Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 219 of 362
Found at i:74000089 original size:27 final size:27
Alignment explanation
Indices: 74000042--74000094 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
74000032 GCATTTGATA
*
74000042 CTGATTCTGTACTGGGCCTAGGCCCAC
1 CTGATTCTGTAATGGGCCTAGGCCCAC
74000069 CTGATTCTGTTAATGGG-CTAGGCCCA
1 CTGATTCTG-TAATGGGCCTAGGCCCA
74000095 ACTGTTACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (27 bp):
CTGATTCTGTAATGGGCCTAGGCCCAC
Found at i:74004569 original size:31 final size:31
Alignment explanation
Indices: 74004497--74004569 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
74004487 TTTGAAGAGT
*
74004497 CACATGCCCGTGTGGGTAGGCCGCCTGGTTA
1 CACACGCCCGTGTGGGTAGGCCGCCTGGTTA
* * ** *
74004528 CACACACCCGTGTGGGTAGGCTGTGTGGTTG
1 CACACGCCCGTGTGGGTAGGCCGCCTGGTTA
74004559 CACACGCCCGT
1 CACACGCCCGT
74004570 TTGGCTTAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.14, C:0.30, G:0.34, T:0.22
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTAGGCCGCCTGGTTA
Found at i:74012558 original size:22 final size:22
Alignment explanation
Indices: 74012523--74012595 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
74012513 CGTGTTCTAG
* *
74012523 GCCATGTGGTACACATGGCTGA
1 GCCATGCGGCACACATGGCTGA
74012545 GCCATGCGGCACACATGGCTGA
1 GCCATGCGGCACACATGGCTGA
*
74012567 GCCATGCGGCATACATGGCTGA
1 GCCATGCGGCACACATGGCTGA
*
74012589 GCAATGC
1 GCCATGC
74012596 ACCCTTGTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.23, C:0.27, G:0.32, T:0.18
Consensus pattern (22 bp):
GCCATGCGGCACACATGGCTGA
Found at i:74014272 original size:20 final size:20
Alignment explanation
Indices: 74014243--74014287 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
74014233 CAACACAATA
*
74014243 TTCATAAAATTTCATAATTT
1 TTCATAAAATTTCACAATTT
* *
74014263 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTCACAATTT
74014283 TTCAT
1 TTCAT
74014288 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTCACAATTT
Found at i:74018350 original size:51 final size:51
Alignment explanation
Indices: 74018274--74018383 Score: 202
Period size: 51 Copynumber: 2.2 Consensus size: 51
74018264 ACAACAACCA
*
74018274 TATCAAACATACCAAAACACAAGGCCGTATATATACACATTATATAACACT
1 TATCAAACATACCAAAACACAAGGCCATATATATACACATTATATAACACT
*
74018325 TATCAAACATACCAAAGCACAAGGCCATATATATACACATTATATAACACT
1 TATCAAACATACCAAAACACAAGGCCATATATATACACATTATATAACACT
74018376 TATCAAAC
1 TATCAAAC
74018384 TTATGACTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (51 bp):
TATCAAACATACCAAAACACAAGGCCATATATATACACATTATATAACACT
Found at i:74019292 original size:42 final size:42
Alignment explanation
Indices: 74019245--74019571 Score: 343
Period size: 42 Copynumber: 7.8 Consensus size: 42
74019235 AACCCATATA
* * *
74019245 ATGCC-ATATCCCAGATATGGTCTTACATGTTATAGT-ATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACG-AAT-CTCATATCG
* * *
74019287 ATGCCAATAGCCCAGCTATGGTCTTATACGAATCTCATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
* * * *
74019329 ATGCCAATGTCCCAGACATGGTCTTACACGAATCACACATCG
1 ATGCCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
* * ** *
74019371 ATGCCAATGTCTCAGGCATAGTCTTACACGAATCTCATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
* **
74019413 ATGCCAATGTCCCAGGCATGGTCTTACACGAATCTCATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
* ** *
74019455 ATGCCAATGTCCCAGGCATGGTCTTACACAAATCTCATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
* * * * *
74019497 ATGTCAATGTCCCAAACATGGTTTTACACGAATCTCATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
* ** *
74019539 ATGCCAATGTCCCAGGCATAGTCTTACACGAAT
1 ATGCCAATATCCCAGATATGGTCTTACACGAAT
74019572 TATAATCTCG
Statistics
Matches: 252, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
41 1 0.00
42 231 0.92
43 20 0.08
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCAATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:74019378 original size:84 final size:84
Alignment explanation
Indices: 74019281--74019571 Score: 451
Period size: 84 Copynumber: 3.5 Consensus size: 84
74019271 ATGTTATAGT
* *
74019281 ATATCGATGCCAATAG-CCCA-GCTATGGTCTTATACGAATCTCATATCGATGCCAATGTCCCAG
1 ATATCGATGCCAAT-GTCCCAGGC-ATAGTCTTACACGAATCTCATATCGATGCCAATGTCCCAG
*
74019344 ACATGGTCTTACACGAATCAC
64 ACATGGTCTTACACGAATCTC
* * *
74019365 ACATCGATGCCAATGTCTCAGGCATAGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGGC
1 ATATCGATGCCAATGTCCCAGGCATAGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
74019430 ATGGTCTTACACGAATCTC
66 ATGGTCTTACACGAATCTC
* * * *
74019449 ATATCGATGCCAATGTCCCAGGCATGGTCTTACACAAATCTCATATCGATGTCAATGTCCCAAAC
1 ATATCGATGCCAATGTCCCAGGCATAGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
*
74019514 ATGGTTTTACACGAATCTC
66 ATGGTCTTACACGAATCTC
74019533 ATATCGATGCCAATGTCCCAGGCATAGTCTTACACGAAT
1 ATATCGATGCCAATGTCCCAGGCATAGTCTTACACGAAT
74019572 TATAATCTCG
Statistics
Matches: 189, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
83 1 0.01
84 186 0.98
85 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (84 bp):
ATATCGATGCCAATGTCCCAGGCATAGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
ATGGTCTTACACGAATCTC
Found at i:74019475 original size:126 final size:126
Alignment explanation
Indices: 74019281--74019571 Score: 442
Period size: 126 Copynumber: 2.3 Consensus size: 126
74019271 ATGTTATAGT
*
74019281 ATATCGATGCCAATAG-CCCA-GCTATGGTCTTATACGAATCTCATATCGATGCCAATGTCCCAG
1 ATATCGATGCCAAT-GTCCCAGGC-ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAG
* * **
74019344 ACATGGTCTTACACGAATCACACATCGATGCCAATGTCTCAGGCATAGTCTTACACGAATCTC
64 ACATGGTCTTACACAAATCACACATCGATGCCAATGTCCCAAACATAGTCTTACACGAATCTC
*
74019407 ATATCGATGCCAATGTCCCAGGCATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGGC
1 ATATCGATGCCAATGTCCCAGGCATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
* * * * *
74019472 ATGGTCTTACACAAATCTCATATCGATGTCAATGTCCCAAACATGGTTTTACACGAATCTC
66 ATGGTCTTACACAAATCACACATCGATGCCAATGTCCCAAACATAGTCTTACACGAATCTC
*
74019533 ATATCGATGCCAATGTCCCAGGCATAGTCTTACACGAAT
1 ATATCGATGCCAATGTCCCAGGCATGGTCTTACACGAAT
74019572 TATAATCTCG
Statistics
Matches: 151, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
125 1 0.01
126 148 0.98
127 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (126 bp):
ATATCGATGCCAATGTCCCAGGCATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
ATGGTCTTACACAAATCACACATCGATGCCAATGTCCCAAACATAGTCTTACACGAATCTC
Found at i:74024087 original size:16 final size:16
Alignment explanation
Indices: 74024066--74024097 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
74024056 AATATGTGTG
74024066 TATTTTGATGTTTAAT
1 TATTTTGATGTTTAAT
74024082 TATTTTGATGTTTAAT
1 TATTTTGATGTTTAAT
74024098 GGTAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (16 bp):
TATTTTGATGTTTAAT
Found at i:74032254 original size:21 final size:21
Alignment explanation
Indices: 74032228--74032279 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
74032218 TATCATCCAA
74032228 TAGTAGCATCTAAGAA-AAAAT
1 TAGTAGCATC-AAGAAGAAAAT
*
74032249 TAGTAGCAACAAGAATGAAAAT
1 TAGTAGCATCAAGAA-GAAAAT
*
74032271 TATTAGCAT
1 TAGTAGCAT
74032280 TAATAAGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 12 0.46
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (21 bp):
TAGTAGCATCAAGAAGAAAAT
Found at i:74032749 original size:18 final size:19
Alignment explanation
Indices: 74032722--74032761 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
74032712 TATAATTTAC
74032722 TTTCTAATATAATTTTAAA
1 TTTCTAATATAATTTTAAA
* *
74032741 TTTCT-ATATTATTTTCAA
1 TTTCTAATATAATTTTAAA
74032759 TTT
1 TTT
74032762 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTCTAATATAATTTTAAA
Found at i:74034661 original size:24 final size:26
Alignment explanation
Indices: 74034629--74034679 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
74034619 CAAATAGAAA
74034629 TTTATGTATAATTAA-AAAA-TAATAT
1 TTTATGTAT-ATTAACAAAAGTAATAT
74034654 TTTA-GTATATTAACAAAAGTAATAT
1 TTTATGTATATTAACAAAAGTAATAT
74034679 T
1 T
74034680 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.21
24 8 0.33
25 11 0.46
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (26 bp):
TTTATGTATATTAACAAAAGTAATAT
Found at i:74050293 original size:10 final size:10
Alignment explanation
Indices: 74050232--74050304 Score: 74
Period size: 12 Copynumber: 6.7 Consensus size: 10
74050222 AAAAGGAAAG
74050232 AGAAGAAAGAA
1 AGAA-AAAGAA
74050243 AGAAAGAAAGAA
1 AG-AA-AAAGAA
74050255 AGAAAGAAAGAA
1 AG-AA-AAAGAA
74050267 AGAAAGAAGAA
1 AGAAA-AAGAA
* *
74050278 AGAAAATGAG
1 AGAAAAAGAA
74050288 AGAAAAAGAA
1 AGAAAAAGAA
74050298 AGAAAAA
1 AGAAAAA
74050305 TTTCCATGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
10 19 0.34
11 14 0.25
12 23 0.41
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:74050302 original size:4 final size:4
Alignment explanation
Indices: 74050227--74050282 Score: 96
Period size: 4 Copynumber: 14.0 Consensus size: 4
74050217 AATAAAAAAG
74050227 GAAA GAGAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AA
1 GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
74050275 GAAA GAAA
1 GAAA GAAA
74050283 ATGAGAGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.06
4 43 0.86
5 4 0.08
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:74056501 original size:28 final size:28
Alignment explanation
Indices: 74056469--74056596 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
74056459 ATAGTAAGTC
*
74056469 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
74056497 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
74056526 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
74056554 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
74056583 CGCACACTTAGTGC
1 CGCACACTTAGTGC
74056597 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:74056559 original size:57 final size:57
Alignment explanation
Indices: 74056468--74056596 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
74056458 TATAGTAAGT
*
74056468 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
74056525 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
74056582 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
74056597 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:74064510 original size:28 final size:28
Alignment explanation
Indices: 74064478--74064605 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
74064468 ATAGTAAGTC
*
74064478 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
74064506 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
74064535 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
74064563 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
74064592 CGCACACTTAGTGC
1 CGCACACTTAGTGC
74064606 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:74064568 original size:57 final size:57
Alignment explanation
Indices: 74064477--74064605 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
74064467 TATAGTAAGT
*
74064477 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
74064534 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
74064591 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
74064606 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:74066529 original size:12 final size:13
Alignment explanation
Indices: 74066395--74066564 Score: 82
Period size: 13 Copynumber: 12.8 Consensus size: 13
74066385 CCAATGTTCT
* *
74066395 ATTTCATATATCT
1 ATTTCATATAACC
*
74066408 ATTTCCATATAACT
1 ATTT-CATATAACC
*
74066422 AATTCATATAACC
1 ATTTCATATAACC
* *
74066435 AATTCATAT-ATC
1 ATTTCATATAACC
**
74066447 ATTTTTCATATAAGTG
1 A--TTTCATATAA-CC
