Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 84 of 213
Found at i:22999341 original size:18 final size:19
Alignment explanation
Indices: 22999301--22999341 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
22999291 AAAAAAAAGG
22999301 TTTTGAAATTGAATAATGA
1 TTTTGAAATTGAATAATGA
22999320 -TTTGTAAA-TGAATAAT-A
1 TTTTG-AAATTGAATAATGA
22999337 TTTTG
1 TTTTG
22999342 GAAACGAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.05
18 16 0.80
19 3 0.15
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (19 bp):
TTTTGAAATTGAATAATGA
Found at i:22999905 original size:49 final size:49
Alignment explanation
Indices: 22999852--22999948 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
22999842 TAAAATATTG
*
22999852 GTTAATAAACACTGAAACTGTAAACTGATGCATAAAACTTTTAATACCT
1 GTTAATAAACACTGAAACTGTAAACTGATGCATAAAACTGTTAATACCT
*
22999901 GTTAATAAACACTGAAACTGTAAACTGATGCATAGAACTGTTAATACC
1 GTTAATAAACACTGAAACTGTAAACTGATGCATAAAACTGTTAATACC
22999949 GATAAAACGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (49 bp):
GTTAATAAACACTGAAACTGTAAACTGATGCATAAAACTGTTAATACCT
Found at i:23005628 original size:18 final size:18
Alignment explanation
Indices: 23005575--23005628 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
23005565 CACAATAAAA
*
23005575 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAAATGAAT
* * *
23005593 AACGATTTGTAAATGAAT
1 AATGTTTTGAAAATGAAT
*
23005611 AATGTTTTGAAAACGAAT
1 AATGTTTTGAAAATGAAT
23005629 GACACAATTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (18 bp):
AATGTTTTGAAAATGAAT
Found at i:23012165 original size:17 final size:17
Alignment explanation
Indices: 23012135--23012173 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23012125 CAGATAATGT
* *
23012135 AAATTTAAATATTAAAA
1 AAATTAAAAAATTAAAA
23012152 AAATTAAAAAATTAAAA
1 AAATTAAAAAATTAAAA
*
23012169 TAATT
1 AAATT
23012174 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTAAAAAATTAAAA
Found at i:23013421 original size:9 final size:9
Alignment explanation
Indices: 23013407--23013473 Score: 107
Period size: 9 Copynumber: 7.4 Consensus size: 9
23013397 TTTGGTTAAA
*
23013407 AATTAACAG
1 AATTAACCG
23013416 AATTAACCG
1 AATTAACCG
23013425 AATTAACCG
1 AATTAACCG
* *
23013434 GATTACCCG
1 AATTAACCG
23013443 AATTAACCG
1 AATTAACCG
23013452 AATTAACCG
1 AATTAACCG
23013461 AATTAACCG
1 AATTAACCG
23013470 AATT
1 AATT
23013474 GAATCGCTAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:23013616 original size:18 final size:18
Alignment explanation
Indices: 23013576--23013619 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23013566 AATTTTTATG
**
23013576 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
23013594 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
23013612 CTTGGGTT
1 ATTGGGTT
23013620 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:23021332 original size:13 final size:14
Alignment explanation
Indices: 23021314--23021344 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
23021304 TTGGACTTTT
23021314 TTTTATTTA-TTGG
1 TTTTATTTATTTGG
23021327 TTTTATTTATTTGG
1 TTTTATTTATTTGG
23021341 TTTT
1 TTTT
23021345 GGGCCCGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (14 bp):
TTTTATTTATTTGG
Found at i:23021431 original size:21 final size:21
Alignment explanation
Indices: 23021391--23021431 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23021381 TCTTCAACTT
* *
23021391 TTTCACTTTAGTAGAATTCTC
1 TTTCACTTCAGCAGAATTCTC
*
23021412 TTTCACTTCAGCAGATTTCT
1 TTTCACTTCAGCAGAATTCT
23021432 TCCTCAACAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCACTTCAGCAGAATTCTC
Found at i:23024091 original size:16 final size:17
Alignment explanation
Indices: 23024055--23024091 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
23024045 GCTATATTTA
*
23024055 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
23024072 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
23024088 ATTT
1 ATTT
23024092 AAAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:23026554 original size:50 final size:50
Alignment explanation
Indices: 23026479--23026721 Score: 263
Period size: 50 Copynumber: 4.7 Consensus size: 50
23026469 TTTCTTGTAT
* * * **
23026479 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * *
23026529 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATAGG
** * * *
23026579 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
** *
23026629 TGCCAATGTTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
*
23026685 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
23026722 TCTCATCCTC
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 124 0.77
51 1 0.01
53 1 0.01
56 35 0.22
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:23028585 original size:37 final size:37
Alignment explanation
Indices: 23028535--23028613 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23028525 TTATTACGAA
* * *
23028535 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23028572 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23028609 GTCTT
1 GTCTT
23028614 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23028808 original size:47 final size:47
Alignment explanation
Indices: 23028730--23029160 Score: 664
Period size: 47 Copynumber: 9.1 Consensus size: 47
23028720 CCCTTCGGGA
* * * * * *
23028730 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23028777 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23028824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23028871 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23028920 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23028969 CTTATCACGTATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23029016 CTTATCACGTATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23029063 CTTATCACGTATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23029110 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23029157 CTTA
1 CTTA
23029161 CTATCATTTC
Statistics
Matches: 363, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 270 0.74
49 93 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23032297 original size:14 final size:14
Alignment explanation
Indices: 23032278--23032318 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
23032268 TAAATTATTT
23032278 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
23032292 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
*
23032305 A-TAATTTTATTAA
1 ATTATTTTTATTAA
23032318 A
1 A
23032319 ATTTAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:23032535 original size:16 final size:16
Alignment explanation
Indices: 23032490--23032560 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
23032480 TGAATTACTG
*
23032490 ATTATAGCTCTATTCC
1 ATTAGAGCTCTATTCC
* *
23032506 ATTAGAGTTTTATTCC
1 ATTAGAGCTCTATTCC
*
23032522 ATTAGAGCTCTATTCT
1 ATTAGAGCTCTATTCC
* *
23032538 GTTAGAACTCTATTCC
1 ATTAGAGCTCTATTCC
*
23032554 GTTAGAG
1 ATTAGAG
23032561 TGAACCAAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (16 bp):
ATTAGAGCTCTATTCC
Found at i:23042799 original size:16 final size:17
Alignment explanation
Indices: 23042768--23042800 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23042758 ATGGTAGTTG
*
23042768 AATTGCTTTGCTTTCAT
1 AATTGCTTTACTTTCAT
23042785 AATTG-TTTACTTTCAT
1 AATTGCTTTACTTTCAT
23042801 GTGGAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (17 bp):
AATTGCTTTACTTTCAT
Found at i:23046012 original size:51 final size:49
Alignment explanation
Indices: 23045954--23046245 Score: 275
Period size: 51 Copynumber: 5.8 Consensus size: 49
23045944 TTATCATTCA
23045954 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGA-CAA-TTTTTACG
* * * *
23046005 GTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTT-CA
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGA-C--AATTTTTACG
* ** * * *
23046056 ATACACATAGTAGCCTTCATTTAGTACTACACATGTGACCATCATTTATCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACAAT-TTTTA-CG
* *
23046107 ATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTT--G
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGA-C-AA--TTTTTACG
* * * * * *
23046158 GTACACATTGTAGCCTTCACTTAGTACTAGACATGTGACAATTATTTATCG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACAATT-TTTA-CG
*
23046209 ATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTG
23046246 TTCATCGACA
Statistics
Matches: 190, Mismatches: 38, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
47 2 0.01
48 3 0.02
49 5 0.03
50 2 0.01
51 167 0.88
52 5 0.03
53 3 0.02
54 2 0.01
55 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (49 bp):
ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACAATTTTTACG
Found at i:23046059 original size:102 final size:102
Alignment explanation
Indices: 23045950--23046245 Score: 409
Period size: 102 Copynumber: 2.9 Consensus size: 102
23045940 ACTTTTATCA
* * * *
23045950 TTCAATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTA-CGGTTCACGTA
1 TTCAATACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CAA-TTTTTATCGATTCACGTA
23046014 GTAGCCTTCACATAGTACTACACACGTGACCAAAACTT-
64 GTAGCCTTCACATAGTACTACACACGTGACCAAAACTTC
* * *
23046052 TTCAATACACATAGTAGCCTTCATTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCAATACACATAGTAGCCTTCACTTAGTACTACACATGTGACAAT-TTTTATCGATTCACGTAG
*
23046117 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTTC
65 TAGCCTTCACATAGTACTACACACGTGACCAAAACTTC
** * * *
23046155 TT-GGTACACATTGTAGCCTTCACTTAGTACTAGACATGTGACAATTATTTATCGATACACGTAG
