAGTTCATAT-G
1 AAATAATAGTTCATATCG
11714178 AAAT-ATCAGTTCATATCG
1 AAATAAT-AGTTCATATCG
* *
11714196 -AATAACAGTTCAT-TCA
1 AAATAATAGTTCATATCG
*
11714212 AAATAACAGTTCAT
1 AAATAATAGTTCAT
11714226 GCTCCATCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.10
17 36 0.86
18 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (18 bp):
AAATAATAGTTCATATCG
Found at i:11714867 original size:18 final size:18
Alignment explanation
Indices: 11714846--11714906 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
11714836 ATTTTGAAAA
11714846 ATTAATACAGTTTGCCAT
1 ATTAATACAGTTTGCCAT
* ** *
11714864 ATTAATACAGATCACCAA
1 ATTAATACAGTTTGCCAT
* *
11714882 ATGAACACAGTTTGCCAT
1 ATTAATACAGTTTGCCAT
*
11714900 AATAATA
1 ATTAATA
11714907 TAATTCACCA
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (18 bp):
ATTAATACAGTTTGCCAT
Found at i:11715196 original size:15 final size:16
Alignment explanation
Indices: 11715176--11715206 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11715166 ACCATATACG
11715176 AATATATAT-TACATA
1 AATATATATATACATA
11715191 AATATATATATACATA
1 AATATATATATACATA
11715207 CCTATTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATATATATACATA
Found at i:11722955 original size:22 final size:22
Alignment explanation
Indices: 11722925--11722981 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
11722915 ATGCCAAAGG
*
11722925 CACACGGGCGTGTCCTTATGTC
1 CACATGGGCGTGTCCTTATGTC
11722947 CACATGGGCGTGTCCTTATGTC
1 CACATGGGCGTGTCCTTATGTC
11722969 CACATGGGCGTGT
1 CACATGGGCGTGT
11722982 GACCCTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (22 bp):
CACATGGGCGTGTCCTTATGTC
Found at i:11738838 original size:42 final size:42
Alignment explanation
Indices: 11738731--11738886 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 42
11738721 ACTCGTATAG
* * * *
11738731 TGCCAATGTCCCAGATACGGTCTTACATGTAATCAAATATCGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CGA
* *
11738774 TGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACGA
* * *
11738816 TGCCAATGTCCCAAACATGGTCTTACACATAAATCATAAGT-TGA
1 TGCCAATGTCCCAGACATGGTCTTACAC-GAAATCA-AA-TACGA
* * *
11738860 TGCCAACGTCCCATACGTGGTCTTACA
1 TGCCAATGTCCCAGACATGGTCTTACA
11738887 GAGAACACAT
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
42 28 0.29
43 40 0.41
44 28 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
TGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACGA
Found at i:11746831 original size:19 final size:19
Alignment explanation
Indices: 11746792--11746832 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11746782 TACTAAAATG
*
11746792 GTATCGATACTAAAGGTAA
1 GTATCGATACTAAAGGAAA
11746811 GTATCGATACATAAA-GAAA
1 GTATCGATAC-TAAAGGAAA
11746830 GTA
1 GTA
11746833 ATGGTACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (19 bp):
GTATCGATACTAAAGGAAA
Found at i:11755075 original size:4 final size:4
Alignment explanation
Indices: 11755066--11755520 Score: 865
Period size: 4 Copynumber: 113.8 Consensus size: 4
11755056 TCCCAACATT
11755066 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
11755114 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
11755162 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
11755210 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
11755258 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
11755306 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
11755354 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
11755402 TACA TACA TACA TACA TACA TACA TACA TACA TACA TATA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
11755450 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACG TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
11755498 TACG TACG TACA TACA TACA TAC
1 TACA TACA TACA TACA TACA TAC
11755521 CTAAGCTTTC
Statistics
Matches: 447, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 447 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:11761386 original size:19 final size:19
Alignment explanation
Indices: 11761353--11761399 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
11761343 AGACCATTAA
11761353 GGGCTTCAT-TGGGCCGAAAT
1 GGGC-TCATGTGGGCC-AAAT
*
11761373 GGG-TCATGTGGGCCTAAT
1 GGGCTCATGTGGGCCAAAT
11761391 GGGCTCATG
1 GGGCTCATG
11761400 GGCCCCACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 11 0.46
20 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.26
Consensus pattern (19 bp):
GGGCTCATGTGGGCCAAAT
Found at i:11761666 original size:27 final size:27
Alignment explanation
Indices: 11761625--11761723 Score: 135
Period size: 27 Copynumber: 3.7 Consensus size: 27
11761615 CCCTGGCGTA
* *
11761625 CAAAATTACCGAAATACCTTTGCAGTG
1 CAAAATTACCAAAATACCTTTGTAGTG
*
11761652 CAAAATTACCAAAATACCCTTGTAGTG
1 CAAAATTACCAAAATACCTTTGTAGTG
*
11761679 CAAAATTATCAAAATACCTTTGTAGTG
1 CAAAATTACCAAAATACCTTTGTAGTG
* **
11761706 TAAAATTACTGAAATACC
1 CAAAATTACCAAAATACC
11761724 CCTGTAGGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.28
Consensus pattern (27 bp):
CAAAATTACCAAAATACCTTTGTAGTG
Found at i:11761711 original size:54 final size:54
Alignment explanation
Indices: 11761625--11761730 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
11761615 CCCTGGCGTA
* *
11761625 CAAAATTACCGAAATACCTTTGCAGTGCAAAATTACCAAAATACCCTTGTAGTG
1 CAAAATTACCAAAATACCTTTGCAGTGCAAAATTACCAAAATACCCCTGTAGTG
* * * **
11761679 CAAAATTATCAAAATACCTTTGTAGTGTAAAATTACTGAAATACCCCTGTAG
1 CAAAATTACCAAAATACCTTTGCAGTGCAAAATTACCAAAATACCCCTGTAG
11761731 GAATAAATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (54 bp):
CAAAATTACCAAAATACCTTTGCAGTGCAAAATTACCAAAATACCCCTGTAGTG
Found at i:11762333 original size:22 final size:22
Alignment explanation
Indices: 11762306--11762403 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
11762296 TGTGCCGTAT
*
11762306 TTATGGCTCTGTGCCATTCTGA
1 TTATGGCTTTGTGCCATTCTGA
* *
11762328 TTATGGCTGTGTGCCATCCTG-
1 TTATGGCTTTGTGCCATTCTGA
* *
11762349 TTATGG-TTTATAACCATTCTGA
1 TTATGGCTTTGT-GCCATTCTGA
* *
11762371 TTATGGTTTTGTGCCGTTCT-A
1 TTATGGCTTTGTGCCATTCTGA
11762392 TCTATGGCTTTG
1 T-TATGGCTTTG
11762404 AGTCGTTCTG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
20 3 0.05
21 15 0.24
22 40 0.65
23 4 0.06
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.45
Consensus pattern (22 bp):
TTATGGCTTTGTGCCATTCTGA
Found at i:11763564 original size:23 final size:22
Alignment explanation
Indices: 11763511--11763569 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
11763501 ATTTATCATT
11763511 ATATGTGATTATGTGAAATGTG
1 ATATGTGATTATGTGAAATGTG
**
11763533 ATACATGATTAATG-GAATATGTG
1 ATATGTGATT-ATGTGAA-ATGTG
*
11763556 TTATGTGATATATG
1 ATATGTGAT-TATG
11763570 CTTGAATGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 11 0.38
23 17 0.59
24 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.41
Consensus pattern (22 bp):
ATATGTGATTATGTGAAATGTG
Found at i:11764158 original size:16 final size:16
Alignment explanation
Indices: 11764139--11764192 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
11764129 GGAGTAAGGC
*
11764139 TGTAATGAAATAGAAA
1 TGTAATGGAATAGAAA
*
11764155 TGTAATGGAATA-AAGG
1 TGTAATGGAATAGAA-A
*
11764171 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAA
11764187 TGTAAT
1 TGTAAT
11764193 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 2 0.06
16 29 0.88
17 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAAA
Found at i:11764175 original size:32 final size:32
Alignment explanation
Indices: 11764126--11764192 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
11764116 GGTTGGAGTG
*
11764126 AATGGAGTAAGGCTGTAATGAAATAGAAATGT
1 AATGGAATAAGGCTGTAATGAAATAGAAATGT
* *
11764158 AATGGAATAAAGG-TGTAATGGAATAGAACTGT
1 AATGGAAT-AAGGCTGTAATGAAATAGAAATGT
11764190 AAT
1 AAT
11764193 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 27 0.87
33 4 0.13
ACGTcount: A:0.45, C:0.03, G:0.27, T:0.25
Consensus pattern (32 bp):
AATGGAATAAGGCTGTAATGAAATAGAAATGT
Found at i:11764425 original size:62 final size:60
Alignment explanation
Indices: 11764359--11764613 Score: 259
Period size: 62 Copynumber: 4.3 Consensus size: 60
11764349 TTGTTATTAA
11764359 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAAAATGTAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATAAAA--TAAATAATTTAATCAT
* * *
11764421 ATTTTAACATAATTATTATTAAATATAATTTAAT-AAAAT--AATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAATAAATAATTTAATCAT
*
11764478 ATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATAAAA-AAATAATCTAATCAT
1 ATT-TTAATATAATTATTATT-AAATAT-AATTTAATAAAAATAAAATAAATAATTTAATCAT
* * * *
11764539 ATTTTAACAT-A--ATTATT-AATACAATTTAAT-AAAATAATAT-ACT-ATTTAATAGCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAATAAATAATTTAAT--CAT
*
11764594 -TCTTAATATAATTATTATTA
1 ATTTTAATATAATTATTATTA
11764614 TTTTAGGCCC
Statistics
Matches: 164, Mismatches: 14, Indels: 34
0.77 0.07 0.16
Matches are distributed among these distances:
53 6 0.04
54 19 0.12
55 13 0.08
57 29 0.18
58 16 0.10
59 14 0.09
60 13 0.08
61 20 0.12
62 33 0.20
63 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (60 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAATAAATAATTTAATCAT
Found at i:11764596 original size:114 final size:118
Alignment explanation
Indices: 11764362--11764613 Score: 358
Period size: 114 Copynumber: 2.2 Consensus size: 118
11764352 TTATTAAATT
*
11764362 TTAATA-AGATTATTATT-AAATATAATTTAATAAAAATAAAATGTAAATAATTTAATCATATTT
1 TTAATATA-ATTATTATTAAAATATAATTTAATAAAAATAAAA--TAAATAATCTAATCATATTT
* *
11764425 TAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATATTC
63 TAACATAA-TATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTC
11764482 TTAATATAATTATTATTAAAATATGAA-TTAATAAAAATAAAA-AAATAATCTAATCATATTTTA
1 TTAATATAATTATTATTAAAATAT-AATTTAATAAAAATAAAATAAATAATCTAATCATATTTTA
*
11764545 ACAT-A-ATTATT-AATACAATTTAATAAAATAATATACT-ATTTAATAGCATTC
65 ACATAATATTATTAAATACAATTTAATAAAATAATATA-TAATTTAATAACATTC
11764596 TTAATATAATTATTATTA
1 TTAATATAATTATTATTA
11764614 TTTTAGGCCC
Statistics
Matches: 124, Mismatches: 4, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
114 53 0.43
115 7 0.06
117 1 0.01
118 24 0.19
120 15 0.12
121 22 0.18
122 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (118 bp):
TTAATATAATTATTATTAAAATATAATTTAATAAAAATAAAATAAATAATCTAATCATATTTTAA
CATAATATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTC
Found at i:11766698 original size:32 final size:32
Alignment explanation
Indices: 11766657--11766722 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
11766647 TTCTTAAAGA
11766657 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
1 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
11766689 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
1 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
11766721 TT
1 TT
11766723 CTTTCTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (32 bp):
TTGCTTGCAAGTCAAGTTAAACAAAATATATT
Found at i:11768842 original size:18 final size:18
Alignment explanation
Indices: 11768819--11768884 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
11768809 AAAAAAACAC
11768819 GAAAAACATATATTAATT
1 GAAAAACATATATTAATT
* **
11768837 GAAAAACACATAAAGAAACATT
1 G-AAAA-ACATATA-TTA-ATT
11768859 GAAAAACATATATTAATT
1 GAAAAACATATATTAATT
11768877 GAAAAACA
1 GAAAAACA
11768885 CGTAAAGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 12 0.32
19 5 0.13
20 12 0.32
21 5 0.13
22 4 0.11
ACGTcount: A:0.61, C:0.09, G:0.08, T:0.23
Consensus pattern (18 bp):
GAAAAACATATATTAATT
Found at i:11768863 original size:40 final size:40
Alignment explanation
Indices: 11768819--11768906 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
11768809 AAAAAAACAC
11768819 GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
1 GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
*
11768859 GAAAAACATATATTAATTGAAAAACACGTAAAGAAACATT
1 GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
11768899 GAAAAACA
1 GAAAAACA
11768907 GATAGTTCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.60, C:0.10, G:0.09, T:0.20
Consensus pattern (40 bp):
GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
Found at i:11774301 original size:38 final size:38
Alignment explanation
Indices: 11774254--11774326 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
11774244 CAAATGATTT
*
11774254 ATTTCCATTTTTGA-AAAACCATAATTCATTTCCAAGTC
1 ATTTCCATTTTGGAGAAAACCA-AATTCATTTCCAAGTC
* *
11774292 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAA
1 ATTTCCATTTTGGAGAAAACCAAATTCATTTCCAA
11774327 ATATTTCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 24 0.77
39 7 0.23
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (38 bp):
ATTTCCATTTTGGAGAAAACCAAATTCATTTCCAAGTC
Found at i:11775288 original size:15 final size:15
Alignment explanation
Indices: 11775258--11775306 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
11775248 AGGGTTTAAA
11775258 GTTTTAAAGCTTTAGG
1 GTTTT-AAGCTTTAGG
11775274 GTTTTAGAG-TTTAGG
1 GTTTTA-AGCTTTAGG
*
11775289 G-TTTAAGTTTTAGG
1 GTTTTAAGCTTTAGG
11775303 GTTT
1 GTTT
11775307 AGGGTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 10 0.33
16 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (15 bp):
GTTTTAAGCTTTAGG
Found at i:11775292 original size:7 final size:7
Alignment explanation
Indices: 11775268--11775367 Score: 83
Period size: 7 Copynumber: 14.0 Consensus size: 7
11775258 GTTTTAAAGC
11775268 TTTAGGG
1 TTTAGGG
*
11775275 TTTTAGAG
1 -TTTAGGG
11775283 TTTAGGG
1 TTTAGGG
* *
11775290 TTTAAGT
1 TTTAGGG
11775297 TTTAGGG
1 TTTAGGG
11775304 TTTAGGG
1 TTTAGGG
**
11775311 TTTATAG
1 TTTAGGG
* *
11775318 TTTATGT
1 TTTAGGG
*
11775325 TTTAAGGT
1 TTT-AGGG
*
11775333 TTTATGG
1 TTTAGGG
11775340 TTTAGGG
1 TTTAGGG
11775347 TTTAGGG
1 TTTAGGG
* *
11775354 CTTAAGG
1 TTTAGGG
11775361 TTTAGGG
1 TTTAGGG
11775368 GACGCAAGGT
Statistics
Matches: 73, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
7 61 0.84
8 12 0.16
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:11775335 original size:36 final size:35
Alignment explanation
Indices: 11775244--11775351 Score: 126
Period size: 36 Copynumber: 3.0 Consensus size: 35
11775234 TCGCCCATGG
* *
11775244 GTTTAGGGTTTAAAGTTTTAAAGCTTTAGGGTTTTAGA
1 GTTTAGGGTTT-AAGTTTT-AGGGTTTAGGG-TTTAGA
*
11775282 GTTTAGGGTTTAAGTTTTAGGGTTTAGGGTTTATA
1 GTTTAGGGTTTAAGTTTTAGGGTTTAGGGTTTAGA
* * *
11775317 GTTTATGTTTTAAGGTTTTATGGTTTAGGGTTTAG
1 GTTTAGGGTTTAA-GTTTTAGGGTTTAGGGTTTAG
11775352 GGCTTAAGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
35 16 0.26
36 28 0.45
37 7 0.11
38 11 0.18
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (35 bp):
GTTTAGGGTTTAAGTTTTAGGGTTTAGGGTTTAGA
Found at i:11776119 original size:19 final size:19
Alignment explanation
Indices: 11776095--11776134 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11776085 TGTGTCAACA
*
11776095 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
11776114 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
11776133 TA
1 TA
11776135 CACATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:11777743 original size:25 final size:27
Alignment explanation
Indices: 11777708--11777759 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
11777698 AAATCACAGA
11777708 CAAATCAGTCA-TTTACCCTTGAGGGG
1 CAAATCAGTCATTTTACCCTTGAGGGG
*
11777734 CAAAT-AGTCATTTTACCCTTTAGGGG
1 CAAATCAGTCATTTTACCCTTGAGGGG
11777760 TATTTTGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (27 bp):
CAAATCAGTCATTTTACCCTTGAGGGG
Found at i:11782349 original size:32 final size:32
Alignment explanation
Indices: 11782313--11782392 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
11782303 TTTGGGTCAA
11782313 CCCATCTCAGAATCAATATCAATTGGGCCTAG
1 CCCATCTCAGAATCAATATCAATTGGGCCTAG
*
11782345 CCCATAC-CA-TATCCAATATCAATTGGGCCTAG
1 CCCAT-CTCAGAAT-CAATATCAATTGGGCCTAG
* *
11782377 CTCATATCAGAATCAA
1 CCCATCTCAGAATCAA
11782393 ACCCATATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
31 2 0.05
32 35 0.88
33 3 0.08
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (32 bp):
CCCATCTCAGAATCAATATCAATTGGGCCTAG
Found at i:11788715 original size:19 final size:19
Alignment explanation
Indices: 11788672--11788716 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11788662 ATGGCAAATT
*
11788672 ATGTGAATTGGAAATGAGA
1 ATGTGAATTGAAAATGAGA
*
11788691 AAGTGAATTGAAAAATGA-A
1 ATGTGAATTG-AAAATGAGA
11788710 ATGTGAA
1 ATGTGAA
11788717 ATATGTTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (19 bp):
ATGTGAATTGAAAATGAGA
Found at i:11793171 original size:26 final size:26
Alignment explanation
Indices: 11793142--11793193 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
11793132 CATATTCTTC
11793142 CATAACAA-ATATAAATTCTAACATTT
1 CATAACAATATATAAATT-TAACATTT
*
11793168 CATAACAATATATATATTTAACATTT
1 CATAACAATATATAAATTTAACATTT
11793194 AACTACTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (26 bp):
CATAACAATATATAAATTTAACATTT
Found at i:11797407 original size:33 final size:31
Alignment explanation
Indices: 11797382--11797540 Score: 169
Period size: 33 Copynumber: 4.9 Consensus size: 31
11797372 AAAAGGTTAT
11797382 GTACACTTTGTGTATACCATATGAAAAGGAAAG
1 GTACACTTTGTGTATA-CAT-TGAAAAGGAAAG
* *
11797415 GTATACTTTGTGTATACCATATGAAAAGGAAAA
1 GTACACTTTGTGTATA-CAT-TGAAAAGGAAAG
*
11797448 GTATACTTTGTGTATACCAGTTGAAAAGGAAAG
1 GTACACTTTGTGTATA-CA-TTGAAAAGGAAAG
*
11797481 GTACACTATATGTGTACAC-TTGAAAAGGAAAG
1 GTACACT-T-TGTGTATACATTGAAAAGGAAAG
*
11797513 GTACACTATATGTGTACAC-TTGAAAAGG
1 GTACACT-T-TGTGTATACATTGAAAAGG
11797541 TTATGTGCAC
Statistics
Matches: 118, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
32 41 0.35
33 67 0.57
34 3 0.03
35 7 0.06
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (31 bp):
GTACACTTTGTGTATACATTGAAAAGGAAAG
Found at i:11797509 original size:32 final size:31
Alignment explanation
Indices: 11797362--11797606 Score: 156
Period size: 33 Copynumber: 7.5 Consensus size: 31
11797352 TACCCAAATG
** *
11797362 GTACAACTTGAAAAGGTTATGTACACTT-TGT
1 GTAC-ACTTGAAAAGGAAAGGTACACTTATGT
* *
11797393 GTATACCATATGAAAAGGAAAGGTATACTT-TGT
1 GTACA-C-T-TGAAAAGGAAAGGTACACTTATGT
* * *
11797426 GTATACCATATGAAAAGGAAAAGTATACTT-TGT
1 GTACA-C-T-TGAAAAGGAAAGGTACACTTATGT
*