*
74066463 A-TTCGTATAACC
1 ATTTCATATAACC
*
74066475 ATTTCATAT-ATC
1 ATTTCATATAACC
*
74066487 ATTTTTTATATAACC
1 A--TTTCATATAACC
*
74066502 GATTT-GTATAACC
1 -ATTTCATATAACC
*
74066515 ATTTCATAT-ATC
1 ATTTCATATAACC
74066527 ATTCTTCATATAACC
1 A-T-TTCATATAACC
74066542 GA-TTCATATAACC
1 -ATTTCATATAACC
*
74066555 ATTTAATATA
1 ATTTCATATA
74066565 TCATTCTTGA
Statistics
Matches: 123, Mismatches: 18, Indels: 32
0.71 0.10 0.18
Matches are distributed among these distances:
12 15 0.12
13 64 0.52
14 35 0.28
15 5 0.04
16 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.44
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:74066650 original size:40 final size:40
Alignment explanation
Indices: 74066395--74066652 Score: 313
Period size: 40 Copynumber: 6.5 Consensus size: 40
74066385 CCAATGTTCT
** **
74066395 ATTTCATATATCTATT-TCCATATAACTAATTCATATAACC
1 ATTTCATATATC-ATTCTTTATATAACCGATTCATATAACC
* ** *
74066435 AATTCATATATCATT-TTTCATATAAGTGATTCGTATAACC
1 ATTTCATATATCATTCTTT-ATATAACCGATTCATATAACC
* **
74066475 ATTTCATATATCATTTTTTATATAACCGATTTGTATAACC
1 ATTTCATATATCATTCTTTATATAACCGATTCATATAACC
*
74066515 ATTTCATATATCATTCTTCATATAACCGATTCATATAACC
1 ATTTCATATATCATTCTTTATATAACCGATTCATATAACC
* * * *
74066555 ATTTAATATATCATTCTTGACATAACCGATTCATATAACT
1 ATTTCATATATCATTCTTTATATAACCGATTCATATAACC
* * *
74066595 ATTTCACATATCATTCTTTACATAACCGATTCAAATAACC
1 ATTTCATATATCATTCTTTATATAACCGATTCATATAACC
74066635 ATTTCATATATCATTCTT
1 ATTTCATATATCATTCTT
74066653 CGCCCAATGA
Statistics
Matches: 192, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.02
40 185 0.96
41 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (40 bp):
ATTTCATATATCATTCTTTATATAACCGATTCATATAACC
Found at i:74082196 original size:13 final size:13
Alignment explanation
Indices: 74082163--74082197 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
74082153 TATGTGTGAT
*
74082163 TATCCAAGTGTCC
1 TATCCAATTGTCC
74082176 TATCCAATTGTCC
1 TATCCAATTGTCC
74082189 TATCCAATT
1 TATCCAATT
74082198 CCAAATGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.37
Consensus pattern (13 bp):
TATCCAATTGTCC
Found at i:74098850 original size:682 final size:682
Alignment explanation
Indices: 74097545--74098904 Score: 2506
Period size: 682 Copynumber: 2.0 Consensus size: 682
74097535 TGAGCTAGCT
*
74097545 AATGGGGGGACTATTTTACAAAATGGTTGAAAGTATAGGGTTTTTCCATGAGAGTATTTATGTTG
1 AATGGGGGGACTATTTTACAAAATGGTTGAAAGTATAGGGTTTTTCCATGAGAGCATTTATGTTG
*
74097610 TTTTCTGAATTTTTATGGAAGAAAATGAGTCTTGTTTGTGTAATAAACAACTTTCGTGAAAGAAG
66 TTTTCTGAATTTTTATGGAAGAAAATGAGTCTTGGTTGTGTAATAAACAACTTTCGTGAAAGAAG
*
74097675 TTTGCATGAAAACACCTAAAAAGGGTTATTTTGTAAAGTTGTAAAATAAGTTGTAAATGTGTGAA
131 TTTGCATGAAAACACCTAAAAAGGGTTATTTTGTAAAGTTGTAAAATAAGCTGTAAATGTGTGAA
* ** *
74097740 ATAATTGAAATTTTGAGTTGCTATAGTTATAAAAAGAATTTGGCTAGGCTTGGTAAAGGAGGAAA
196 ATAATTGAAATTTTGAGTTGCTATAGTTAAAAAAAGAATTCAGCTAGGCTTAGTAAAGGAGGAAA
* *
74097805 TTAGATAAAAATCAATTTACGAGCCTAAGGGTAAAATCATAATTTTTGTAAAGTCTAAGGGCAAA
261 TTAGATAAAAATAAATTTACGAGCCTAAGGGCAAAATCATAATTTTTGTAAAGTCTAAGGGCAAA
*
74097870 ACGGTCATTTTGCCAAATTGTGAATTATAGAATGTTTTAATTAATGTAATGATTAAATGAGTGAA
326 ACGATCATTTTGCCAAATTGTGAATTATAGAATGTTTTAATTAATGTAATGATTAAATGAGTGAA
*
74097935 TTTCATCATGTTAGATCAAGAAAATTGAGATTTGAGCTTAAATCGAAAAGTACGAGGTTATGGAC
391 TTTCATCATGCTAGATCAAGAAAATTGAGATTTGAGCTTAAATCGAAAAGTACGAGGTTATGGAC
*
74098000 TAAAATGGAGTAATTAGCTGAAATTGTATTCGAGGTAAGTCCATGTGACTAAATAAGCATGTTAT
456 TAAAATGGAGTAATTAGCCGAAATTGTATTCGAGGTAAGTCCATGTGACTAAATAAGCATGTTAT
*
74098065 CCATATTATTGTTAATATACTTGAAATCTATTTTTTCATAATTTTATTGAATTATATGTTGATGG
521 CCATATTATTGTTAATATACTTGAAATCTATTTTTTCATAATTGTATTGAATTATATGTTGATGG
*
74098130 AGTTATGTATGAGAAAGTGATGCCAAGAGTTAATAACACTCATGTGATGATAGAATACATTATAA
586 AGTTATGTATGAGAAAGTGATGCCAAAAGTTAATAACACTCATGTGATGATAGAATACATTATAA
74098195 ATTTGATGGAGTATGATATTCCATTGAAACAA
651 ATTTGATGGAGTATGATATTCCATTGAAACAA
*
74098227 AATGGGGGGACTATTTTACAAAATGGTTGAAAGTCTAGGGTTTTTCCATGAGAGCATTTATGTTG
1 AATGGGGGGACTATTTTACAAAATGGTTGAAAGTATAGGGTTTTTCCATGAGAGCATTTATGTTG
* *
74098292 TTTTTTGAATTTTTATGGAAGAAAATGAGTCTTGGTTGTGTAATAAACAACTTTTGTGAAAGAAG
66 TTTTCTGAATTTTTATGGAAGAAAATGAGTCTTGGTTGTGTAATAAACAACTTTCGTGAAAGAAG
74098357 TTTGCATGAAAACACCTAAAAAGGGTTATTTTGTAAAGTTGTAAAATAAGCTGTAAATGTGTGAA
131 TTTGCATGAAAACACCTAAAAAGGGTTATTTTGTAAAGTTGTAAAATAAGCTGTAAATGTGTGAA
74098422 ATAATTGAAATTTTGAGTTGCTATAGTTAAAAAAAGAATTCAGCTAGGCTTAGTAAAGGAGGAAA
196 ATAATTGAAATTTTGAGTTGCTATAGTTAAAAAAAGAATTCAGCTAGGCTTAGTAAAGGAGGAAA
* *
74098487 TTAGATAAAAATAAATTTACGAGCCTAAGGGCCAAATCGTAATTTTTGTAAAGTCTAAGGGCAAA
261 TTAGATAAAAATAAATTTACGAGCCTAAGGGCAAAATCATAATTTTTGTAAAGTCTAAGGGCAAA
74098552 ACGATCATTTTGCCAAATTGTGAATTATAGAATGTTTTAATTAATGTAATGATTAAATGAGTGAA
326 ACGATCATTTTGCCAAATTGTGAATTATAGAATGTTTTAATTAATGTAATGATTAAATGAGTGAA
* *
74098617 TTTCATCATGCTAGATCAAGAAAATTGAGATTTGAGCTTAAATC-AGAAAGTATGAGGTTTTGGA
391 TTTCATCATGCTAGATCAAGAAAATTGAGATTTGAGCTTAAATCGA-AAAGTACGAGGTTATGGA
*
74098681 CTAAAATGGAGTAATTAGCCGAAATTGTATTCGAGGTAAGTCCATGTGACTAAATAAGCTTGTTA
455 CTAAAATGGAGTAATTAGCCGAAATTGTATTCGAGGTAAGTCCATGTGACTAAATAAGCATGTTA
74098746 TCCATATTATTGTTAATATACTTGAAATCTATTTTTTCATAATTGTATTGAATTATATGTTGATG
520 TCCATATTATTGTTAATATACTTGAAATCTATTTTTTCATAATTGTATTGAATTATATGTTGATG
74098811 GAGTTATGTATGAGAAAGTGATGCCAAAAGTTAATAACACTCATGTGATGATAGAATACATTATA
585 GAGTTATGTATGAGAAAGTGATGCCAAAAGTTAATAACACTCATGTGATGATAGAATACATTATA
74098876 AATTTGATGGAGTATGATATTCCATTGAA
650 AATTTGATGGAGTATGATATTCCATTGAA
74098905 GCGAATATAA
Statistics
Matches: 655, Mismatches: 22, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
681 1 0.00
682 654 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (682 bp):
AATGGGGGGACTATTTTACAAAATGGTTGAAAGTATAGGGTTTTTCCATGAGAGCATTTATGTTG
TTTTCTGAATTTTTATGGAAGAAAATGAGTCTTGGTTGTGTAATAAACAACTTTCGTGAAAGAAG
TTTGCATGAAAACACCTAAAAAGGGTTATTTTGTAAAGTTGTAAAATAAGCTGTAAATGTGTGAA
ATAATTGAAATTTTGAGTTGCTATAGTTAAAAAAAGAATTCAGCTAGGCTTAGTAAAGGAGGAAA
TTAGATAAAAATAAATTTACGAGCCTAAGGGCAAAATCATAATTTTTGTAAAGTCTAAGGGCAAA
ACGATCATTTTGCCAAATTGTGAATTATAGAATGTTTTAATTAATGTAATGATTAAATGAGTGAA
TTTCATCATGCTAGATCAAGAAAATTGAGATTTGAGCTTAAATCGAAAAGTACGAGGTTATGGAC
TAAAATGGAGTAATTAGCCGAAATTGTATTCGAGGTAAGTCCATGTGACTAAATAAGCATGTTAT
CCATATTATTGTTAATATACTTGAAATCTATTTTTTCATAATTGTATTGAATTATATGTTGATGG
AGTTATGTATGAGAAAGTGATGCCAAAAGTTAATAACACTCATGTGATGATAGAATACATTATAA
ATTTGATGGAGTATGATATTCCATTGAAACAA
Found at i:74099137 original size:46 final size:47
Alignment explanation
Indices: 74099065--74099188 Score: 164
Period size: 46 Copynumber: 2.7 Consensus size: 47
74099055 TATATGTGCT
* *
74099065 AGTGCAAGACATGTCTGGGATATGCATCGGCCACAT-A-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-ATGAGATGAGAGCC
* * *
74099111 AGTGTAAGACATGTCTAGGACATGCATCAG-CAATGAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAATGAGATGAGAGCC
*
74099157 AGTGTAGGACATGTCTGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
74099189 TCGAGATATA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 2 0.03
45 3 0.04
46 61 0.91
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCAATGAGATGAGAGCC
Found at i:74099195 original size:46 final size:46
Alignment explanation
Indices: 74099062--74099228 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 46
74099052 TGATATATGT
* * * *
74099062 GCTAGTGCAAGACATGTCTGGGATATGCATCGGCCAC-ATAATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * *
74099108 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCAAT-GAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCGAGATGAGA
* * *
74099154 GCTAGTGTAGGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-GA-GA
* * *
74099202 GCTATTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
74099229 GTGTCAACTT
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.72
47 2 0.02
48 24 0.25
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:74102634 original size:68 final size:63
Alignment explanation
Indices: 74102524--74102776 Score: 235
Period size: 68 Copynumber: 3.9 Consensus size: 63
74102514 ATACAGATGG
** * * *
74102524 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A
74102588 TTA
62 -TA
*
74102591 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTA-GTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
74102656 TATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGGCACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA-GTGTA---CACCATGTAGACAAGAGAGCTACGAGA
74102721 TA
62 TA
* *
74102723 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGC
74102777 CAAAATTATG
Statistics
Matches: 157, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.11
64 27 0.17
65 3 0.02
66 22 0.14
67 33 0.21
68 52 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (63 bp):
TATGTAGCTAGGTCACATGGGTGGTACTAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:74104320 original size:19 final size:19
Alignment explanation
Indices: 74104298--74104340 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
74104288 GACACGAGCG
74104298 TGTCCTGGGCAGACGGGCA
1 TGTCCTGGGCAGACGGGCA
*
74104317 TGTCCTGGGCAGACGGGCG
1 TGTCCTGGGCAGACGGGCA
74104336 TGTCC
1 TGTCC
74104341 CTATGCCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.28, G:0.42, T:0.19
Consensus pattern (19 bp):
TGTCCTGGGCAGACGGGCA
Found at i:74105369 original size:20 final size:20
Alignment explanation
Indices: 74105327--74105369 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
74105317 CACACGCCCA
*
74105327 TGTGGCTTGGGACACACTTG
1 TGTGGCTTGGGACACACTCG
*
74105347 TGTGGCTTGGGACACGCTCG
1 TGTGGCTTGGGACACACTCG
74105367 TGT
1 TGT
74105370 CTTTAGGCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.21, G:0.37, T:0.30
Consensus pattern (20 bp):
TGTGGCTTGGGACACACTCG
Found at i:74106781 original size:42 final size:42
Alignment explanation
Indices: 74106653--74106815 Score: 139
Period size: 42 Copynumber: 3.9 Consensus size: 42
74106643 ATCTCACACT
** * *
74106653 GATGCCATATCCCAGATATGGTCTTATACGAATTATCGTTTC
1 GATGCCATATCCCAGACGTGGTCTTACACGAATTCTCGTTTC
* * * * * * ***
74106695 GACGTCATGTCCCAAACGTGGTCTTACATGGGA-TCTCACATC
1 GATGCCATATCCCAGACGTGGTCTTACA-CGAATTCTCGTTTC
* ** *
74106737 GATGCCATAACCCAGATTTGGTCTTATACGAATTCTCGTTTC
1 GATGCCATATCCCAGACGTGGTCTTACACGAATTCTCGTTTC
* *
74106779 GATGCCATGTCCCAGACGTGGTCTTACACGAAATCTC
1 GATGCCATATCCCAGACGTGGTCTTACACGAATTCTC
74106816 ATATCAACAC
Statistics
Matches: 87, Mismatches: 32, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
41 2 0.02
42 83 0.95
43 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (42 bp):
GATGCCATATCCCAGACGTGGTCTTACACGAATTCTCGTTTC
Found at i:74106829 original size:84 final size:84
Alignment explanation
Indices: 74106612--74106846 Score: 310
Period size: 84 Copynumber: 2.8 Consensus size: 84
74106602 TAAGATGCCA
* *
74106612 ATGCCATGTCCTAGATGTGGTCTTACATGGAATCTCACA-CTGATGCCATATCCCAGATATGGTC
1 ATGCCATGTCCCAGACGTGGTCTTACATGGAATCTCACATC-GATGCCATATCCCAGATATGGTC
74106676 TTATACGAATTATCGTTTCG
65 TTATACGAATTATCGTTTCG
* * * * * *
74106696 ACGTCATGTCCCAAACGTGGTCTTACATGGGATCTCACATCGATGCCATAACCCAGATTTGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACATGGAATCTCACATCGATGCCATATCCCAGATATGGTCT
*
74106761 TATACGAATTCTCGTTTCG
66 TATACGAATTATCGTTTCG
* * * * ** *
74106780 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCAACACCATATCCCAGGTATGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACATGGAATCTCACATCGATGCCATATCCCAGATATGGTCT
74106845 TA
66 TA
74106847 CATGATAACT
Statistics
Matches: 128, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
84 127 0.99
85 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (84 bp):