1 TTCAATACACATAGTAGCCTTCACTTAGTACTACACATGTGACAATT-TTTATCGATTCACGTAG
*
23046219 TAGCCTTCACACAGTACTACACACGTG
65 TAGCCTTCACATAGTACTACACACGTG
23046246 TTCATCGACA
Statistics
Matches: 173, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 6 0.03
102 164 0.95
103 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (102 bp):
TTCAATACACATAGTAGCCTTCACTTAGTACTACACATGTGACAATTTTTATCGATTCACGTAGT
AGCCTTCACATAGTACTACACACGTGACCAAAACTTC
Found at i:23046213 original size:153 final size:152
Alignment explanation
Indices: 23045957--23046241 Score: 378
Period size: 153 Copynumber: 1.9 Consensus size: 152
23045947 TCATTCAATA
* * * *
23045957 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTTCACGTAGTAGCCTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTCTTA-GGTACACATAGTAGCCTT
***
23046022 CACATAGTACTACACACGTGACCAAAACTTTTCAATACACATAGTAGCCTTCATTTAGTACTACA
65 CACATAGTACTACACACGTGACCAAAACTTTTCAATACACATAGTAGCCTTCACACAGTACTACA
23046087 CATGTGACCATCATTTATCGATT
130 CATGTGACCATCATTTATCGATT
*
23046110 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCTT-GGTACACATTGTAGCCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTCTTAGGTACACATAGTAGCCT
* * * * * *
23046174 TCACTTAGTACTAGACATGTGA-CAATTA-TTTATCGATACACGTAGTAGCCTTCACACAGTACT
64 TCACATAGTACTACACACGTGACCAA-AACTTT-TCAATACACATAGTAGCCTTCACACAGTACT
23046237 ACACA
127 ACACA
23046242 CGTGTTCATC
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
152 6 0.05
153 101 0.89
154 3 0.03
155 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (152 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTCTTAGGTACACATAGTAGCCTTC
ACATAGTACTACACACGTGACCAAAACTTTTCAATACACATAGTAGCCTTCACACAGTACTACAC
ATGTGACCATCATTTATCGATT
Found at i:23050655 original size:11 final size:11
Alignment explanation
Indices: 23050639--23050663 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23050629 ATTCAATAAA
23050639 ATAAACGAATC
1 ATAAACGAATC
23050650 ATAAACGAATC
1 ATAAACGAATC
23050661 ATA
1 ATA
23050664 TAAATACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (11 bp):
ATAAACGAATC
Found at i:23053464 original size:6 final size:6
Alignment explanation
Indices: 23053445--23053477 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
23053435 TCTAAATGAA
23053445 TTCATT TCTCATT TTCATT TTCATT TTCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TT
23053478 GAGAAAACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCATT
Found at i:23053924 original size:19 final size:19
Alignment explanation
Indices: 23053900--23053939 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
23053890 GATCCTATTT
23053900 TATCTTACTGTAACCATTA
1 TATCTTACTGTAACCATTA
*
23053919 TATCTTATTGTAACCATTA
1 TATCTTACTGTAACCATTA
23053938 TA
1 TA
23053940 ACTTCATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (19 bp):
TATCTTACTGTAACCATTA
Found at i:23058197 original size:13 final size:13
Alignment explanation
Indices: 23058179--23058203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23058169 TGTGTGAATC
23058179 AATTTCATATATT
1 AATTTCATATATT
23058192 AATTTCATATAT
1 AATTTCATATAT
23058204 GTTCTCTATT
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTCATATATT
Found at i:23059967 original size:17 final size:17
Alignment explanation
Indices: 23059945--23059984 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
23059935 GATCTCTGAT
*
23059945 GAGCTTCCAAATCGATC
1 GAGCTTCCAAATCAATC
*
23059962 GAGCTTCCAAATCAATT
1 GAGCTTCCAAATCAATC
23059979 GAGCTT
1 GAGCTT
23059985 TCGATAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (17 bp):
GAGCTTCCAAATCAATC
Found at i:23064640 original size:39 final size:40
Alignment explanation
Indices: 23064572--23064727 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
23064562 GCTTTCAGAA
* * *
23064572 GTACCGAAGTACAATCAGGGGCATATATGTGCATTTAGGG
1 GTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGGG
*
23064612 GTACTGAAGTAC-AACAGGGGCATGTATGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGGG
* *
23064651 GTACCAAAGTACAAACAGGGGC-TCTTATGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCAT-GTATGTGCATTCAGGG
* *
23064691 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTCA
1 GTACCGAAGTACAAACAGGGGCATGTATGTGCATTCA
23064728 TACAGTAATT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 35 0.34
40 67 0.66
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (40 bp):
GTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGGG
Found at i:23064651 original size:20 final size:20
Alignment explanation
Indices: 23064586--23064651 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
23064576 CGAAGTACAA
*
23064586 TCAGGGGCATATATGTGCAT
1 TCAGGGGCATGTATGTGCAT
* * * *
23064606 TTAGGGGTACTG-AAGTACA-
1 TCAGGGGCA-TGTATGTGCAT
*
23064625 ACAGGGGCATGTATGTGCAT
1 TCAGGGGCATGTATGTGCAT
23064645 TCAGGGG
1 TCAGGGG
23064652 TACCAAAGTA
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 18 0.56
21 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.35, T:0.26
Consensus pattern (20 bp):
TCAGGGGCATGTATGTGCAT
Found at i:23064661 original size:79 final size:80
Alignment explanation
Indices: 23064572--23064727 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 80
23064562 GCTTTCAGAA
* * * * *
23064572 GTACCGAAGTACAATCAGGGGCAT-ATATGTGCATTTAGGGGTACTGAAGTAC-AACAGGGGCAT
1 GTACCAAAGTACAAACAGGGGC-TCATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
23064635 GTATGTGCATTCAGGG
65 GTATGTGCATTCAGGG
* *
23064651 GTACCAAAGTACAAACAGGGGCTCTTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACG
1 GTACCAAAGTACAAACAGGGGCTCATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACG
23064716 TATGTGCATTCA
66 TATGTGCATTCA
23064728 TACAGTAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 45 0.66
80 22 0.32
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (80 bp):
GTACCAAAGTACAAACAGGGGCTCATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACG
TATGTGCATTCAGGG
Found at i:23081424 original size:24 final size:25
Alignment explanation
Indices: 23081396--23081459 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
23081386 ATTTAATTTA
23081396 ATATTTATCTAATAGA-TAAATATT
1 ATATTTATCTAATAGATTAAATATT
* * * *
23081420 TTATTAATGTAATAGATTTAATATT
1 ATATTTATCTAATAGATTAAATATT
*
23081445 AAATTTAATCTAATA
1 ATATTT-ATCTAATA
23081460 TTTATTTTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
24 13 0.43
25 10 0.33
26 7 0.23
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (25 bp):
ATATTTATCTAATAGATTAAATATT
Found at i:23088938 original size:58 final size:55
Alignment explanation
Indices: 23088819--23088938 Score: 125
Period size: 57 Copynumber: 2.1 Consensus size: 55
23088809 AATTCCTTGT
* ** *
23088819 TCATTTCTAAATGAATTCATTTCTCATTTTCATTTCCATTTTGAGAAAACCACAT
1 TCATTTCCAAATGAATTCATTTCTCATTTTCATTTCCATACTGAGAAAACCACAA
* * * *
23088874 TTATTTCCAAATG-ATTCCATTTTCTCCATTTTCATTTTCATACTGTAGAAAATCATAA
1 TCATTTCCAAATGAATT-CA-TTTCT-CATTTTCATTTCCATACTG-AGAAAACCACAA
23088932 TCATTTC
1 TCATTTC
23088939 TGAATGTTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
54 3 0.06
55 13 0.25
56 5 0.10
57 16 0.31
58 15 0.29
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (55 bp):
TCATTTCCAAATGAATTCATTTCTCATTTTCATTTCCATACTGAGAAAACCACAA
Found at i:23090841 original size:23 final size:23
Alignment explanation
Indices: 23090809--23090852 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23090799 ACTTGTAAGA
*
23090809 CACTTGGTAAG-CCTATAAATAGG
1 CACTTAGTAAGTCC-ATAAATAGG
23090832 CACTTAGTAAGTCCATAAATA
1 CACTTAGTAAGTCCATAAATA
23090853 TCAAATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (23 bp):
CACTTAGTAAGTCCATAAATAGG
Found at i:23090919 original size:23 final size:23
Alignment explanation
Indices: 23090884--23090930 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
23090874 GATACTTGTA
* *
23090884 AGACATTTGGTAAGTCTATAGAT
1 AGACACTTAGTAAGTCTATAGAT
*
23090907 AGACACTTAGTAATTCTATAGAT
1 AGACACTTAGTAAGTCTATAGAT
23090930 A
1 A
23090931 TACAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (23 bp):
AGACACTTAGTAAGTCTATAGAT
Found at i:23091446 original size:17 final size:17
Alignment explanation
Indices: 23091426--23091477 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
23091416 CAAGAAAATT
23091426 CATCAAGTAAAATCAAG
1 CATCAAGTAAAATCAAG
*
23091443 CATCAAG-AAAAT--TG
1 CATCAAGTAAAATCAAG
23091457 -ATCAAGTAAAATCAAG
1 CATCAAGTAAAATCAAG
23091473 CATCA
1 CATCA
23091478 CCGTTATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
16 6 0.21
17 11 0.38
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (17 bp):
CATCAAGTAAAATCAAG
Found at i:23091450 original size:30 final size:30
Alignment explanation
Indices: 23091416--23091477 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
23091406 AACACTCAAA
23091416 CAAGAAAATTCATCAAGTAAAATCAAGCAT
1 CAAGAAAATTCATCAAGTAAAATCAAGCAT
*
23091446 CAAGAAAATTGATCAAGTAAAATCAAGCAT
1 CAAGAAAATTCATCAAGTAAAATCAAGCAT
23091476 CA
1 CA
23091478 CCGTTATGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.19
Consensus pattern (30 bp):
CAAGAAAATTCATCAAGTAAAATCAAGCAT
Found at i:23092809 original size:152 final size:154
Alignment explanation
Indices: 23092630--23092934 Score: 515
Period size: 152 Copynumber: 2.0 Consensus size: 154
23092620 TGAAGATGTT
23092630 TTTATATAGACTAGCTAATTATATCAAAATAAAACTCCTAAATACAATAAAACTCTAATTAATCT
1 TTTATATAGACTAGCTAATTATATCAAAATAAAACTCCTAAATACAATAAAACTCTAATTAATCT
* *
23092695 AAATAATAAGTAGTTTTAGTGAAACTAAACTCGCTTTTTGCTTAAGAAACAT-AAACTTCT-AAC
66 AAATAAGAAGTAGTTTTAGTGAAACTAAACTCGCTTGTTGCTTAAGAAACATAAAACTTCTAAAC