11797459 GTATACCAGTTGAAAAGGAAAGGTACACTATATGT
1 G--TA-CACTTGAAAAGGAAAGGTACACT-TATGT
11797494 GTACACTTGAAAAGGAAAGGTACACTATATGT
1 GTACACTTGAAAAGGAAAGGTACACT-TATGT
** * *
11797526 GTACACTTGAAAAGGTTATGTGCACTT-TGAGT
1 GTACACTTGAAAAGGAAAGGTACACTTAT--GT
* ** *
11797558 GTACAAATTGAAAAGGCTATGTACACTTCATGT
1 GTAC-ACTTGAAAAGGAAAGGTACACTT-ATGT
11797591 GTACCACTTGAAAAGG
1 GTA-CACTTGAAAAGG
11797607 GAATGTGCAC
Statistics
Matches: 181, Mismatches: 19, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
30 2 0.01
31 5 0.03
32 57 0.31
33 106 0.59
34 3 0.02
35 7 0.04
36 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (31 bp):
GTACACTTGAAAAGGAAAGGTACACTTATGT
Found at i:11797572 original size:33 final size:32
Alignment explanation
Indices: 11797524--11797638 Score: 108
Period size: 33 Copynumber: 3.6 Consensus size: 32
11797514 TACACTATAT
*
11797524 GTGTAC-ACTTGAAAAGGTTATGTGCACTTTGA
1 GTGTACAACTTGAAAAGGCTATGTGCAC-TTGA
* * *
11797556 GTGTACAAATTGAAAAGGCTATGTACACTTCA
1 GTGTACAACTTGAAAAGGCTATGTGCACTTGA
* ** *
11797588 TGTGTACCACTTGAAAAGGGAATGTGCACCTCGA
1 -GTGTACAACTTGAAAAGGCTATGTGCA-CTTGA
*
11797622 -TGTACAACTAGAAAAGG
1 GTGTACAACTTGAAAAGG
11797639 AAAAGTCCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
32 24 0.36
33 40 0.60
34 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (32 bp):
GTGTACAACTTGAAAAGGCTATGTGCACTTGA
Found at i:11797584 original size:65 final size:65
Alignment explanation
Indices: 11797513--11797638 Score: 166
Period size: 65 Copynumber: 1.9 Consensus size: 65
11797503 AAAAGGAAAG
** * * *
11797513 GTACACTAT-ATGTGTA-CACTTGAAAAGGTTATGTGCACTTTGAGTGTACAAATTGAAAAGGCT
1 GTACACT-TCATGTGTACCACTTGAAAAGGGAATGTGCACCTCGA-TGTACAAATAGAAAAGGCT
11797576 AT
64 AT
*
11797578 GTACACTTCATGTGTACCACTTGAAAAGGGAATGTGCACCTCGATGTACAACTAGAAAAGG
1 GTACACTTCATGTGTACCACTTGAAAAGGGAATGTGCACCTCGATGTACAAATAGAAAAGG
11797639 AAAAGTCCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 1 0.02
65 29 0.55
66 23 0.43
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (65 bp):
GTACACTTCATGTGTACCACTTGAAAAGGGAATGTGCACCTCGATGTACAAATAGAAAAGGCTAT
Found at i:11801632 original size:20 final size:20
Alignment explanation
Indices: 11801607--11801659 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
11801597 AAATGAATAC
11801607 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
11801627 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
11801647 ATCATGTGCATAT
1 ATCATGTGCATAT
11801660 TTTATCAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:11801638 original size:11 final size:11
Alignment explanation
Indices: 11801607--11801659 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
11801597 AAATGAATAC
11801607 ATCATGTGCAT
1 ATCATGTGCAT
*
11801618 ATCA--TACAT
1 ATCATGTGCAT
11801627 ATCATGTGCAT
1 ATCATGTGCAT
*
11801638 ATCA--TACAT
1 ATCATGTGCAT
11801647 ATCATGTGCAT
1 ATCATGTGCAT
11801658 AT
1 AT
11801660 TTTATCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.47
11 18 0.53
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:11802275 original size:179 final size:179
Alignment explanation
Indices: 11801975--11802332 Score: 716
Period size: 179 Copynumber: 2.0 Consensus size: 179
11801965 GCCGTATTAA
11801975 TGCACAAACTGACAAGATTTCAATTTCTACCAAATTTACCCAAATGGGCCCAAAAGCCCATTGGG
1 TGCACAAACTGACAAGATTTCAATTTCTACCAAATTTACCCAAATGGGCCCAAAAGCCCATTGGG
11802040 CCCGATTTCAGCCCCTCGAGGCCCAACTTACCATCGTGCACCAAAAATTGCCCTTACCAGTTCCA
66 CCCGATTTCAGCCCCTCGAGGCCCAACTTACCATCGTGCACCAAAAATTGCCCTTACCAGTTCCA
11802105 ACGATCCCGATCATCGAACTTAGTGAATCTAACTAACCTATGAGCGTTC
131 ACGATCCCGATCATCGAACTTAGTGAATCTAACTAACCTATGAGCGTTC
11802154 TGCACAAACTGACAAGATTTCAATTTCTACCAAATTTACCCAAATGGGCCCAAAAGCCCATTGGG
1 TGCACAAACTGACAAGATTTCAATTTCTACCAAATTTACCCAAATGGGCCCAAAAGCCCATTGGG
11802219 CCCGATTTCAGCCCCTCGAGGCCCAACTTACCATCGTGCACCAAAAATTGCCCTTACCAGTTCCA
66 CCCGATTTCAGCCCCTCGAGGCCCAACTTACCATCGTGCACCAAAAATTGCCCTTACCAGTTCCA
11802284 ACGATCCCGATCATCGAACTTAGTGAATCTAACTAACCTATGAGCGTTC
131 ACGATCCCGATCATCGAACTTAGTGAATCTAACTAACCTATGAGCGTTC
11802333 GCATGCTCAC
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.23
Consensus pattern (179 bp):
TGCACAAACTGACAAGATTTCAATTTCTACCAAATTTACCCAAATGGGCCCAAAAGCCCATTGGG
CCCGATTTCAGCCCCTCGAGGCCCAACTTACCATCGTGCACCAAAAATTGCCCTTACCAGTTCCA
ACGATCCCGATCATCGAACTTAGTGAATCTAACTAACCTATGAGCGTTC
Found at i:11804367 original size:87 final size:86
Alignment explanation
Indices: 11804262--11804433 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 86
11804252 TCTGCCCAAC
11804262 ACGTAGGTGAACGACACCTTCGCCCATATAGTGCCTCATAAGGAGCCATCTGAATACTTGCTTGG
1 ACGTAGGTGAACGACACCTTCGCCCATATAGTGCCTCATAAGGAGCCATCTGAATACTTGCTTGG
** *
11804327 TAACTGTTGTTATACGCGAAT
66 TAACTACTATTATACGCGAAT
11804348 NACGTAGGTGAACGACACCTTCGCCCATATAGTGCCTCATAAGGAGCCATCTGAATACTTGCTTG
1 -ACGTAGGTGAACGACACCTTCGCCCATATAGTGCCTCATAAGGAGCCATCTGAATACTTGCTTG
11804413 GTAACTACTATTATACGCGAA
65 GTAACTACTATTATACGCGAA
11804434 CTCCGCCAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (86 bp):
ACGTAGGTGAACGACACCTTCGCCCATATAGTGCCTCATAAGGAGCCATCTGAATACTTGCTTGG
TAACTACTATTATACGCGAAT
Found at i:11809835 original size:25 final size:26
Alignment explanation
Indices: 11809807--11809866 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
11809797 CTGGAGGCCT
11809807 AGCCTCTTTTAAT-AACTGAGGCAAA
1 AGCCTCTTTTAATAAACTGAGGCAAA
* *
11809832 AGCC-CTTTTTGATAAACTGGGGCAAA
1 AGCCTC-TTTTAATAAACTGAGGCAAA
11809858 AGCCT-TTTT
1 AGCCTCTTTT
11809867 CGGTAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 1 0.03
25 14 0.47
26 15 0.50
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (26 bp):
AGCCTCTTTTAATAAACTGAGGCAAA
Found at i:11809856 original size:26 final size:26
Alignment explanation
Indices: 11809820--11809881 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
11809810 CTCTTTTAAT
11809820 AACTGAGGCAAAAGCCCTTTTT-GATA
1 AACTGAGGCAAAAG-CCTTTTTCGATA
* *
11809846 AACTGGGGCAAAAGCCTTTTTCGGTA
1 AACTGAGGCAAAAGCCTTTTTCGATA
*
11809872 AACTAAGGCA
1 AACTGAGGCA
11809882 TAGCCCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (26 bp):
AACTGAGGCAAAAGCCTTTTTCGATA
Found at i:11810052 original size:25 final size:25
Alignment explanation
Indices: 11810024--11810071 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11810014 ATAATTAAAC
* **
11810024 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAAAAGTCATTTTTA
11810049 CCTAGGGGCAAAAAAGTCATTTT
1 CCTAGGGGCAAAAAAGTCATTTT
11810072 CATATTCGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAAAAGTCATTTTTA
Found at i:11815015 original size:13 final size:13
Alignment explanation
Indices: 11814997--11815022 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11814987 GAATATTGCA
11814997 TGAAAATTTTTAT
1 TGAAAATTTTTAT
11815010 TGAAAATTTTTAT
1 TGAAAATTTTTAT
11815023 CAATTATGTG
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TGAAAATTTTTAT
Found at i:11815503 original size:20 final size:22
Alignment explanation
Indices: 11815473--11815520 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
11815463 GAATATGCTG
*
11815473 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTGTTGATAGA
11815495 -AAATGAAAGATTGTTGATAGA
1 TAAATGAAAGATTGTTGATAGA
11815516 TAAAT
1 TAAAT
11815521 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTGTTGATAGA
Found at i:11816230 original size:33 final size:33
Alignment explanation
Indices: 11816209--11816339 Score: 219
Period size: 33 Copynumber: 4.0 Consensus size: 33
11816199 GGTTATGTAC
*
11816209 ACTTTTTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGTATACCATATGAAAAGGAAAGGTAT
* *
11816242 ACTTTGTGTATACCAAATGAAAAGGAAATGTAT
1 ACTTTGTGTATACCATATGAAAAGGAAAGGTAT
11816275 ACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGTATACCATATGAAAAGGAAAGGTAT
11816308 ACTTTGTGTATACCACT-TGAAAAGGAAAGGTA
1 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTA
11816340 CACCATATGT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
33 91 0.99
34 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (33 bp):
ACTTTGTGTATACCATATGAAAAGGAAAGGTAT
Found at i:11816263 original size:66 final size:66
Alignment explanation
Indices: 11816193--11816342 Score: 237
Period size: 66 Copynumber: 2.3 Consensus size: 66
11816183 TGGTACAACT
** *
11816193 TGAAAAGGTTATGTACACTTTTTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
1 TGAAAAGGAAATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
11816258 A
66 A
* *
11816259 TGAAAAGGAAATGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 TGAAAAGGAAATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
*
11816324 T
66 A
*
11816325 TGAAAAGGAAAGGTACAC
1 TGAAAAGGAAATGTACAC
11816343 CATATGTGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (66 bp):
TGAAAAGGAAATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
A
Found at i:11816431 original size:33 final size:33
Alignment explanation
Indices: 11816185--11816466 Score: 183
Period size: 33 Copynumber: 8.6 Consensus size: 33
11816175 TACCCAAATG
* ** *
11816185 GTACAACTTGAAAAGGTTATGTACACTTTTTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * *
11816218 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGAAATGTACACTTTGTGT
* ** *
11816251 ATACCAAATGAAAAGGAAATGTATACTTTGTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * *
11816284 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGAAATGTACACTTTGTGT
* * ** *
11816317 ATACCACTTGAAAAGGAAAGGTACACCATATGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
** * * *
11816350 GTA-CACTTGAAAAGGTTATGTGCACTTGGAGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * * * ** *
11816382 GTGCAAATTGAGAAGGGCATGTACACTTCGTGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* * * * *
11816415 GTACCACTTGAAAAGGGAATGTGCACCTCGAGT
1 GTACCACTTGAAAAGGAAATGTACACTTTGTGT
* *
11816448 GTACAACTAGAAAAGGAAA
1 GTACCACTTGAAAAGGAAA
11816467 AATCCATTGG
Statistics
Matches: 199, Mismatches: 45, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
32 23 0.12
33 175 0.88
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (33 bp):
GTACCACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:11817492 original size:30 final size:31
Alignment explanation
Indices: 11817449--11817507 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
11817439 GTAAGTCCCA
* * *
11817449 ATTCCACATGGGCTGGCCACATGGCCATGGG
1 ATTCCACACGGGCTAGCCACACGGCCATGGG
*
11817480 ATTCC-CACGGGCTAGCCCCACGGCCATG
1 ATTCCACACGGGCTAGCCACACGGCCATG
11817508 TCCCAGGCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.17
Consensus pattern (31 bp):
ATTCCACACGGGCTAGCCACACGGCCATGGG
Found at i:11828443 original size:18 final size:18
Alignment explanation
Indices: 11828420--11828458 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
11828410 ACGATGTTGA
11828420 TTTCTTTAAATTTTAGTT
1 TTTCTTTAAATTTTAGTT
11828438 TTTCTTTAAATTTTAGTT
1 TTTCTTTAAATTTTAGTT
11828456 TTT
1 TTT
11828459 AACATCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTCTTTAAATTTTAGTT
Found at i:11828990 original size:6 final size:6
Alignment explanation
Indices: 11828981--11829013 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11828971 TATTATTTCC
*
11828981 ATTTTT ATTTTT ATTTTT ATTTCT A-TTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
11829014 AAAATTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:11828997 original size:11 final size:12
Alignment explanation
Indices: 11828973--11829013 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
11828963 TATTTTACTA
*
11828973 TTATTTCCATTT
1 TTATTTCTATTT
*
11828985 TTATTTTTATTT
1 TTATTTCTATTT
11828997 TTATTTCTA-TT
1 TTATTTCTATTT
11829008 TTATTT
1 TTATTT
11829014 AAAATTCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTCTATTT
Found at i:11832116 original size:20 final size:20
Alignment explanation
Indices: 11832091--11832138 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
11832081 GTGTGGTCAC
11832091 ACACGC-CCATGTGGCTTGGG
1 ACACGCTCCA-GTGGCTTGGG
*
11832111 ACACGCTCGAGTGGCTTGGG
1 ACACGCTCCAGTGGCTTGGG
*
11832131 ACATGCTC
1 ACACGCTC
11832139 GTGTCCTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACGCTCCAGTGGCTTGGG
Found at i:11832139 original size:20 final size:20
Alignment explanation
Indices: 11832101--11832139 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11832091 ACACGCCCAT
11832101 GTGGCTTGGGACACGCTCGA
1 GTGGCTTGGGACACGCTCGA
*
11832121 GTGGCTTGGGACATGCTCG
1 GTGGCTTGGGACACGCTCG
11832140 TGTCCTCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.23
Consensus pattern (20 bp):
GTGGCTTGGGACACGCTCGA
Found at i:11834494 original size:44 final size:45
Alignment explanation
Indices: 11834426--11834519 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 45
11834416 ATCCGTATAA
* *
11834426 TCAATCATACAATTTATATCATAATAACAATAAAGCATTTAAAAT
1 TCAATCATACAATTTATATAATAATAACAATAAAGAATTTAAAAT
11834471 TCAA-CATACAATTTATATAATAATAACAATAAAGAATTTAAAAT
1 TCAATCATACAATTTATATAATAATAACAATAAAGAATTTAAAAT
11834515 TCAAT
1 TCAAT
11834520 TATAACATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (45 bp):
TCAATCATACAATTTATATAATAATAACAATAAAGAATTTAAAAT
Found at i:11834508 original size:25 final size:25
Alignment explanation
Indices: 11834436--11834510 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
11834426 TCAATCATAC
*
11834436 AATTTATATCATAATAACAATAAAG
1 AATTTATATAATAATAACAATAAAG
* *
11834461 CATTTA-A-AAT--TCAAC-AT--AC
1 AATTTATATAATAAT-AACAATAAAG
11834480 AATTTATATAATAATAACAATAAAG
1 AATTTATATAATAATAACAATAAAG
11834505 AATTTA
1 AATTTA
11834511 AAATTCAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 16
0.64 0.09 0.28
Matches are distributed among these distances:
19 6 0.16
20 1 0.03
21 6 0.16
22 6 0.16
23 5 0.14
24 1 0.03
25 12 0.32
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (25 bp):
AATTTATATAATAATAACAATAAAG
Found at i:11844208 original size:11 final size:11
Alignment explanation
Indices: 11844192--11844216 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11844182 AACCTTGTGA
11844192 TGATTTTATGG
1 TGATTTTATGG
11844203 TGATTTTATGG
1 TGATTTTATGG
11844214 TGA
1 TGA
11844217 CCTTGTGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (11 bp):
TGATTTTATGG
Found at i:11848534 original size:27 final size:26
Alignment explanation
Indices: 11848490--11848541 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
11848480 CTCGCTGCAA
*
11848490 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
11848517 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
11848542 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:11851336 original size:41 final size:40
Alignment explanation
Indices: 11851268--11851415 Score: 199
Period size: 41 Copynumber: 3.6 Consensus size: 40
11851258 AATTATTCCT
* * *
11851268 TGAATTGCACATACATGCTCC-TATTTGTACTTCGATACCTC
1 TGAATTGCACATACGTGC-CCTTGTTTGTACTTCGGTACC-C
11851309 TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
1 TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
* *
11851349 TTGAATTGCCCATACGTGCCCTTGTTTGTACTTTGGTACCC
1 -TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
* *
11851390 TGAATTGCACATAAGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCTTGTTT
11851416 ACACTTCAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
40 26 0.27
41 71 0.73
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (40 bp):
TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
Found at i:11854244 original size:29 final size:28
Alignment explanation
Indices: 11854202--11854286 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 28
11854192 CGAGCAAATT
11854202 ATGAAAAGGGATGGTGATGACCATCAACA
1 ATGAAAA-GGATGGTGATGACCATCAACA
*
11854231 ATGAAAAGGCATGGTGACGACCATCAACA
1 ATGAAAAGG-ATGGTGATGACCATCAACA
*
11854260 ATGAAAATGGATGGTGGTGACCATCAA
1 ATGAAAA-GGATGGTGATGACCATCAA
11854287 AATTATGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 2 0.04
29 47 0.92
30 2 0.04
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (28 bp):
ATGAAAAGGATGGTGATGACCATCAACA
Found at i:11854392 original size:29 final size:29
Alignment explanation
Indices: 11854352--11854450 Score: 146
Period size: 29 Copynumber: 3.4 Consensus size: 29
11854342 TATCAAATTT
* *
11854352 TGAAAAGGGATGGAGACGACCATCAACAA
1 TGAAAAGGGATGGTGACGACCATCAAAAA
11854381 TGAAAAGGGATGGTGACGACCATCAAAAA
1 TGAAAAGGGATGGTGACGACCATCAAAAA
*
11854410 TGAAAAGGGATGGTGATGACCATCAAAATTA
1 TGAAAAGGGATGGTGACGACCATCAAAA--A
11854441 TG-AAAGGGAT
1 TGAAAAGGGAT
11854451 AGCTTTGGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
29 54 0.83
30 8 0.12
31 3 0.05
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.16
Consensus pattern (29 bp):
TGAAAAGGGATGGTGACGACCATCAAAAA
Found at i:11854412 original size:149 final size:147
Alignment explanation
Indices: 11854141--11854507 Score: 500
Period size: 149 Copynumber: 2.5 Consensus size: 147
11854131 ACTATCAAAC
* ** * * *
11854141 TATGAAAAGGGATGGCTTCAGCTGTCAAAACATGAAAAGGGATAGCTCCGGCGAGCAAATTATGA
1 TATG-AAAGGGATAGCTTTGGCTGT-TAAACATGAAAAGGGATAGCTCCGGCTATCAAATTATGA
* * * *
11854206 AAAGGGATGGTGATGACCATCAACAATGAAAAGGCATGGTGACGACCATCAACAATGAAAATGGA
64 AAAGGGATGGAGACGACCATCAACAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAAGGGA
*
11854271 TGGTGGTGACCATCAAAAT
129 TGGTGATGACCATCAAAAT
* * * * *
11854290 TATGAAAAGGGATCGCTTTTGTTGTTGAATCATGAAAAGGGATAGCTCCGGCTATCAAATTTTGA
1 TATG-AAAGGGATAGCTTTGGCTGTT-AAACATGAAAAGGGATAGCTCCGGCTATCAAATTATGA
*
11854355 AAAGGGATGGAGACGACCATCAACAATGAAAAGGGATGGTGACGACCATCAAAAATGAAAAGGGA
64 AAAGGGATGGAGACGACCATCAACAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAAGGGA
11854420 TGGTGATGACCATCAAAAT
129 TGGTGATGACCATCAAAAT
* * * *
11854439 TATGAAAGGGATAGCTTTGGCTGTTAAACTATGGAAAGGGATGGCTTCGGCTATCGAATTATGAA
1 TATGAAAGGGATAGCTTTGGCTGTTAAAC-ATGAAAAGGGATAGCTCCGGCTATCAAATTATGAA
11854504 AAGG
65 AAGG
11854508 TATAGCTTCC
Statistics
Matches: 192, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
147 3 0.02
148 52 0.27
149 137 0.71
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (147 bp):
TATGAAAGGGATAGCTTTGGCTGTTAAACATGAAAAGGGATAGCTCCGGCTATCAAATTATGAAA
AGGGATGGAGACGACCATCAACAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAAGGGATG
GTGATGACCATCAAAAT
Found at i:11854479 original size:178 final size:178
Alignment explanation
Indices: 11854202--11854538 Score: 385