ATGCCATGTCCCAGACGTGGTCTTACATGGAATCTCACATCGATGCCATATCCCAGATATGGTCT
TATACGAATTATCGTTTCG
Found at i:74110097 original size:40 final size:40
Alignment explanation
Indices: 74109992--74110193 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
74109982 CAGATGATAA
* *
74109992 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
74110032 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
74110071 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
74110111 CTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
74110151 CCGGGCT-AGTCCCGAAGACATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
74110190 CCGG
1 CCGG
74110194 TTAAATCTCG
Statistics
Matches: 148, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 64 0.43
40 82 0.55
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:74110162 original size:79 final size:79
Alignment explanation
Indices: 74109988--74110174 Score: 288
Period size: 79 Copynumber: 2.4 Consensus size: 79
74109978 TATTCAGATG
*
74109988 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
74110053 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* * * *
74110067 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCTGGGTTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
74110131 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
*
74110147 ATAACCGGGCT-AGTCCCGAAGACATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
74110175 AGTGAGTAGC
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.02
79 62 0.63
80 35 0.35
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:74132223 original size:51 final size:50
Alignment explanation
Indices: 74132089--74132223 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 50
74132079 GAAGCTATCT
* *
74132089 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTAACCTCACCATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTAACCACACCATCG
** *** * * ***
74132139 AATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTAACCACA-CCATCG
74132190 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
74132224 TGCGACCTCA
Statistics
Matches: 67, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
50 36 0.54
51 31 0.46
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTAACCACACCATCG
Found at i:74134409 original size:15 final size:15
Alignment explanation
Indices: 74134353--74134417 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
74134343 TAAAGATAAC
*
74134353 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
74134367 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
74134382 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
74134397 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
74134412 AAGAAA
1 AAGAAA
74134418 CCCAAAATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:74134419 original size:30 final size:31
Alignment explanation
Indices: 74134353--74134426 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
74134343 TAAAGATAAC
*
74134353 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
74134383 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
*
74134412 AAGAAACCCAAAATA
1 AAGAAACCCAGAATA
74134427 CGATACTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 9 0.23
30 30 0.77
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:74134426 original size:15 final size:15
Alignment explanation
Indices: 74134363--74134426 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
74134353 AAGAAAACCG
*
74134363 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* *
74134378 GATAGAA-AAACCCAG
1 AATA-AAGAAACCCAA
* *
74134393 AATAAAGAAATCCAG
1 AATAAAGAAACCCAA
74134408 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
74134423 AATA
1 AATA
74134427 CGATACTATG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 2 0.05
15 36 0.90
16 2 0.05
ACGTcount: A:0.62, C:0.16, G:0.11, T:0.11
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:74140815 original size:21 final size:22
Alignment explanation
Indices: 74140763--74140816 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
74140753 TGCAGGGCTC
**
74140763 ACACGCCTGTGTGGTCCAAGGG
1 ACACGCCTGTGTGACCCAAGGG
* *
74140785 ACAAGCCTGTGTGACCCTAGGG
1 ACACGCCTGTGTGACCCAAGGG
74140807 -CACGCCTGTG
1 ACACGCCTGTG
74140817 CTGGAGGCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.19
Consensus pattern (22 bp):
ACACGCCTGTGTGACCCAAGGG
Found at i:74159785 original size:40 final size:41
Alignment explanation
Indices: 74159741--74159833 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
74159731 CGACTATGCT
*
74159741 TGGCACTAAGTGTGC-AGTTTAATATAGCTTC-GACTACA-AA
1 TGGCACTAAGTGTGCGAGTTGAA-ATAGCTTCTGA-TACATAA
* * *
74159781 TGGCACTAACTGTGCGAGTTGGAATAGCTTCTGATATATAA
1 TGGCACTAAGTGTGCGAGTTGAAATAGCTTCTGATACATAA
74159822 -GGCACTAAGTGT
1 TGGCACTAAGTGT
74159834 TCGGCTAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 36 0.80
41 9 0.20
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGAAATAGCTTCTGATACATAA
Found at i:74167065 original size:47 final size:46
Alignment explanation
Indices: 74166911--74167126 Score: 165
Period size: 48 Copynumber: 4.6 Consensus size: 46
74166901 AAGTTGACGC
* * *
74166911 CATGTCCCAGTCATGGTCTTACACTGGCTCTAACGTATCCGTG-CCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT--CGTAT-CATGACCGATG
* * * * *
74166960 CCATGTCGCAGACATGGTCTTATACT-G-ACAC--ATCATGTAGCCGGTG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTATCATG-A-CCGATG
*
74167006 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA-GTACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTATCATG-ACCGATG
** * * *
74167052 CCATGTCGTAGACATGGTCTTACACTGGCTCTCGTATTATGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTATCATGACCGATG
74167100 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
74167127 ACACAAATGA
Statistics
Matches: 134, Mismatches: 22, Indels: 24
0.74 0.12 0.13
Matches are distributed among these distances:
43 3 0.02
44 11 0.08
45 14 0.10
46 25 0.19
47 27 0.20
48 30 0.22
49 2 0.01
50 22 0.16
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTATCATGACCGATG
Found at i:74167109 original size:94 final size:93
Alignment explanation
Indices: 74166858--74167126 Score: 269
Period size: 94 Copynumber: 2.8 Consensus size: 93
74166848 GGTATAATGT
* * * ** *
74166858 CGATGCCATGTC-CAAGACATGGTCTTACACTAACTC-TCACGTTAAGTTGACGCCATGTCCCAG
1 CGATGCCATGTCGC-AGACATGGTCTTACACTGACACATCATG-T-AGCCGATG-CATGTCCCAG
* * * *
74166921 TCATGGTCTTACACTGGCTCTAACGTATCCGTGC
62 ACAT-GTCTTACACTAGCTCT-ACGTATCAGTAC
* *
74166955 CGATGCCATGTCGCAGACATGGTCTTATACTGACACATCATGTAGCCGGTGCATGTCCCAGACAT
1 CGATGCCATGTCGCAGACATGGTCTTACACTGACACATCATGTAGCCGATGCATGTCCCAGACAT
*
74167020 GTCTTACACTAGCTCT-CGTCTCAGTAC
66 GTCTTACACTAGCTCTACGTATCAGTAC
* * *
74167047 CGATGCCATGTCGTAGACATGGTCTTACACTGGCTC-TCGTAT-TATGGCCGATGCATGTCCCAG
1 CGATGCCATGTCGCAGACATGGTCTTACACTGACACATC--ATGTA--GCCGATGCATGTCCCAG
74167110 ACATGTCTTACACTAGC
62 ACATGTCTTACACTAGC
74167127 ACACAAATGA
Statistics
Matches: 148, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
91 2 0.01
92 42 0.28
93 2 0.01
94 48 0.32
95 13 0.09
96 4 0.03
97 32 0.22
98 5 0.03
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCGCAGACATGGTCTTACACTGACACATCATGTAGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTACGTATCAGTAC
Found at i:74172568 original size:93 final size:93
Alignment explanation
Indices: 74172461--74172631 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
74172451 GCCCCTAAGT
* *
74172461 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
74172526 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
74172554 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
74172619 CGAGTTCGGATGC
66 CGAGTTCGGATGC
74172632 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:74172628 original size:46 final size:46
Alignment explanation
Indices: 74172456--74172628 Score: 228
Period size: 46 Copynumber: 3.7 Consensus size: 46
74172446 AACCCGCCCC
* *
74172456 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
74172502 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* *
74172550 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
74172595 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
74172629 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 60 0.54
47 29 0.26
48 2 0.02
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:74175525 original size:27 final size:27
Alignment explanation
Indices: 74175485--74175548 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
74175475 GGCAAAATAG
*
74175485 TCATTTTACCCTACAAGGGTATGTCGA
1 TCATTTTACACTACAAGGGTATGTCGA
*
74175512 TCATTTTACACTACAAGGGTATTTCGA
1 TCATTTTACACTACAAGGGTATGTCGA
*
74175539 TAATTTTACA
1 TCATTTTACA
74175549 AATCGGGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCGA
Found at i:74175558 original size:27 final size:27
Alignment explanation
Indices: 74175500--74175787 Score: 248
Period size: 27 Copynumber: 10.7 Consensus size: 27
74175490 TTACCCTACA
* * * *
74175500 AGGGTATGTCGATCATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
74175527 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
74175554 GGGGTGTTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
74175581 -GGGATGTTTC-AGTAATTTTACAAATCG
1 AGGG-TATTTCGA-TAATTTTACAAATCG
** *
74175608 AGGGTATTTTAATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
74175635 AGGGTATTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
*
74175662 AGGGTATTTTGATAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* * ** *
74175689 ATGGTATTTTGGCAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
74175716 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
74175743 GGGGTACTTCGGTAAATTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* *
74175770 GGGGTATTTCGGTAATTT
1 AGGGTATTTCGATAATTT
74175788 CTCTTTATTA
Statistics
Matches: 221, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.02
27 210 0.95
28 6 0.03
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:74175623 original size:81 final size:80
Alignment explanation
Indices: 74175527--74175787 Score: 278
Period size: 81 Copynumber: 3.2 Consensus size: 80
74175517 TTACACTACA
* * * *
74175527 AGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTCAGTAATTTTACAAATCGGGG-ATGTTTC
1 AGGGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATCGGGGTAT-TTTC
74175591 AGTAATTTTACAAA-TCG
65 A-TAATTTTACAAACT-G
* *
74175608 AGGGTATTTTAATAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAA-CTGAGGGTATTTT
1 AGGGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATC-G-GGGTATTTT
*
74175672 GATAATTTTACAAACTG
64 CATAATTTTACAAACTG
* ** * *
74175689 ATGGTATTTTGGCAATTTTACAAATTGAGGGTATTTCAATAATTTTACAAATCGGGGGTA-CTTC
1 AGGGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATC-GGGGTATTTTC
* *
74175753 GGTAAATTTACAAACTG
65 -ATAATTTTACAAACTG
* * *
74175770 GGGGTATTTCGGTAATTT
1 AGGGTATTTTGATAATTT
74175788 CTCTTTATTA
Statistics
Matches: 152, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.02
81 137 0.90
82 10 0.07
83 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (80 bp):
AGGGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATCGGGGTATTTTCA
TAATTTTACAAACTG
Found at i:74175787 original size:54 final size:53
Alignment explanation
Indices: 74175527--74175779 Score: 276
Period size: 54 Copynumber: 4.7 Consensus size: 53
74175517 TTACACTACA
* * * *
74175527 AGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-GAGGGTATTTCAATAATTTTACAAATCG
* * * *
74175581 -GGGATGTTTCAGTAATTTTACAAATCGAGGGTATTTTAATAATTTTACAAATTG
1 AGGG-TATTTCGGTAATTTTACAAAT-GAGGGTATTTCAATAATTTTACAAATCG