* *
23092758 AATTCAAAATATTGAAAAATATCC
131 AATTCAAAATACTAAAAAATATCC
* * *
23092782 TTTATATAGACTAGCTAATTATATCAAAGTAAAACTCCTAAGTATAATAAAACTCTAATTAATCT
1 TTTATATAGACTAGCTAATTATATCAAAATAAAACTCCTAAATACAATAAAACTCTAATTAATCT
* *
23092847 AAATAAGAAGTAGTTTTAGTGAAACTAAATTCTCTTGTTGCTTAAGAAACATAAAACTTCTAAAC
66 AAATAAGAAGTAGTTTTAGTGAAACTAAACTCGCTTGTTGCTTAAGAAACATAAAACTTCTAAAC
23092912 AATTCAAAATACTAAAAAATATC
131 AATTCAAAATACTAAAAAATATC
23092935 TTAAAGTTTA
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
152 110 0.77
153 8 0.06
154 24 0.17
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (154 bp):
TTTATATAGACTAGCTAATTATATCAAAATAAAACTCCTAAATACAATAAAACTCTAATTAATCT
AAATAAGAAGTAGTTTTAGTGAAACTAAACTCGCTTGTTGCTTAAGAAACATAAAACTTCTAAAC
AATTCAAAATACTAAAAAATATCC
Found at i:23094440 original size:15 final size:15
Alignment explanation
Indices: 23094410--23094442 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
23094400 ATTGATAGTT
23094410 ATTTTATGAAATATA
1 ATTTTATGAAATATA
23094425 ATTTTCATGAAA-ATA
1 ATTTT-ATGAAATATA
23094440 ATT
1 ATT
23094443 ATGTAACGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
ATTTTATGAAATATA
Found at i:23097294 original size:30 final size:30
Alignment explanation
Indices: 23097227--23097298 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
23097217 GAGCTCGACT
* ** * *
23097227 CAAAGGATCAACATATGGTGAAGCCTGACC
1 CAAAGGACCAACATATGGCAAAGCCCGAAC
**
23097257 CGGAGGACCAACATATGGCAAAGCCCGAAC
1 CAAAGGACCAACATATGGCAAAGCCCGAAC
23097287 CAAAGGACCAAC
1 CAAAGGACCAAC
23097299 CTCTGAACAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.28, G:0.24, T:0.10
Consensus pattern (30 bp):
CAAAGGACCAACATATGGCAAAGCCCGAAC
Found at i:23100064 original size:214 final size:214
Alignment explanation
Indices: 23099695--23100123 Score: 840
Period size: 214 Copynumber: 2.0 Consensus size: 214
23099685 CAAACAACTC
23099695 TTTCAACTACAAATTTGATGTCAATCTATGAGCAGGTACTATATCGGTATACTCATGGAACTCAG
1 TTTCAACTACAAATTTGATGTCAATCTATGAGCAGGTACTATATCGGTATACTCATGGAACTCAG
23099760 ATACATGCGCTAAATCTGGATCTACGTTCAACATGTCGCCTCTAGGATCATTTCGTAAAACAATG
66 ATACATGCGCTAAATCTGGATCTACGTTCAACATGTCGCCTCTAGGATCATTTCGTAAAACAATG
23099825 CCATGACTCGAGTTACTGAATGAAAGGCTGTGAGCATCTTCAACCTCCTCCATGCCTTCATCATC
131 CCATGACTCGAGTTACTGAATGAAAGGCTGTGAGCATCTTCAACCTCCTCCATGCCTTCATCATC
23099890 GATATCGTTCGGAACCTCA
196 GATATCGTTCGGAACCTCA
*
23099909 TTTCAACTACAAATTTGATGTCAATCTATGAGCAGGTACTATATCGGTATACTCATGGAACTCGG
1 TTTCAACTACAAATTTGATGTCAATCTATGAGCAGGTACTATATCGGTATACTCATGGAACTCAG
*
23099974 ATACATGCGCTACATCTGGATCTACGTTCAACATGTCGCCTCTAGGATCATTTCGTAAAACAATG
66 ATACATGCGCTAAATCTGGATCTACGTTCAACATGTCGCCTCTAGGATCATTTCGTAAAACAATG
23100039 CCATGACTCGAGTTACTGAATGAAAGGCTGTGAGCATCTTCAACCTCCTCCATGCCTTCATCATC
131 CCATGACTCGAGTTACTGAATGAAAGGCTGTGAGCATCTTCAACCTCCTCCATGCCTTCATCATC
23100104 GATATCGTTCGGAACCTCA
196 GATATCGTTCGGAACCTCA
23100123 T
1 T
23100124 CAATATCAGG
Statistics
Matches: 213, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 213 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (214 bp):
TTTCAACTACAAATTTGATGTCAATCTATGAGCAGGTACTATATCGGTATACTCATGGAACTCAG
ATACATGCGCTAAATCTGGATCTACGTTCAACATGTCGCCTCTAGGATCATTTCGTAAAACAATG
CCATGACTCGAGTTACTGAATGAAAGGCTGTGAGCATCTTCAACCTCCTCCATGCCTTCATCATC
GATATCGTTCGGAACCTCA
Found at i:23100953 original size:23 final size:23
Alignment explanation
Indices: 23100911--23100954 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23100901 AAATTTTTAG
* *
23100911 ATTAAAAAATAAATAATTAAAAA
1 ATTAAAAAAAAAAGAATTAAAAA
*
23100934 ATTAAAAAAAAAAGATTTAAA
1 ATTAAAAAAAAAAGAATTAAA
23100955 TGAACTGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
ATTAAAAAAAAAAGAATTAAAAA
Found at i:23107987 original size:23 final size:23
Alignment explanation
Indices: 23107961--23108006 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23107951 ATTATCTGTG
23107961 CTTGTTGGGTGTATTCAATCATA
1 CTTGTTGGGTGTATTCAATCATA
23107984 CTTGTTGGGTGTATTCAATCATA
1 CTTGTTGGGTGTATTCAATCATA
23108007 AGCATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (23 bp):
CTTGTTGGGTGTATTCAATCATA
Found at i:23113414 original size:29 final size:29
Alignment explanation
Indices: 23113382--23113452 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
23113372 TCAAGTTATA
23113382 TTTTAGTCACTTATGTTTGAAATGTTACG
1 TTTTAGTCACTTATGTTTGAAATGTTACG
*
23113411 TTTTAATCACTTATGTTTGAAATGTTACG
1 TTTTAGTCACTTATGTTTGAAATGTTACG
23113440 TTTTAGTCACTTA
1 TTTTAGTCACTTA
23113453 CGTTATCGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTTAGTCACTTATGTTTGAAATGTTACG
Found at i:23131501 original size:14 final size:15
Alignment explanation
Indices: 23131476--23131508 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23131466 AAGTTTTTTG
*
23131476 AATTATTATTTAATT
1 AATTATTATTTAAAT
23131491 AATTA-TATTTAAAT
1 AATTATTATTTAAAT
23131505 AATT
1 AATT
23131509 GAAGTCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTATTATTTAAAT
Found at i:23131653 original size:17 final size:17
Alignment explanation
Indices: 23131633--23131665 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23131623 TAGAATTTGG
23131633 TTGAGAAAA-TAATTTAA
1 TTGA-AAAATTAATTTAA
23131650 TTGAAAAATTAATTTA
1 TTGAAAAATTAATTTA
23131666 GTTACTTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TTGAAAAATTAATTTAA
Found at i:23131826 original size:30 final size:29
Alignment explanation
Indices: 23131792--23131849 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
23131782 TTGAATTTTG
* *
23131792 AAATATCAAGAGTAGAGGAACTAAATTCTT
1 AAATAT-AAAAGTACAGGAACTAAATTCTT
**
23131822 AAATATAAAAGTACATTAACTAAATTCT
1 AAATATAAAAGTACAGGAACTAAATTCT
23131850 AAAGACTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (29 bp):
AAATATAAAAGTACAGGAACTAAATTCTT
Found at i:23132858 original size:32 final size:33
Alignment explanation
Indices: 23132786--23132858 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
23132776 TAGAAAAGTT
*
23132786 AATATTTTCTAGTGTTTGGATAGATCTCTGTAA
1 AATATTTTCTAGTGTTTGGAAAGATCTCTGTAA
*
23132819 AATATTTTCTAGTGTTTGGCAAATAT-TCTG-AA
1 AATATTTTCTAGTGTTTGG-AAAGATCTCTGTAA
23132851 AATATTTT
1 AATATTTT
23132859 ATAAAAACTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 10 0.27
33 23 0.62
34 4 0.11
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (33 bp):
AATATTTTCTAGTGTTTGGAAAGATCTCTGTAA
Found at i:23139230 original size:10 final size:9
Alignment explanation
Indices: 23139185--23139263 Score: 63
Period size: 10 Copynumber: 8.2 Consensus size: 9
23139175 AATTAAATTA
23139185 AATGAGCTG
1 AATGAGCTG
23139194 AA-GAGCT-
1 AATGAGCTG
*
23139201 AATAACGAGCTC
1 AAT---GAGCTG
23139213 AATGAGCTG
1 AATGAGCTG
23139222 AATTGAGCTCG
1 AA-TGAGCT-G
23139233 AATGAGCTG
1 AATGAGCTG
*
23139242 ACTTGAGCTCG
1 A-ATGAGCT-G
23139253 AATGAGCTG
1 AATGAGCTG
23139262 AA
1 AA
23139264 CCACATGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
7 2 0.03
8 5 0.09
9 14 0.24
10 24 0.41
11 10 0.17
12 3 0.05
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (9 bp):
AATGAGCTG
Found at i:23139236 original size:20 final size:20
Alignment explanation
Indices: 23139207--23139263 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
23139197 AGCTAATAAC
23139207 GAGCTC-AATGAGCTGAATT
1 GAGCTCGAATGAGCTGAATT
*
23139226 GAGCTCGAATGAGCTGACTT
1 GAGCTCGAATGAGCTGAATT
23139246 GAGCTCGAATGAGCTGAA
1 GAGCTCGAATGAGCTGAA
23139264 CCACATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 6 0.17
20 29 0.83
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (20 bp):
GAGCTCGAATGAGCTGAATT
Found at i:23143341 original size:68 final size:70
Alignment explanation
Indices: 23143208--23143356 Score: 185
Period size: 68 Copynumber: 2.1 Consensus size: 70
23143198 CAAGATTTAA
* * * * * *
23143208 AACCGAATGCATATACTCTATAAACATGAATCGCCGAATGCATATATACATATATGCATGACAAA
1 AACCAAATGTATATACACTATAAACATGAATAGCCAAATGCATATATACA-ATATGCATAACAAA
23143273 TATTAG
65 TATTAG
* * *
23143279 AACCAAATGTATATACACTTTAAACAT-ATTAGCCAAATGCATATATAC-ATATGCTTAACAAAT
1 AACCAAATGTATATACACTATAAACATGAATAGCCAAATGCATATATACAATATGCATAACAAAT
*
23143342 ATTAT
66 ATTAG
23143347 AACCAAATGT
1 AACCAAATGT
23143357 GTACATGTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 27 0.40
70 18 0.26
71 23 0.34
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.29
Consensus pattern (70 bp):
AACCAAATGTATATACACTATAAACATGAATAGCCAAATGCATATATACAATATGCATAACAAAT
ATTAG
Found at i:23143841 original size:41 final size:41
Alignment explanation
Indices: 23143796--23143912 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
23143786 TGATTCAATA
*
23143796 CACCGGCAATTAA-CCTGCTAGACGTAAAGTCTGAAACATTT
1 CACCGGC-ATCAAGCCTGCTAGACGTAAAGTCTGAAACATTT
*
23143837 CACCGGCATCAAGCCTGCTAGATGTAAAGTCTGAAACATTT
1 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAAACATTT
*
23143878 CACCGGCATCAAGCCTGCTAGACGTAAAATCTGAA
1 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAA
23143913 TTATCTCATT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 4 0.06
41 67 0.94
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAAACATTT
Found at i:23144604 original size:17 final size:18
Alignment explanation
Indices: 23144557--23144593 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23144547 TTATACATGT
23144557 ATATACGTGTATAAATTC
1 ATATACGTGTATAAATTC
23144575 ATATACGTGTATAAATTC
1 ATATACGTGTATAAATTC
23144593 A
1 A
23144594 AACCTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ATATACGTGTATAAATTC
Found at i:23149043 original size:79 final size:81
Alignment explanation