Period size: 178 Copynumber: 1.9 Consensus size: 178
11854192 CGAGCAAATT
* * *
11854202 ATGAAAAGGGATGGTGATGACCATCAACAATGAAAAGGCATGGTGACGACCATCAACAATGAAAA
1 ATGAAAAGGGATGGTGACGACCATCAAAAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAA
* * * ** * * *
11854267 TGGATGGTGGTGACCATCAAAATTATGAAAAGGGATCGCTTTTGTTGTTGAATCATGAAAAGGGA
66 GGGATGCTGGTGACCATCAAAACTATGAAAAGGGATCGCTTCGGCTATCGAATCATGAAAAGGGA
* *
11854332 TAGC-TCCGGCTATCAAATTTTGAAAAGGGATGGAGACGACCATCAACA
131 TAGCTTCC-GCTATCAAATTATAAAAAGGGATGGAGACGACCATCAACA
* *
11854380 ATGAAAAGGGATGGTGACGACCATCAAAAATGAAAAGGGATGGTGATGACCATCAAAATTATG-A
1 ATGAAAAGGGATGGTGACGACCATCAAAAATGAAAAGGCATGGTGACGACCATCAAAA--ATGAA
* * ** * * * *
11854444 AAGGGATAGCT-TTGGCTGT-TAAACTATGGAAAGGGATGGCTTCGGCTATCGAATTATGAAAAG
64 AAGGGAT-GCTGGTGACCATCAAAACTATGAAAAGGGATCGCTTCGGCTATCGAATCATGAAAAG
* *
11854507 GTATAGCTTCCGCTATCGAATTATAAAAAGGG
128 GGATAGCTTCCGCTATCAAATTATAAAAAGGG
11854539 GTGGTGTCAA
Statistics
Matches: 130, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
178 111 0.85
179 14 0.11
180 5 0.04
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.23
Consensus pattern (178 bp):
ATGAAAAGGGATGGTGACGACCATCAAAAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAA
GGGATGCTGGTGACCATCAAAACTATGAAAAGGGATCGCTTCGGCTATCGAATCATGAAAAGGGA
TAGCTTCCGCTATCAAATTATAAAAAGGGATGGAGACGACCATCAACA
Found at i:11854507 original size:30 final size:30
Alignment explanation
Indices: 11854436--11854538 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 30
11854426 TGACCATCAA
* * **
11854436 AATTATG-AAAGGGATAGCTTTGGCTGTTA
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
* * *
11854465 AACTATGGAAAGGGATGGCTTCGGCTATCG
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
* *
11854495 AATTATGAAAAGGTATAGCTTCCGCTATCG
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
*
11854525 AATTATAAAAAGGG
1 AATTATGAAAAGGG
11854539 GTGGTGTCAA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
29 6 0.10
30 54 0.90
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
AATTATGAAAAGGGATAGCTTCGGCTATCG
Found at i:11855192 original size:52 final size:52
Alignment explanation
Indices: 11855130--11855232 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
11855120 GAATGTGGTG
*
11855130 ATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAGTTGTTA
1 ATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAATTGTTA
*
11855182 ATTTGGTACATTTATTATAAATGACATATATGGCTATTGGTGCTAATTGTT
1 ATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAATTGTT
11855233 GAATGGTACT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (52 bp):
ATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAATTGTTA
Found at i:11859454 original size:16 final size:17
Alignment explanation
Indices: 11859414--11859455 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
11859404 CATCAAACAT
* *
11859414 TTCATAATCAATTATCA
1 TTCATAATCAATAACCA
11859431 TTCA-AATCAA-AACCA
1 TTCATAATCAATAACCA
11859446 TTCATAATCA
1 TTCATAATCA
11859456 TTCATATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TTCATAATCAATAACCA
Found at i:11860140 original size:34 final size:34
Alignment explanation
Indices: 11860097--11860164 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
11860087 GTATGGTACT
11860097 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
1 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
11860131 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
1 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
11860165 CCAAATATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (34 bp):
AATAGGCATCTTAATTAGCCATTTAAAACTCATG
Found at i:11861009 original size:25 final size:25
Alignment explanation
Indices: 11860945--11861010 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
11860935 CCATAATCAA
* * *
11860945 TAAGCTCATTCAAGCTAAAATACGG
1 TAAGCTCATACGAGCTAAAATACCG
*
11860970 TAAGCTCATATGAGCTAAGAAT-CCG
1 TAAGCTCATACGAGCTAA-AATACCG
11860995 TAAGCTCATACGAGCT
1 TAAGCTCATACGAGCT
11861011 GTGGTGAGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 32 0.91
26 3 0.09
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (25 bp):
TAAGCTCATACGAGCTAAAATACCG
Found at i:11862773 original size:21 final size:21
Alignment explanation
Indices: 11862749--11862788 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11862739 CGATTTCTAT
11862749 CTATCA-GAAGCAGCTTTCAAA
1 CTATCACGAAGCA-CTTTCAAA
*
11862770 CTATCACGAATCACTTTCA
1 CTATCACGAAGCACTTTCA
11862789 CCTTCTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (21 bp):
CTATCACGAAGCACTTTCAAA
Found at i:11868802 original size:21 final size:21
Alignment explanation
Indices: 11868768--11868807 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11868758 AAACATAGAT
*
11868768 ATCCATCACTAAACTTTCATA
1 ATCCATCACTAAACATTCATA
11868789 ATCCATCA-TCAAACATTCA
1 ATCCATCACT-AAACATTCA
11868808 AAAACACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (21 bp):
ATCCATCACTAAACATTCATA
Found at i:11870355 original size:29 final size:29
Alignment explanation
Indices: 11870319--11870376 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11870309 ATTTTAATAA
11870319 AACATTTTGATTTATTAAAATAATGATTT
1 AACATTTTGATTTATTAAAATAATGATTT
*
11870348 AACATTTTGATTTATTAAAATAATTATTT
1 AACATTTTGATTTATTAAAATAATGATTT
11870377 TGGTCTACGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (29 bp):
AACATTTTGATTTATTAAAATAATGATTT
Found at i:11871241 original size:21 final size:22
Alignment explanation
Indices: 11871202--11871243 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11871192 TTTTAAGTAA
*
11871202 ATAATTTATGAAATCATTTAAG
1 ATAATATATGAAATCATTTAAG
*
11871224 ATAATATAT-AAATGATTTAA
1 ATAATATATGAAATCATTTAA
11871244 ACAAGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAATATATGAAATCATTTAAG
Found at i:11871267 original size:25 final size:25
Alignment explanation
Indices: 11871221--11871268 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11871211 GAAATCATTT
* *
11871221 AAGATAATATATAAATGATTTAAAC
1 AAGATAATATAAAAAAGATTTAAAC
*
11871246 AAGATAATATAAAAAAGGTTTAA
1 AAGATAATATAAAAAAGATTTAA
11871269 GATACATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.29
Consensus pattern (25 bp):
AAGATAATATAAAAAAGATTTAAAC
Found at i:11877703 original size:48 final size:48
Alignment explanation
Indices: 11877557--11877706 Score: 142
Period size: 48 Copynumber: 3.1 Consensus size: 48
11877547 CACATGGTAA
* * * * * *
11877557 GATGCCAATTCCATATCCCGGATATGGTCTTACATGGGATCCCATATA
1 GATGCCAATACAATATCCCAGACATGGTCTTACATGGGATCACATATC
* * *
11877605 GATGCCAATACCATATCCTAGACATGGTCTTACATGGGA--ACGTAAGTC
1 GATGCCAATACAATATCCCAGACATGGTCTTACATGGGATCACAT-A-TC
* * * * *
11877653 GATGCTAATGCAATGTCCCAGACATGGCCTTACATGAGATCACATATC
1 GATGCCAATACAATATCCCAGACATGGTCTTACATGGGATCACATATC
11877701 GATGCC
1 GATGCC
11877707 GATGGCCCAG
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 75 0.91
49 1 0.01
50 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATACAATATCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:11881456 original size:43 final size:42
Alignment explanation
Indices: 11881332--11881482 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 42
11881322 CGTGTTATCG
* * *
11881332 TGTAAGACCACGTTTGGGATGGTGGCATCGA-ATTATGA-TTTA
1 TGTAAGACCATGTCTGGGA-CGTGGCATCGATATT-TGATTTTA
*
11881374 CGTGTAAGACCATGTCTGGGACGTTGGCATCG-TACTTGATTTTA
1 --TGTAAGACCATGTCTGGGACG-TGGCATCGATATTTGATTTTA
* **
11881418 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTGGCATCGATATTTGATTTTA
*
11881461 TGTAAGACCATATCTGGGACGT
1 TGTAAGACCATGTCTGGGACGT
11881483 TGACATTGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
42 29 0.32
43 32 0.35
44 31 0.34
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTGGCATCGATATTTGATTTTA
Found at i:11886318 original size:81 final size:81
Alignment explanation
Indices: 11886200--11886425 Score: 278
Period size: 81 Copynumber: 2.8 Consensus size: 81
11886190 AATTATTCAT
* * * *
11886200 TGAATTGA-ACATACGTGCCCCTGTTTTTACTTCGGTACCCTAGAATTGCACATATGTACCTCTA
1 TGAATT-ACACATATGTG-CCCTGTTTGTACTTTGGTACCCTAGAATTGCACATATGTACCCCTA
*
11886264 TTTGTACTTCAGTACCCC
64 TTTGTACTTCAATACCCC
* *
11886282 TGAATTACACATATGTGCCCTGTTTGTACTTTGGTACCCCAGAATTGCACATATGTACCCCTTTT
1 TGAATTACACATATGTGCCCTGTTTGTACTTTGGTACCCTAGAATTGCACATATGTACCCCTATT
11886347 TGTACTTCAATACCCC
66 TGTACTTCAATACCCC
* * * * *
11886363 TGAATCACACATATATGCCCTTGTTTGTA-TTTCGATACTCCTA-AATTGCACATAAGTGCCCCT
1 TGAATTACACATATGTGCCC-TGTTTGTACTTT-GGTAC-CCTAGAATTGCACATATGTACCCCT
11886426 GTTTACACTC
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
81 80 0.63
82 44 0.35
83 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (81 bp):
TGAATTACACATATGTGCCCTGTTTGTACTTTGGTACCCTAGAATTGCACATATGTACCCCTATT
TGTACTTCAATACCCC
Found at i:11886423 original size:41 final size:40
Alignment explanation
Indices: 11886202--11886429 Score: 167
Period size: 41 Copynumber: 5.6 Consensus size: 40
11886192 TTATTCATTG
* * * * *
11886202 AATTGAACATACGTGCCCCTGTTTTTACTTCGGTACCCTA
1 AATTGCACATATGTGCCCTTGTTTGTACTTCGATACCCTA
* * *
11886242 GAATTGCACATATGT-ACCTCTATTTGTACTTC-AGTACCCCTG