**
74175635 AGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTTGATAATTTTACAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAA-TGAGGGTATTTCAATAATTTTACAAATC-G
* * *
74175689 ATGGTATTTTGGCAATTTTACAAATTGAGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAA-TGAGGGTATTTCAATAATTTTACAAATCG
* * * *
74175743 GGGGTACTTCGGTAAATTTACAAACTGGGGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAA-TGAGGGTATTTC
74175780 GGTAATTTCT
Statistics
Matches: 168, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
53 3 0.02
54 160 0.95
55 5 0.03
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATGAGGGTATTTCAATAATTTTACAAATCG
Found at i:74176148 original size:28 final size:28
Alignment explanation
Indices: 74176104--74176167 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
74176094 TGGCCCCTTT
* * *
74176104 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATAGCCCATC
* *
74176132 AGGTCCAATCACATTCATATAGCCCATC
1 AGGCCCAATCACATTCACATAGCCCATC
74176160 AGGCCCAA
1 AGGCCCAA
74176168 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.36, G:0.16, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATAGCCCATC
Found at i:74177375 original size:14 final size:13
Alignment explanation
Indices: 74177356--74177388 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
74177346 ATAATGTAAT
74177356 TTACCATAATCTCA
1 TTACCATAAT-TCA
74177370 TTACCATAATTCA
1 TTACCATAATTCA
74177383 TT-CCAT
1 TTACCAT
74177389 CACAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 5 0.26
14 10 0.53
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (13 bp):
TTACCATAATTCA
Found at i:74182489 original size:16 final size:17
Alignment explanation
Indices: 74182468--74182502 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
74182458 AGAACGTCTA
*
74182468 AATAGATA-TTCCCAAC
1 AATAGATAGTCCCCAAC
74182484 AATAGATAGTCCCCAAC
1 AATAGATAGTCCCCAAC
74182501 AA
1 AA
74182503 AATATCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (17 bp):
AATAGATAGTCCCCAAC
Found at i:74182655 original size:28 final size:28
Alignment explanation
Indices: 74182615--74182698 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
74182605 TTAATCCCTG
*
74182615 ACGGATATTCCACCCAAGATAGTCTTTA
1 ACGGATATTCCACTCAAGATAGTCTTTA
* * * *
74182643 ACGGGTATTCCACTTAAGATAGTCCTTG
1 ACGGATATTCCACTCAAGATAGTCTTTA
* * *
74182671 ATGGACATTCCACTGAAGATAGTCTTTA
1 ACGGATATTCCACTCAAGATAGTCTTTA
74182699 GCAAACTTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (28 bp):
ACGGATATTCCACTCAAGATAGTCTTTA
Found at i:74184155 original size:28 final size:28
Alignment explanation
Indices: 74184122--74184185 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
74184112 TATTTAATGA
*
74184122 AAAGGACA-CATTTGTGATAACCTCTGTT
1 AAAGGA-AGCATTTGTGACAACCTCTGTT
* *
74184150 AAAGGAAGCATTTGTGGCAATCTCTGTT
1 AAAGGAAGCATTTGTGACAACCTCTGTT
74184178 AAAGGAAG
1 AAAGGAAG
74184186 GCTTTATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (28 bp):
AAAGGAAGCATTTGTGACAACCTCTGTT
Found at i:74184195 original size:28 final size:28
Alignment explanation
Indices: 74184143--74184200 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
74184133 TTGTGATAAC
*
74184143 CTCTGTTAAAGGAAGCATTTGTGGCAAT
1 CTCTGTTAAAGGAAGCATTTATGGCAAT
*
74184171 CTCTGTTAAAGGAAGGC-TTTATGGCTAT
1 CTCTGTTAAAGGAA-GCATTTATGGCAAT
74184199 CT
1 CT
74184201 TGGAAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (28 bp):
CTCTGTTAAAGGAAGCATTTATGGCAAT
Found at i:74187757 original size:62 final size:62
Alignment explanation
Indices: 74187655--74187779 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
74187645 TCACTTGAGA
* * *
74187655 AAACATTGTATATTGGTTTATTAGAAGGCTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
1 AAACATTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
* *
74187717 AAACCTTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAATTTCTCTTAAGATAC
1 AAACATTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
74187779 A
1 A
74187780 TTTTATGAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (62 bp):
AAACATTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
Found at i:74192892 original size:19 final size:19
Alignment explanation
Indices: 74192868--74192904 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
74192858 CCAGCACCTT
74192868 CTTCAACTAGCTTGACCAC
1 CTTCAACTAGCTTGACCAC
74192887 CTTCAACTAGCTTGACCA
1 CTTCAACTAGCTTGACCA
74192905 GGGCTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (19 bp):
CTTCAACTAGCTTGACCAC
Found at i:74194901 original size:186 final size:186
Alignment explanation
Indices: 74194587--74194959 Score: 719
Period size: 186 Copynumber: 2.0 Consensus size: 186
74194577 AATGTCAGTT
* *
74194587 TCCTTGAGCATAACATGTCAAGACCAATATTAGCTTTCACCAATGCTACAGTTGATGTAGTAATG
1 TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
74194652 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
66 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
74194717 ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
131 ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
74194773 TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
1 TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
74194838 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
66 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
*
74194903 ATCAATCGTATGTCACATAATGTCAGGCCCATTTAAAATGCAAAAATATATCACTG
131 ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
74194959 T
1 T
74194960 ACTTTGTGTA
Statistics
Matches: 184, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 184 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (186 bp):
TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
Found at i:74199379 original size:23 final size:23
Alignment explanation
Indices: 74199349--74199395 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
74199339 TTTTACTTAT
74199349 TAAAATCTTGACTTATTGTCTCA
1 TAAAATCTTGACTTATTGTCTCA
74199372 TAAAATCTTGACTTATTGTCTCA
1 TAAAATCTTGACTTATTGTCTCA
74199395 T
1 T
74199396 TTTCATTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (23 bp):
TAAAATCTTGACTTATTGTCTCA
Found at i:74201413 original size:24 final size:24
Alignment explanation
Indices: 74201386--74201452 Score: 134
Period size: 24 Copynumber: 2.8 Consensus size: 24
74201376 GGTTTAACTG
74201386 AAAATTTAAGACCGTTTGTAGTTA
1 AAAATTTAAGACCGTTTGTAGTTA
74201410 AAAATTTAAGACCGTTTGTAGTTA
1 AAAATTTAAGACCGTTTGTAGTTA
74201434 AAAATTTAAGACCGTTTGT
1 AAAATTTAAGACCGTTTGT
74201453 TAAGTTTGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (24 bp):
AAAATTTAAGACCGTTTGTAGTTA
Found at i:74201691 original size:17 final size:18
Alignment explanation
Indices: 74201653--74201694 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
74201643 TAACAAATGT
74201653 GTTTAA-AATAATAACAA
1 GTTTAATAATAATAACAA
* *
74201670 ATTTAATAATAA-AATAA
1 GTTTAATAATAATAACAA
74201687 GTTTAATA
1 GTTTAATA
74201695 CAATATCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (18 bp):
GTTTAATAATAATAACAA
Found at i:74202797 original size:53 final size:52
Alignment explanation
Indices: 74202712--74202819 Score: 153
Period size: 53 Copynumber: 2.1 Consensus size: 52
74202702 TAAACATGCC
* *
74202712 TAAACATAGCACATACACAATTCGAATATAATGTAGGAAAAAAAATAAAGGCA
1 TAAACATAACACATACACAATTCGAATATAATGTA-GAAAAAAAATAAAGGAA
* * * *
74202765 TAAACATAACACATACACAATTTGGATCTAATGTATAAAAAAAATAAAGGAA
1 TAAACATAACACATACACAATTCGAATATAATGTAGAAAAAAAATAAAGGAA
74202817 TAA
1 TAA
74202820 TGGCATATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 18 0.37
53 31 0.63
ACGTcount: A:0.56, C:0.12, G:0.11, T:0.21
Consensus pattern (52 bp):
TAAACATAACACATACACAATTCGAATATAATGTAGAAAAAAAATAAAGGAA
Found at i:74213046 original size:51 final size:51
Alignment explanation
Indices: 74212977--74213084 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
74212967 AATATTATTC
* *
74212977 CAATATTTGGTAGTACAAAATTAGTCGAAAGCT-TCAGAAAAGTTAATATAT
1 CAATATTTGGTAGTACAAAATTAGTCGAAAGATCT-AGAAAAGCTAATATAT
* * *
74213028 GAATATTTGGTAGTACAAAATTAGTTGAAAGATCTAGAAGAGCTAATATAT
1 CAATATTTGGTAGTACAAAATTAGTCGAAAGATCTAGAAAAGCTAATATAT
74213079 CAATAT
1 CAATAT
74213085 CTAAAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (51 bp):
CAATATTTGGTAGTACAAAATTAGTCGAAAGATCTAGAAAAGCTAATATAT
Found at i:74216821 original size:26 final size:26
Alignment explanation
Indices: 74216792--74216845 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
74216782 AGGCTAGTAA
* *
74216792 AAATACATAATATAGTATGATCTTAG
1 AAATACACAATAAAGTATGATCTTAG
**
74216818 AAATTGACAATAAAGTATGATCTTAG
1 AAATACACAATAAAGTATGATCTTAG
74216844 AA
1 AA
74216846 TTTAAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (26 bp):
AAATACACAATAAAGTATGATCTTAG
Found at i:74222512 original size:42 final size:42
Alignment explanation
Indices: 74222454--74222574 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
74222444 TTAGGAAACT
* * *
74222454 GAGATTATGTGTAAGACCATATCTGGGATATGGCATCGACAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATAGACAC
* * *
74222496 GAGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATAGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATAGACAC
* *
74222539 GAGATTACATATAAGACCATATCTGGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
74222575 TGCCACGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATAGACAC
Found at i:74229934 original size:22 final size:23
Alignment explanation
Indices: 74229896--74229947 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
74229886 TAGCTCATTG
74229896 GAGCTTACCGTTTCAGCTCG-TA
1 GAGCTTACCGTTTCAGCTCGATA
*
74229918 TGAGCTTA-CTTTTCAGCTCGATA
1 -GAGCTTACCGTTTCAGCTCGATA
74229941 GAGCTTA
1 GAGCTTA
74229948 TTGTTCATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:74231855 original size:13 final size:13
Alignment explanation
Indices: 74231837--74231861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74231827 ATTTACAAGA
74231837 TTACATAATCAAT
1 TTACATAATCAAT
74231850 TTACATAATCAA
1 TTACATAATCAA
74231862 ATCAAATAAA
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:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:74237464 original size:20 final size:18
Alignment explanation
Indices: 74237449--74237503 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 18
74237439 ACTTAATCAC
74237449 TTTAATATTAAATTAA-A
1 TTTAATATTAAATTAATA
*
74237466 TTAAATATTAAGA-TAATTA
1 TTTAATATTAA-ATTAA-TA
74237485 TTTTAATATTAAATTAATA
1 -TTTAATATTAAATTAATA
74237504 AGAAACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 13 0.42
18 1 0.03
19 4 0.13
20 13 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAATATTAAATTAATA
Found at i:74237490 original size:37 final size:38
Alignment explanation
Indices: 74237442--74237546 Score: 122
Period size: 37 Copynumber: 2.7 Consensus size: 38
74237432 TGATTTAACT
* *
74237442 TAATCACTTTAATATTAAATTAAATTAAA-TATTAAGA
1 TAATCATTTTAATATTAAATTAAATGAAACTATTAAGA
* *
74237479 TAATTATTTTAATATTAAATTAATAAGAAACTATTAAGA
1 TAATCATTTTAATATTAAATTAA-ATGAAACTATTAAGA
74237518 TAATCATTAAATTAATATTAATATTAAAT
1 TAATCATT---TTAATATTAA-ATTAAAT
74237547 CTATTAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 21 0.38
38 4 0.07
39 15 0.27
42 11 0.20
43 5 0.09
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (38 bp):
TAATCATTTTAATATTAAATTAAATGAAACTATTAAGA
Found at i:74237513 original size:27 final size:26
Alignment explanation
Indices: 74237461--74237513 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
74237451 TAATATTAAA
* *
74237461 TTAAATTAAATATTAAGATAATTATT
1 TTAAATTAAATAATAAGATAACTATT
74237487 TTAATATTAAATTAATAAGA-AACTATT
1 TTAA-ATTAAA-TAATAAGATAACTATT
74237514 AAGATAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.52