Indices: 23148861--23149167 Score: 313
Period size: 79 Copynumber: 3.7 Consensus size: 81
23148851 CATTAAATCA
* * * * * * * *
23148861 AAATAAAATTTTGTTAAACGACGAGAATAAATCCCGAAATAGA-ATTATTTGA-TTACGTCTTTG
1 AAATAAAATCTTATTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTA-AT-TCTG
* *
23148924 -TTAGGAAACAAAACAATATC
64 ATTTGGAAAC--AA-AATAAC
* * *
23148944 GAATAAAATCTTATTAAACGGC-AGGAATAAATCCCAAAATAGATTTTATTTAATTTAATTC-GA
1 AAATAAAATCTTATTAAACGGCGA-GAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTG-
23149007 ATTTGGAAACAAAAT-A-
64 ATTTGGAAACAAAATAAC
* *
23149023 AAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTGAT
1 AAATAAAATCTTATTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTGAT
23149088 TTGGAAACAAAATAAAATC
66 TTGGAAACAAAAT--AA-C
* *
23149107 AAATAAAATCTTATTAAACGACGAGAATAAATCCTGAAACAGATTTTATTTAATTTTAATT
1 AAATAAAATCTTATTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAA-TTTAATT
23149168 TTTTGTTTTT
Statistics
Matches: 191, Mismatches: 20, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
79 69 0.36
80 2 0.01
81 3 0.02
82 5 0.03
83 37 0.19
84 65 0.34
85 10 0.05
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (81 bp):
AAATAAAATCTTATTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTGAT
TTGGAAACAAAATAAC
Found at i:23149132 original size:84 final size:85
Alignment explanation
Indices: 23148855--23149246 Score: 333
Period size: 84 Copynumber: 4.7 Consensus size: 85
23148845 TTATATCATT
* * * *
23148855 AAATCAAAATAAAATTTTGTTAAACGACGAGAATAAATCCCGAAATAGAA--TTATTTGA-TTAC
1 AAATC-AAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACA-AATTTTATTTAATTTAA
* *** * *
23148917 GTCTTTGTTAGGAAACAAAACA
64 TTCTGAATTTGGAAACAAAATA
* * * * * * *
23148939 ATATCGAATAAAATCTTATTAAACGGC-AGGAATAAATCCCAAAATAGATTTTATTTAATTTAAT
1 AAATCAAATAAAATCTTGTTAAACGACGA-GAATAAATCCCGAAACAAATTTTATTTAATTTAAT
23149003 TC-GAATTTGGAAACAAAAT-
65 TCTGAATTTGGAAACAAAATA
*
23149022 --A--AAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAAATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACAAATTTTATTTAATTTAATT
23149083 CTG-ATTTGGAAACAAAATA
66 CTGAATTTGGAAACAAAATA
* * *
23149102 AAATCAAATAAAATCTTATTAAACGACGAGAATAAATCCTGAAACAGATTTTATTTAATTTTAAT
1 AAATCAAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACAAATTTTATTTAA-TTTAA-
* **
23149167 TTTTTGTTTTTGGAAACAAAATCA
64 -TTCTGAATTTGGAAACAAAAT-A
* ** * * * * *
23149191 AAGTGTAAT-AAATC-CGTTGAACAACGGGAATAAATCCCGAAACATATTTTAATTTA
1 AAATCAAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACAAATTTT-ATTTA
23149247 GCTTTAATAC
Statistics
Matches: 255, Mismatches: 36, Indels: 30
0.79 0.11 0.09
Matches are distributed among these distances:
79 69 0.27
80 2 0.01
81 1 0.00
82 3 0.01
83 34 0.13
84 72 0.28
85 10 0.04
87 33 0.13
88 24 0.09
89 7 0.03
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (85 bp):
AAATCAAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACAAATTTTATTTAATTTAATT
CTGAATTTGGAAACAAAATA
Found at i:23149139 original size:163 final size:164
Alignment explanation
Indices: 23148855--23149167 Score: 413
Period size: 163 Copynumber: 1.9 Consensus size: 164
23148845 TTATATCATT
* * * *
23148855 AAATCAAAATAAAATTTTGTTAAACGACGAGAATAAATCCCGAAATAGAATTATTTGATTACGTC
1 AAATCAAAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACAGAATTATTTAATTACATC
* * * * *
23148920 TTTGTTAGGAAACAAAACAATATCGAATAAAATCTTATTAAACGGCAGGAATAAATCCCAAAATA
66 TCTGTTAGGAAACAAAACAAAATCAAATAAAATCTTATTAAACGACAGGAATAAATCCCAAAACA
23148985 GATTTTATTTAA-TTTAATTCGAATTTGGAAACA
131 GATTTTATTTAATTTTAATTCGAATTTGGAAACA
*
23149018 AAAT-AAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACA-AATTTTATTTAATTTA-
1 AAATCAAAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACAGAA--TTATTTAA-TTAC
* * **
23149080 AT-TCTGATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGAC-GAGAATAAATCCTG
63 ATCTCTG-TTAGGAAACAAAACAAAATCAAATAAAATCTTATTAAACGACAG-GAATAAATCCCA
23149143 AAACAGATTTTATTTAATTTTAATT
126 AAACAGATTTTATTTAATTTTAATT
23149168 TTTTGTTTTT
Statistics
Matches: 130, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
161 2 0.02
162 43 0.33
163 75 0.58
164 10 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (164 bp):
AAATCAAAATAAAATCTTGTTAAACGACGAGAATAAATCCCGAAACAGAATTATTTAATTACATC
TCTGTTAGGAAACAAAACAAAATCAAATAAAATCTTATTAAACGACAGGAATAAATCCCAAAACA
GATTTTATTTAATTTTAATTCGAATTTGGAAACA
Found at i:23149240 original size:87 final size:84
Alignment explanation
Indices: 23148927--23149246 Score: 271
Period size: 79 Copynumber: 3.8 Consensus size: 84
23148917 GTCTTTGTTA
* * * * ** * * *
23148927 GGAAACAAAACAATATCGAATAAAATCTTATTAAACGGC-AGGAATAAATCCCAAAATAGATTTT
1 GGAAACAAAATAAAATCAAATAAAATCTCATTAAACAACGA-GAATAAATCCCGAAACAAATTTT
23148991 ATTTAATTTAATTC-GAATTT
65 ATTTAATTTAATTCTG-ATTT
** **
23149011 GGAAACAAAAT---A--AAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAAATTTTA
1 GGAAACAAAATAAAATCAAATAAAATCTCATTAAACAACGAGAATAAATCCCGAAACAAATTTTA
23149071 TTTAATTTAATTCTGATTT
66 TTTAATTTAATTCTGATTT
* * * *
23149090 GGAAACAAAATAAAATCAAATAAAATCTTATTAAACGACGAGAATAAATCCTGAAACAGATTTTA
1 GGAAACAAAATAAAATCAAATAAAATCTCATTAAACAACGAGAATAAATCCCGAAACAAATTTTA
* *
23149155 TTTAATTTTAATTTTTTGTTTTT
66 TTTAA-TTTAA--TTCTG-ATTT
* ** * * * *
23149178 GGAAACAAAATCAAAGTGTAAT-AAATC-CGTTGAACAACGGGAATAAATCCCGAAACATATTTT
1 GGAAACAAAAT-AAAATCAAATAAAATCTCATTAAACAACGAGAATAAATCCCGAAACAAATTTT
23149241 AATTTA
65 -ATTTA
23149247 GCTTTAATAC
Statistics
Matches: 201, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
79 69 0.34
80 2 0.01
81 1 0.00
82 1 0.00
84 59 0.29
85 5 0.02
87 33 0.16
88 24 0.12
89 7 0.03
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (84 bp):
GGAAACAAAATAAAATCAAATAAAATCTCATTAAACAACGAGAATAAATCCCGAAACAAATTTTA
TTTAATTTAATTCTGATTT
Found at i:23149328 original size:88 final size:82
Alignment explanation
Indices: 23149023--23149491 Score: 262
Period size: 79 Copynumber: 5.6 Consensus size: 82
23149013 AAACAAAATA
* * * * * * * * *
23149023 AAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTGAT
1 AAATAAAATC--GTTGAACGACGGGAATCAATCCCGAAACGAATTTTATTT-ATTTTACTCAGCT
* * *
23149088 TTGGAAACAAAAT-AAAATC
63 TTGGAAATAAAATCAAATTG
* * * * * * *
23149107 AAATAAAATCTTATTAAACGACGAGAATAAATCCTGAAAC-AGATTTTATTTAATTTTAATTTTT
1 AAATAAAATC--GTTGAACGACGGGAATCAATCCCGAAACGA-ATTTTATTT-ATTTT-A--CTC
* * * *
23149171 TGTTTTTGGAAACAAAATCAAAGTG
59 AG-CTTTGGAAATAAAATCAAATTG
* * *
23149196 TAAT-AAATCCGTTGAACAACGGGAATAAATCCCGAAAC-ATATTTTAATTTAGCTTTAATACTC
1 AAATAAAAT-CGTTGAACGACGGGAATCAATCCCGAAACGA-ATTTT-ATTTA--TTT--TACTC
23149259 AGCTTTGGAAATAAAATCGAAATTG
59 AGCTTTGGAAATAAAATC-AAATTG
* * * * **
23149284 GAATAAAATCGTTGAGCGACGGGTATCAATCCCGAAACGGA---T-TTTATTTTACTCATTTTTG
1 AAATAAAATCGTTGAACGACGGGAATCAATCCCGAAACGAATTTTATTTATTTTACTCAGCTTTG
*
23149345 GAAATAAAATAAAATTTG
66 GAAATAAAATCAAA-TTG
* **
23149363 AAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGAA---T-TTTATTTTACTCATTTTTG
1 AAATAAAATCGTTGAACGACGGGAATCAATCCCGAAACGAATTTTATTTATTTTACTCAGCTTTG
*
23149424 GAAATAAAA-CAAAATTT
66 GAAATAAAATC-AAATTG
* * * * * *
23149441 AGAATAAAATCATTGAATGGCGGGAATCAATCTCGAAATGAATCTTATTTA
1 A-AATAAAATCGTTGAACGACGGGAATCAATCCCGAAACGAATTTTATTTA
23149492 CCTTTAATTT
Statistics
Matches: 322, Mismatches: 41, Indels: 45
0.79 0.10 0.11
Matches are distributed among these distances:
78 6 0.02
79 127 0.39
81 3 0.01
82 1 0.00
83 9 0.03
84 51 0.16
85 2 0.01
87 48 0.15
88 58 0.18
89 15 0.05
90 1 0.00
91 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (82 bp):
AAATAAAATCGTTGAACGACGGGAATCAATCCCGAAACGAATTTTATTTATTTTACTCAGCTTTG
GAAATAAAATCAAATTG
Found at i:23149391 original size:79 final size:79
Alignment explanation
Indices: 23149262--23149490 Score: 318
Period size: 79 Copynumber: 2.9 Consensus size: 79
23149252 AATACTCAGC
* * * * * *
23149262 TTTGGAAATAAAATCGAAA-TTGGAATAAAATCGTTGAGCGACGGGTATCAATCCCGAAACGGAT
1 TTTGGAAATAAAAT-AAAATTTGAAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGAAT
23149326 TTTATTTTACTCATT
65 TTTATTTTACTCATT
23149341 TTTGGAAATAAAATAAAATTTGAAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGAATT
1 TTTGGAAATAAAATAAAATTTGAAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGAATT
23149406 TTATTTTACTCATT
66 TTATTTTACTCATT
* * * * *
23149420 TTTGGAAATAAAACAAAATTT-AGAATAAAATCATTGAATGGCGGGAATCAATCTCGAAATGAAT
1 TTTGGAAATAAAATAAAATTTGA-AATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGAAT
*
23149484 CTTATTT
65 TTTATTT
23149491 ACCTTTAATT
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 4 0.03
79 132 0.97
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (79 bp):
TTTGGAAATAAAATAAAATTTGAAATAAAATCGTTGAACGGCGGGAATCAATCCCGAAACGAATT
TTATTTTACTCATT
Found at i:23149533 original size:88 final size:89
Alignment explanation
Indices: 23149420--23149627 Score: 273
Period size: 89 Copynumber: 2.4 Consensus size: 89
23149410 TTTACTCATT
* ** * *
23149420 TTTGGAAATAAAA-CAAAAT-TTAGAATAAAATC-ATTGA-ATGGCGGGAATCAATCTCGAAATG
1 TTTGGAAATAAAATCAAAATAATAGAATAAAATCTATT-ATACAGCGGGAATAAATCTCGAAAAG
23149481 AATCTTATTTACCTTTAATTTCTCA
65 AATCTTATTTACCTTTAATTTCTCA
* *
23149506 TTTGGAAATAAAATCAAAATAATAGAATAAAATCTATTATACAGTGGGAATAAATCTCGAAAAGG
1 TTTGGAAATAAAATCAAAATAATAGAATAAAATCTATTATACAGCGGGAATAAATCTCGAAAAGA
* *
23149571 ATCTTATTTACTTTTAATTTCTCG
66 ATCTTATTTACCTTTAATTTCTCA
* *
23149595 TTTGGAAAT-AAATAAAAATAATGGAATAAAATC
1 TTTGGAAATAAAATCAAAATAATAGAATAAAATC
23149628 CGTTGAACGG
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
86 13 0.12
