Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 13 of 52
Found at i:2066047 original size:51 final size:50
Alignment explanation
Indices: 2065939--2066117 Score: 209
Period size: 51 Copynumber: 3.6 Consensus size: 50
2065929 GATTAACGGG
* *
2065939 GTTGGAGTATCCCCGATTATGAAAAATT-GGTGTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGGTTTTGAAAATAAAATCGGA
* * ** *
2065988 GTTGGAGTATACCCGATTA-AAGAAAATTGGCGTTTTGAAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTATGA-AAAATTGG-GTTTTGAAAATAAAATCGGA
* * * **
2066039 GTTGGAGTATTCTCGATTGTGAAAAATTGGTGTTTCAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGG-GTTTTGAAAATAAAATCGGA
2066090 GTTGGAGTATCCCCGATTATGAAAAATT
1 GTTGGAGTATCCCCGATTATGAAAAATT
2066118 AAGAAACATA
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 24 0.23
50 1 0.01
51 79 0.75
52 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGGTTTTGAAAATAAAATCGGA
Found at i:2068432 original size:20 final size:21
Alignment explanation
Indices: 2068407--2068465 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
2068397 AAAATGCCTG
*
2068407 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATGTAGA
2068427 AATGTATCGATACAATG-AGA
1 AATGTATCGATACAATGTAGA
2068447 AATGTATCGATACAATGTA
1 AATGTATCGATACAATGTA
2068466 TCGATACAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACAATGTAGA
Found at i:2068443 original size:13 final size:13
Alignment explanation
Indices: 2068427--2068506 Score: 67
Period size: 13 Copynumber: 7.1 Consensus size: 13
2068417 TACATTGTAA
2068427 AATGTATCGATAC
1 AATGTATCGATAC
2068440 AATG-A--GA-A-
1 AATGTATCGATAC
2068448 A-TGTATCGATAC
1 AATGTATCGATAC
2068460 AATGTATCGATAC
1 AATGTATCGATAC
2068473 AATG-A--G---C
1 AATGTATCGATAC
2068480 AATGTATCGATAC
1 AATGTATCGATAC
*
2068493 AATGTATCAATAC
1 AATGTATCGATAC
2068506 A
1 A
2068507 TTGCAAAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 24
0.68 0.01 0.30
Matches are distributed among these distances:
7 7 0.13
8 3 0.06
9 1 0.02
10 6 0.11
11 1 0.02
12 3 0.06
13 33 0.61
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2068469 original size:33 final size:33
Alignment explanation
Indices: 2068427--2068526 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
2068417 TACATTGTAA
2068427 AATGTATCGATACAATGAGAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATAC
*
2068460 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATAC
* * *
2068493 AATGTATCAATACATTGCA-AAATGTTTCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATAC
2068526 A
1 A
2068527 TCTGGGTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 60 0.98
34 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGAAATGTATCGATAC
Found at i:2068482 original size:20 final size:19
Alignment explanation
Indices: 2068407--2068496 Score: 93
Period size: 20 Copynumber: 4.9 Consensus size: 19
2068397 AAAATGCCTG
*
2068407 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
2068427 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGA-A
2068447 AATGTATCGATAC------
1 AATGTATCGATACAATGAA
*
2068460 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
2068480 AATGTATCGATACAATG
1 AATGTATCGATACAATG
2068497 TATCAATACA
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
13 13 0.21
19 1 0.02
20 47 0.77
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:2068583 original size:13 final size:13
Alignment explanation
Indices: 2068565--2068589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2068555 ATAAAGATCG
2068565 ATGTATCGATACC
1 ATGTATCGATACC
2068578 ATGTATCGATAC
1 ATGTATCGATAC
2068590 ATTGAATAAT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACC
Found at i:2068690 original size:21 final size:21
Alignment explanation
Indices: 2068660--2068717 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2068650 TACAACACTT
* *
2068660 ATGTAACGATACATTTACT-GT
1 ATGTATCGATACATTT-CTAGA
*
2068681 TTGTATCGATACATTTCTAGA
1 ATGTATCGATACATTTCTAGA
2068702 ATGTATCGATACATTT
1 ATGTATCGATACATTT
2068718 GGACAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTTCTAGA
Found at i:2070086 original size:32 final size:32
Alignment explanation
Indices: 2070050--2070125 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
2070040 TTTCAACGAT
*
2070050 TTGTATCGATACATAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAGTGTTATATCGATACA
* *
2070082 TTGTATCGATACATAAGTTTTATATTGATACA
1 TTGTATCGATACATAAGTGTTATATCGATACA
*
2070114 ATGTATCGATAC
1 TTGTATCGATAC
2070126 GAAGCTACTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (32 bp):
TTGTATCGATACATAAGTGTTATATCGATACA
Found at i:2070087 original size:13 final size:13
Alignment explanation
Indices: 2070069--2070095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2070059 TACATAAGTG
2070069 TTGTATCGATACA
1 TTGTATCGATACA
2070082 TTGTATCGATACA
1 TTGTATCGATACA
2070095 T
1 T
2070096 AAGTTTTATA
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2070243 original size:52 final size:52
Alignment explanation
Indices: 2070199--2070327 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2070189 CACTGATCTT
2070199 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
2070251 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
2070303 TGTATTGATATATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2070328 TCGTATTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2073792 original size:52 final size:52
Alignment explanation
Indices: 2073643--2073771 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2073633 CAAAATATGA
2073643 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
**
2073695 AAATTTGCCTATATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2073747 AAATTTTCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2073772 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2074820 original size:51 final size:49
Alignment explanation
Indices: 2074735--2074914 Score: 142
Period size: 49 Copynumber: 3.8 Consensus size: 49
2074725 TATTGGGCTT
* * *
2074735 GTGCTAATGTGCTGATTCAAAGCCAGCTACATTGGACTCAAGACGGAAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTCAA-A-GGAAAAG
* * **
2074786 GTGCCAATATGCTGATTCAAGGCCAGCGT-TATTGGACTTAAAGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGC-TACATTGGACTCAAAGGAAAAG
* * * * * *
2074835 ATGCCAATATGCTGATTCACGGCCAACGATATTAGG-CT----TG--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATT-GGACTCAAAGGAAAAG
*
2074878 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
2074915 GGTGCCAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
42 2 0.02
43 31 0.29
45 1 0.01
49 35 0.33
50 3 0.03
51 34 0.32
52 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTCAAAGGAAAAG
Found at i:2074929 original size:38 final size:38
Alignment explanation
Indices: 2074877--2074952 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
2074867 TAGGCTTGAA
*
2074877 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
2074915 GGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGAC
1 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
2074953 TTAAAAGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
Found at i:2075026 original size:34 final size:35
Alignment explanation
Indices: 2074988--2075065 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
2074978 TGGGCTTTTG
*
2074988 AAAAGG-AGAAAGATGTCACGAAGTTGTGGACTTA
1 AAAAGGAAAAAAGATGTCACGAAGTTGTGGACTTA
2075022 AAAAGGAAAAAAGATGTCACGAAGTTGTGGACTT-
1 AAAAGGAAAAAAGATGTCACGAAGTTGTGGACTTA
2075056 AAAAGGAAAA
1 AAAAGGAAAA
2075066 TGTGCCACGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 16 0.38
35 26 0.62
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.18
Consensus pattern (35 bp):
AAAAGGAAAAAAGATGTCACGAAGTTGTGGACTTA
Found at i:2075095 original size:34 final size:34
Alignment explanation
Indices: 2074976--2075836 Score: 996
Period size: 34 Copynumber: 25.4 Consensus size: 34
2074966 CACCGACTTG
* * *
2074976 TGTGGGCTTTTGAAAAGGAGAAAGATGTCACGAAGT
1 TGTGGGC-TTTGAAAAGGA-AAAGGTGCCACGGAGT
* * * * *
2075012 TGTGGAC-TTAAAAAGGAAAAAAGATGTCACGAAGT
1 TGTGGGCTTTGAAAAGG--AAAAGGTGCCACGGAGT
* *
2075047 TGTGGAC-TT-AAAAGGAAAATGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* *
2075079 GGTGGGCTTTGGAAAGGAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* *
2075113 TGTGGGCTTT-AAAAAGAAAAGGTGCCATGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* * *
2075146 GGTGGGCTTAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
2075180 TGTGGGC-TT-AAAAGGAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* *
2075212 GGTGGGCTTTGAAAAGGAAAAGGTGCCACAGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* * * *