28 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (26 bp):
TTAAATTAAATAATAAGATAACTATT
Found at i:74239927 original size:30 final size:30
Alignment explanation
Indices: 74239893--74239954 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
74239883 GTTGGAAGTA
**
74239893 AGCTGAGTCCAAGCTCAAGAGCTGAAGTTG
1 AGCTGAGAACAAGCTCAAGAGCTGAAGTTG
* *
74239923 AGCTGAGAACAAGCTCATGAGTTGAAGTTG
1 AGCTGAGAACAAGCTCAAGAGCTGAAGTTG
74239953 AG
1 AG
74239955 TTGGATGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (30 bp):
AGCTGAGAACAAGCTCAAGAGCTGAAGTTG
Found at i:74240465 original size:250 final size:250
Alignment explanation
Indices: 74240015--74240507 Score: 833
Period size: 250 Copynumber: 2.0 Consensus size: 250
74240005 GTTGGACAAC
*
74240015 CTAGGAAGAGATCACAAGGATGACTCGTTGAGCTAGCCCACGAACTCTCGAGTAAGCTGGTGATA
1 CTAGAAAGAGATCACAAGGATGACTCGTTGAGCTAGCCCACGAACTCTCGAGTAAGCTGGTGATA
* *
74240080 GATTCGGCCCAAGCTCGATCAACTAAAGCTGAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCG
66 GATTCGGCCCAAGCTCGATCAACTAAAGCTAAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCA
* * *
74240145 GGTGATCGATCCTACGGGCAACTTGAGAGGATCTAGCCCGAGCTCGAGAGCTAAAGTTGAGCTGA
131 GGTGATCGATCCTACGGGCAACTCGAGAGGATCTAACCCGAGCTCGAGAGCTAAAGTTGAGCTAA
* * *
74240210 GAACAAGCTCATGAGCTGAAGTTGGGTTGGATGTGAACTTGTTAAGCTGGATGAG
196 GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTTGTTAAGCTGGATGAG
* *
74240265 CTAGAAAGAGATTACAAGGATGACTCGTTGAGCTAGTCCACGAACTCTCGAGTAAGCTGGTGATA
1 CTAGAAAGAGATCACAAGGATGACTCGTTGAGCTAGCCCACGAACTCTCGAGTAAGCTGGTGATA
*
74240330 GATTCGGCCCAAGCTCGATCAACTAAAGCTAAAATTGCGTCTTTGAACCTCTTGGCTCGGGCTCA
66 GATTCGGCCCAAGCTCGATCAACTAAAGCTAAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCA
* * **
74240395 GGTGATTGGTCCTACGGGCAACTCGAGAGGATCTAATTCGAGCTCGAGAGCTAAAGTTGAGCTAA
131 GGTGATCGATCCTACGGGCAACTCGAGAGGATCTAACCCGAGCTCGAGAGCTAAAGTTGAGCTAA
*
74240460 GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTTGTTGAGCT
196 GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTTGTTAAGCT
74240508 AGAACTGAGC
Statistics
Matches: 226, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
250 226 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (250 bp):
CTAGAAAGAGATCACAAGGATGACTCGTTGAGCTAGCCCACGAACTCTCGAGTAAGCTGGTGATA
GATTCGGCCCAAGCTCGATCAACTAAAGCTAAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCA
GGTGATCGATCCTACGGGCAACTCGAGAGGATCTAACCCGAGCTCGAGAGCTAAAGTTGAGCTAA
GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTTGTTAAGCTGGATGAG
Found at i:74244904 original size:46 final size:46
Alignment explanation
Indices: 74244827--74245372 Score: 747
Period size: 46 Copynumber: 11.9 Consensus size: 46
74244817 TTCTGAAATA
*
74244827 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
74244873 AAATTTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
74244919 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
74244965 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
74245011 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATTTG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
74245057 AAATGTGTAAGACCATGGTTGAAAGACT-CCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGA-TACCATGGCAACATGATATG
* * * *
74245103 AAATGTGTAAGACCATGGTTGAAAGATACCATAGAAACATTATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
74245149 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* **
74245195 AAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGA-CGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* ** ** * *
74245240 GAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*** * *
74245286 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACTTGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * * * *
74245331 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
74245373 TCAAAGATAA
Statistics
Matches: 449, Mismatches: 47, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 37 0.08
46 412 0.92
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:74245674 original size:16 final size:17
Alignment explanation
Indices: 74245653--74245685 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74245643 ATGATGGAGC
74245653 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
74245669 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
74245686 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:74248598 original size:125 final size:125
Alignment explanation
Indices: 74248376--74248626 Score: 502
Period size: 125 Copynumber: 2.0 Consensus size: 125
74248366 ATAAAGTCTT
74248376 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
1 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
74248441 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTGGTGCCGTCGTAGTGGGACACCCTTACG
66 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTGGTGCCGTCGTAGTGGGACACCCTTACG
74248501 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
1 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
74248566 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTGGTGCCGTCGTAGTGGGACACCCTTACG
66 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTGGTGCCGTCGTAGTGGGACACCCTTACG
74248626 A
1 A
74248627 CACCCCGAGC
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (125 bp):
AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
TCGTTGTCGCTGTAGACACTGTCATGTCCAGTGGTGCCGTCGTAGTGGGACACCCTTACG
Found at i:74251999 original size:3 final size:3
Alignment explanation
Indices: 74251986--74252210 Score: 82
Period size: 3 Copynumber: 72.0 Consensus size: 3
74251976 ACACGAAAGA
*
74251986 AAT AGT AAT AAT AAT AAT AAT AAT -AT GAAT AAT AAT ATAT ATAT GAA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT A-AT -AAT
** * * *
74252033 AA- AAT AAT AAT GGT AAA AAT ATAT ATGT ATAT AAT AAT AAT AAAT AGT
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT -AAT AAT
** * * ** *
74252081 AAT AAT GTT AAT GAT AAT AAT AAA AAT AGG AAT AA- AGAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * ** * * * * *
74252126 AAC AGT AAT GGT AACGT AAA AAG AAT AAT AAT CAT -GT AAAT ACT AAT
1 AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
74252173 AAT AAC AAT AAT AAT GAAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT
74252211 GTATTTATAA
Statistics
Matches: 163, Mismatches: 45, Indels: 28
0.69 0.19 0.12
Matches are distributed among these distances:
2 8 0.05
3 122 0.75
4 29 0.18
5 4 0.02
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:74252084 original size:43 final size:46
Alignment explanation
Indices: 74251984--74252087 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
74251974 AGACACGAAA
* *
74251984 GAAATAGTAATAATAATAATAATAATATGAATAATAATATATATAT
1 GAAATAGTAATAATGATAAAAATAATATGAATAATAATATATATAT
* * * *
74252030 GAAAAAATAATAATGGTAAAAATATATATGTAT-ATAATA-ATA-AT
1 GAAATAGTAATAATGATAAAAATA-ATATGAATAATAATATATATAT
74252074 -AAATAGTAATAATG
1 GAAATAGTAATAATG
74252088 TTAATGATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
43 12 0.24
44 2 0.04
45 3 0.06
46 25 0.51
47 7 0.14
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (46 bp):
GAAATAGTAATAATGATAAAAATAATATGAATAATAATATATATAT
Found at i:74252550 original size:3 final size:3
Alignment explanation
Indices: 74252544--74252625 Score: 71
Period size: 3 Copynumber: 27.7 Consensus size: 3
74252534 ATGTATTAAA
* * *
74252544 AAT AAT AAT AAT GAA- AAT AAT ACT AAC AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
74252589 AGA- AAT AAT AGT AAT AAT ATT AAT AAT -AT AAA AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
74252626 CAAGAACATT
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 5 0.08
3 54 0.87
4 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:74254385 original size:18 final size:18
Alignment explanation
Indices: 74254362--74254398 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74254352 TGATTTTTTG
*
74254362 AAAAAATACAAATTGAAA
1 AAAAAACACAAATTGAAA
*
74254380 AAAAAACAGAAATTGAAA
1 AAAAAACACAAATTGAAA
74254398 A
1 A
74254399 CTCCTCAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (18 bp):
AAAAAACACAAATTGAAA
Found at i:74254466 original size:75 final size:74
Alignment explanation
Indices: 74254381--74254625 Score: 260
Period size: 77 Copynumber: 3.2 Consensus size: 74
74254371 AAATTGAAAA
* * * *
74254381 AAAAACAGAAATTGAAAACT-CCTCAGCATGTGAGCCGAGGCTCAACTCACTTTTTGCAATATGA
1 AAAAACAGAAATTGAAAA-TACCTCAGC-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
74254445 GTTTATTTTTG
64 GTTTATTTTTG
* * * * *
74254456 ACAAACAGAAATGGAAAATACCTCAGC-GTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
74254520 TGATTTTTTTG
66 T--TATTTTTG
* * * *
74254531 AAAAACTGAAATTGGAAATACCTCGGCGTGTGACCCGAGGCTCAACTCGCCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
74254596 TTGATTTTTTTG
65 TT--TATTTTTG
* *
74254608 AAACACATAAATTGAAAA
1 AAAAACAGAAATTGAAAA
74254626 GCAGAAATTG
Statistics
Matches: 142, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
73 31 0.22
74 1 0.01
75 52 0.37
77 58 0.41
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (74 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TTATTTTTG
Found at i:74254597 original size:77 final size:77
Alignment explanation
Indices: 74254381--74254621 Score: 287
Period size: 75 Copynumber: 3.2 Consensus size: 77
74254371 AAATTGAAAA
* * * * * *
74254381 AAAAACAGAAATTGAAAACT-CCTCAGCATGTGAGCCGAGGCTCAACTCACTTTTTGCAATATGA
1 AAAAACAGAAATTGGAAA-TACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
74254445 GTT--TATTTTTG
65 GTTGATTTTTTTG
* * *
74254456 ACAAACAGAAA-TGGAAAATACCTCAGCGTGT--CCTGAGGCTCAAATCACCTCTCGCAATATGA
1 AAAAACAGAAATTGG-AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
74254518 GTTGATTTTTTTG
65 GTTGATTTTTTTG
* * *
74254531 AAAAACTGAAATTGGAAATACCTCGGCGTGTGACCCGAGGCTCAACTCGCCTCTCGCAATATGAG
1 AAAAACAGAAATTGGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
74254596 TTGATTTTTTTG
66 TTGATTTTTTTG
* *
74254608 AAACACATAAATTG
1 AAAAACAGAAATTG
74254622 AAAAGCAGAA
Statistics
Matches: 140, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
73 28 0.20
74 3 0.02
75 54 0.39
76 3 0.02
77 52 0.37
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (77 bp):
AAAAACAGAAATTGGAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTG
Found at i:74254681 original size:89 final size:87
Alignment explanation
Indices: 74254528--74254800 Score: 284
Period size: 89 Copynumber: 3.1 Consensus size: 87
74254518 GTTGATTTTT
* * * * * *
74254528 TTGAAAAACTGAAATTGGAAATACCTCGGCGTGTGACCCGAGGCTCAACTCGCCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGACATAT-ACCCGAGGCTCAACTCACCTCTCGCAATAT
74254593 GAGTTGATTTTTTTGAAACACATAAA
65 GAGTTGA--TTTTTGAAA-ACATAAA
* * *
74254619 TTGAAAAGCAGAAATTGAAAATCCCTC-AGCATAT-CCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGA-CATATACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
74254682 GAGTT-AATTTTGACAAACAGAAA
65 GAGTTGATTTTTGA-AAACATAAA
* ** * * *
74254705 TTTGAAAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACTTCTCACAAT
1 -TTG-AAAAACAGAAATTGAAAATACCTCGACATAT-ACCCGAGGCTCAACTCACCTCTCGCAAT
74254770 ATGAGTTGATTTTTG-AAACATAAA
63 ATGAGTTGATTTTTGAAAACATAAA
74254794 TTGAAAA
1 TTGAAAA
74254801 TACCTCAACG
Statistics
Matches: 152, Mismatches: 22, Indels: 20
0.78 0.11 0.10
Matches are distributed among these distances:
86 12 0.08
87 9 0.06
88 27 0.18
89 41 0.27
90 31 0.20
91 32 0.21
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCGACATATACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAACATAAA
Found at i:74254774 original size:90 final size:88
Alignment explanation
Indices: 74254528--74254789 Score: 271
Period size: 91 Copynumber: 2.9 Consensus size: 88