87 6 0.06
88 35 0.33
89 53 0.50
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (89 bp):
TTTGGAAATAAAATCAAAATAATAGAATAAAATCTATTATACAGCGGGAATAAATCTCGAAAAGA
ATCTTATTTACCTTTAATTTCTCA
Found at i:23149776 original size:40 final size:39
Alignment explanation
Indices: 23149694--23149787 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 39
23149684 GTTTGGATAA
*
23149694 AAAATGCCGCTAAAATCAAGCATTACCGGCGCTTTTAAG
1 AAAACGCCGCTAAAATCAAGCATTACCGGCGCTTTTAAG
* * * * *
23149733 AAAACGCCGCTAAAGATCGAGTATTAGCGGTGCTTTTAGG
1 AAAACGCCGCTAAA-ATCAAGCATTACCGGCGCTTTTAAG
23149773 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
23149788 ATGAGCATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 14 0.29
40 34 0.71
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAATCAAGCATTACCGGCGCTTTTAAG
Found at i:23149904 original size:41 final size:41
Alignment explanation
Indices: 23149838--23150036 Score: 263
Period size: 41 Copynumber: 4.9 Consensus size: 41
23149828 TTTTGAGTTT
** * *
23149838 TCGGGTCTTTAGTAGCATTTTTGAAGAAGCGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
23149879 TTGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* ** * *
23149920 TCTGGTCTTTAGCGATGATTCTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
23149961 TCAGGTCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
23150002 TCGGGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
23150037 AAAAAATATT
Statistics
Matches: 137, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:23150383 original size:9 final size:9
Alignment explanation
Indices: 23150371--23150438 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
23150361 TTTTGGTTAA
23150371 AAATTAACC
1 AAATTAACC
23150380 AAATTAACC
1 AAATTAACC
*
23150389 GAATTAACC
1 AAATTAACC
* *
23150398 GAATTACCC
1 AAATTAACC
23150407 AAATTAACC
1 AAATTAACC
* *
23150416 GAATTACCC
1 AAATTAACC
*
23150425 GAATTAACC
1 AAATTAACC
23150434 AAATT
1 AAATT
23150439 GAATCACTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:23150395 original size:18 final size:18
Alignment explanation
Indices: 23150372--23150438 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
23150362 TTTGGTTAAA
*
23150372 AATTAACCAAATTAACCG
1 AATTAACCAAATTACCCG
* *
23150390 AATTAACCGAATTACCCA
1 AATTAACCAAATTACCCG
*
23150408 AATTAACCGAATTACCCG
1 AATTAACCAAATTACCCG
23150426 AATTAACCAAATT
1 AATTAACCAAATT
23150439 GAATCACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (18 bp):
AATTAACCAAATTACCCG
Found at i:23150408 original size:27 final size:27
Alignment explanation
Indices: 23150372--23150438 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
23150362 TTTGGTTAAA
23150372 AATTAACCAAATTAACCGAATTAACCG
1 AATTAACCAAATTAACCGAATTAACCG
* *
23150399 AATTACCCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTAACCG
23150426 AATTAACCAAATT
1 AATTAACCAAATT
23150439 GAATCACTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTAACCG
Found at i:23157846 original size:20 final size:20
Alignment explanation
Indices: 23157749--23157846 Score: 56
Period size: 20 Copynumber: 4.8 Consensus size: 20
23157739 ATTAAGAATG
23157749 TTATTAAATTATATATTATT-
1 TTATTAAATTATAT-TTATTA
*
23157769 TTATTAAATTGTATTTAATTA
1 TTATTAAATTATATTT-ATTA
* ** ** *
23157790 TAATTATGTTA-AAATATGA
1 TTATTAAATTATATTTATTA
* * * *
23157809 TTAAATCATTTATTTTTATTA
1 TT-ATTAAATTATATTTATTA
23157830 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
23157847 ATAATAATGT
Statistics
Matches: 53, Mismatches: 21, Indels: 8
0.65 0.26 0.10
Matches are distributed among these distances:
19 6 0.11
20 34 0.64
21 13 0.25
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (20 bp):
TTATTAAATTATATTTATTA
Found at i:23163134 original size:19 final size:19
Alignment explanation
Indices: 23163112--23163161 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
23163102 ACAAAAAAAA
*
23163112 TTAAAATAATTTTTTAAAT
1 TTAAAATAATTTATTAAAT
23163131 TTAAAAT-ATTTATTAAAT
1 TTAAAATAATTTATTAAAT
*
23163149 TTCAAA-AATTTAT
1 TTAAAATAATTTAT
23163162 ATATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAAATAATTTATTAAAT
Found at i:23163180 original size:22 final size:21
Alignment explanation
Indices: 23163152--23163199 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
23163142 ATTAAATTTC
23163152 AAAAATT-TATATATATATTTTT
1 AAAAATTAT-TATA-ATATTTTT
*
23163174 AAAAATTATTATAATTTTTTT
1 AAAAATTATTATAATATTTTT
23163195 AAAAA
1 AAAAA
23163200 ATTCTAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 11 0.46
23 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAAATTATTATAATATTTTT
Found at i:23163191 original size:18 final size:19
Alignment explanation
Indices: 23163130--23163191 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 19
23163120 ATTTTTTAAA
23163130 TTTAAAATATTTATTA-AAT
1 TTTAAAA-ATTTATTATAAT
*
23163149 TTCAAAAATTTATATATATATT
1 TTTAAAAATTTAT-TATA-A-T
23163171 TTTAAAAA-TTATTATAAT
1 TTTAAAAATTTATTATAAT
23163189 TTT
1 TTT
23163192 TTTAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 10 0.27
19 9 0.24
20 5 0.14
21 5 0.14
22 8 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAAATTTATTATAAT
Found at i:23170173 original size:51 final size:51
Alignment explanation
Indices: 23170114--23170211 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
23170104 TTCATGTCTA
* * *
23170114 AGTCCACTTGAAACTTTATTTTATATAGTCTCCAAAGAAAGTGAGTGGGCC
1 AGTCCACTTGAAACTTCAATTTATATAGTCTCCAAAGAAAATGAGTGGGCC
* *
23170165 AGTCCACTTGAAACTTCAATTTATCTAGTCTCCGAAGAAAATGAGTG
1 AGTCCACTTGAAACTTCAATTTATATAGTCTCCAAAGAAAATGAGTG
23170212 CATTCAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
AGTCCACTTGAAACTTCAATTTATATAGTCTCCAAAGAAAATGAGTGGGCC
Found at i:23170571 original size:15 final size:15
Alignment explanation
Indices: 23170528--23170578 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
23170518 ATTTTTTTAT
23170528 CATCAATTTAAAAGAA
1 CATC-ATTTAAAAGAA
* *
23170544 CA-CATTAATAAAGCA
1 CATCATTTA-AAAGAA
23170559 CATCATTTAAAAGAA
1 CATCATTTAAAAGAA
23170574 -ATCAT
1 CATCAT
23170579 ATTTTACCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 9 0.31
15 13 0.45
16 7 0.24
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (15 bp):
CATCATTTAAAAGAA
Found at i:23171921 original size:14 final size:14
Alignment explanation
Indices: 23171902--23171947 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
23171892 TATTTAAAAA
23171902 TTTATAATTTAATT
1 TTTATAATTTAATT
*
23171916 TTTAT-ATTTCTATT
1 TTTATAATTT-AATT
23171930 TTTATAAATTTAATT
1 TTTAT-AATTTAATT
23171945 TTT
1 TTT
23171948 TTTACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 4 0.15
14 13 0.48
15 6 0.22
16 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATAATTTAATT
Found at i:23171923 original size:28 final size:29
Alignment explanation
Indices: 23171892--23171947 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
23171882 GTCTTCATAT
23171892 TATTTAAAAATTTAT-AATTTAATTTTTA
1 TATTTAAAAATTTATAAATTTAATTTTTA
** **
23171920 TATTTCTATTTTTATAAATTTAATTTTT
1 TATTTAAAAATTTATAAATTTAATTTTT
23171948 TTTACTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTTAAAAATTTATAAATTTAATTTTTA
Found at i:23173024 original size:30 final size:31
Alignment explanation
Indices: 23172988--23173045 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
23172978 GGTATACAAA
*
23172988 TTTTTTAGGC-CCTTAAAAATTAAAAAAACT
1 TTTTTTAGACTCCTTAAAAATTAAAAAAACT
* *
23173018 TTTTTTATACTCCTTAAAAATTAGAAAA
1 TTTTTTAGACTCCTTAAAAATTAAAAAA
23173046 TAATATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (31 bp):
TTTTTTAGACTCCTTAAAAATTAAAAAAACT
Found at i:23176045 original size:16 final size:16
Alignment explanation
Indices: 23176026--23176087 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
23176016 TTTGTAATAA
*
23176026 AATAAAGCTATAATTG
1 AATAGAGCTATAATTG
* *
23176042 AATAGAGTTGTAATTG
1 AATAGAGCTATAATTG
* *
23176058 AATAGAGCTCTAATGG
1 AATAGAGCTATAATTG
23176074 AATAGAGCTATAAT
1 AATAGAGCTATAAT
23176088 CAGTAATTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AATAGAGCTATAATTG
Found at i:23176077 original size:32 final size:32
Alignment explanation
Indices: 23176017--23176080 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
23176007 TAGTACACGT
*
23176017 TTGTAATAAAATAAAGCTATAATTGAATAGAG
1 TTGTAATAAAATAAAGCTATAATGGAATAGAG
** * *
23176049 TTGTAATTGAATAGAGCTCTAATGGAATAGAG
1 TTGTAATAAAATAAAGCTATAATGGAATAGAG
23176081 CTATAATCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (32 bp):
TTGTAATAAAATAAAGCTATAATGGAATAGAG
Found at i:23176353 original size:21 final size:21
Alignment explanation
Indices: 23176329--23176377 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
23176319 AATTATTATT
23176329 ATATATAAT-TTA-ACAATAATA
1 ATATATAATATTAGA-AA-AATA
23176350 ATATATAATATTAGAAAAATA
1 ATATATAATATTAGAAAAATA
23176371 ATATATA
1 ATATATA
23176378 GCCATAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 20 0.77
22 5 0.19
23 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATATAATATTAGAAAAATA
Found at i:23180627 original size:13 final size:13
Alignment explanation
Indices: 23180609--23180636 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23180599 TGCATTCCTA
23180609 AATGGAGTCTTGT
1 AATGGAGTCTTGT
23180622 AATGGAGTCTTGT
1 AATGGAGTCTTGT
23180635 AA
1 AA
23180637 GAAGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (13 bp):
AATGGAGTCTTGT
Found at i:23182884 original size:11 final size:11
Alignment explanation
Indices: 23182868--23182892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23182858 GGGCCTGTAG