2075246 TGTAGGCTTTAAAAAAGAAAACGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* *
2075280 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* * *
2075314 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCATGAAGT
1 TGTGGGCTTT---GAAAAGGAAAAGGTGCCACGGAGT
* * *
2075351 TATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* * *
2075385 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
*
2075419 TGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
*
2075453 TGTGGGCTTTG--AA-GAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
*
2075484 TGTGGGCTTT-AAAAAGAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* * *
2075517 GGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* * *
2075551 TTTGGGC-TTG-AAAGGAAAAAGTGCCATGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* *
2075583 GGTGGGCTTTGAAAAGGAAAAGGTGCCACAGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* *
2075617 TGTGGGCTTT-AAAAAGAAAATGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* * *
2075650 GGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
*
2075684 TGTGGGC-TT-AAAAGGAAAAAGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
* *
2075716 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
*
2075750 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTT---GAAAAGGAAAAGGTGCCACGGAGT
* *
2075787 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGAAGT
1 TGTGGGCTTT---GAAAAGGAAAAGGTGCCACGGAGT
2075824 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
2075837 GAAAAGATGC
Statistics
Matches: 722, Mismatches: 81, Indels: 46
0.85 0.10 0.05
Matches are distributed among these distances:
31 26 0.04
32 100 0.14
33 97 0.13
34 366 0.51
35 25 0.03
36 7 0.01
37 101 0.14
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.20
Consensus pattern (34 bp):
TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGT
Found at i:2075190 original size:133 final size:136
Alignment explanation
Indices: 2074976--2075832 Score: 1035
Period size: 133 Copynumber: 6.3 Consensus size: 136
2074966 CACCGACTTG
* * * * * * * *
2074976 TGTGGGCTTTTGAAAAGGAGAAAGATGTCACGAAGTTGTGGACTTA-AAAAGGAAAAAAGATGTC
1 TGTGGGC-TTT-AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAA-G-AAAAAGGTGCC
* * * * *
2075040 ACGAAGTTGTGGAC-TT-AAAAGGAAAATGTGCCACGGAGTGGTGGGCTTTGGAAAGGAAAAGGT
62 ACGGAGTTGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAGGT
2075103 GCCACGGAGT
127 GCCACGGAGT
* *
2075113 TGTGGGCTTTAAAAAG-AAAAGGTGCCATGGAGTGGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
*
2075177 AGTTGTGGGC-TT-AAAAGGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGGAAAAGGTGCCA
66 AGTTGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAGGTGCCA
*
2075240 CAGAGT
131 CGGAGT
* * * *
2075246 TGTAGGCTTTAAAAA-AGAAAACGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACG
1 TGTGGGCTTTAAAAAGA-AAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACG
* * * * *
2075310 GAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTGCCATGAAGTTATGGGCTTTGAAAAGAAAAAGGT
65 GAGTTGTGGGCTTT---GAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAGGT
*
2075375 GCCACGAAGT
127 GCCACGGAGT
* *
2075385 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGG
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
* *
2075450 AGTTGTGGGCTTTG--AA-GAAAAGATGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAGGTGCCA
66 AGTTGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAGGTGCCA
2075511 CGGAGT
131 CGGAGT
* * * * * *
2075517 GGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTTTGGGCTT-GAAAGGAAAAA-GTGCCATGG
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
* * * *
2075580 AGTGGTGGGCTTTGAAAAGGAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAAAGAAAATGTGCCA
66 AGTTGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAGGTGCCA
2075644 CGGAGT
131 CGGAGT
* * * *
2075650 GGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTA-AAAGGAAAAA-GTGCCACGG
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
* * *
2075713 AGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTG
66 AGTTGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTT---GAAAAGGAAAAGGTG
2075778 CCACGGAGT
128 CCACGGAGT
*
2075787 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTT
1 TGTGGGCTTT--A-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
2075833 TGAAGAAAAG
Statistics
Matches: 637, Mismatches: 63, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
130 21 0.03
131 10 0.02
132 60 0.09
133 265 0.42
134 78 0.12
135 11 0.02
136 4 0.01
137 36 0.06
139 121 0.19
140 31 0.05
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.20
Consensus pattern (136 bp):
TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
AGTTGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAGGTGCCA
CGGAGT
Found at i:2075204 original size:66 final size:68
Alignment explanation
Indices: 2074976--2075832 Score: 974
Period size: 66 Copynumber: 12.6 Consensus size: 68
2074966 CACCGACTTG
* * * * * *
2074976 TGTGGGCTTTTGAAAAGGAGAAAGATGTCACGAAGTTGTGGACTTA-AAAAGGAAAAAAGATGTC
1 TGTGGGC-TTTGAAAAGGA-AAAGGTGCCACGGAGTTGTGGGCTTAGAAAA-G-AAAAAGGTGCC
*
2075040 ACGAAGT
62 ACGGAGT
* * * * * *
2075047 TGTGGAC-TT-AAAAGGAAAATGTGCCACGGAGTGGTGGGCTTTGGAAAGGAAAAGGTGCCACGG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
2075110 AGT
66 AGT
* * *
2075113 TGTGGGCTTT-AAAAAGAAAAGGTGCCATGGAGTGGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
2075177 AGT
66 AGT
* * * *
2075180 TGTGGGC-TT-AAAAGGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGGAAAAGGTGCCACAG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
2075243 AGT
66 AGT
* * * * * *
2075246 TGTAGGCTTTAAAAAAGAAAACGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
2075311 AGT
66 AGT
* * * * *
2075314 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCATGAAGTTATGGGCTTTGAAAAGAAAAAGGTGCCA
1 TGTGGGCTTT---GAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCA
*
2075379 CGAAGT
63 CGGAGT
* * * *
2075385 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
2075450 AGT
66 AGT
*
2075453 TGTGGGCTTTG--AA-GAAAAGATGCCACGGAGTTGTGGGCTTTA-AAAAG-AAAAGGTGCCACG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGC-TTAGAAAAGAAAAAGGTGCCACG
2075513 GAGT
65 GAGT
* * * * * *
2075517 GGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTTTGGGCTT-GAAAGGAAAAA-GTGCCATGG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
2075580 AGT
66 AGT
* * *
2075583 GGTGGGCTTTGAAAAGGAAAAGGTGCCACAGAGTTGTGGGCTTTA-AAAAG-AAAATGTGCCACG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGC-TTAGAAAAGAAAAAGGTGCCACG
2075646 GAGT
65 GAGT
* * * *
2075650 GGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTA-AAAGGAAAAA-GTGCCACGG
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
2075713 AGT
66 AGT
* *
2075716 GGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTGCCA
1 TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGC-TT--AGAAAAGAAAAAGGTGCCA
2075781 CGGAGT
63 CGGAGT
* *
2075787 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTT
1 TGTGGGCTTT---GAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTT
2075833 TGAAGAAAAG
Statistics
Matches: 691, Mismatches: 70, Indels: 48
0.85 0.09 0.06
Matches are distributed among these distances:
64 26 0.04
65 27 0.04
66 203 0.29
67 169 0.24
68 136 0.20
69 3 0.00
70 9 0.01
71 86 0.12
73 2 0.00
74 30 0.04
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.20
Consensus pattern (68 bp):
TGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAGAAAAGAAAAAGGTGCCACGG
AGT
Found at i:2075875 original size:30 final size:30
Alignment explanation
Indices: 2075807--2075960 Score: 161
Period size: 31 Copynumber: 5.1 Consensus size: 30
2075797 GAAGAAAAGA
* * *
2075807 AAAAGGTGCCAC-GAAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTG-AGTCGTGGACTTTG-AG
*
2075838 AAAAGATGCCACTGAGTCGCGGACTTT-AG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
2075867 AAAGAGATGCCACTGAGTCGTGGACTTTGAAA
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-AG
* * *
2075899 AAAAGCTGCCACTAAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
2075929 ACAAA-ATGCCACTGAGTCGTGGACTTTAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTGAG
2075959 AA
1 AA
2075961 GGTATTTGAA
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
29 6 0.06
30 46 0.44
31 47 0.45
32 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.22
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:2075903 original size:61 final size:61
Alignment explanation
Indices: 2075825--2075955 Score: 176
Period size: 61 Copynumber: 2.1 Consensus size: 61
2075815 CCACGAAGTT
* * *
2075825 GTGGGCTTTGAAGAAAAGATGCCACTGAGTCGCGGACTTT-AGA-AAGAGATGCCACTGAGTC