74254518 GTTGATTTTT
* * * * *
74254528 TTGAAAAACTGAAATTGGAAATACCTCGGCGTGTGACCCGAGGCTCAACTCGCCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
74254593 GAGTTGATTTTTTTGAAACACATAAA
66 GAGTT-A--ATTTTGAAACACAGAAA
* * * *
74254619 TTGAAAAGCAGAAATTGAAAATCCCTC-AGCATAT--CCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCGA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
74254681 TGAGTTAATTTTGACAA-ACAGAAA
65 TGAGTTAATTTTGA-AACACAGAAA
* ** * *
74254705 TTTGAAAAAATAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACTTCTCACAAT
1 -TTG-AAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
74254770 ATGAGTTGATTTTTGAAACA
64 ATGAGTT-AATTTTGAAACA
74254790 TAAATTGAAA
Statistics
Matches: 141, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
86 12 0.09
87 5 0.04
88 24 0.17
89 33 0.23
90 33 0.23
91 34 0.24
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (88 bp):
TTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTAATTTTGAAACACAGAAA
Found at i:74263168 original size:4 final size:4
Alignment explanation
Indices: 74263159--74263194 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
74263149 TGGGATATGC
* *
74263159 AATG AATG AATG AATG AATG AATG CATA AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG
74263195 CCAATCATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.22, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:74266812 original size:13 final size:13
Alignment explanation
Indices: 74266794--74266819 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74266784 CAATGATATT
74266794 TAAAAAATAAAAA
1 TAAAAAATAAAAA
74266807 TAAAAAATAAAAA
1 TAAAAAATAAAAA
74266820 CAAATCATGT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:74267209 original size:3 final size:3
Alignment explanation
Indices: 74267196--74267415 Score: 79
Period size: 3 Copynumber: 70.0 Consensus size: 3
74267186 ACACGAAAGA
*
74267196 AAT AGT AAT AAT AAT AAT AAT AAT AAT -AT GAAT AAT AAT ATAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT A-AT
* ** * * *
74267243 GCAA- AAT AAT GAT GGT AAA AAT ATAT ATGT ATAT AAT AAT AAAT AGT
1 --AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT -AAT AAT
** * ** *
74267290 AAT AAT GTT AAT GAT AAT AAT AAT AAT AGG AAT AA- AGAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * ** * * * * *
74267335 AAC AGT AAT GGT AAA AAG AAT AAT AAT CAT -GT AAAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
*
74267380 AAC AAT AAT AAT GAAT AAAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT -AAT -AAT AAT AAT AAT AAT
74267416 GTATTTATAA
Statistics
Matches: 161, Mismatches: 43, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
2 6 0.04
3 121 0.75
4 32 0.20
5 1 0.01
6 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:74267687 original size:18 final size:17
Alignment explanation
Indices: 74267664--74267754 Score: 60
Period size: 18 Copynumber: 4.9 Consensus size: 17
74267654 AATGATAATA
74267664 TAAAAAATAATAATATGG
1 TAAAAAATAATAATAT-G
74267682 TAAAAATTAGTAATAATATG
1 TAAAAA--A-TAATAATATG
74267702 TATTAAAAATAATAATA-G
1 TA--AAAAATAATAATATG
* *
74267720 TGAAAATAATACTAAT-GG
1 T-AAAA-AATAATAATATG
74267738 TAATAATAATAATAATA
1 TAA-AA-AATAATAATA
74267755 ATAGAAATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
17 5 0.08
18 29 0.48
19 9 0.15
20 5 0.08
21 9 0.15
22 4 0.07
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (17 bp):
TAAAAAATAATAATATG
Found at i:74267715 original size:3 final size:3
Alignment explanation
Indices: 74267709--74267784 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
74267699 ATGTATTAAA
* * **
74267709 AAT AAT AAT AGT GAA- AAT AAT ACT AAT GGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
74267754 AAT AGA- AAT AAC AGT AAT AAT ATT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
74267785 TAAAAAATAA
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
2 3 0.05
3 50 0.91
4 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:74267785 original size:9 final size:9
Alignment explanation
Indices: 74267689--74267784 Score: 57
Period size: 9 Copynumber: 10.2 Consensus size: 9
74267679 TGGTAAAAAT
74267689 TAGTAATAA
1 TAGTAATAA
*
74267698 TATGTATTAA
1 TA-GTAATAA
* *
74267708 AAATAATAA
1 TAGTAATAA
74267717 TAGTGAAAATAA
1 TAGT---AATAA
* **
74267729 TACTAATGG
1 TAGTAATAA
*
74267738 TAATAATAA
1 TAGTAATAA
*
74267747 TAATAATAA
1 TAGTAATAA
*
74267756 TAGAAATAA
1 TAGTAATAA
*
74267765 CAGTAATAA
1 TAGTAATAA
*
74267774 TATTAATAA
1 TAGTAATAA
74267783 TA
1 TA
74267785 TAAAAAATAA
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
9 50 0.77
10 7 0.11
12 8 0.12
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.32
Consensus pattern (9 bp):
TAGTAATAA
Found at i:74267793 original size:30 final size:30
Alignment explanation
Indices: 74267737--74267796 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
74267727 AATACTAATG
*
74267737 GTAATAATAATAATAATAATAGAAATAACA
1 GTAATAATAATAATAATAATAAAAATAACA
*
74267767 GTAATAATATTAATAAT-ATAAAAAATAACA
1 GTAATAATAATAATAATAAT-AAAAATAACA
74267797 AGAACATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.28
Consensus pattern (30 bp):
GTAATAATAATAATAATAATAAAAATAACA
Found at i:74278383 original size:48 final size:48
Alignment explanation
Indices: 74278274--74278383 Score: 168
Period size: 48 Copynumber: 2.3 Consensus size: 48
74278264 TTATGTAATC
* *
74278274 CAATGTACCTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTT
1 CAATGTATCTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
* *
74278322 TAATGTATTTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
1 CAATGTATCTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
74278370 CAAT-TAATCTAATT
1 CAATGT-ATCTAATT
74278384 AAATAAATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.02
48 54 0.98
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (48 bp):
CAATGTATCTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTG
Found at i:74278862 original size:18 final size:18
Alignment explanation
Indices: 74278831--74278898 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
74278821 CAGTTCGGGT
**
74278831 TCAGGCTCTAGCTCAGGC
1 TCAGGCTCGGGCTCAGGC
*
74278849 TCAGGCTCGGGCTCGGGC
1 TCAGGCTCGGGCTCAGGC
*
74278867 T-TGGACTCGGGCTCTA-GC
1 TCAGG-CTCGGGCTC-AGGC
* *
74278885 TCGGGCTCTGGCTC
1 TCAGGCTCGGGCTC
74278899 TAGCTCGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 2 0.05
18 36 0.90
19 2 0.05
ACGTcount: A:0.09, C:0.32, G:0.35, T:0.24
Consensus pattern (18 bp):
TCAGGCTCGGGCTCAGGC
Found at i:74278887 original size:12 final size:12
Alignment explanation
Indices: 74278841--74278898 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
74278831 TCAGGCTCTA
* *
74278841 GCTCAGGCTCAG
1 GCTCTGGCTCGG
*
74278853 GCTCGGGCTCGG
1 GCTCTGGCTCGG
74278865 GCT-TGGACTCGG
1 GCTCTGG-CTCGG
*
74278877 GCTCTAGCTCGG
1 GCTCTGGCTCGG
74278889 GCTCTGGCTC
1 GCTCTGGCTC
74278899 TAGCTCGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
11 2 0.05
12 35 0.90
13 2 0.05
ACGTcount: A:0.07, C:0.33, G:0.38, T:0.22
Consensus pattern (12 bp):
GCTCTGGCTCGG
Found at i:74281372 original size:12 final size:12
Alignment explanation
Indices: 74281355--74281379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74281345 TAATACCTTA
74281355 TAAAAATTAAAT
1 TAAAAATTAAAT
74281367 TAAAAATTAAAT
1 TAAAAATTAAAT
74281379 T
1 T
74281380 CGAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAATTAAAT
Found at i:74281773 original size:31 final size:31
Alignment explanation
Indices: 74281733--74281792 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
74281723 AGCTATAGGT
74281733 GTGCCGCCTCTCTAGTAAGCATGACCAGTCA
1 GTGCCGCCTCTCTAGTAAGCATGACCAGTCA
* *
74281764 GTGCTGCCTCTCTAGTAGGCATGACCAGT
1 GTGCCGCCTCTCTAGTAAGCATGACCAGT
74281793 GCTGCTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (31 bp):
GTGCCGCCTCTCTAGTAAGCATGACCAGTCA
Found at i:74282593 original size:3 final size:3
Alignment explanation
Indices: 74282585--74282631 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
74282575 CCGCCTCCCT
*
74282585 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
74282632 TGCAAGTGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:74298019 original size:146 final size:147
Alignment explanation
Indices: 74297669--74298038 Score: 455
Period size: 154 Copynumber: 2.5 Consensus size: 147
74297659 AATAAAAAAA
* * * *
74297669 TTTAATTATTTTAAAGGAAATTTTAAAATTTTAAAATAAAGTTTTGATTTTTTTTTCAACAATTT
1 TTTAATCATTTT-AAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGA--TTTTTTTCAACTATTT
* ** * *
74297734 CAAAGTAAAAGTTTTAATATTTAAGAAAAATAGTATTTTTTTAAAAAAAAGTAAAAAGTTTAAAT
63 CAAAATAAAAACTTTAATATTTAAGAAAAATAG----TTGTTAAAAAAAAGAAAAAAGTTTAAAT
74297799 TTTGAAAAAAAAAAATTCTGTTTT
124 TTTGAAAAAAAAAAATTCTGTTTT
* * * *
74297823 TTTAGTTATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAATTACTTCA
1 TTTAATCATTTT-AAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCA
*
74297888 AAATAAAAACTTTAATCTTTAAGAAAAATAG-TGTTAAAAAAAAGAAGAGAAAGTTTAAATTTTG
65 AAATAAAAACTTTAATATTTAAGAAAAATAGTTGTTAAAAAAAAGAA-A-AAAGTTTAAATTTTG
*
74297952 AAAAATAAAAA-TCTGTTTT
128 AAAAAAAAAAATTCTGTTTT
74297971 TTTAAATCATTTT-A-GAAAGTTT-AAATTCTTAAAACAAAGTTTTGATTTTTTT-AACTATTTC
1 TTT-AATCATTTTAAGGAAAGTTTAAAATT-TTAAAACAAAGTTTTGATTTTTTTCAACTATTTC
74298032 AAAATAA
64 AAAATAA
74298039 TGTTTTGATT
Statistics
Matches: 195, Mismatches: 17, Indels: 17
0.85 0.07 0.07
Matches are distributed among these distances:
145 19 0.10
146 32 0.16
147 14 0.07
148 12 0.06
149 32 0.16
152 42 0.22
154 44 0.23
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (147 bp):
TTTAATCATTTTAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAA
AATAAAAACTTTAATATTTAAGAAAAATAGTTGTTAAAAAAAAGAAAAAAGTTTAAATTTTGAAA
AAAAAAAATTCTGTTTT
Found at i:74298594 original size:25 final size:24
Alignment explanation
Indices: 74298566--74298612 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
74298556 TCACTTGCAT
74298566 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
74298591 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
74298613 TTAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:74300397 original size:3 final size:3
Alignment explanation
Indices: 74300389--74300414 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
74300379 AAAATATCGG
74300389 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
74300415 GTATAAGCCC
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:74301434 original size:3 final size:3
Alignment explanation
Indices: 74301426--74301474 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
74301416 ATACAAGATG
*
74301426 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
74301474 A
1 A
74301475 AATCCAAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:74302025 original size:3 final size:3
Alignment explanation
Indices: 74301945--74302007 Score: 53
Period size: 3 Copynumber: 22.3 Consensus size: 3
74301935 ATTAACAATG
* * * *
74301945 ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA A-A AAA AGA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
74301990 AT- ATA ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
74302008 AGTAATTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
2 8 0.17
3 40 0.83
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:74302025 original size:22 final size:19
Alignment explanation
Indices: 74301962--74302008 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
74301952 TAATAGTAAT
*
74301962 AATATTAAAATA-AAAAAA
1 AATAATAAAATATAAAAAA
*
74301980 GAATAATAAAATATAATAAA
1 -AATAATAAAATATAAAAAA
74302000 AATAATAAA
1 AATAATAAA