23182868 AATAGACTTGT
1 AATAGACTTGT
23182879 AATAGACTTGT
1 AATAGACTTGT
23182890 AAT
1 AAT
23182893 GGCATAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
AATAGACTTGT
Found at i:23185470 original size:20 final size:20
Alignment explanation
Indices: 23185438--23185492 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
23185428 GGCCCGACCC
23185438 ATAT-TAAATATATATTTAAA
1 ATATATAAA-ATATATTTAAA
* *
23185458 ATATATATAATATATTTAAT
1 ATATATAAAATATATTTAAA
23185478 ATATATAAAATATAT
1 ATATATAAAATATAT
23185493 ATATTTGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATAAAATATATTTAAA
Found at i:23185493 original size:11 final size:11
Alignment explanation
Indices: 23185438--23185495 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
23185428 GGCCCGACCC
23185438 ATAT-TAAATAT
1 ATATATAAA-AT
*
23185449 ATATTTAAAAT
1 ATATATAAAAT
23185460 ATATAT--AAT
1 ATATATAAAAT
*
23185469 ATAT-T-TAAT
1 ATATATAAAAT
23185478 ATATATAAAAT
1 ATATATAAAAT
23185489 ATATATA
1 ATATATA
23185496 TTTGATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 1 0.02
9 14 0.34
10 1 0.02
11 21 0.51
12 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATATATAAAAT
Found at i:23191441 original size:19 final size:20
Alignment explanation
Indices: 23191419--23191458 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
23191409 TTCTATCCAT
23191419 AAAATAT-TAAACCATAATC
1 AAAATATCTAAACCATAATC
23191438 AAAATATGCCTAAACCATAAT
1 AAAATAT--CTAAACCATAAT
23191459 TCACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
22 11 0.61
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAATATCTAAACCATAATC
Found at i:23196884 original size:21 final size:21
Alignment explanation
Indices: 23196858--23196897 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
23196848 TGTTGTTGAG
23196858 GGAGAGG-AGAGAGGTGAAGTA
1 GGAGAGGAAGAG-GGTGAAGTA
23196879 GGAGAGGAAGAGGGTGAAG
1 GGAGAGGAAGAGGGTGAAG
23196898 GGAGGGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.55, T:0.07
Consensus pattern (21 bp):
GGAGAGGAAGAGGGTGAAGTA
Found at i:23196906 original size:21 final size:20
Alignment explanation
Indices: 23196855--23196912 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
23196845 TGATGTTGTT
*
23196855 GAGGGAGAGGAGAGAGGTGAAG
1 GAGGGAG-GAAGAG-GGTGAAG
*
23196877 TAGGAGAGGAAGAGGGTGAAGG
1 GAGG-GAGGAAGAGGGTGAA-G
*
23196899 GAGGGAGGATGAGG
1 GAGGGAGGAAGAGG
23196913 TACCTGGCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 15 0.50
22 12 0.40
23 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.59, T:0.07
Consensus pattern (20 bp):
GAGGGAGGAAGAGGGTGAAG
Found at i:23197469 original size:68 final size:69
Alignment explanation
Indices: 23197256--23197527 Score: 332
Period size: 69 Copynumber: 4.0 Consensus size: 69
23197246 AATAATCAGT
* * * *
23197256 TGGGAGCTTTGCTCTTGCTAACTATATTGGAGGCTGCGACTCTTCGCCTGCGAGCCTTAGTATGA
1 TGGGAGCTTTACTCTCGCTAACTATATTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
23197321 CAGC
66 CAGC
* * * * * * * *
23197325 TGGGAGTTTTACTCTCGCTAACTGTGTTGGAGGCTGCGGCTTTTCGCTTGCAAGCCTTAATATGA
1 TGGGAGCTTTACTCTCGCTAACTATATTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
23197390 CAGC
66 CAGC
** * * * *
23197394 TAAGAGCTTTGCTCTCGTTAACTGTATTTGAGGCTGC-ACTCTTCGCCTACGAGCCTTAATATGA
1 TGGGAGCTTTACTCTCGCTAACTATATTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
*
23197458 CAGG
66 CAGC
* * *
23197462 TGGGAGCTTTACTCTCGCTAACTATACT-GAGGCTGTGGCTCTTCGCCTACGAGCCTTAATATGA
1 TGGGAGCTTTACTCTCGCTAACTATATTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
23197526 CA
66 CA
23197528 TGAATGTTGT
Statistics
Matches: 171, Mismatches: 31, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
67 7 0.04
68 75 0.44
69 89 0.52
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (69 bp):
TGGGAGCTTTACTCTCGCTAACTATATTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
CAGC
Found at i:23205622 original size:41 final size:40
Alignment explanation
Indices: 23205565--23205688 Score: 130
Period size: 37 Copynumber: 3.1 Consensus size: 40
23205555 CGACTTCAAG
23205565 TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTTAT
1 TCGATGAGACACTGGGTGTCAATTTATTACTTC-GATTTAT
* * *
23205606 TCGATGAGACACTGGGTGCCAA---CTTACTTCGGTTTA-
1 TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTAT
* * * *
23205642 ACTGATGAGACACTAGGTGTCAATTTAGTACTTCGAATTAT
1 TC-GATGAGACACTGGGTGTCAATTTATTACTTCGATTTAT
*
23205683 CCGATG
1 TCGATG
23205689 TGGCACTAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
36 1 0.01
37 23 0.34
38 7 0.10
40 14 0.21
41 22 0.33
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTAT
Found at i:23213452 original size:18 final size:20
Alignment explanation
Indices: 23213417--23213453 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23213407 TAAATCATAA
*
23213417 AAAAAATTATAAAGAATATT
1 AAAAAATGATAAAGAATATT
23213437 AAAAAATGA-AAA-AATAT
1 AAAAAATGATAAAGAATAT
23213454 ATATGAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 3 0.19
20 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAAATGATAAAGAATATT
Found at i:23213496 original size:19 final size:19
Alignment explanation
Indices: 23213472--23213512 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
23213462 GTGCAAAAAA
*
23213472 AAATTATAAAAAATATTAT
1 AAATTACAAAAAATATTAT
23213491 AAATTACAAAAAATATTAT
1 AAATTACAAAAAATATTAT
23213510 AAA
1 AAA
23213513 AATTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTACAAAAAATATTAT
Found at i:23213522 original size:52 final size:52
Alignment explanation
Indices: 23213415--23213513 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
23213405 AGTAAATCAT
* * *
23213415 AAAAAAAATTATAAAGAATATTAAAAAATGAAAAAATATATATGAAAGTGCA
1 AAAAAAAATTATAAAAAATATTAAAAAATCAAAAAATATATATAAAAGTGCA
* *
23213467 AAAAAAAATTATAAAAAATATTATAAATTACAAAAAATAT-TATAAAA
1 AAAAAAAATTATAAAAAATATTAAAAAAT-CAAAAAATATATATAAAA
23213514 ATTGAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
52 32 0.78
53 9 0.22
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (52 bp):
AAAAAAAATTATAAAAAATATTAAAAAATCAAAAAATATATATAAAAGTGCA
Found at i:23213540 original size:19 final size:19
Alignment explanation
Indices: 23213480--23213541 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
23213470 AAAAATTATA
23213480 AAAAATATTAT--AAATTAC
1 AAAAATATTATAAAAATT-C
*
23213498 AAAAAATATTATAAAAATTG
1 -AAAAATATTATAAAAATTC
*
23213518 AAAAATATTCA-AAATATTC
1 AAAAATATT-ATAAAAATTC
23213537 AAAAA
1 AAAAA
23213542 AATAAAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 31 0.84
20 1 0.03
21 5 0.14
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATATTATAAAAATTC
Found at i:23213591 original size:9 final size:9
Alignment explanation
Indices: 23213469--23213591 Score: 52
Period size: 9 Copynumber: 12.7 Consensus size: 9
23213459 AAAGTGCAAA
23213469 AAAAAATTAT
1 AAAAAA-TAT
23213479 AAAAAATATT
1 AAAAAATA-T
* * *
23213489 ATAAATTAC
1 AAAAAATAT
23213498 AAAAAATATT
1 AAAAAATA-T
23213508 ATAAAAAT-T
1 A-AAAAATAT
*
23213517 GAAAAATAT
1 AAAAAATAT
**
23213526 TCAAAATATT
1 AAAAAATA-T
23213536 CAAAAAA-AT
1 -AAAAAATAT
23213545 AAAAAAGTAT
1 AAAAAA-TAT
** *
23213555 ATGAAGTAT
1 AAAAAATAT
23213564 AAAAAATAAAT
1 AAAAAAT--AT
23213575 ATATAAAATAT
1 A-A-AAAATAT
23213586 AAAAAA
1 AAAAAA
23213592 GCTCAAAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
8 12 0.14
9 28 0.33
10 22 0.26
11 16 0.19
12 1 0.01
13 5 0.06
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:23214224 original size:29 final size:30
Alignment explanation
Indices: 23214174--23214230 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
23214164 ATTTTATAAT
23214174 ATTTTTAAATATTGTTTTTCATAACTTTAAC
1 ATTTTTAAATATTGTTTTTCATAA-TTTAAC
*
23214205 ATTTTTATATA-T-TTTTTCATAATTTA
1 ATTTTTAAATATTGTTTTTCATAATTTA
23214231 TATAATTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 1 0.04
31 10 0.40
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTTTTAAATATTGTTTTTCATAATTTAAC
Found at i:23214348 original size:18 final size:18
Alignment explanation
Indices: 23214327--23214384 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
23214317 TTTTTTTTCA
*
23214327 TTTTTATATTTTTATAAT
1 TTTTTATATTTTTATGAT
* *
23214345 TTTTAATTATTTCTATGAT
1 TTTTTA-TATTTTTATGAT
* *
23214364 TTTGTAAATTTTTATGAT
1 TTTTTATATTTTTATGAT
23214382 TTT
1 TTT
23214385 AATTATAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTATATTTTTATGAT
Found at i:23214356 original size:27 final size:27
Alignment explanation
Indices: 23214250--23214377 Score: 84
Period size: 27 Copynumber: 4.6 Consensus size: 27
23214240 CATGTACTTT
* **
23214250 TATTTTTAATAAATTTTAATATATTTGGA
1 TATTTTT-ATAATTTTTAAT-TATTTTTA
* * *
23214279 TATTTTT-TCATGTATAA-TATTTTTCTA
1 TATTTTTATAATTTTTAATTA-TTTT-TA
* *
23214306 TATTGTTATAATTTTT-TTTCATTTTTA
1 TATTTTTATAATTTTTAATT-ATTTTTA
*
23214333 TATTTTTATAATTTTTAATTATTTCTA
1 TATTTTTATAATTTTTAATTATTTTTA
23214360 TGATTTTGTA-AATTTTTA
1 T-ATTTT-TATAATTTTTA
23214378 TGATTTTAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
25 2 0.03
26 3 0.04
27 37 0.48
28 25 0.32
29 10 0.13
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (27 bp):
TATTTTTATAATTTTTAATTATTTTTA
Found at i:23214383 original size:9 final size:9
Alignment explanation
Indices: 23214297--23214384 Score: 54
Period size: 9 Copynumber: 9.6 Consensus size: 9
23214287 CATGTATAAT
*
23214297 ATTTTTCTA
1 ATTTTTATA
*
23214306 TATTGTTATA
1 -ATTTTTATA
* *
23214316 ATTTTTTTTC
1 A-TTTTTATA
23214326 ATTTTTAT-
1 ATTTTTATA