1 GTGGACTTTGAAAAAAAGATGCCACTAAGTCGCGGACTTTGAGACAA-A-ATGCCACTGAGTC
* * *
2075886 GTGGACTTTGAAAAAAAGCTGCCACTAAGTCGTGGACTTTGGGACAAAATGCCACTGAGTC
1 GTGGACTTTGAAAAAAAGATGCCACTAAGTCGCGGACTTTGAGACAAAATGCCACTGAGTC
2075947 GTGGACTTT
1 GTGGACTTT
2075956 AAGAAGGTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 57 0.92
62 3 0.05
63 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (61 bp):
GTGGACTTTGAAAAAAAGATGCCACTAAGTCGCGGACTTTGAGACAAAATGCCACTGAGTC
Found at i:2075917 original size:31 final size:31
Alignment explanation
Indices: 2075435--2075955 Score: 167
Period size: 34 Copynumber: 15.9 Consensus size: 31
2075425 CTTTGAAAAG
* * * *
2075435 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAA
* * * * *
2075466 GAAAAGATGCCACGGAGTTGTGGGCTTTAAAA
1 AAAAAGATGCCACTGAGTCGTGGACTTT-GAA
* * *
2075498 AGAAAAGGTGCCACGGAGTGGTGGACTTTGAAAA
1 A-AAAAGATGCCACTGAGTCGTGGACTTTG--AA
* * ** *
2075532 GAAAAAGGTGCCACGGAGTTTTGGGC-TTGAA
1 -AAAAAGATGCCACTGAGTCGTGGACTTTGAA
* *
2075563 AGGAAAA-AGTGCCA-TGGAGTGGTGGGCTTTGAAA
1 A--AAAAGA-TGCCACT-GAGTCGTGGACTTTG-AA
* * * *
2075597 AGGAAAAGGTGCCACAGAGTTGTGGGCTTT-AA
1 A--AAAAGATGCCACTGAGTCGTGGACTTTGAA
* * * *
2075629 AAAGAAAATGTGCCACGGAGTGGTGGGCTTTGAAAA
1 AAA-AAGA--TGCCACTGAGTCGTGGACTTTG--AA
* * * **
2075665 GAAAAAGATGCCACGGAGTTGTGGGCTTAAAA
1 -AAAAAGATGCCACTGAGTCGTGGACTTTGAA
* * *
2075697 GGAAAAAG-TGCCACGGAGTGGTGGGCTTTGAAAA
1 --AAAAAGATGCCACTGAGTCGTGGACTTTG--AA
* * * *
2075731 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAA
1 -AAAAAGATGCCACTGAGTCGTGGACTTT---G--AA
* * * *
2075768 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAA
1 -AAAAAGATGCCACTGAGTCGTGGACTTT---G--AA
* * *
2075805 GAAAAAGGTGCCAC-GAAGTTGTGGGCTTTGAA
1 -AAAAAGATGCCACTG-AGTCGTGGACTTTGAA
* * *
2075837 GAAAAGATGCCACTGAGTCGCGGACTTT-AG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAA
*
2075867 AAAGAGATGCCACTGAGTCGTGGACTTTGAA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAA
* * **
2075898 AAAAAGCTGCCACTAAGTCGTGGACTTTGGG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAA
*
2075929 ACAAA-ATGCCACTGAGTCGTGGACTTT
1 AAAAAGATGCCACTGAGTCGTGGACTTT
2075956 AAGAAGGTAT
Statistics
Matches: 412, Mismatches: 48, Indels: 61
0.79 0.09 0.12
Matches are distributed among these distances:
30 49 0.12
31 82 0.20
32 47 0.11
33 63 0.15
34 92 0.22
35 1 0.00
36 6 0.01
37 72 0.17
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (31 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAA
Found at i:2077271 original size:14 final size:13
Alignment explanation
Indices: 2077252--2077291 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
2077242 CCTTTGCACC
*
2077252 TTTTTTTCTGTGT
1 TTTTTTTTTGTGT
2077265 TTTTTTTTTGT-T
1 TTTTTTTTTGTGT
*
2077277 TTGTTTTTTGTGT
1 TTTTTTTTTGTGT
2077290 TT
1 TT
2077292 ACTTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:2083422 original size:18 final size:19
Alignment explanation
Indices: 2083376--2083425 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
2083366 GAGATATTTT
2083376 TTTTTAAAA-GGGAAGAAA
1 TTTTTAAAAGGGGAAGAAA
*
2083394 -TTTTATTAAGGGGAA-AAA
1 TTTTTA-AAAGGGGAAGAAA
2083412 TTTTTAAAAGGGGA
1 TTTTTAAAAGGGGA
2083426 GTTATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 5 0.19
18 12 0.44
19 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (19 bp):
TTTTTAAAAGGGGAAGAAA
Found at i:2084041 original size:32 final size:33
Alignment explanation
Indices: 2083981--2084043 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
2083971 CCCTAGAAAG
*
2083981 TATCGATACATATTACTTTGTATCGATACACTA
1 TATCGATACATATTACTTGGTATCGATACACTA
2084014 TATCGATACATGA-T-CTTGGTATCGATACAC
1 TATCGATACAT-ATTACTTGGTATCGATACAC
2084044 AGCGAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (33 bp):
TATCGATACATATTACTTGGTATCGATACACTA
Found at i:2084581 original size:24 final size:23
Alignment explanation
Indices: 2084534--2084578 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2084524 GCATTCAACC
*
2084534 TTGGGTTATAATCTCTTAAGAAT
1 TTGGGGTATAATCTCTTAAGAAT
2084557 TTGGGGTATAAT-TCTTGAAGAA
1 TTGGGGTATAATCTCTT-AAGAA
2084579 ATTGAGAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (23 bp):
TTGGGGTATAATCTCTTAAGAAT
Found at i:2087101 original size:20 final size:20
Alignment explanation
Indices: 2087065--2087102 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2087055 AACCAACAGA
*
2087065 TAATTTCTTTTTTTTTCTTT
1 TAATTTCTTTTTCTTTCTTT
2087085 TAATTT-TTTTCTCTTTCT
1 TAATTTCTTTT-TCTTTCT
2087103 AAATAACCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TAATTTCTTTTTCTTTCTTT
Found at i:2100081 original size:4 final size:4
Alignment explanation
Indices: 2100072--2100125 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
2100062 AATCTGAAAA
* * * * * *
2100072 ATAC ATAC ATAT ATAC ATAC ATAC ATGC ATGC ATAC ATAA AGAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2100120 ATAC AT
1 ATAC AT
2100126 GTGTATTGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2100799 original size:2 final size:2
Alignment explanation
Indices: 2100794--2100833 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2100784 AAAGAAAAGA
2100794 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2100834 TTTAATTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2101076 original size:6 final size:6
Alignment explanation
Indices: 2101065--2101089 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2101055 GAACGCAAAG
2101065 GAGTGA GAGTGA GAGTGA GAGTGA G
1 GAGTGA GAGTGA GAGTGA GAGTGA G
2101090 TGAGAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GAGTGA
Found at i:2101206 original size:16 final size:15
Alignment explanation
Indices: 2101178--2101207 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2101168 CTTTTTGGGT
2101178 TTTTATTTTTTTATA
1 TTTTATTTTTTTATA
2101193 TTTTATATTTTTTAT
1 TTTTAT-TTTTTTAT
2101208 TAAGGATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTTTTTATA
Found at i:2101247 original size:16 final size:17
Alignment explanation
Indices: 2101226--2101308 Score: 72
Period size: 16 Copynumber: 5.2 Consensus size: 17
2101216 AGTCATTGGG
2101226 TAAATTGATTTT-GA-TT
1 TAAATT-ATTTTAGATTT
2101242 TAAATT-TTTTAGATTT
1 TAAATTATTTTAGATTT
2101258 TAAATTATTTTAG--TT
1 TAAATTATTTTAGATTT
* *
2101273 TAAAATATTTTA-AATT
1 TAAATTATTTTAGATTT
* *
2101289 TAAA-TAATTTAAATTT
1 TAAATTATTTTAGATTT
2101305 TAAA
1 TAAA
2101309 CTTAAATTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
14 4 0.07
15 21 0.36
16 27 0.47
17 6 0.10
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TAAATTATTTTAGATTT
Found at i:2101274 original size:15 final size:16
Alignment explanation
Indices: 2101226--2101298 Score: 80
Period size: 16 Copynumber: 4.6 Consensus size: 16
2101216 AGTCATTGGG
2101226 TAAATTGATTTT-GATT
1 TAAATT-ATTTTAGATT
2101242 TAAATT-TTTTAGATTT
1 TAAATTATTTTAGA-TT
2101258 TAAATTATTTTAG-TT
1 TAAATTATTTTAGATT
* *
2101273 TAAAATATTTTAAATT
1 TAAATTATTTTAGATT
*
2101289 TAAATAATTT
1 TAAATTATTT
2101299 AAATTTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.08
15 15 0.31
16 24 0.49
17 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TAAATTATTTTAGATT
Found at i:2101275 original size:31 final size:31
Alignment explanation
Indices: 2101226--2101298 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
2101216 AGTCATTGGG
* *
2101226 TAAATTGATTTTGATTT-AAATTTTTTAGATTT
1 TAAATT-ATTTTGATTTAAAATATTTTA-AATT
2101258 TAAATTATTTT-AGTTTAAAATATTTTAAATT
1 TAAATTATTTTGA-TTTAAAATATTTTAAATT
*
2101289 TAAATAATTT
1 TAAATTATTT
2101299 AAATTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 20 0.56
32 15 0.42
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (31 bp):
TAAATTATTTTGATTTAAAATATTTTAAATT
Found at i:2101299 original size:15 final size:15
Alignment explanation
Indices: 2101256--2101304 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
2101246 TTTTTTAGAT
* * *
2101256 TTTAAATTATTTTAG
1 TTTAAATAATTTAAA
*
2101271 TTTAAAATATTTTAAA
1 TTT-AAATAATTTAAA
2101287 TTTAAATAATTTAAA
1 TTTAAATAATTTAAA
2101302 TTT
1 TTT
2101305 TAAACTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TTTAAATAATTTAAA
Found at i:2101304 original size:22 final size:22
Alignment explanation
Indices: 2101279--2101325 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2101269 AGTTTAAAAT
*
2101279 ATTTTAAATTTAAATAATTTAA
1 ATTTTAAACTTAAATAATTTAA
*
2101301 ATTTTAAACTTAAATTATTTAA
1 ATTTTAAACTTAAATAATTTAA
2101323 ATT
1 ATT
2101326 AAATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTAAACTTAAATAATTTAA
Found at i:2101329 original size:14 final size:15
Alignment explanation