1 -AATTGCACATATGTGCCCT-TGTTTGTACTTCGA-TA-CCCTA
* * * *
11886284 AATTACACATATGTGCCC-TGTTTGTACTTTGGTACCCCA
1 AATTGCACATATGTGCCCTTGTTTGTACTTCGATACCCTA
* * *
11886323 GAATTGCACATATGTACCCCTT-TTTGTACTTCAATACCCCTG
1 -AATTGCACATATGT-GCCCTTGTTTGTACTTCGATA-CCCTA
** * *
11886365 AATCACACATATATGCCCTTGTTTGTATTTCGATACTCCTA
1 AATTGCACATATGTGCCCTTGTTTGTACTTCGATAC-CCTA
* *
11886406 AATTGCACATAAGTGCCCCTGTTT
1 AATTGCACATATGTGCCCTTGTTT
11886430 ACACTCCGGT
Statistics
Matches: 142, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
39 3 0.02
40 33 0.23
41 96 0.68
42 10 0.07
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (40 bp):
AATTGCACATATGTGCCCTTGTTTGTACTTCGATACCCTA
Found at i:11898415 original size:12 final size:11
Alignment explanation
Indices: 11898398--11898478 Score: 74
Period size: 12 Copynumber: 6.9 Consensus size: 11
11898388 TCCTCCTATT
11898398 TTTTTATTCTTA
1 TTTTTATT-TTA
11898410 TTTTTATTTTA
1 TTTTTATTTTA
11898421 -TTTTATTTTTA
1 TTTTTA-TTTTA
*
11898432 TTTTTCTTTTGA
1 TTTTTATTTT-A
*
11898444 TTTTTATTTTC
1 TTTTTATTTTA
*
11898455 TTTTCAATTTTA
1 TTTT-TATTTTA
11898467 TTATTTTATTTT
1 -T-TTTTATTTT
11898479 GAAAGACATC
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.09
11 16 0.28
12 27 0.47
13 6 0.11
14 3 0.05
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:11898421 original size:5 final size:5
Alignment explanation
Indices: 11898399--11898478 Score: 56
Period size: 5 Copynumber: 14.8 Consensus size: 5
11898389 CCTCCTATTT
*
11898399 TTTTA TTCTTA TTTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA
*
11898450 TTTTC TTTTCAA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTT--A TTTTA TTTTA TTTTA TTTT
11898479 GAAAGACATC
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
3 3 0.05
5 32 0.52
6 17 0.27
7 10 0.16
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:11898426 original size:22 final size:23
Alignment explanation
Indices: 11898399--11898447 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
11898389 CCTCCTATTT
11898399 TTTTATTCTTATTTTTATTTT-A
1 TTTTATTCTTATTTTTATTTTGA
* *
11898421 TTTTATTTTTATTTTTCTTTTGA
1 TTTTATTCTTATTTTTATTTTGA
11898444 TTTT
1 TTTT
11898448 TATTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTATTCTTATTTTTATTTTGA
Found at i:11898448 original size:7 final size:6
Alignment explanation
Indices: 11898398--11898453 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
11898388 TCCTCCTATT
* * *
11898398 TTTTTA TTCTTA TTTTTA -TTTTA -TTTTA TTTTTA TTTTTC TTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
11898444 TTTTTA TTTT
1 TTTTTA TTTT
11898454 CTTTTCAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:11898454 original size:17 final size:16
Alignment explanation
Indices: 11898407--11898468 Score: 79
Period size: 17 Copynumber: 3.7 Consensus size: 16
11898397 TTTTTTATTC
*
11898407 TTATTTTTATTTTATT
1 TTATTTTTATTTTCTT
11898423 TTATTTTTATTTTTCTT
1 TTATTTTTA-TTTTCTT
11898440 TTGATTTTTATTTTCTT
1 TT-ATTTTTATTTTCTT
*
11898457 TTCAATTTTATT
1 TT-ATTTTTATT
11898469 ATTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
16 9 0.22
17 25 0.61
18 7 0.17
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (16 bp):
TTATTTTTATTTTCTT
Found at i:11916231 original size:39 final size:39
Alignment explanation
Indices: 11916188--11916276 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
11916178 GTCCCCCGAT
11916188 CACACCCCATAAGAGATGATTAAGCTCATCTAACCAAAA
1 CACACCCCATAAGAGATGATTAAGCTCATCTAACCAAAA
* * *
11916227 CACACCCCATAAGAGCTGATTAAGCTTATCTAACCAAGA
1 CACACCCCATAAGAGATGATTAAGCTCATCTAACCAAAA
*
11916266 CACACCACATA
1 CACACCCCATA
11916277 GGACCTCGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.18
Consensus pattern (39 bp):
CACACCCCATAAGAGATGATTAAGCTCATCTAACCAAAA
Found at i:11922622 original size:11 final size:11
Alignment explanation
Indices: 11922606--11922632 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11922596 CACACCCCCT
11922606 AACCCCTAGTA
1 AACCCCTAGTA
11922617 AACCCCTAGTA
1 AACCCCTAGTA
11922628 AACCC
1 AACCC
11922633 ACTCATGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.41, G:0.07, T:0.15
Consensus pattern (11 bp):
AACCCCTAGTA
Found at i:11922976 original size:398 final size:404
Alignment explanation
Indices: 11922218--11923007 Score: 1129
Period size: 398 Copynumber: 2.0 Consensus size: 404
11922208 ACTTAGGGTT
* * * *
11922218 AACCCACTCATGCCATGAAAAGCCTACCCCCAAGATTAATCCCTAGTAATCCTCCTTGAGCTAAA
1 AACCCACTCATGCCATGAAAAGCCTACCCCCAAGATTAACCCCTAGTAAACCCCCTTGAGCCAAA
*
11922283 AAGCCATTTCTTGTATTACCCTTAATATTAACCTTTAACCCATTATTGTTGAAACCCCCTAATTT
66 AAGCCAATTCTTGTATTACCCTTAATATTAACCTTTAACCCATTATTGTTGAAACCCCCTAATTT
*
11922348 AATCCCTATTTTTGTCAAGATTTGAGTTGAGGGAATTGCTTAGCTATGTCTTGTTTGTAATCAGT
131 AATCCCTATTTTTGTCAAGATTTGAGTTGAGGGAATTGCCTAGCTATGTCTTGTTTGTAATCAGT
* *
11922413 TAGTCTATGAATATTTAACTTATTCTTAAAAAAAAAGAGAAAGAAAGAAAAACTATGTTTGCATA
196 TAGTCTATGAATATTTAACTTATACTT------AAAGAGAAAGAAAGAAAAACTATGTATGCATA
11922478 TCTGTAATTTCATATTCTGAGAAAAGCTCTGTTGTACGCAAGTGAAGATTAACTCTTTTTCTAGT
255 TCTGTAATTTCATATTCTGAGAAAAGCTCTGTTGTACGCAAGTGAAGATTAACTCTTTTTCTAGT
11922543 TAGGCAACTTTACAATTCAATCTCGATTCTAACCCTTTCTTTCAGCTTGTGACCACACCCCCTAA
320 TAGGCAACTTTACAATTCAATCTCGATTCTAACCCTTTCTTTCAGCTTGTGACCACACCCCCTAA
11922608 CCCCTAGTAAACCCCTAGTA
385 CCCCTAGTAAACCCCTAGTA
* * *
11922628 AACCCACTCATGTCATGAAAAGCCTACCTCCACGATTAACCCCTAGTAAACCCCCTTGAGCCCAA
1 AACCCACTCATGCCATGAAAAGCCTACCCCCAAGATTAACCCCTAGTAAACCCCCTTGAG-CCAA
* *
11922693 CAAA-CCAATTCTTGTATTACCCTTAATATTAACCTTTAATCCATTATTGTTGAAATCCCCTGAA
65 -AAAGCCAATTCTTGTATTACCCTTAATATTAACCTTTAACCCATTATTGTTGAAACCCCCT-AA
* * *
11922757 -TTAATCCCTATTTTTGTCAAGATTTGAGTTGAATGG-ATTGCCTAGCTATGTTTTGTTCT-TGA
128 TTTAATCCCTATTTTTGTCAAGATTTGAGTTG-AGGGAATTGCCTAGCTATGTCTTGTT-TGTAA
* * * **
11922819 T-ATTTAGTCTAT-ATTATTTAACTTGTACTT-AA-A-AAA-AAA-ACCAACTATGTATGCATAT
191 TCAGTTAGTCTATGAATATTTAACTTATACTTAAAGAGAAAGAAAGAAAAACTATGTATGCATAT
* *
11922877 CTGTAATTTCATATTTTGAGAGAAGCTCTGTTGTACGCCAA-TGAAGATTAACTCTTTTTCTAGT
256 CTGTAATTTCATATTCTGAGAAAAGCTCTGTTGTACG-CAAGTGAAGATTAACTCTTTTTCTAGT
* * * *
11922941 TAGGCAACTTTTCAATTCAATCTCGACTT-TAACCCTTTCTTTTAGCTTGTGACTACACCTCCTA
320 TAGGCAACTTTACAATTCAATCTCGA-TTCTAACCCTTTCTTTCAGCTTGTGACCACACCCCCTA
11923005 ACC
384 ACC
11923008 AATCCTCATT
Statistics
Matches: 346, Mismatches: 27, Indels: 26
0.87 0.07 0.07
Matches are distributed among these distances:
398 134 0.39
399 8 0.02
400 3 0.01
401 1 0.00
402 2 0.01
409 15 0.04
410 64 0.18
411 110 0.32
412 9 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (404 bp):
AACCCACTCATGCCATGAAAAGCCTACCCCCAAGATTAACCCCTAGTAAACCCCCTTGAGCCAAA
AAGCCAATTCTTGTATTACCCTTAATATTAACCTTTAACCCATTATTGTTGAAACCCCCTAATTT
AATCCCTATTTTTGTCAAGATTTGAGTTGAGGGAATTGCCTAGCTATGTCTTGTTTGTAATCAGT
TAGTCTATGAATATTTAACTTATACTTAAAGAGAAAGAAAGAAAAACTATGTATGCATATCTGTA
ATTTCATATTCTGAGAAAAGCTCTGTTGTACGCAAGTGAAGATTAACTCTTTTTCTAGTTAGGCA
ACTTTACAATTCAATCTCGATTCTAACCCTTTCTTTCAGCTTGTGACCACACCCCCTAACCCCTA
GTAAACCCCTAGTA
Found at i:11923589 original size:11 final size:11
Alignment explanation
Indices: 11923573--11923598 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11923563 ACCAAGAGTC
11923573 AAAACGAGCCA
1 AAAACGAGCCA
11923584 AAAACGAGCCA
1 AAAACGAGCCA
11923595 AAAA
1 AAAA
11923599 TAGACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.23, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAACGAGCCA
Found at i:11925431 original size:21 final size:21
Alignment explanation
Indices: 11925407--11925452 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
11925397 CACACGTTCA
11925407 TGTGCCCACCAAACACA-GCT-G
1 TGTGCCCA--AAACACATGCTCG
*
11925428 TGTGTCCAAAACACATGCTCG
1 TGTGCCCAAAACACATGCTCG
11925449 TGTG
1 TGTG
11925453 GGATCCCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 3 0.14
21 12 0.55
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (21 bp):
TGTGCCCAAAACACATGCTCG
Found at i:11925954 original size:15 final size:15
Alignment explanation
Indices: 11925931--11925961 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11925921 GGAACATCGA
11925931 AATTATTCATAATCT
1 AATTATTCATAATCT
*
11925946 AATTCTTCATAATCT
1 AATTATTCATAATCT
11925961 A
1 A
11925962 CGCAGCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTATTCATAATCT
Found at i:11930057 original size:33 final size:33
Alignment explanation
Indices: 11930011--11930077 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
11930001 ATAACACATA
*
11930011 TTATAAAACTAGGTCCCTATTGATCATGTGATT
1 TTATAAAACTAGGTCCCTATTGATCATATGATT
* *
11930044 TTATAAAATTAGGTCCCTATTGATCGTATGATT
1 TTATAAAACTAGGTCCCTATTGATCATATGATT
11930077 T
1 T
11930078 CGTGATAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (33 bp):
TTATAAAACTAGGTCCCTATTGATCATATGATT
Found at i:11934975 original size:23 final size:23
Alignment explanation
Indices: 11934940--11934985 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11934930 GTGGTTTGAA
*
11934940 GAGTTTATGCTCCACATTCCTGC
1 GAGTTTATACTCCACATTCCTGC
* *
11934963 GAGTTTGTACTCCTCATTCCTGC
1 GAGTTTATACTCCACATTCCTGC