23214334 ATTTTTATA
1 ATTTTTATA
*
23214343 ATTTTTAATT
1 ATTTTT-ATA
* *
23214353 ATTTCTATG
1 ATTTTTATA
23214362 ATTTTGTA-A
1 ATTTT-TATA
*
23214371 ATTTTTATG
1 ATTTTTATA
23214380 ATTTT
1 ATTTT
23214385 AATTATAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
8 10 0.16
9 29 0.48
10 22 0.36
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:23214943 original size:10 final size:10
Alignment explanation
Indices: 23214930--23215053 Score: 57
Period size: 9 Copynumber: 12.7 Consensus size: 10
23214920 TTAATGAAAA
23214930 TATAAAATAT
1 TATAAAATAT
23214940 TATAAAA-AT
1 TATAAAATAT
* *
23214949 TTTGAAATA-
1 TATAAAATAT
23214958 TATAAAA-A-
1 TATAAAATAT
* *
23214966 CATAGAAAAAT
1 TATA-AAATAT
23214977 TATAAAATAT
1 TATAAAATAT
23214987 TATTAAAA-AT
1 TA-TAAAATAT
** **
23214997 GGTTGAATAT
1 TATAAAATAT
23215007 TAT-AAATAT
1 TATAAAATAT
**
23215016 TATTAGTATAT
1 TA-TAAAATAT
23215027 TATGAAAA-A-
1 TAT-AAAATAT
23215036 TATGAAAATAT
1 TAT-AAAATAT
23215047 TATAAAA
1 TATAAAA
23215054 ATTTAGAAAT
Statistics
Matches: 85, Mismatches: 18, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
8 4 0.05
9 33 0.39
10 29 0.34
11 19 0.22
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (10 bp):
TATAAAATAT
Found at i:23214947 original size:18 final size:18
Alignment explanation
Indices: 23214883--23214983 Score: 64
Period size: 19 Copynumber: 5.4 Consensus size: 18
23214873 TATAACAAGT
*
23214883 TTATAAAATTATAAAACTCA
1 TTATAAAAATATAAAA-T-A
*
23214903 -TAGAAAAATCATAAAA-A
1 TTATAAAAAT-ATAAAATA
*
23214920 TTAATGAAAATATAAAATA
1 TT-ATAAAAATATAAAATA
* *
23214939 TTATAAAAATTTTGAAATA
1 TTATAAAAA-TATAAAATA
* *
23214958 -TATAAAAACATAGAAAAA
1 TTATAAAAATATA-AAATA
23214976 TTATAAAA
1 TTATAAAA
23214984 TATTATTAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.03
18 25 0.40
19 30 0.48
20 6 0.10
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
TTATAAAAATATAAAATA
Found at i:23214994 original size:20 final size:19
Alignment explanation
Indices: 23214868--23215056 Score: 70
Period size: 20 Copynumber: 9.8 Consensus size: 19
23214858 AAATTACTAT
*
23214868 AATATTATAACAAGTT-TATA
1 AATATTATAA-AAATTATA-A
* *
23214888 AA-ATTATAAAACTCATAGA
1 AATATTATAAAAATTATA-A
* *
23214907 AAAATCATAAAAATTAATGAA
1 AATATTATAAAAATT-AT-AA
*
23214928 AATA-TA-AAATATTATAA
1 AATATTATAAAAATTATAA
**
23214945 AA-ATT-TTGAAATATATAA
1 AATATTATAAAAAT-TATAA
* *
23214963 AA-ACATAGAAAAATTATAA
1 AATA-TTATAAAAATTATAA
** **
23214982 AATATTATTAAAAATGGTTG
1 AATATTA-TAAAAATTATAA
* *
23215002 AATATTATAAATATTATTAG
1 AATATTATAAAAATTA-TAA
*
23215022 TATATTATGAAAAA-TATGAA
1 AATATTAT-AAAAATTAT-AA
23215042 AATATTATAAAAATT
1 AATATTATAAAAATT
23215057 TAGAAATAAT
Statistics
Matches: 124, Mismatches: 30, Indels: 30
0.67 0.16 0.16
Matches are distributed among these distances:
16 1 0.01
17 8 0.06
18 13 0.10
19 40 0.32
20 51 0.41
21 10 0.08
22 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (19 bp):
AATATTATAAAAATTATAA
Found at i:23215010 original size:67 final size:66
Alignment explanation
Indices: 23214868--23214996 Score: 163
Period size: 65 Copynumber: 1.9 Consensus size: 66
23214858 AAATTACTAT
* * *
23214868 AATATTATAACAAGTTTATAAAATTATAAAACTCATAGAAAAATCATAAAAATTAATGAAAATAT
1 AATATTATAA-AAATTTATAAAATTATAAAACACATAGAAAAATCATAAAAATTAATAAAAATAT
23214933 AA
65 AA
* * *
23214935 AATATTATAAAAATTT-TGAAATATATAAAA-ACATAGAAAAATTATAAAATATTATTAAAAAT
1 AATATTATAAAAATTTATAAAAT-TATAAAACACATAGAAAAATCATAAAA-ATTAATAAAAAT
23214997 GGTTGAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
65 22 0.41
66 22 0.41
67 10 0.19
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (66 bp):
AATATTATAAAAATTTATAAAATTATAAAACACATAGAAAAATCATAAAAATTAATAAAAATATA
A
Found at i:23221051 original size:32 final size:32
Alignment explanation
Indices: 23220991--23221056 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
23220981 CTTCATTTGG
*
23220991 GGTAGATTTAAGCTTTAACCCCTCATTCTTCTT
1 GGTAGATTCAAGCTTTAACCCCTCATTCTT-TT
23221024 GGTAGATTCAAGCTTTAA-CCCTCATTCTTTT
1 GGTAGATTCAAGCTTTAACCCCTCATTCTTTT
23221055 GG
1 GG
23221057 AATATTCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.12
32 11 0.34
33 17 0.53
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (32 bp):
GGTAGATTCAAGCTTTAACCCCTCATTCTTTT
Found at i:23221067 original size:173 final size:174
Alignment explanation
Indices: 23220842--23221175 Score: 537
Period size: 173 Copynumber: 1.9 Consensus size: 174
23220832 TTTGAGATCC
*
23220842 TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATCTTCTTCCTCTATT-AGACT
1 TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATATTCTTCCTCTATTGA-ACT
***
23220906 TCAGGAATCTCTTCAATCTCCTAGCAAACATGGTTATCTCTTTGTCTTCATCCACCTCTTCGCTT
65 TCAGGAATCTCTTCAATCTCCTAGCAAACATGAACATCTCTTTGTCTTCATCCACCTCTTCGCTT
23220971 GATTCACTATCTTCATTTGGGGTAGATTTAAGCTTTAACCCCTCA
130 GATTCACTATCTTCATTTGGGGTAGATTTAAGCTTTAACCCCTCA
* *
23221016 TTCTTCTTGGTAGATTCAAGCTTTAA-CCCTCATTCTTTTGGAATATTCTTCCTCTATTGAACTT
1 TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATATTCTTCCTCTATTGAACTT
* * * *
23221080 CATGAATCTCTTGAATCTCCTAGCAAACATGAACATCTCTTTTTCTTCATCCACCTCTTCGGTTG
66 CAGGAATCTCTTCAATCTCCTAGCAAACATGAACATCTCTTTGTCTTCATCCACCTCTTCGCTTG
* *
23221145 ATTCACTATCTTCATTTGTGGTGGATTTAAG
131 ATTCACTATCTTCATTTGGGGTAGATTTAAG
23221176 AGCAACACCA
Statistics
Matches: 147, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
173 122 0.83
174 25 0.17
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (174 bp):
TTCTCCTTAGTAGATTCAAGCTTTAACCCCTCATTCTTTTGGAATATTCTTCCTCTATTGAACTT
CAGGAATCTCTTCAATCTCCTAGCAAACATGAACATCTCTTTGTCTTCATCCACCTCTTCGCTTG
ATTCACTATCTTCATTTGGGGTAGATTTAAGCTTTAACCCCTCA
Found at i:23227433 original size:11 final size:10
Alignment explanation
Indices: 23227410--23227489 Score: 72
Period size: 10 Copynumber: 7.8 Consensus size: 10
23227400 CTTGTTTAAC
*
23227410 AAAAATGATA
1 AAAAATTATA
23227420 AAAAATTATA
1 AAAAATTATA
*
23227430 AAAAGTTAT-
1 AAAAATTATA
23227439 AAAAATTATTA
1 AAAAATTA-TA
**
23227450 AAATTTTATTA
1 AAAAATTA-TA
* *
23227461 AATAGTTATA
1 AAAAATTATA
23227471 AAAAATTATA
1 AAAAATTATA
23227481 AAAATATTA
1 AAAA-ATTA
23227490 AAGAGTATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.12
10 32 0.56
11 18 0.32
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (10 bp):
AAAAATTATA
Found at i:23229890 original size:29 final size:29
Alignment explanation
Indices: 23229831--23229912 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
23229821 AAAACGTTGT
* ** *
23229831 AATTTTT-TAAAATTATGAAAATATTATAA
1 AATTTTTATAAAATTAT-AAAAAAACAAAA
23229860 AATTTTTATAAAATTATAAAAAAACAAAA
1 AATTTTTATAAAATTATAAAAAAACAAAA
* *
23229889 AAATATTATTAAATATTATAAAAA
1 AATTTTTA-TAAA-ATTATAAAAA
23229913 TTTTAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
29 21 0.48
30 13 0.30
31 10 0.23
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (29 bp):
AATTTTTATAAAATTATAAAAAAACAAAA
Found at i:23229892 original size:30 final size:30
Alignment explanation
Indices: 23229831--23229912 Score: 62
Period size: 30 Copynumber: 2.7 Consensus size: 30
23229821 AAAACGTTGT
* ** *
23229831 AATTTTT-TAAAATTATGAAAATATTATAAA
1 AATTTTTATAAAATTAT-AAAAAAACAAAAA
*
23229861 ATTTTT-ATAAAATTATAAAAAAACAAAAA
1 AATTTTTATAAAATTATAAAAAAACAAAAA
*
23229890 AATATTATTA-AATATTATAAAAA
1 AAT-TT-TTATAAAATTATAAAAA
23229913 TTTTAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
29 11 0.27
30 16 0.39
31 13 0.32
32 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
AATTTTTATAAAATTATAAAAAAACAAAAA
Found at i:23232004 original size:26 final size:26
Alignment explanation
Indices: 23231975--23232078 Score: 109
Period size: 26 Copynumber: 4.0 Consensus size: 26
23231965 GCCTAGCAAG
*
23231975 CTTGAGTTTAAGTGGGTCAAAGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
* * **
23232001 CTTGAGTTTAAGTAGGTTAGGGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
* * **
23232027 CCTGAGTTTGAGTTGGTCGGAGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
* *
23232053 TTTGAGTTTGAGTTGGTCAAAGGACC
1 CTTGAGTTTAAGTTGGTCAAAGGACC
23232079 ATGAGTATAT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (26 bp):
CTTGAGTTTAAGTTGGTCAAAGGACC
Found at i:23234799 original size:13 final size:13
Alignment explanation
Indices: 23234781--23234807 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23234771 CCCTCCAAAC
23234781 CAAACTCCGCGGA
1 CAAACTCCGCGGA
23234794 CAAACTCCGCGGA
1 CAAACTCCGCGGA
23234807 C
1 C
23234808 TAATTGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.41, G:0.22, T:0.07
Consensus pattern (13 bp):
CAAACTCCGCGGA
Found at i:23235755 original size:21 final size:22
Alignment explanation
Indices: 23235714--23235755 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23235704 TAGTTATTAA
23235714 TCCATGTATTTTGCAGTACTTG
1 TCCATGTATTTTGCAGTACTTG
* *
23235736 TCCATTTATTTT-CTGTACTT
1 TCCATGTATTTTGCAGTACTT
23235756 TAATTTGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.52
Consensus pattern (22 bp):
TCCATGTATTTTGCAGTACTTG
Found at i:23238314 original size:11 final size:11
Alignment explanation
Indices: 23238291--23238321 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
23238281 ATACAATTTG
23238291 ATTAAATAATTC
1 ATTAAA-AATTC
23238303 ATTAAAAATTC
1 ATTAAAAATTC
23238314 ATTAAAAA
1 ATTAAAAA
23238322 ATAAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTAAAAATTC
Found at i:23248490 original size:25 final size:25
Alignment explanation
Indices: 23248462--23248520 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