Indices: 2101303--2101334 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2101293 TAATTTAAAT
2101303 TTTAAACTTAAATTA
1 TTTAAACTTAAATTA
2101318 TTTAAA-TTAAATTA
1 TTTAAACTTAAATTA
2101332 TTT
1 TTT
2101335 TATATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAACTTAAATTA
Found at i:2101336 original size:15 final size:16
Alignment explanation
Indices: 2101301--2101336 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2101291 AATAATTTAA
2101301 ATTTTAAACTTAAATT
1 ATTTTAAACTTAAATT
2101317 A-TTTAAA-TTAAATT
1 ATTTTAAACTTAAATT
2101331 ATTTTA
1 ATTTTA
2101337 TATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.42
15 10 0.53
16 1 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAAACTTAAATT
Found at i:2101342 original size:52 final size:50
Alignment explanation
Indices: 2101257--2101379 Score: 129
Period size: 52 Copynumber: 2.4 Consensus size: 50
2101247 TTTTTAGATT
**
2101257 TTAAATTATTTTAGTTTAAAATATTTTAAATTTAAATAATTTAAATTTTAAA
1 TTAAATTA-TTTAAATTAAAATATTTTAAATTTAAATAA-TTAAATTTTAAA
* * * * *
2101309 CTTAAATTATTTAAATTAAATTATTTTATATTTAATTTATTAATTTTTAAA
1 -TTAAATTATTTAAATTAAAATATTTTAAATTTAAATAATTAAATTTTAAA
*
2101360 ATAAATTAAATTTAAATTAA
1 TTAAATT--ATTTAAATTAA
2101380 TTTAAATAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
50 6 0.10
51 11 0.18
52 35 0.58
53 8 0.13
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (50 bp):
TTAAATTATTTAAATTAAAATATTTTAAATTTAAATAATTAAATTTTAAA
Found at i:2101380 original size:36 final size:37
Alignment explanation
Indices: 2101313--2101383 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
2101303 TTTAAACTTA
* * *
2101313 AATTATTTAAATTAAATTATTTTATATTTAATTTATT
1 AATTATTTAAAATAAATTAATTTATAATTAATTTATT
2101350 AATT-TTTAAAATAAATTAAATTTA-AATTAATTTA
1 AATTATTTAAAATAAATT-AATTTATAATTAATTTA
2101384 AATAATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 21 0.70
37 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (37 bp):
AATTATTTAAAATAAATTAATTTATAATTAATTTATT
Found at i:2104979 original size:12 final size:12
Alignment explanation
Indices: 2104947--2104985 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2104937 TCGTGATAGT
2104947 AATGTGGCTGGAA
1 AATGTGGCT-GAA
*
2104960 AATATGGCTGAA
1 AATGTGGCTGAA
*
2104972 AGTGTGGCTGAA
1 AATGTGGCTGAA
2104984 AA
1 AA
2104986 GAGGATCCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.36, C:0.08, G:0.33, T:0.23
Consensus pattern (12 bp):
AATGTGGCTGAA
Found at i:2105391 original size:20 final size:20
Alignment explanation
Indices: 2105366--2105482 Score: 135
Period size: 20 Copynumber: 5.7 Consensus size: 20
2105356 TTTTACCTAG
*
2105366 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAAAA
* *
2105386 ATGTATCAATACATCTAGGTAAA
1 ATGTATCGATACAT-T--GAAAA
2105409 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* * ***
2105429 ATGTATCGCTACATTCATCC
1 ATGTATCGATACATTGAAAA
2105449 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2105469 ATGTATCGATACAT
1 ATGTATCGATACAT
2105483 CTGGGTAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
20 61 0.77
21 1 0.01
22 1 0.01
23 16 0.20
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2106634 original size:29 final size:29
Alignment explanation
Indices: 2106604--2106682 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 29
2106594 AATAACCTTA
* *
2106604 AAATGCATGAAATTGCATAAATTG-TCCT
1 AAATGCATGAAATTGCATAAAATGATCAT
2106632 AAAT-CATGACAAATTGC-TAAAATGATCAT
1 AAATGCATG--AAATTGCATAAAATGATCAT
2106661 GAAATGCATGAAA-TGACATAAA
1 -AAATGCATGAAATTG-CATAAA
2106683 GGTCCCTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
27 4 0.10
28 12 0.29
29 14 0.33
30 8 0.19
31 4 0.10
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.27
Consensus pattern (29 bp):
AAATGCATGAAATTGCATAAAATGATCAT
Found at i:2108879 original size:2 final size:2
Alignment explanation
Indices: 2108874--2108910 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2108864 TGTTTGTGTG
2108874 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2108911 TTCTCTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2109887 original size:22 final size:20
Alignment explanation
Indices: 2109842--2109887 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2109832 TTGTTAGATT
* *
2109842 AATCTTGCTTAAAATATCTT
1 AATCTTGATTAAAATATCTA
2109862 AATCTTGATTAAATATTATCTA
1 AATCTTGATTAAA-A-TATCTA
2109884 AATC
1 AATC
2109888 AAATTTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 1 0.05
22 9 0.41
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (20 bp):
AATCTTGATTAAAATATCTA
Found at i:2110260 original size:34 final size:32
Alignment explanation
Indices: 2110178--2110273 Score: 133
Period size: 34 Copynumber: 3.0 Consensus size: 32
2110168 CCTTACAATA
*
2110178 CTATCTTTTGAC-GGCTAAGATAGAACCTC-T
1 CTATCTTTTCACAGGCTAAGATAGAACCTCTT
* *
2110208 CTATATTTTCACAAGCTAAGATAGAACCTCTT
1 CTATCTTTTCACAGGCTAAGATAGAACCTCTT
2110240 CCCTATCTTTTCACAGGCTAAGATAGAACCTCTT
1 --CTATCTTTTCACAGGCTAAGATAGAACCTCTT
2110274 AATCACTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
30 10 0.18
31 16 0.28
32 1 0.02
34 30 0.53
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (32 bp):
CTATCTTTTCACAGGCTAAGATAGAACCTCTT
Found at i:2110788 original size:52 final size:52
Alignment explanation
Indices: 2110692--2110799 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 52
2110682 ATGCATTTGA
* * *
2110692 AATTCTAGCCGTTGGGCTCAATGTATCGATACAATTCATAATGTAGCGATAT
1 AATTATAGCCGTTGGGCTCAATGTATCGATACAATTCACAATGTAGCGATAC
* * ** * *
2110744 AATTATAGTCGTTGGGCTTAATGTATCGATACAATTTGCCATGTATCGATAC
1 AATTATAGCCGTTGGGCTCAATGTATCGATACAATTCACAATGTAGCGATAC
2110796 AATT
1 AATT
2110800 CAATTAGGGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTATAGCCGTTGGGCTCAATGTATCGATACAATTCACAATGTAGCGATAC
Found at i:2111362 original size:13 final size:15
Alignment explanation
Indices: 2111332--2111365 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
2111322 TTTTATCCAT
2111332 TTTTTACTTTATTTA
1 TTTTTACTTTATTTA
2111347 TTTTT-CTTTA-TTA
1 TTTTTACTTTATTTA
2111360 TTTTTA
1 TTTTTA
2111366 ATTTTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.44
14 5 0.28
15 5 0.28
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTACTTTATTTA
Found at i:2116519 original size:49 final size:49
Alignment explanation
Indices: 2116466--2116640 Score: 172
Period size: 49 Copynumber: 3.6 Consensus size: 49
2116456 TAGTTTCCAC
* * *
2116466 AAAAAGTACAAAAATAATCTTAAAAAACTCAATTTTGGTCAATTTTGAT
1 AAAAAGTACAAAACTAACCCTAAAAAACTCAATTTTGGTCAATTTTGAT
* * * * *
2116515 AAAAAGTACAAAACCAACCCTAAAAAGCTTC-GTTTTGGTTATTTTTGAT
1 AAAAAGTACAAAACTAACCCTAAAAAAC-TCAATTTTGGTCAATTTTGAT
* * * * * *
2116564 TAAAAGTACAAAACTAACCCTAAAAGATTCAAATATGGTCAATTTTTAT
1 AAAAAGTACAAAACTAACCCTAAAAAACTCAATTTTGGTCAATTTTGAT
* ** *
2116613 GAGGAGTACAAAACTAACCCCAAAAAAC
1 AAAAAGTACAAAACTAACCCTAAAAAAC
2116641 ACTACAATGT
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
48 2 0.02
49 95 0.96
50 2 0.02
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (49 bp):
AAAAAGTACAAAACTAACCCTAAAAAACTCAATTTTGGTCAATTTTGAT
Found at i:2116784 original size:58 final size:59
Alignment explanation
Indices: 2116662--2116804 Score: 148
Period size: 59 Copynumber: 2.4 Consensus size: 59
2116652 TGGAAAACTA
* * *
2116662 TAAATGGTCCCTAGATTATGAAAAATAACTTAATTGACCCTAAAATATCTAGAAATTGC
1 TAAATGGTCCCTAAACTATGAAAAATAACATAATTGACCCTAAAATATCTAGAAATTGC
* * * *
2116721 TAAATGGTTCCTAAACTATGGAAAATAACATAGA-TGA-CCTAAAATGTGT-GAAAATTGC
1 TAAATGGTCCCTAAACTATGAAAAATAACATA-ATTGACCCTAAAATATCTAG-AAATTGC
* *
2116779 TAAATGATCCTTAATACATATGAAAA
1 TAAATGGTCCCTAA-AC-TATGAAAA
2116805 CATTTTGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
57 1 0.01
58 28 0.41
59 32 0.46
60 8 0.12
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (59 bp):
TAAATGGTCCCTAAACTATGAAAAATAACATAATTGACCCTAAAATATCTAGAAATTGC
Found at i:2119713 original size:16 final size:16
Alignment explanation
Indices: 2119671--2119714 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2119661 CTACATTTTG
2119671 TTTTTTCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
***
2119687 TTTAGGCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
*
2119703 TTTTTTATTTTT
1 TTTTTTCTTTTT
2119715 TTAGTTACTA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:2120302 original size:21 final size:22
Alignment explanation
Indices: 2120244--2120305 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
2120234 TACATTACCA
*
2120244 TAAAGTATTGGTACTTTATGGC
1 TAAAGTATTGATACTTTATGGC
* * *
2120266 TTAAGGTCTCGATACTTTATGGC
1 -TAAAGTATTGATACTTTATGGC
2120289 -AAAGTATTGATACTTTA
1 TAAAGTATTGATACTTTA
2120306 ACACCCATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 14 0.44