11934986 TATCAATCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.37
Consensus pattern (23 bp):
GAGTTTATACTCCACATTCCTGC
Found at i:11938068 original size:22 final size:22
Alignment explanation
Indices: 11938040--11938081 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
11938030 AGACAATACC
11938040 TAAGGAAAAATCCACCTAGAAT
1 TAAGGAAAAATCCACCTAGAAT
11938062 TAAGGAAAAATCCACCTAGA
1 TAAGGAAAAATCCACCTAGA
11938082 CTTTACTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (22 bp):
TAAGGAAAAATCCACCTAGAAT
Found at i:11939635 original size:46 final size:46
Alignment explanation
Indices: 11939568--11939739 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
11939558 ACCCCGCCCC
* *
11939568 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
11939614 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
11939662 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
11939707 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
11939740 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:11939680 original size:93 final size:93
Alignment explanation
Indices: 11939573--11939743 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11939563 GCCCCTAAGT
* *
11939573 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11939638 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
11939666 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11939731 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11939744 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11940197 original size:30 final size:30
Alignment explanation
Indices: 11940163--11940222 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
11940153 ATTTAATACG
11940163 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
11940193 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
11940223 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:11947252 original size:93 final size:93
Alignment explanation
Indices: 11947142--11947312 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
11947132 GCCCCTAAGT
* *
11947142 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
11947207 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * **
11947235 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
11947300 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11947313 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11947302 original size:46 final size:45
Alignment explanation
Indices: 11947139--11947309 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
11947129 CCCGCCCCTA
* * * * *
11947139 AGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
* * *
11947184 AAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCAT
*
11947232 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
11947277 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
11947310 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 57 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
Found at i:11950136 original size:38 final size:38
Alignment explanation
Indices: 11950093--11950451 Score: 295
Period size: 38 Copynumber: 8.7 Consensus size: 38
11950083 TTAACATATA
*
11950093 TAACCGTGGCATATCCACTTAGCACCACGTTAAATGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTTAAATGTT
* *
11950131 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATAT
1 TAACCGTGGTATATCCACTTAGCACCACG-T--T--A--AATGT-T
* * *
11950177 GTAACCGTGGCATATCCATTTAGCACCACGTTACATGTT
1 -TAACCGTGGTATATCCACTTAGCACCACGTTAAATGTT
* *
11950216 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATAT
1 TAACCGTGGTATATCCACTTAGCACCACG-T--T--A--AATGT-T
** *
11950262 GTAACCGTGACATATCCACTTAGCACCACGTTACATGTT
1 -TAACCGTGGTATATCCACTTAGCACCACGTTAAATGTT
* *
11950301 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATTAATATAT
1 TAACCGTGGTATATCCACTTAGCACCACG-T--T--A--AATGT-T
** *
11950347 GTAACCGTGACATATCCACTTAGCACCACGTTACATGTT
1 -TAACCGTGGTATATCCACTTAGCACCACGTTAAATGTT
* *
11950386 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTAAATGTT
* *
11950424 TAATCATGGTATATCCACTTAGCACCAC
1 TAACCGTGGTATATCCACTTAGCACCAC
11950452 ATTTTTTTTC
Statistics
Matches: 261, Mismatches: 33, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
38 140 0.54
39 6 0.02
40 9 0.03
41 3 0.01
42 3 0.01
43 3 0.01
44 3 0.01
45 10 0.04
46 6 0.02
47 78 0.30
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (38 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAAATGTT
Found at i:11950185 original size:47 final size:47
Alignment explanation
Indices: 11950131--11950379 Score: 264
Period size: 47 Copynumber: 5.7 Consensus size: 47
11950121 GTTAAATGTT
* *
11950131 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
11950178 TAACCGTGGCATATCCATTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
11950216 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
11950263 TAACCGTGACATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
11950301 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATTAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
11950348 TAACCGTGACATATCCACTTAGCACCACGTTA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA
11950380 CATGTTTAAC
Statistics
Matches: 164, Mismatches: 20, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
38 52 0.32
39 4 0.02
40 6 0.04
41 4 0.02
42 2 0.01
43 2 0.01
44 3 0.02
45 6 0.04
46 4 0.02
47 81 0.49
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (47 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:11950204 original size:85 final size:85
Alignment explanation
Indices: 11950088--11950417 Score: 597
Period size: 85 Copynumber: 3.9 Consensus size: 85
11950078 TCAAATTAAC
* * *
11950088 ATATATAACCGTGGCATATCCACTTAGCACCACGTTAAATGTTTAACCGTGGTATATCCACTTAG
1 ATATGTAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
11950153 CACCATGTTAATGAATCAAT
66 CACCATGTTAATGAATCAAT
* *
11950173 ATATGTAACCGTGGCATATCCATTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
1 ATATGTAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
11950238 CACCATGTTAATGAATCAAT
66 CACCATGTTAATGAATCAAT
11950258 ATATGTAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
1 ATATGTAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
*
11950323 CACCATGTTAATGAATTAAT
66 CACCATGTTAATGAATCAAT
11950343 ATATGTAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
1 ATATGTAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
*
11950408 CACCACGTTA
66 CACCATGTTA
11950418 CATGTATAAT
Statistics
Matches: 238, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 238 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
ATATGTAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
CACCATGTTAATGAATCAAT
Found at i:11959560 original size:46 final size:46
Alignment explanation
Indices: 11959510--11959682 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
11959500 TGGTTGAGCA
*
11959510 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
11959556 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
11959603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
11959649 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11959683 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:11959666 original size:93 final size:93
Alignment explanation
Indices: 11959507--11959677 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11959497 GGATGGTTGA
* *
11959507 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
11959572 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
11959600 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
11959665 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11959678 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11959944 original size:19 final size:20
Alignment explanation
Indices: 11959907--11959944 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
11959897 ATAAGGTGGT
11959907 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
11959927 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
11959945 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:11977121 original size:42 final size:42
Alignment explanation
Indices: 11977035--11977154 Score: 188
Period size: 42 Copynumber: 2.9 Consensus size: 42
11977025 CGCACACCTG
*
11977035 TGTTAGAGCACACGGCCTACAACA-GGGTGACCATACGCCCA
1 TGTTAGAGCACACGGCCTACAACACGGGTGACCACACGCCCA
*
11977076 TGTTAGAGCACACGGCCTACAACACGGGTGACCACACGCCTA
1 TGTTAGAGCACACGGCCTACAACACGGGTGACCACACGCCCA
* * *
11977118 TGTTAGAGAACACGGCCTACCATACGGGTGACCACAC
1 TGTTAGAGCACACGGCCTACAACACGGGTGACCACAC
11977155 ACCCGTGTGG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
41 24 0.33
42 49 0.67
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (42 bp):
TGTTAGAGCACACGGCCTACAACACGGGTGACCACACGCCCA
Found at i:11982404 original size:24 final size:23
Alignment explanation
Indices: 11982377--11982450 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 23
11982367 GAAAGTTTTA
11982377 ATAATTATACATCTAAAAATTATT
1 ATAATTATACAT-TAAAAATTATT
* *
11982401 ATAATT-TA-A-TAAAAATTGTG
1 ATAATTATACATTAAAAATTATT
* * *
11982421 ATATTTAGACATTTAAAAATAATT
1 ATAATTATACA-TTAAAAATTATT
11982445 ATAATT
1 ATAATT