74302009 GTAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (19 bp):
AATAATAAAATATAAAAAA
Found at i:74302764 original size:73 final size:71
Alignment explanation
Indices: 74302621--74303498 Score: 734
Period size: 73 Copynumber: 12.2 Consensus size: 71
74302611 ACAAATTGAA
* * * * * * *
74302621 AAACAGAAATTGAAATACCTCGACGTGAGACCCGAGGCCCAACTCACCTCTTGCAATCTAAGTTG
1 AAACAGAAATTAAAATACCTCGACGT--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
74302686 ATTTTTGG
64 TTTTTTTG
* * * *
74302694 AAAGTAGAAATTGAAAATACCTCGACGGGTCCTGAGGCTCAACTCACCTCTCGTAATATGAATT-
1 AAA-CAGAAATT-AAAATACCTCGACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
74302758 TTTTTTTT
64 TTTTTTTG
74302766 AAACAGAAATTAAAATTACCTC-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATTAAAA-TACCTCGA-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
74302830 ATTTTTTTTAA
64 --TTTTTTT-G
* * *
74302841 AAACAGAAATTGAAAATACCACAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAACAGAAATT-AAAATACCTC-G-ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
74302905 TGATTTTTTT-
62 TG-TTTTTTTG
* * * * * *
74302915 -TA-TG--ATT----TACCTCAACGTGTCCTGAGGCTCAACTCACTTCTTGCAATATGAGTTG-A
1 AAACAGAAATTAAAATACCTCGACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTT
74302971 TTTTTG
66 TTTTTG
* *
74302977 ACAAACAGAAATTAAAATTACCTC-AGCATGTCCTGGGGCTCAACTCACCTCTCGCAATATGAGT
1 --AAACAGAAATTAAAA-TACCTCGA-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
74303041 T-TTTTTTTT
62 TGTTTTTTTG
*
74303050 AAATAGAAATTAAAATTACCTC-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATTAAAA-TACCTCGA-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
74303114 ATTTTTTTG
64 -TTTTTTTG
* * *
74303123 AAAAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTTACCTCTCGCAATATGA
1 --AAACAGAAATT-AAAATACCTC-G-ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
74303187 GTTGATTTTTTTG
60 GTTG-TTTTTTTG
* *
74303200 --A-TG--ATT----TACCTC-AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTAAAATACCTCGA-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGT
74303255 TTTTTTG
65 TTTTTTG
* * * * *
74303262 AAAGAAAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAATATGAGTT
1 -AA-ACAGAAATT-AAAATACCTCGACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
74303327 G-ATTTTTG
63 GTTTTTTTG
* * *
74303335 ACAAATAGAAATTAAAATTACCTC-AGCGTGTCCTGAAGCTCAACTTACCTCTCGCAATATGAGT
1 --AAACAGAAATTAAAA-TACCTCGA-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
74303399 TGATTTTTTTG
62 TG-TTTTTTTG
* * * * *
74303410 AAAGACAGAATTTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAGCTCTCACAATATGAGTT
1 -AA-ACAGAAATT-AAAATACCTCGACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
74303475 GATTTTTTA
63 GTTTTTTTG
* *
74303484 AAACCGAAATAAAAA
1 AAACAGAAATTAAAA
74303499 CATTAGAATA
Statistics
Matches: 666, Mismatches: 79, Indels: 122
0.77 0.09 0.14
Matches are distributed among these distances:
61 5 0.01
62 12 0.02
63 68 0.10
65 12 0.02
66 2 0.00
67 1 0.00
68 3 0.00
69 3 0.00
70 11 0.02
71 113 0.17
72 22 0.03
73 143 0.21
74 67 0.10
75 100 0.15
76 20 0.03
77 78 0.12
78 6 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (71 bp):
AAACAGAAATTAAAATACCTCGACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTT
TTTTTG
Found at i:74302888 original size:77 final size:76
Alignment explanation
Indices: 74302619--74302916 Score: 323
Period size: 71 Copynumber: 4.0 Consensus size: 76
74302609 ACACAAATTG
* * * * *
74302619 AAAAACAGAAATTG-AAATACCTCGACGTGAGACCCGAGGCCCAACTCACCTCTTGCAATCTAAG
1 AAAAACAGAAATTGAAAATACCTCGACGTGA-ACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
74302683 TTGA--TTTTTG
65 TTGATTTTTTTT
* ** ** * *
74302693 GAAAGTAGAAATTGAAAATACCTCGACG-GGTCCTGAGGCTCAACTCACCTCTCGTAATATGAAT
1 AAAAACAGAAATTGAAAATACCTCGACGTGAACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
74302757 T--TTTTTTTT
66 TGATTTTTTTT
*
74302766 --AAACAGAAATT-AAAATTACCTC-AGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAA-TACCTCGA-CGTGAACCTGAGGCTCAACTCACCTCTCGCAATATGA
74302826 GTTGATTTTTTTT
64 GTTGATTTTTTTT
* *
74302839 AAAAACAGAAATTGAAAATACCACAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTC-G-ACGTGAACCTGAGGCTCAACTCACCTCTCGCAATATGA
74302903 GTTGATTTTTTTT
64 GTTGATTTTTTTT
74302916 A
1 A
74302917 TGATTTACCT
Statistics
Matches: 189, Mismatches: 20, Indels: 27
0.80 0.08 0.11
Matches are distributed among these distances:
70 5 0.03
71 50 0.26
72 1 0.01
73 40 0.21
74 12 0.06
75 29 0.15
76 4 0.02
77 45 0.24
78 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (76 bp):
AAAAACAGAAATTGAAAATACCTCGACGTGAACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTT
Found at i:74302913 original size:148 final size:146
Alignment explanation
Indices: 74302654--74303486 Score: 941
Period size: 148 Copynumber: 5.8 Consensus size: 146
74302644 CGTGAGACCC
* * * * * **
74302654 GAGGCCCAACTCACCTCTTGCAATCTAAGTTGA--TTTTTGGAAAGTAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
* * * * * **
74302717 -G-ACGGGTCCTGAGGCTCAACTCACCTCTCGTAATATGAATTTTTTTTTTAAACAGAAATTAAA
66 AGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAA-AGAAATTAAA
74302780 ATTACCTCAGCGTGTCCT
129 ATTACCTCAGCGTGTCCT
* *
74302798 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACCAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
** *
74302863 AGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATG--A-T----
66 AGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAAATTAAAA
*
74302921 TTACCTCAACGTGTCCT
130 TTACCTCAGCGTGTCCT
* * *
74302938 GAGGCTCAACTCACTTCTTGCAATATGAGTTGA--TTTTTGACAAACAGAAATT-AAAATTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-TACCT
* **
74303000 CAGCATGT--CCTGGGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTTAAATAGAAATTAA
65 CAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAA-AGAAATTAA
74303063 AATTACCTCAGCGTGTCCT
128 AATTACCTCAGCGTGTCCT
74303082 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
* * * *
74303147 AGCATGTGAACCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTT---TG--A-T-GAT
66 AGCATGTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAAATTAAAA
74303205 TTACCTCAGCGTGTCCT
130 TTACCTCAGCGTGTCCT
74303222 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGAA-AGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-AACAGAAATTGAAAATACCT
* * * * * *
74303285 CA--ACGTGTCTTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGACAAATAGAAATT
65 CAGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TAAA-AGAAATT
74303348 AAAATTACCTCAGCGTGTCCT
126 AAAATTACCTCAGCGTGTCCT
* * * *
74303369 GAAGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAATTTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
* * * * *
74303434 A--ACGTGTCTTGAGGCTCAACTCAGCTCTCACAATATGAGTTGATTTTTTAAAA
66 AGCATGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAA
74303487 CCGAAATAAA
Statistics
Matches: 593, Mismatches: 61, Indels: 69
0.82 0.08 0.10
Matches are distributed among these distances:
135 2 0.00
136 38 0.06
137 44 0.07
138 29 0.05
139 30 0.05
140 101 0.17
141 1 0.00
142 1 0.00
143 1 0.00
144 78 0.13
145 3 0.01
146 60 0.10
147 56 0.09
148 145 0.24
149 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (146 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
AGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAAATTAAAAT
TACCTCAGCGTGTCCT
Found at i:74303177 original size:77 final size:76
Alignment explanation
Indices: 74302921--74303200 Score: 366
Period size: 71 Copynumber: 3.8 Consensus size: 76
74302911 TTTTTATGAT
* * * * *
74302921 TTACCTCAACGTGT-CCTGAGGCTCAACTCACTTCTTGCAATATGAGTTGA--TTTTTGACAAAC
1 TTACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
74302983 AGAAATTAAAA
66 AGAAATTAAAA
* * *
74302994 TTACCTCAGCATGT-CCTGGGGCTCAACTCACCTCTCGCAATATGAGTT--TTTTTTT--TAAAT
1 TTACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
74303054 AGAAATTAAAA
66 AGAAATTAAAA
*
74303065 TTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
1 TTACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
74303129 AGAAATTGAAAA
66 AGAAATT-AAAA
*
74303141 -TACCTCAGCATGTGAACC-GAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTACCTCAGCATGTG--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
74303201 TGATTTACCT
Statistics
Matches: 184, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
71 60 0.33
73 55 0.30
75 22 0.12
76 4 0.02
77 41 0.22
78 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (76 bp):
TTACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAC
AGAAATTAAAA
Found at i:74303177 original size:284 final size:283
Alignment explanation
Indices: 74302654--74303482 Score: 1227
Period size: 284 Copynumber: 2.9 Consensus size: 283
74302644 CGTGAGACCC
* * * **
74302654 GAGGCCCAACTCACCTCTTGCAATCTAAGTTGATTTTTGGAAAGTAGAAATTGAAAATACCTC-G
1 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT-GAAAAAAGAAATTGAAAATACCTCAG
* * * *
74302718 ACGGGTCCTGAGGCTCAACTCACCTCTCGTAATATGAATTTTTTTTTTAAACAGAAATTAAAATT
65 -CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTTAAATAGAAATTAAAATT
*
74302783 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGA
129 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
*
74302848 AATTGAAAATACCACAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
194 AATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
74302913 TTTATGATTTACCTCAACGTGTCCT
259 TTGATGATTTACCTCAACGTGTCCT
* *
74302938 GAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGACAAACAGAAATT-AAAATTACCTCA
1 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGA-AAAAAGAAATTGAAAA-TACCTCA
* *
74303002 GCATGTCCTGGGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTTAAATAGAAATTAAAATT
64 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTTAAATAGAAATTAAAATT
74303067 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
129 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
*
74303132 AATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTT
194 AATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
74303197 TTGATGATTTACCTCAGCGTGTCCT
259 TTGATGATTTACCTCAACGTGTCCT
*
74303222 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGAAAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGAAA-AAAGAAATTGAAAATACCTCA
* * * * ***
74303287 ACGTGTCTTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGACAAATAGAAATTAAAA
64 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT--TTTTTTTTAAATAGAAATTAAAA
* * *
74303352 TTACCTCAGCGTGTCCTGAAGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACA
127 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
* * * * * *
74303417 GAATTTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCAGCTCTCACAATATGAGTTGATT
192 GAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
74303479 TTTT
256 TTTT
74303483 AAAACCGAAA
Statistics
Matches: 497, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
283 6 0.01
284 291 0.59
285 97 0.20
286 4 0.01
287 99 0.20
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (283 bp):
GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAAAGAAATTGAAAATACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTTAAATAGAAATTAAAATTAC
CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
TTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GATGATTTACCTCAACGTGTCCT
Found at i:74303235 original size:211 final size:209
Alignment explanation
Indices: 74302781--74303410 Score: 637
Period size: 213 Copynumber: 3.0 Consensus size: 209
74302771 GAAATTAAAA
* *
74302781 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAA-AAC