23 18 0.56
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (22 bp):
TAAAGTATTGATACTTTATGGC
Found at i:2121491 original size:22 final size:22
Alignment explanation
Indices: 2121466--2121532 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
2121456 ATTATTCACA
2121466 ATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
**
2121488 ATGTATCGATACTATTCACA---
1 ATGTATCGATAC-ATGAACAGTG
2121508 ATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
2121530 ATG
1 ATG
2121533 AATAGTGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.14
20 12 0.32
22 15 0.41
23 5 0.14
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (22 bp):
ATGTATCGATACATGAACAGTG
Found at i:2121493 original size:42 final size:42
Alignment explanation
Indices: 2121446--2121532 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
2121436 GTTGGACTCA
* *
2121446 ATGTATTGATATTATTCACAATGTATCGATACATGAACAGTG
1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG
2121488 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG
1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG
2121530 ATG
1 ATG
2121533 AATAGTGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG
Found at i:2121513 original size:20 final size:20
Alignment explanation
Indices: 2121444--2121519 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
2121434 CCGTTGGACT
* *
2121444 CAATGTATTGATATTATTCA
1 CAATGTATCGATACTATTCA
**
2121464 CAATGTATCGATAC-ATGAA
1 CAATGTATCGATACTATTCA
2121483 CAGTGATGTATCGATACTATTCA
1 CA---ATGTATCGATACTATTCA
2121506 CAATGTATCGATAC
1 CAATGTATCGATAC
2121520 ATGAACAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.11
20 24 0.52
22 12 0.26
23 5 0.11
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
CAATGTATCGATACTATTCA
Found at i:2121539 original size:10 final size:10
Alignment explanation
Indices: 2121520--2121580 Score: 104
Period size: 10 Copynumber: 6.1 Consensus size: 10
2121510 GTATCGATAC
2121520 ATGAACAGTG
1 ATGAACAGTG
*
2121530 ATGAATAGTG
1 ATGAACAGTG
2121540 ATGAACAGTG
1 ATGAACAGTG
2121550 ATGAACAGTG
1 ATGAACAGTG
2121560 ATGAACAGTG
1 ATGAACAGTG
*
2121570 ATGAATAGTG
1 ATGAACAGTG
2121580 A
1 A
2121581 AAAATGAGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 48 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:2121627 original size:13 final size:13
Alignment explanation
Indices: 2121609--2121633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2121599 TACCAGTTTT
2121609 ATGTATCGATACA
1 ATGTATCGATACA
2121622 ATGTATCGATAC
1 ATGTATCGATAC
2121634 TAAGCAAAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2122812 original size:21 final size:20
Alignment explanation
Indices: 2122787--2122833 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
2122777 CATGTAGGAA
2122787 AAAGCAAGACA-AACATTCATG
1 AAAGCAA-ACATAA-ATTCATG
*
2122808 AAAGCAAACATAATTTCATG
1 AAAGCAAACATAAATTCATG
2122828 AAAGCA
1 AAAGCA
2122834 TGAATTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (20 bp):
AAAGCAAACATAAATTCATG
Found at i:2125091 original size:21 final size:21
Alignment explanation
Indices: 2125066--2125120 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2125056 CACTTGTAAC
*
2125066 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
2125087 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
2125108 TCACTTAATTTCT
1 TCATTTATTTTCT
2125121 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:2125121 original size:21 final size:21
Alignment explanation
Indices: 2125081--2125124 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2125071 TCTTTTCTCC
* *
2125081 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
2125102 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
2125123 TC
1 TC
2125125 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:2126174 original size:53 final size:53
Alignment explanation
Indices: 2126091--2126227 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
2126081 AGATTGCATA
*
2126091 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
2126145 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
2126198 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
2126228 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:2126270 original size:10 final size:10
Alignment explanation
Indices: 2126251--2126281 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2126241 AATCTCATTT
2126251 TCACTGTTCA
1 TCACTGTTCA
*
2126261 TCACTATTCA
1 TCACTGTTCA
2126271 TCACTGTTCA
1 TCACTGTTCA
2126281 T
1 T
2126282 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:2126316 original size:35 final size:32
Alignment explanation
Indices: 2126259--2126364 Score: 115
Period size: 34 Copynumber: 3.2 Consensus size: 32
2126249 TTTCACTGTT
* *
2126259 CATCACTATTCATCACTGTTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
*
2126291 CATCACT-TTCACGTATCACTATTCATGTATCGTTAAA
1 CATCACTGTT--C--ATCACTATTCATGTATCG--ATA
*
2126328 AATCACTGTTCATCACTATTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
2126360 CATCA
1 CATCA
2126365 TAAATAGTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
31 2 0.03
32 13 0.21
33 1 0.02
34 18 0.29
35 17 0.27
36 1 0.02
37 8 0.13
38 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (32 bp):
CATCACTGTTCATCACTATTCATGTATCGATA
Found at i:2130080 original size:13 final size:13
Alignment explanation
Indices: 2130062--2130086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2130052 TTTTCAAGAT
2130062 TGTATCGATACAA
1 TGTATCGATACAA
2130075 TGTATCGATACA
1 TGTATCGATACA
2130087 TTACTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2131818 original size:21 final size:20
Alignment explanation
Indices: 2131789--2131845 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
2131779 AAAACCCTGA
**
2131789 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
2131809 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
2131830 ATAGTATCGATACACA
1 AAAGTATCGATACACA
2131846 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:2131916 original size:53 final size:53
Alignment explanation
Indices: 2131833--2131969 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
2131823 AGATTGCATA
*
2131833 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
2131887 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
2131940 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
2131970 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:2132012 original size:10 final size:10
Alignment explanation
Indices: 2131993--2132023 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2131983 AATCTCATTT
2131993 TCACTGTTCA
1 TCACTGTTCA
*
2132003 TCACTATTCA
1 TCACTGTTCA
2132013 TCACTGTTCA
1 TCACTGTTCA
2132023 T
1 T
2132024 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:2132058 original size:35 final size:32
Alignment explanation
Indices: 2132001--2132106 Score: 106
Period size: 34 Copynumber: 3.2 Consensus size: 32
2131991 TTTCACTGTT
* *
2132001 CATCACTATTCATCACTGTTCATGTATCGATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
*
2132033 CATCACT-TTCACGTATCACTATTCATGTATCGTTCAA
1 CATCACTGTT--C--ATCACTATTCATGTATCGAT--A
* *
2132070 AATCACTGTTCATCACTATTCATGTATCAATA
1 CATCACTGTTCATCACTATTCATGTATCGATA
2132102 CATCA
1 CATCA
2132107 TAAATAGTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
31 2 0.03
32 12 0.20
33 1 0.02
34 18 0.30
35 18 0.30
36 1 0.02
37 7 0.11
38 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (32 bp):
CATCACTGTTCATCACTATTCATGTATCGATA
Found at i:2137568 original size:13 final size:13
Alignment explanation
Indices: 2137550--2137601 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
2137540 AGCTTCGTAG
2137550 CGATACATTGTAT
1 CGATACATTGTAT
2137563 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2137582 CGATACATTGTAT
1 CGATACATTGTAT
2137595 CGATACA
1 CGATACA
2137602 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2139377 original size:49 final size:51
Alignment explanation
Indices: 2139317--2139434 Score: 159
Period size: 49 Copynumber: 2.3 Consensus size: 51
2139307 TTTGGAAAGA
* * *
2139317 AAATGTATCGATACATTTTTCATTGTATTGAT-ATTCTAGG-TTTTGACCC
1 AAATGTATCGATACATTATTCAGTGTATTGATAATTCTAGGTTTTTCACCC
* *
2139366 AGATGTATCGATACATTATTCAGTGTATTGATACATTCTAGGTTTTTCACTC
1 AAATGTATCGATACATTATTCAGTGTATTGATA-ATTCTAGGTTTTTCACCC
*
2139418 AAATGTATTGATACATT
1 AAATGTATCGATACATT
2139435 CTTTGATGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 29 0.49
51 8 0.14
52 22 0.37
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (51 bp):
AAATGTATCGATACATTATTCAGTGTATTGATAATTCTAGGTTTTTCACCC
Found at i:2139445 original size:52 final size:51