11982451 TAATTTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 14 0.37
21 1 0.03
22 2 0.05
23 2 0.05
24 19 0.50
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
ATAATTATACATTAAAAATTATT
Found at i:11982426 original size:19 final size:20
Alignment explanation
Indices: 11982390--11982427 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11982380 ATTATACATC
*
11982390 TAAAAATTATTATAATTTAA
1 TAAAAATTATGATAATTTAA
*
11982410 TAAAAATTGTGAT-ATTTA
1 TAAAAATTATGATAATTTA
11982428 GACATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAATTATGATAATTTAA
Found at i:11986151 original size:18 final size:18
Alignment explanation
Indices: 11986111--11986151 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11986101 AGGCCATTTT
11986111 TGGGCTTTGTGGGCCACA
1 TGGGCTTTGTGGGCCACA
*
11986129 CGGGC-TTGTGGGCCTACA
1 TGGGCTTTGTGGGCC-ACA
11986147 TGGGC
1 TGGGC
11986152 CCGTAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.10, C:0.24, G:0.41, T:0.24
Consensus pattern (18 bp):
TGGGCTTTGTGGGCCACA
Found at i:11986300 original size:27 final size:27
Alignment explanation
Indices: 11986265--11986542 Score: 261
Period size: 27 Copynumber: 10.3 Consensus size: 27
11986255 GACCCCTTTC
* *
11986265 TATGATAAAATGACTATTTTTCCCTCA
1 TATGATAAAATGACTATTTTGCCCTTA
* * * *
11986292 TGTGGTAAAATGACTGTTTTGCCCTAA
1 TATGATAAAATGACTATTTTGCCCTTA
* * *
11986319 TATGGTAAAATGACTATTTTACCCTGA
1 TATGATAAAATGACTATTTTGCCCTTA
*
11986346 TGTGATAAAATGACTATTTTGCCCTTA
1 TATGATAAAATGACTATTTTGCCCTTA
* *
11986373 TATGATAAAATAACTAATTTGCCCTTA
1 TATGATAAAATGACTATTTTGCCCTTA
*
11986400 TATGATAAAATAACTATTTTGCCCTTA
1 TATGATAAAATGACTATTTTGCCCTTA
** * * *
11986427 CGTGATCAAATGACTCTTTTTCCCTTA
1 TATGATAAAATGACTATTTTGCCCTTA
* * * * *
11986454 AATGGTAAAATGATTGTTTTGCCCTCA
1 TATGATAAAATGACTATTTTGCCCTTA
*
11986481 TATGATAAAATGTC-AGTTTTGCCCTTA
1 TATGATAAAATGACTA-TTTTGCCCTTA
* * * * *
11986508 TGTGGTAAAAATGATTGTTTTGCCCCTA
1 TATGAT-AAAATGACTATTTTGCCCTTA
*
11986536 TGTGATA
1 TATGATA
11986543 TATGTTTATA
Statistics
Matches: 204, Mismatches: 44, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
27 183 0.90
28 21 0.10
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (27 bp):
TATGATAAAATGACTATTTTGCCCTTA
Found at i:11986329 original size:54 final size:54
Alignment explanation
Indices: 11986265--11986542 Score: 288
Period size: 54 Copynumber: 5.1 Consensus size: 54
11986255 GACCCCTTTC
* * *
11986265 TATGATAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTGTTTTGCCCTAA
1 TATGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTA
* * * * *
11986319 TATGGTAAAATGACTATTTTACCCTGATGTGATAAAATGACTATTTTGCCCTTA
1 TATGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTA
* * * * * *
11986373 TATGATAAAATAACTAATTTGCCCTTATATGATAAAATAACTATTTTGCCCTTA
1 TATGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTA
** * * * ** * *
11986427 CGTGATCAAATGACTCTTTTTCCCTTAAATGGTAAAATGATTGTTTTGCCCTCA
1 TATGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTA
* * *
11986481 TATGATAAAATGTC-AGTTTTGCCCTTATGTGGTAAAAATGATTGTTTTGCCCCTA
1 TATGATAAAATGACTA-TTTTGCCCTTATGTGGT-AAAATGACTGTTTTGCCCTTA
*
11986536 TGTGATA
1 TATGATA
11986543 TATGTTTATA
Statistics
Matches: 185, Mismatches: 37, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
54 160 0.86
55 25 0.14
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (54 bp):
TATGATAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTA
Found at i:11986501 original size:81 final size:81
Alignment explanation
Indices: 11986267--11986517 Score: 297
Period size: 81 Copynumber: 3.1 Consensus size: 81
11986257 CCCCTTTCTA
* * *
11986267 TGATAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTGTTTTGCCCTAATATGGTAAAATGA
1 TGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTAATATGATAAAATGA
* * *
11986332 CTATTTTACCCTGATG
66 CTATTTTGCCCTTACG
* * * ** * *
11986348 TGATAAAATGACTATTTTGCCCTTATATGATAAAATAACTAATTTGCCCTTATATGATAAAATAA
1 TGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTAATATGATAAAATGA
11986413 CTATTTTGCCCTTACG
66 CTATTTTGCCCTTACG
* * * * * *
11986429 TGATCAAATGACTCTTTTTCCCTTAAATGGTAAAATGATTGTTTTGCCCTCATATGATAAAATGT
1 TGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTAATATGATAAAATGA
*
11986494 C-AGTTTTGCCCTTATG
66 CTA-TTTTGCCCTTACG
*
11986510 TGGTAAAA
1 TGATAAAA
11986518 ATGATTGTTT
Statistics
Matches: 141, Mismatches: 28, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
80 1 0.01
81 140 0.99
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (81 bp):
TGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTAATATGATAAAATGA
CTATTTTGCCCTTACG
Found at i:11986835 original size:18 final size:18
Alignment explanation
Indices: 11986812--11986848 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11986802 GGACTTGCAT
11986812 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
*
11986830 ACTGTTTACTTTTACTGC
1 ACTGTTTACTGTTACTGC
11986848 A
1 A
11986849 ATGGGCTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:11999878 original size:39 final size:39
Alignment explanation
Indices: 11999835--12000046 Score: 271
Period size: 39 Copynumber: 5.4 Consensus size: 39
11999825 ACCTTTAAGT
* * * *
11999835 ATATATCACATTACACATATAATCACATAGCATTTAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
* * * * * **
11999874 ATATACCATAACACTCATATATTCACATAACATTTAAAT
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
*
11999913 ATATATCACAATACTCATATAATCACATAACACTCAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
*
11999952 ATATATCACAATACTCATATAATCACGTAACATTCAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
* * *
11999991 ACATATCACAATACTTATATAATCACATTACATTCAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
*
12000030 ATATATCAGAATACTCA
1 ATATATCACAATACTCA
12000047 AATACATGTT
Statistics
Matches: 147, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (39 bp):
ATATATCACAATACTCATATAATCACATAACATTCAAGC
Found at i:11999904 original size:19 final size:19
Alignment explanation
Indices: 11999880--11999948 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
11999870 AAGCATATAC
11999880 CATAACACTCATATATTCA
1 CATAACACTCATATATTCA
* *
11999899 CATAACATTTAAATATATATCA
1 CATAACA-CT-CATATAT-TCA
* *
11999921 C--AATACTCATATAATCA
1 CATAACACTCATATATTCA
11999938 CATAACACTCA
1 CATAACACTCA
11999949 AGCATATATC
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
17 4 0.11
18 5 0.13
19 15 0.39
20 4 0.11
21 6 0.16
22 4 0.11
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (19 bp):
CATAACACTCATATATTCA
Found at i:12002026 original size:3 final size:3
Alignment explanation
Indices: 12002018--12002042 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12002008 TGCCGTAACT
12002018 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
12002043 AATCTTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12003937 original size:39 final size:39
Alignment explanation
Indices: 12003886--12004041 Score: 244
Period size: 39 Copynumber: 4.0 Consensus size: 39
12003876 TGAGGTCCGC
12003886 AGGCTTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
1 AGGCTTTATGCTGGTATTATATCCGGGCTAAAGTCCCGA
* *
12003924 AGGCATTTGTGCTGGTGTTATATCCGGGCT-AAGTCCCGA
1 AGGC-TTTATGCTGGTATTATATCCGGGCTAAAGTCCCGA
*
12003963 AGGCATTTATGCTGGTATTATATCCGGGCTAAAGTCCCGC
1 AGGC-TTTATGCTGGTATTATATCCGGGCTAAAGTCCCGA
12004003 AGGCTTTATGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 AGGCTTTATGCTGGTATTATATCCGGGC-TAAAGTCCCG
12004042 CATGCTTTTT
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
38 4 0.04
39 84 0.76
40 22 0.20
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (39 bp):
AGGCTTTATGCTGGTATTATATCCGGGCTAAAGTCCCGA
Found at i:12004197 original size:18 final size:18
Alignment explanation
Indices: 12004174--12004209 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
12004164 AAGTTGGTCA
12004174 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
12004192 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
12004210 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:12011427 original size:45 final size:41
Alignment explanation
Indices: 12011367--12011449 Score: 98
Period size: 45 Copynumber: 1.9 Consensus size: 41
12011357 AATAAAGTAG
12011367 TAAGAAAGAATATAAACAATAATA-ATGATTAATAATGAATAAGAA
1 TAAGAAAGAATAT-AA-AATAA-ACATGA-TAATAAT-AATAAGAA
12011412 TAAGAAAG-ATGATAAAATAAACATGATAATAATAATAA
1 TAAGAAAGAAT-ATAAAATAAACATGATAATAATAATAA
12011450 TGAAATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
41 5 0.14
42 8 0.22
43 9 0.25
44 4 0.11
45 10 0.28
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (41 bp):
TAAGAAAGAATATAAAATAAACATGATAATAATAATAAGAA
Found at i:12011717 original size:34 final size:34
Alignment explanation
Indices: 12011678--12011742 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
12011668 GGAAAAAGAG
*
12011678 AAAGAAAGGAAA-GGAGGAGGAAGGAGG-GAGGAGA
1 AAAGAAA-GAAAGGGAGG-GGAAAGAGGAGAGGAGA
12011712 AAAGAAAGAAAGGGAGGGGAAAGAGGAGAGG
1 AAAGAAAGAAAGGGAGGGGAAAGAGGAGAGG
12011743 GGTGGTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (34 bp):
AAAGAAAGAAAGGGAGGGGAAAGAGGAGAGGAGA
Done.