1 TTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-TTTTTTGAAAGAA-
* * *
74302845 AGAAATTGAAAATACCACAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
63 AGAAATTGAAAATACCTCA--ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*** * * * * * * *
74302909 TTTT--TTTA-TG--A-T----TTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTTGCAATAT
125 TTTTGAAAAACAGAAATTAAAATTACCTCAGCGTGACCTGAAGCTCAACTTACCTCTCGCAATAT
** * *
74302964 GAGTTGATTTTTGACAAACAGAAATTAAAA
190 GAGTTGATTTTT------TTG--A-T-GAT
* ** *
74302994 TTACCTCAGCATGTCCTGGGGCTCAACTCACCTCTCGCAATATGAGTT-TTTTTTTTAA-ATAGA
1 TTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTATTTTTTGAAAGAAAGA
*
74303057 AATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
66 AATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
*
74303121 TGAAAAACAGAAATTGAAAA-TACCTCAGCATGTGAACC-GAGGCTCAACTTACCTCTCGCAATA
128 TGAAAAACAGAAATT-AAAATTACCTCAGC--GTG-ACCTGAAGCTCAACTTACCTCTCGCAATA
74303184 TGAGTTGATTTTTTTGATGAT
189 TGAGTTGATTTTTTTGATGAT
*
74303205 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGAAAG
1 TTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTTTGAAAGAAAG
* * *
74303270 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTG
65 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
74303335 ACAAATAGAAATTAAAATTACCTCAGCGTGTCCTGAAGCTCAACTTACCTCTCGCAATATGAGTT
130 AAAAACAGAAATTAAAATTACCTCAGCGTGACCTGAAGCTCAACTTACCTCTCGCAATATGAGTT
74303400 GATTTTTTTGA
195 GATTTTTTTGA
74303411 AAGACAGAAT
Statistics
Matches: 359, Mismatches: 34, Indels: 51
0.81 0.08 0.11
Matches are distributed among these distances:
206 2 0.01
207 36 0.10
208 4 0.01
209 20 0.06
210 54 0.15
211 52 0.14
212 28 0.08
213 55 0.15
214 54 0.15
215 6 0.02
219 8 0.02
221 38 0.11
222 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (209 bp):
TTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTATTTTTTGAAAGAAAGA
AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AAAACAGAAATTAAAATTACCTCAGCGTGACCTGAAGCTCAACTTACCTCTCGCAATATGAGTTG
ATTTTTTTGATGAT
Found at i:74315908 original size:22 final size:22
Alignment explanation
Indices: 74315882--74315939 Score: 55
Period size: 26 Copynumber: 2.5 Consensus size: 22
74315872 CTAGTAATAT
*
74315882 AAAAATATAAACAAATGCATAA
1 AAAAATATAAACAAATACATAA
*
74315904 GAAAAATGAAATAAGCAAATACAT-A
1 -AAAAAT---ATAAACAAATACATAA
74315929 AAAAATATAAA
1 AAAAATATAAA
74315940 ACATGACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
21 4 0.14
23 6 0.21
24 6 0.21
25 1 0.03
26 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAATATAAACAAATACATAA
Found at i:74316180 original size:3 final size:3
Alignment explanation
Indices: 74316172--74316337 Score: 52
Period size: 3 Copynumber: 54.7 Consensus size: 3
74316162 AAATAAGATT
* * * ** *
74316172 ATA ATA ATA ATA TTA ATA AAA ATGA A-A ATA AAA AGG ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * **
74316217 ATA GTA ATA ATA ATA GTA ATA GTA A-A AGGA ATA ATA ATA GCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* *** * * *
74316262 ATA AGA GCG TTA ATA ATA GTA ATA AT- ATAA ATA ATA ATA TATA TGTGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A
* * *
74316310 A-A AAA ATT ATT ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
74316338 GACACAACAA
Statistics
Matches: 117, Mismatches: 37, Indels: 18
0.68 0.22 0.10
Matches are distributed among these distances:
2 8 0.07
3 97 0.83
4 11 0.09
5 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:74316229 original size:12 final size:12
Alignment explanation
Indices: 74316212--74316300 Score: 85
Period size: 12 Copynumber: 7.7 Consensus size: 12
74316202 AAAAGGATAG
74316212 TAATAATAGTAA
1 TAATAATAGTAA
74316224 TAATAATAGTAA
1 TAATAATAGTAA
* * *
74316236 TAGTAAAAGGAA
1 TAATAATAGTAA
*
74316248 TAATAATAGCAA
1 TAATAATAGTAA
* ***
74316260 TAATAAGAGCGT
1 TAATAATAGTAA
74316272 TAATAATAGTAA
1 TAATAATAGTAA
74316284 TAAT-ATA--AA
1 TAATAATAGTAA
74316293 TAATAATA
1 TAATAATA
74316301 TATATGTGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
9 6 0.10
10 3 0.05
11 3 0.05
12 51 0.81
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.29
Consensus pattern (12 bp):
TAATAATAGTAA
Found at i:74316299 original size:24 final size:23
Alignment explanation
Indices: 74316174--74316336 Score: 82
Period size: 24 Copynumber: 7.0 Consensus size: 23
74316164 ATAAGATTAT
* * *
74316174 AATAATAATATTAATAAAAATGAA
1 AATAATAATAATAGTAATAAT-AA
* **
74316198 AATAAAAAGGATAGTAATAAT--
1 AATAATAATAATAGTAATAATAA
* *
74316219 AGTAATAATAATAGTAATAGTAA
1 AATAATAATAATAGTAATAATAA
* *
74316242 AAGGAATAATAATAGCAATAATAA
1 AA-TAATAATAATAGTAATAATAA
****
74316266 GAGCGTTAATAATAGTAATAATATA
1 -AATAATAATAATAGTAATAATA-A
*
74316291 AATAATAATATATATGTGA-AA-AA
1 AATAATAATA-ATA-GTAATAATAA
* * *
74316314 AATTATTATAATAATAATAATAA
1 AATAATAATAATAGTAATAATAA
74316337 TGACACAACA
Statistics
Matches: 101, Mismatches: 29, Indels: 19
0.68 0.19 0.13
Matches are distributed among these distances:
21 18 0.18
22 5 0.05
23 12 0.12
24 56 0.55
25 7 0.07
26 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.29
Consensus pattern (23 bp):
AATAATAATAATAGTAATAATAA
Found at i:74316387 original size:12 final size:12
Alignment explanation
Indices: 74316370--74316396 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
74316360 AATAATATAT
74316370 TAACAAGAGTAA
1 TAACAAGAGTAA
74316382 TAACAAGAGTAA
1 TAACAAGAGTAA
74316394 TAA
1 TAA
74316397 TCATATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (12 bp):
TAACAAGAGTAA
Found at i:74316454 original size:7 final size:7
Alignment explanation
Indices: 74316437--74316492 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
74316427 GTTAAAAAGG
74316437 ATAAT-A
1 ATAATAA
74316443 ATAATAA
1 ATAATAA
74316450 ATAATAA
1 ATAATAA
74316457 ATAAT-A
1 ATAATAA
*
74316463 ATACTAA
1 ATAATAA
*
74316470 ATTAATTA
1 A-TAATAA
74316478 ATAATAA
1 ATAATAA
74316485 AGTAATAA
1 A-TAATAA
74316493 GTAAATAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
6 10 0.24
7 21 0.50
8 11 0.26
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (7 bp):
ATAATAA
Found at i:74316602 original size:3 final size:3
Alignment explanation
Indices: 74316596--74316641 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
74316586 AAAATGGTGG
* * *
74316596 TAA TAA TAA TAA GAA TAA TAA CAA TAA TAA TAG TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
74316642 TGAATAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:74317593 original size:14 final size:13
Alignment explanation
Indices: 74317574--74317607 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
74317564 CCAATACAAA
74317574 CCCAAAACTCTTAG
1 CCCAAAAC-CTTAG
74317588 CCCAAAA-CTTAG
1 CCCAAAACCTTAG
74317600 CCCAAAAC
1 CCCAAAAC
74317608 ACTAACCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.63
14 7 0.37
ACGTcount: A:0.41, C:0.38, G:0.06, T:0.15
Consensus pattern (13 bp):
CCCAAAACCTTAG
Found at i:74318433 original size:24 final size:25
Alignment explanation
Indices: 74318387--74318444 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
74318377 TATATTGTTG
74318387 TTATTATTATATTATTAAATATT-C
1 TTATTATTATATTATTAAATATTCC
**
74318411 TTATTATTACTATTATT-TTTATTCC
1 TTATTATTA-TATTATTAAATATTCC
74318436 TT-TTATTAT
1 TTATTATTAT
74318445 TGTTTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 19 0.63
25 10 0.33
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTATTATATTATTAAATATTCC
Found at i:74318783 original size:22 final size:22
Alignment explanation
Indices: 74318743--74318784 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
74318733 TAACGTGCTA
* * *
74318743 TTATTACTATTTTTTTTATTTT
1 TTATTACCATTATTGTTATTTT
74318765 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
74318785 GTAATTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:74322800 original size:9 final size:9
Alignment explanation
Indices: 74322786--74322814 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
74322776 CGTTTTTTTA
74322786 CATTCATTG
1 CATTCATTG
74322795 CATTCATTG
1 CATTCATTG
74322804 CATTCA-TG
1 CATTCATTG
74322812 CAT
1 CAT
74322815 CGGCATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (9 bp):
CATTCATTG
Found at i:74330558 original size:49 final size:49
Alignment explanation
Indices: 74330446--74330708 Score: 441
Period size: 47 Copynumber: 5.5 Consensus size: 49
74330436 TATCACAGTT
* *
74330446 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTAT--CATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATAC
*
74330493 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
74330542 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
74330591 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
74330638 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
74330685 ATACACTTTCACATTCATCACATT
1 ATACACTTTCACATTCATCACATT
74330709 AAAATCCTAA
Statistics
Matches: 209, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
47 110 0.53
48 2 0.01
49 97 0.46
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:74330561 original size:27 final size:27
Alignment explanation
Indices: 74330531--74330613 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
74330521 ATTCGGCCTT
74330531 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
74330558 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
74330580 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
74330607 ATCACAT
1 ATCACAT
74330614 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:74330638 original size:96 final size:97
Alignment explanation
Indices: 74330446--74330708 Score: 439
Period size: 96 Copynumber: 2.8 Consensus size: 97
74330436 TATCACAGTT
* * *
74330446 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
74330508 CATCACATTGGCCATTCGGCCTTATCACATATAC
65 CATCACATTGGCCATTCGGCCTTATCACA-ATAC
74330542 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
74330607 ATCACATTGGCCATTCGGCCTTATCAC-ATAC
66 ATCACATTGGCCATTCGGCCTTATCACAATAC
74330638 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
74330701 ATCACATT
66 ATCACATT
74330709 AAAATCCTAA
Statistics
Matches: 161, Mismatches: 3, Indels: 8
0.94 0.02 0.05
Matches are distributed among these distances:
94 28 0.17
96 83 0.52
97 2 0.01
98 48 0.30
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (97 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACAATAC
Found at i:74334948 original size:43 final size:44
Alignment explanation
Indices: 74334894--74334988 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 44
74334884 GCCTCAGTGA
* * *
74334894 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-ACAGAGG
1 AGCAGACTGAAGTCACAAGCCTTATCTCCCTAAAGTCACAGAGG
* * * * *
74334937 AGCAGACTGAAGTTACAAGTCTTATCTCCTTAAAGTCGCAGTGG
1 AGCAGACTGAAGTCACAAGCCTTATCTCCCTAAAGTCACAGAGG
74334981 AGCAGACT
1 AGCAGACT
74334989 AAATGTACAG
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 30 0.70
44 13 0.30
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTTATCTCCCTAAAGTCACAGAGG
Found at i:74335367 original size:43 final size:43
Alignment explanation
Indices: 74335314--74335421 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
74335304 GATATTATTG
**
74335314 CCCTAAGCAATAGGGTAACAAACCAA-ATTTTCAAACCTTAAAC
1 CCCTAAGCAATAGGGTAACAAACCAATA-TGACAAACCTTAAAC
* * * * *
74335357 CCCTAAGCAATAGGGAAACATATCAATGATGACAAGCCTTAACC
1 CCCTAAGCAATAGGGTAACAAACCAAT-ATGACAAACCTTAAAC
*
74335401 CCCTAAGCAGTAGGGTAACAA
1 CCCTAAGCAATAGGGTAACAA
74335422 GTTGAAAATC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 23 0.43
44 29 0.55
45 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.19
Consensus pattern (43 bp):
CCCTAAGCAATAGGGTAACAAACCAATATGACAAACCTTAAAC
Done.