Alignment explanation
Indices: 2139317--2139453 Score: 163
Period size: 52 Copynumber: 2.7 Consensus size: 51
2139307 TTTGGAAAGA
* *
2139317 AAATGTATCGATACATTTTTCATTGTATTGAT--ATTCTAGGTTTTGACCC
1 AAATGTATCGATACATTTTTCAGTGTATTGATACATTCTAGGTTTTCACCC
* * *
2139366 AGATGTATCGATACATTATTCAGTGTATTGATACATTCTAGGTTTTTCACTC
1 AAATGTATCGATACATTTTTCAGTGTATTGATACATTCTAGG-TTTTCACCC
* * *
2139418 AAATGTATTGATACATTCTTTGA-TGTATCGATACAT
1 AAATGTATCGATACATT-TTTCAGTGTATTGATACAT
2139454 ACACGCTATT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 29 0.39
51 8 0.11
52 34 0.46
53 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (51 bp):
AAATGTATCGATACATTTTTCAGTGTATTGATACATTCTAGGTTTTCACCC
Found at i:2141898 original size:20 final size:20
Alignment explanation
Indices: 2141833--2141909 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
2141823 GCCAAGGAAA
* * *
2141833 TGTATTAATACATTACTAAA
1 TGTATCAATACATTTCTAAT
*
2141853 TGTATCAATACATTTTTATAAT
1 TGTATCAATACA--TTTCTAAT
*
2141875 TGTATCAATACATTTCTCAT
1 TGTATCAATACATTTCTAAT
*
2141895 TGTATCGATACATTT
1 TGTATCAATACATTT
2141910 TGGGTTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 31 0.65
22 17 0.35
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (20 bp):
TGTATCAATACATTTCTAAT
Found at i:2144824 original size:21 final size:20
Alignment explanation
Indices: 2144800--2144845 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2144790 TGCCTAGACT
2144800 AAAATGATCGGTGGCGACTCC
1 AAAAT-ATCGGTGGCGACTCC
* * *
2144821 AAAATTTTGGTGGTGACTCC
1 AAAATATCGGTGGCGACTCC
2144841 AAAAT
1 AAAAT
2144846 TTCAGTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
AAAATATCGGTGGCGACTCC
Found at i:2144838 original size:20 final size:20
Alignment explanation
Indices: 2144809--2144847 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2144799 TAAAATGATC
2144809 GGTGGCGACTCCAAAATTTT
1 GGTGGCGACTCCAAAATTTT
*
2144829 GGTGGTGACTCCAAAATTT
1 GGTGGCGACTCCAAAATTT
2144848 CAGTTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
GGTGGCGACTCCAAAATTTT
Found at i:2145798 original size:79 final size:78
Alignment explanation
Indices: 2145369--2145827 Score: 401
Period size: 79 Copynumber: 5.8 Consensus size: 78
2145359 TCACCATCGA
* * *
2145369 GGATACTCTAACCCCG-CTTTACTTCCAAAATATTGAATTTTT-ACCGA-CGGAGATACTCCAAC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAATA-TCAATTTTTCACC-ATCGG-GATACTCCAAC
* * * *
2145431 CCCATTATTTCCGAAG
63 CCAATCATTTTCGAGG
* * * * * * * *
2145447 GGATATTCCAA-CCCATTTTTATTTCCCAAACATCAAAACTTTT-ATC-TCGGGGACACTCCAAC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAATATC--AATTTTTCACCATC-GGGATACTCCAAC
*
2145509 CCCATCATTTAT-GAGG
63 CCAATCATTT-TCGAGG
* * *
2145525 GGATACTCCAATCCCGTTTTTACTTCCAAAAGGATTGAATTTTTCACCATCGAGGATACTCCAAC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAA-TA-TCAATTTTTCACCATCG-GGATACTCCAAC
* *
2145590 CCAATCATCTCCGAGG
63 CCAATCATTTTCGAGG
* * **
2145606 GGATACTCCAACCTCGTTTTTACTTCCAAAATCTTGATTTTTCACCATCGAGGATACTCCAACCC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAATATCAATTTTTCACCATCG-GGATACTCCAACCC
* * *
2145671 CATCATTTTTGAGA
65 AATCATTTTCGAGG
* * * *
2145685 GGATATTCGAACCCCGTTTTTACTTCCAAAATATCAATTTTTCACCAGTTGGGATACTCTAACCC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAATATCAATTTTTCACCA-TCGGGATACTCCAACCC
2145750 AATCATTTTCGAGG
65 AATCATTTTCGAGG
* * * * * * * *
2145764 GGATACTCTAACCCCCTTTTTATTTCCAAAATATCAAATTTTCATCTTGGGGATACTCTAACCC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAATATCAATTTTTCACCATCGGGATACTCCAACCC
2145828 TAATTTTCAC
Statistics
Matches: 311, Mismatches: 56, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
77 4 0.01
78 70 0.23
79 176 0.57
80 6 0.02
81 55 0.18
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTTTTACTTCCAAAATATCAATTTTTCACCATCGGGATACTCCAACCCA
ATCATTTTCGAGG
Found at i:2145806 original size:158 final size:158
Alignment explanation
Indices: 2145367--2145807 Score: 491
Period size: 158 Copynumber: 2.8 Consensus size: 158
2145357 TTTCACCATC
* * *
2145367 GAGGATACTCTAACCCCG-CTTTACTTCCAAAATATTGAATTTTT-ACC-GACGGAGATACTCCA
1 GAGGATACTCCAACCCCGTTTTTACTTCCAAAATATTGAATTTTTCACCAGTCGG-GATACTCCA
* * * * * * *
2145429 ACCCCATTATTTCCGAAGGGATATTCCAA-CCCATTTTTATTTCCCAAACATCAAAACTTTT-AT
65 ACCCAATCATTTCCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATC-AAA-TTTTCAC
*
2145492 CTCGGGGACACTCCAACCCCATCATTTATGA
128 CTCGAGGACACTCCAACCCCATCATTTATGA
* * *
2145523 GGGGATACTCCAATCCCGTTTTTACTTCCAAAAGGATTGAATTTTTCACCA-TCGAGGATACTCC
1 GAGGATACTCCAACCCCGTTTTTACTTCCAAAA-TATTGAATTTTTCACCAGTCG-GGATACTCC
* * * * * ** *
2145587 AACCCAATCATCTCCGAGGGGATACTCCAACCTCGTTTTTACTTCCAAAATCTTGATTTTTCACC
64 AACCCAATCATTTCCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAAATTTTCACC
* *
2145652 ATCGAGGATACTCCAACCCCATCATTTTTGA
129 -TCGAGGACACTCCAACCCCATCATTTATGA
* * * * *
2145683 GAGGATATTCGAACCCCGTTTTTACTTCCAAAATA-TCAATTTTTCACCAGTTGGGATACTCTAA
1 GAGGATACTCCAACCCCGTTTTTACTTCCAAAATATTGAATTTTTCACCAGTCGGGATACTCCAA
* * *
2145747 CCCAATCATTTTCGAGGGGATACTCTAACCCCCTTTTTATTTCCAAAATATCAAATTTTCA
66 CCCAATCATTTCCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAAATTTTCA
2145808 TCTTGGGGAT
Statistics
Matches: 234, Mismatches: 42, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
156 15 0.06
157 13 0.06
158 89 0.38
159 44 0.19
160 73 0.31
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (158 bp):
GAGGATACTCCAACCCCGTTTTTACTTCCAAAATATTGAATTTTTCACCAGTCGGGATACTCCAA
CCCAATCATTTCCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAAATTTTCACCTC
GAGGACACTCCAACCCCATCATTTATGA
Found at i:2147088 original size:14 final size:14
Alignment explanation
Indices: 2147069--2147098 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2147059 ATGGAACCTA
2147069 ATTAACAATAATTT
1 ATTAACAATAATTT
2147083 ATTAACAATAATTT
1 ATTAACAATAATTT
2147097 AT
1 AT
2147099 GCATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAACAATAATTT
Found at i:2147157 original size:15 final size:15
Alignment explanation
Indices: 2147115--2147157 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2147105 TTATTTGAAA
*
2147115 TTTAAATTTT-TTAT
1 TTTAAATTTTATAAT
*
2147129 ATTAAATATTTATAAT
1 TTTAAAT-TTTATAAT
2147145 TTTAAATTTTATA
1 TTTAAATTTTATA
2147158 TTTGTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAAATTTTATAAT
Found at i:2147160 original size:14 final size:14
Alignment explanation
Indices: 2147115--2147160 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
2147105 TTATTTGAAA
*
2147115 TTTAAATTTTTTAT
1 TTTAAATTTTATAT
*
2147129 ATTAAATATTTATAAT
1 TTTAAAT-TTTAT-AT
2147145 TTTAAATTTTATAT
1 TTTAAATTTTATAT
2147159 TT
1 TT
2147161 GTATTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.37
15 9 0.33
16 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTAAATTTTATAT
Found at i:2148300 original size:15 final size:15
Alignment explanation
Indices: 2148266--2148309 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2148256 TATTTTTTTC
*
2148266 TAATTTATTTTTTAA
1 TAATTTAATTTTTAA
* *
2148281 AAATTTAATTTTTAG
1 TAATTTAATTTTTAA
2148296 TAATTTAATATTTT
1 TAATTTAAT-TTTT
2148310 CCTTCTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TAATTTAATTTTTAA
Found at i:2148552 original size:35 final size:35
Alignment explanation
Indices: 2148500--2148578 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 35
2148490 AGGCTCGAAG
* *
2148500 CATTTTTTGAACGGGCTTAATTTTTTGCCTAAGCC
1 CATTTTTTGAACAGGCTTAATTTTTTGCCCAAGCC
*
2148535 CATTTTTTGAATAGGCTTAATTTTTTGCCCAAGCC
1 CATTTTTTGAACAGGCTTAATTTTTTGCCCAAGCC
*
2148570 TATTTTTTG
1 CATTTTTTG
2148579 GGCCTAACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (35 bp):
CATTTTTTGAACAGGCTTAATTTTTTGCCCAAGCC
Found at i:2150341 original size:20 final size:20
Alignment explanation
Indices: 2150299--2150364 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
2150289 TTCTACAATT
* *
2150299 TGTATCAATACAACAAGTTAA
1 TGTATCAATAC-ATAAGTCAA
*
2150320 TGTATCAATACATAAGTGAA
1 TGTATCAATACATAAGTCAA
*
2150340 TGTATCGATACATAAG-CAA
1 TGTATCAATACATAAGTCAA
2150359 TGTATC
1 TGTATC
2150365 GATATTGGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.20
20 22 0.54
21 11 0.27
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (20 bp):
TGTATCAATACATAAGTCAA
Found at i:2153314 original size:20 final size:20
Alignment explanation
Indices: 2153291--2153363 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2153281 ACAATTCAAA
2153291 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
2153311 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
2153332 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2153352 GTATCGATACAT
1 GTATCGATACAT