23248452 AGAGAAGAGT
* *
23248462 AAAACAAAACATAGTAGAACATAAC
1 AAAACAAAACAGAGTAGAACAGAAC
* *
23248487 AAAACATAACAGAGTAGAGCAGAAC
1 AAAACAAAACAGAGTAGAACAGAAC
*
23248512 ATAACAAAA
1 AAAACAAAA
23248521 TAGAACAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.63, C:0.15, G:0.12, T:0.10
Consensus pattern (25 bp):
AAAACAAAACAGAGTAGAACAGAAC
Found at i:23248512 original size:20 final size:20
Alignment explanation
Indices: 23248484--23248532 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
23248474 AGTAGAACAT
* * *
23248484 AACAAAACATAACAGAGTAG
1 AACAGAACATAACAAAATAG
*
23248504 AGCAGAACATAACAAAATAG
1 AACAGAACATAACAAAATAG
23248524 AACAGAACA
1 AACAGAACA
23248533 AAGTAGAGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.61, C:0.16, G:0.14, T:0.08
Consensus pattern (20 bp):
AACAGAACATAACAAAATAG
Found at i:23248525 original size:15 final size:15
Alignment explanation
Indices: 23248507--23248577 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
23248497 AGAGTAGAGC
23248507 AGAACATAACAAAAT
1 AGAACATAACAAAAT
* *
23248522 AGAACAGAACAAAGT
1 AGAACATAACAAAAT
* * *
23248537 AGAGCATAATAGAAT
1 AGAACATAACAAAAT
* * * *
23248552 AGAGCAGAACATAAC
1 AGAACATAACAAAAT
*
23248567 ATAACATAACA
1 AGAACATAACA
23248578 TAGCAGAACT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
AGAACATAACAAAAT
Found at i:23248545 original size:30 final size:30
Alignment explanation
Indices: 23248464--23248650 Score: 91
Period size: 30 Copynumber: 6.4 Consensus size: 30
23248454 AGAAGAGTAA
* * * *
23248464 AACAAAACATAGTAGAACATAACAAAACAT
1 AACAGAACAAAGTAGAACATAACAAAATAG
** * *
23248494 AACAGAGTAGAGCAGAACATAACAAAATAG
1 AACAGAACAAAGTAGAACATAACAAAATAG
* * *
23248524 AACAGAACAAAGTAGAGCATAATAGAATAG
1 AACAGAACAAAGTAGAACATAACAAAATAG
* * * * **
23248554 AGCAGAACATAA-CATAACATAACATAGCAG
1 AACAGAACA-AAGTAGAACATAACAAAATAG
* * * *
23248584 AACTGAAC--TG-AGAA-A-AACATAACAG
1 AACAGAACAAAGTAGAACATAACAAAATAG
* * *
23248609 AACAGAATAGAGTGGAACATAACAAAATAG
1 AACAGAACAAAGTAGAACATAACAAAATAG
23248639 AACA-AAGCAAAG
1 AACAGAA-CAAAG
23248651 CAAAACAGAA
Statistics
Matches: 114, Mismatches: 35, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
25 15 0.13
26 1 0.01
27 4 0.04
28 3 0.03
29 3 0.03
30 86 0.75
31 2 0.02
ACGTcount: A:0.58, C:0.14, G:0.16, T:0.12
Consensus pattern (30 bp):
AACAGAACAAAGTAGAACATAACAAAATAG
Found at i:23248582 original size:25 final size:25
Alignment explanation
Indices: 23248464--23248586 Score: 70
Period size: 25 Copynumber: 4.7 Consensus size: 25
23248454 AGAAGAGTAA
* * *
23248464 AACAAAACATAGTAGAACATAACAA
1 AACATAACATAGCAGAACATAACAT
* * * *
23248489 AACATAACAGAGTAGAGCAGAACAT
1 AACATAACATAGCAGAACATAACAT
23248514 AACA-AA-ATAGAACAGAACAAAGTAGAGCAT
1 AACATAACATAG--CAGAAC--A-TA-A-CAT
* * * *
23248544 AATAGAATAGAGCAGAACATAACAT
1 AACATAACATAGCAGAACATAACAT
23248569 AACATAACATAGCAGAAC
1 AACATAACATAGCAGAAC
23248587 TGAACTGAGA
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 45 0.61
26 1 0.01
27 3 0.04
28 2 0.03
29 1 0.01
30 12 0.16
31 2 0.03
32 3 0.04
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (25 bp):
AACATAACATAGCAGAACATAACAT
Found at i:23248641 original size:55 final size:55
Alignment explanation
Indices: 23248594--23248725 Score: 158
Period size: 55 Copynumber: 2.4 Consensus size: 55
23248584 AACTGAACTG
* * *
23248594 AGAAAAACATAACAGAACAGAATAGAGT-GGAACATAACAAAATAGAACAAAGCAA
1 AGAAAAACAGAACAGAACAGAATAGAGTAGG-ACATAAAAAAACAGAACAAAGCAA
* * * *
23248649 AGCAAAACAGAACATAACAGAATAGAGTAGGACATAAAAAAACAGAATAGAGCAA
1 AGAAAAACAGAACAGAACAGAATAGAGTAGGACATAAAAAAACAGAACAAAGCAA
* * *
23248704 AGCAGAATAGAACAGAACAGAA
1 AGAAAAACAGAACAGAACAGAA
23248726 GAAAAAAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
55 64 0.97
56 2 0.03
ACGTcount: A:0.61, C:0.13, G:0.18, T:0.08
Consensus pattern (55 bp):
AGAAAAACAGAACAGAACAGAATAGAGTAGGACATAAAAAAACAGAACAAAGCAA
Found at i:23248724 original size:15 final size:15
Alignment explanation
Indices: 23248689--23248780 Score: 62
Period size: 15 Copynumber: 6.2 Consensus size: 15
23248679 GACATAAAAA
*
23248689 AACAGAATAGAGCA-
1 AACAGAATAGAACAG
23248703 AAGCAGAATAGAACAG
1 AA-CAGAATAGAACAG
* * *
23248719 AACAGAAGA-AAAAA
1 AACAGAATAGAACAG
* * *
23248733 AACACAACAGAATAG
1 AACAGAATAGAACAG
* *
23248748 AACAGAATAGAGCAA
1 AACAGAATAGAACAG
* *
23248763 AACATAATAGAACTG
1 AACAGAATAGAACAG
23248778 AAC
1 AAC
23248781 TGAACTGAAC
Statistics
Matches: 58, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
14 12 0.21
15 44 0.76
16 2 0.03
ACGTcount: A:0.61, C:0.14, G:0.17, T:0.08
Consensus pattern (15 bp):
AACAGAATAGAACAG
Found at i:23251523 original size:21 final size:21
Alignment explanation
Indices: 23251497--23251537 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23251487 AAAAATTTGG
*
23251497 ATAAAAACTTAGAAA-TAAAAA
1 ATAAAAAATTA-AAAGTAAAAA
23251518 ATAAAAAATTAAAAGTAAAA
1 ATAAAAAATTAAAAGTAAAA
23251538 CCTACTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
ATAAAAAATTAAAAGTAAAAA
Found at i:23268088 original size:27 final size:27
Alignment explanation
Indices: 23268038--23268138 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
23268028 ACACGCTAGA
* *
23268038 AAATAGAAGCCTTTGTGATC-ATCTATG
1 AAATGGAAGCCTTTGTG-GCAATCTATG
* *
23268065 TAATGGAAGCCTTTTTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
**
23268092 AAATGGAAGCCTTTGTGGTGATCTATGG
1 AAATGGAAGCCTTTGTGGCAATCTAT-G
*
23268120 AAA-GGAATGCCTTCGTGGC
1 AAATGGAA-GCCTTTGTGGC
23268139 GTATTCTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.77
28 13 0.21
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:23282868 original size:13 final size:13
Alignment explanation
Indices: 23282852--23282898 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
23282842 GAGAGTAGGA
*
23282852 TTCTGTATATTTG
1 TTCTGTATATCTG
*
23282865 TTCTGCATATCTG
1 TTCTGTATATCTG
23282878 ATTCTG-ATATCTG
1 -TTCTGTATATCTG
23282891 TATCTGTA
1 T-TCTGTA
23282899 GAGGACTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 1 0.03
13 22 0.76
14 6 0.21
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:23290574 original size:16 final size:17
Alignment explanation
Indices: 23290541--23290582 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23290531 TAAATATTAT
*
23290541 TTTTTTAATTAATTTAA
1 TTTTTTAATTAATATAA
*
23290558 TTTTTTCATTAA-ATAA
1 TTTTTTAATTAATATAA
23290574 TTTTCTTAA
1 TTTT-TTAA
23290583 CCCAATTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTAATTAATATAA
Found at i:23296292 original size:61 final size:62
Alignment explanation
Indices: 23296227--23296351 Score: 180
Period size: 61 Copynumber: 2.0 Consensus size: 62
23296217 TCTTATATCT
* * * * *
23296227 AAAAATTCAACAAATTTAGCCCTCAATATTTAC-AAAATTTTCCATCTAGTTCTAATTCTAA
1 AAAAAATCAACAAATTTAGCCCTAAATATTTACAAAAATTTTCAATCTAATTCTAATACTAA
* *
23296288 AAAAAATCAATAAATTTAGCCCTAAATATTTACAAAAATTTTCAATTTAATTCTAATACTAA
1 AAAAAATCAACAAATTTAGCCCTAAATATTTACAAAAATTTTCAATCTAATTCTAATACTAA
23296350 AA
1 AA
23296352 GTTAAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 30 0.54
62 26 0.46
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.35
Consensus pattern (62 bp):
AAAAAATCAACAAATTTAGCCCTAAATATTTACAAAAATTTTCAATCTAATTCTAATACTAA
Found at i:23302869 original size:3 final size:3
Alignment explanation
Indices: 23302861--23302907 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23302851 CTTGTTTCCA
23302861 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23302908 GAGTTGAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23303394 original size:46 final size:46
Alignment explanation
Indices: 23303342--23303434 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
23303332 AATATACTTG
* *
23303342 TTAAAGTAACTGCTCGGTTGTTGAAGTCGTTTTACTTTTCTACCTC
1 TTAAAGTAACTGCTCGGTTGTCGAAGTCGTTTTAATTTTCTACCTC
*
23303388 TTAAAGTAACTGTTCGGTTGTCGAAGTCGTTTTAATTTTCTACCTC
1 TTAAAGTAACTGCTCGGTTGTCGAAGTCGTTTTAATTTTCTACCTC
23303434 T
1 T
23303435 GGATTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.44
Consensus pattern (46 bp):
TTAAAGTAACTGCTCGGTTGTCGAAGTCGTTTTAATTTTCTACCTC
Found at i:23310085 original size:21 final size:21
Alignment explanation
Indices: 23310055--23310094 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23310045 AATAAATACC
*
23310055 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
23310076 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
23310095 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:23310097 original size:11 final size:12
Alignment explanation
Indices: 23310055--23310103 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
23310045 AATAAATACC
23310055 AAAAATTTATTTT
1 AAAAA-TTATTTT
*
23310068 AAAAATTA---A
1 AAAAATTATTTT
23310077 AAAAATTATTTT
1 AAAAATTATTTT
23310089 AAAAA-TATTTT
1 AAAAATTATTTT
23310100 AAAA
1 AAAA
23310104 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 10 0.32
12 8 0.26
13 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:23310103 original size:22 final size:22
Alignment explanation
Indices: 23310056--23310132 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
23310046 ATAAATACCA
***
23310056 AAAATTTATTTTAAAAAT-TAAA
1 AAAA-TTATTTTAAAAATATTTT
23310078 AAAATTATTTTAAAAATATTTT
1 AAAATTATTTTAAAAATATTTT
***
23310100 AAAATTA-AAAAAAAAGTATTTT
1 AAAATTATTTTAAAAA-TATTTT
*
23310122 AAAAGTATTTT
1 AAAATTATTTT
23310133 GAAATTAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
21 18 0.43
22 24 0.57
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (22 bp):
AAAATTATTTTAAAAATATTTT
Done.