2153364 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2153335 original size:21 final size:21
Alignment explanation
Indices: 2153309--2153384 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
2153299 ACATGTTGCA
2153309 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
2153330 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
2153348 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
2153371 ATGTATCGATACAT
1 ATGTATCGATACAT
2153385 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:2153342 original size:41 final size:41
Alignment explanation
Indices: 2153291--2153384 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2153281 ACAATTCAAA
* *
2153291 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2153332 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2153373 GTATCGATACAT
1 GTATCGATACAT
2153385 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2153441 original size:13 final size:13
Alignment explanation
Indices: 2153423--2153448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2153413 TACAGCAAGT
2153423 ATGTATCGATACA
1 ATGTATCGATACA
2153436 ATGTATCGATACA
1 ATGTATCGATACA
2153449 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2155698 original size:21 final size:21
Alignment explanation
Indices: 2155665--2155709 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2155655 TTGCAAGTTG
*
2155665 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2155687 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2155707 AAA
1 AAA
2155710 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2159621 original size:13 final size:13
Alignment explanation
Indices: 2159603--2159641 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2159593 TGGAAATTCT
2159603 ATGTATCGATACA
1 ATGTATCGATACA
2159616 ATGTATCGATACA
1 ATGTATCGATACA
*
2159629 CTGTATCGATACA
1 ATGTATCGATACA
2159642 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2162105 original size:20 final size:20
Alignment explanation
Indices: 2162082--2162154 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2162072 ACAATTCAAA
2162082 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
2162102 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
2162123 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2162143 GTATCGATACAT
1 GTATCGATACAT
2162155 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2162126 original size:21 final size:21
Alignment explanation
Indices: 2162100--2162175 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
2162090 ACATGTTGCA
2162100 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
2162121 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
2162139 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
2162162 ATGTATCGATACAT
1 ATGTATCGATACAT
2162176 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:2162133 original size:41 final size:41
Alignment explanation
Indices: 2162082--2162175 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2162072 ACAATTCAAA
* *
2162082 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2162123 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2162164 GTATCGATACAT
1 GTATCGATACAT
2162176 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2162232 original size:13 final size:13
Alignment explanation
Indices: 2162214--2162239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2162204 TACAGCAAGT
2162214 ATGTATCGATACA
1 ATGTATCGATACA
2162227 ATGTATCGATACA
1 ATGTATCGATACA
2162240 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2165973 original size:13 final size:13
Alignment explanation
Indices: 2165951--2165990 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2165941 TACTATTCAT
2165951 AATGTATCGATAC
1 AATGTATCGATAC
* * *
2165964 ACTTTATCGATAT
1 AATGTATCGATAC
2165977 AATGTATCGATAC
1 AATGTATCGATAC
2165990 A
1 A
2165991 TGAACAATGA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2166029 original size:14 final size:14
Alignment explanation
Indices: 2166010--2166036 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2166000 ATGAACAGTG
2166010 ATAAATAGTGATAC
1 ATAAATAGTGATAC
2166024 ATAAATAGTGATA
1 ATAAATAGTGATA
2166037 TGTGAACAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.30
Consensus pattern (14 bp):
ATAAATAGTGATAC
Found at i:2166165 original size:20 final size:19
Alignment explanation
Indices: 2166118--2166167 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2166108 ACAATCCATG
2166118 ATGTATCGATACCAAGAAC
1 ATGTATCGATACCAAGAAC
* * *
2166137 ATATATCGATACTAAGCAAT
1 ATGTATCGATACCAAG-AAC
2166157 ATGTATCGATA
1 ATGTATCGATA
2166168 TATCTGGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (19 bp):
ATGTATCGATACCAAGAAC
Found at i:2168167 original size:23 final size:23
Alignment explanation
Indices: 2168133--2168187 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
2168123 AAATGTAATG
* * *
2168133 AAAACAATGAGATTGTTAGATAT
1 AAAACAACGAGATTATTAGATAC
2168156 AAAACAACGAGATTATTAGATAC
1 AAAACAACGAGATTATTAGATAC
2168179 AAAACAACG
1 AAAACAACG
2168188 CTAGTAGCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.53, C:0.11, G:0.15, T:0.22
Consensus pattern (23 bp):
AAAACAACGAGATTATTAGATAC
Found at i:2169218 original size:13 final size:13
Alignment explanation
Indices: 2169200--2169224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2169190 ATTACTCAAA
2169200 TGTATCGATACAT
1 TGTATCGATACAT
2169213 TGTATCGATACA
1 TGTATCGATACA
2169225 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2177543 original size:20 final size:20
Alignment explanation
Indices: 2177518--2177557 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2177508 GTGAAAGGTT
2177518 GCCAAAGTAATGAATGCTTA
1 GCCAAAGTAATGAATGCTTA
2177538 GCCAAAGTAATGAATGCTTA
1 GCCAAAGTAATGAATGCTTA
2177558 CTCGCCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
GCCAAAGTAATGAATGCTTA
Found at i:2183739 original size:62 final size:62
Alignment explanation
Indices: 2183673--2183801 Score: 199
Period size: 62 Copynumber: 2.1 Consensus size: 62
2183663 AATAGTCATT
*
2183673 TTTATTTACTTTATTTCTAAATTGTTATTAT-AAT-TTTTTATTATTTTTAAAAATTTATCTAA
1 TTTATTTACTTTATTTCTAAATTGCTATTATAAATATTTTTATTA-TTTT-AAAATTTATCTAA
* *
2183735 TTTATTTACTTTATTTTTAAGTTGCTATTATAAATATTTTTATTATTTTAAAATTTATCTAA
1 TTTATTTACTTTATTTCTAAATTGCTATTATAAATATTTTTATTATTTTAAAATTTATCTAA
2183797 TTTAT
1 TTTAT
2183802 AAAAAAATAA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
62 46 0.74
63 7 0.11
64 9 0.15
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (62 bp):
TTTATTTACTTTATTTCTAAATTGCTATTATAAATATTTTTATTATTTTAAAATTTATCTAA
Found at i:2183749 original size:32 final size:34
Alignment explanation
Indices: 2183673--2183754 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 34
2183663 AATAGTCATT
* *
2183673 TTTATTTACTTTATTTCT-AAATTGTTATTATAA
1 TTTATTTACTTTATTTTTAAAAATGTTATTATAA
*
2183706 TTT-TTTA--TTATTTTTAAAAAT-TTA-TCTAA
1 TTTATTTACTTTATTTTTAAAAATGTTATTATAA
2183735 TTTATTTACTTTATTTTTAA
1 TTTATTTACTTTATTTTTAA
2183755 GTTGCTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
29 7 0.17
30 14 0.33
31 4 0.10
32 14 0.33
33 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (34 bp):
TTTATTTACTTTATTTTTAAAAATGTTATTATAA
Found at i:2188580 original size:12 final size:12
Alignment explanation
Indices: 2188563--2188604 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
2188553 GGAAACCAAT
2188563 TTTTTTTGTGTG
1 TTTTTTTGTGTG
*
2188575 TTTTTTTTTGTG
1 TTTTTTTGTGTG
2188587 TTTTTTT-TG-G
1 TTTTTTTGTGTG
2188597 TTTTTTTG
1 TTTTTTTG
2188605 CTAAAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 18 0.64
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (12 bp):
TTTTTTTGTGTG
Found at i:2188581 original size:14 final size:13
Alignment explanation
Indices: 2188562--2188594 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
2188552 TGGAAACCAA
2188562 TTTTTTTTGTGTGT
1 TTTTTTTTGTGT-T
2188576 TTTTTTTTGTGTT
1 TTTTTTTTGTGTT
2188589 TTTTTT
1 TTTTTT
2188595 GGTTTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:2188604 original size:9 final size:11
Alignment explanation
Indices: 2188563--2188603 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
2188553 GGAAACCAAT
2188563 TTTTTTTGTGTG
1 TTTTTTT-TGTG
2188575 TTTTTTTTTGTG
1 -TTTTTTTTGTG
2188587 TTTTTTTTG-G
1 TTTTTTTTGTG
2188597 TTTTTTT
1 TTTTTTT
2188604 GCTAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 8 0.29
11 9 0.32
12 4 0.14
13 7 0.25
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:2189153 original size:13 final size:13
Alignment explanation
Indices: 2189135--2189160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2189125 ACAAAGATCC
2189135 ATGTATCGATACA
1 ATGTATCGATACA
2189148 ATGTATCGATACA
1 ATGTATCGATACA
2189161 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2189156 original size:33 final size:33
Alignment explanation
Indices: 2189114--2189180 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2189104 AAAATTTCCA
***
2189114 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2189147 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2189180 A
1 A
2189181 TTTCCTTGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2189224 original size:19 final size:18
Alignment explanation
Indices: 2189200--2189267 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2189190 AAGTAGCTAA
2189200 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2189219 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2189234 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2189251 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2189268 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2189240 original size:13 final size:13
Alignment explanation
Indices: 2189222--2189246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2189212 ACAATACTTA
2189222 TGTATCGATACAT
1 TGTATCGATACAT
2189235 TGTATCGATACA
1 TGTATCGATACA
2189247 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2189244 original size:32 final size:32
Alignment explanation
Indices: 2189203--2189265 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2189193 TAGCTAATTA
*
2189203 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2189235 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2189266 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2189346 original size:21 final size:21
Alignment explanation
Indices: 2189322--2189379 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
2189312 ACATTTGTAG
2189322 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
*
2189343 AATGTATCGATACATTCTACA
1 AATGTATCGATACATTCCACA
2189364 AATGTATCGATACATT
1 AATGTATCGATACATT
2189380 TGGATAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:2189781 original size:20 final size:22
Alignment explanation
Indices: 2189740--2189784 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2189730 GTTAAGTATA
2189740 AATGTTTTTCAAGCATAAAAAT
1 AATGTTTTTCAAGCATAAAAAT
*
2189762 AATGTTTTT-AAGTA-AAAAAT
1 AATGTTTTTCAAGCATAAAAAT
2189782 AAT
1 AAT
2189785 CCAAAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
22 9 0.41
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (22 bp):
AATGTTTTTCAAGCATAAAAAT
Found at i:2189940 original size:32 final size:33
Alignment explanation
Indices: 2189880--2189943 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2189870 CACACCCAGA
*
2189880 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCATAGTATCGATACAT
* *
2189913 TGTATCGATATATGTT-CATAGTATCGATACA
1 TGTATCGATACATATTGCATAGTATCGATACA
2189944 CATTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCATAGTATCGATACAT
Found at i:2198255 original size:20 final size:22
Alignment explanation
Indices: 2198214--2198258 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2198204 GTTAAGTATA
2198214 AATGTTTTTCAAGCATAAAAAT
1 AATGTTTTTCAAGCATAAAAAT
*
2198236 AATG-TTTTCAAGTA-AAAAAT
1 AATGTTTTTCAAGCATAAAAAT
2198256 AAT
1 AAT
2198259 CCAAAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 9 0.41
22 4 0.18
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
AATGTTTTTCAAGCATAAAAAT
Found at i:2198472 original size:13 final size:13
Alignment explanation
Indices: 2198454--2198480 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2198444 AACTCACTCA
2198454 GTATCGATACATT
1 GTATCGATACATT
2198467 GTATCGATACATT
1 GTATCGATACATT
2198480 G
1 G
2198481 AGCCAATGGT
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:0.15, G:0.19, T:0.37
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2202465 original size:58 final size:58
Alignment explanation
Indices: 2202316--2203054 Score: 391
Period size: 58 Copynumber: 12.9 Consensus size: 58
2202306 ATTTCTCACA
* * * * * * * *
2202316 TTTGGTGTCATTTAGGTTATTTACCATTATCTAAGGACTTTGATATAATTTTATGAATT
1 TTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTTATGTAATTTCATGAA-T
* * * *
2202375 TTTTAT-TCCATTTAGGTCATTTTTCATGATCTAGGGACTTTTATGTTATTTCATGTAT
1 TTTGATGT-CATTTAGGTCATTTTCCATGATCTAGGGACTTTTATGTAATTTCATGAAT
* * * * *
2202433 TTTAATGTCATTTAAGTCATTTTCCATTATCTAGGGA-TTTGAATGTAATTTTATGAAT
1 TTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTT-TATGTAATTTCATGAAT
* * * * *
2202491 TTTGATGTTATTTAGGTCATTTACCATGATCT-GCGAACTTTTATGTCATTTCATGCAT
1 TTTGATGTCATTTAGGTCATTTTCCATGATCTAG-GGACTTTTATGTAATTTCATGAAT
* ** * *
2202549 TTTGATGTCATTTAGGTTATTTTTGATGATCTAGGGACTTTTATGTTATTTCA-CACAT
1 TTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTTATGTAATTTCATGA-AT
* * ** **
2202607 TTTGATGTCATTTAGGTAATTTTCCATGATTTAGGGACTTGGATGTAATTTTGTGAAT
1 TTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTTATGTAATTTCATGAAT
* * * * *
2202665 TTTGATGTC-TTTAAGATCATTTAT-CATTATCTAAGGACTTTTATGTCATTTCCT-ATAT
1 TTTGATGTCATTT-AGGTCATTT-TCCATGATCTAGGGACTTTTATGTAATTTCATGA-AT
* * ** * ** *
2202723 TTTGATG-----T---T-ATTTTCTATGATTTAGGGACTTAGATGTAGTTTTGTGGAT
1 TTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTTATGTAATTTCATGAAT
* * * * * ***
2202772 TTTGATGTCGTTTAGATC-TTTTACCATGTTTTAAGGACGAGTA--TAATTT--TGTAAT
1 TTTGATGTCATTTAGGTCATTTT-CCATGATCTAGGGACTTTTATGTAATTTCATG-AAT
* * ** * * * *
2202827 TTTGATG-CTATTTAGGTAATTTTCTATGATCTAATGACTTTCAAT-TCATTTTATGCAT
1 TTTGATGTC-ATTTAGGTCATTTTCCATGATCTAGGGACTTT-TATGTAATTTCATGAAT
* * *
2202885 TTTTATG-CTATTTAGGT-ATTTTTCCATGATCTAGGGACTTTTATGCAATTTTATGAAT
1 TTTGATGTC-ATTTAGGTCA-TTTTCCATGATCTAGGGACTTTTATGTAATTTCATGAAT
* * * ** * * *
2202943 GTT-AGGGTCATTTAGATTTTTTTCCATGATCTA-GGACTTTTTTTGAAATTTTATGTAA-
1 TTTGA-TGTCATTTAGGTCATTTTCCATGATCTAGGGAC-TTTTATGTAATTTCATG-AAT
* * * * * * * * *
2203001 GTTGAGGTTATTTAAGTTATTTTTCATAATTTAGGGACTTTTATGCAATTTCAT
1 TTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTTATGTAATTTCAT
2203055 ACATTTTTAC
Statistics
Matches: 525, Mismatches: 116, Indels: 79
0.73 0.16 0.11
Matches are distributed among these distances:
48 1 0.00
49 33 0.06
50 1 0.00
54 5 0.01
55 26 0.05
56 10 0.02
57 26 0.05
58 363 0.69
59 60 0.11
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.49
Consensus pattern (58 bp):
TTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTTATGTAATTTCATGAAT
Found at i:2202580 original size:174 final size:174
Alignment explanation
Indices: 2202383--2202735 Score: 474
Period size: 174 Copynumber: 2.0 Consensus size: 174
2202373 TTTTTTATTC
***
2202383 CATTTAGGTCATTTTTCATGATCTAGGGACTTTTATGTTATTTCATGTATTTTAATGTCATTTAA
1 CATTTAGGTCATTTTTCATGATCTAGGGACTTTTATGTTATTTCACACATTTTAATGTCATTTAA
* * * * *
2202448 GTCATTTTCCATTATCTAGGGATTTGAATGTAATTTTATGAATTTTGATGT-TATTTAGGTCATT
66 GTAATTTTCCATGATCTAGGGACTTGAATGTAATTTTATGAATTTTGATGTCT-TTAAGATCATT
** *
2202512 TACCATGATCTGCGAACTTTTATGTCATTTCATGCATTTTGATGT
130 TACCATGATCTAAGAACTTTTATGTCATTTCATACATTTTGATGT
* * * *
2202557 CATTTAGGTTATTTTTGATGATCTAGGGACTTTTATGTTATTTCACACATTTTGATGTCATTTAG
1 CATTTAGGTCATTTTTCATGATCTAGGGACTTTTATGTTATTTCACACATTTTAATGTCATTTAA
* * *
2202622 GTAATTTTCCATGATTTAGGGACTTGGATGTAATTTTGTGAATTTTGATGTCTTTAAGATCATTT
66 GTAATTTTCCATGATCTAGGGACTTGAATGTAATTTTATGAATTTTGATGTCTTTAAGATCATTT
* * * * *
2202687 ATCATTATCTAAGGACTTTTATGTCATTTCCTATATTTTGATGT
131 ACCATGATCTAAGAACTTTTATGTCATTTCATACATTTTGATGT
*
2202731 TATTT
1 CATTT
2202736 TCTATGATTT
Statistics
Matches: 154, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
174 153 0.99
175 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (174 bp):
CATTTAGGTCATTTTTCATGATCTAGGGACTTTTATGTTATTTCACACATTTTAATGTCATTTAA
GTAATTTTCCATGATCTAGGGACTTGAATGTAATTTTATGAATTTTGATGTCTTTAAGATCATTT
ACCATGATCTAAGAACTTTTATGTCATTTCATACATTTTGATGT
Found at i:2202735 original size:20 final size:20
Alignment explanation
Indices: 2202703--2202745 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2202693 ATCTAAGGAC
2202703 TTTTATGTCATTTCCTAT-A
1 TTTTATGTCATTTCCTATGA
* *
2202722 TTTTGATGTTATTTTCTATGA
1 TTTT-ATGTCATTTCCTATGA
2202743 TTT
1 TTT
2202746 AGGGACTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (20 bp):
TTTTATGTCATTTCCTATGA
Found at i:2202927 original size:29 final size:29
Alignment explanation
Indices: 2202895--2202983 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
2202885 TTTTATGCTA
2202895 TTTAGGTATTTTTCCATGATCTAGGGACT
1 TTTAGGTATTTTTCCATGATCTAGGGACT
* * * * * *
2202924 TTTATGCAATTTT--ATGAATGTTAGGGTCA
1 TTTAGGTATTTTTCCATG-AT-CTAGGGACT
* *
2202953 TTTAGATTTTTTTCCATGATCTA-GGACT
1 TTTAGGTATTTTTCCATGATCTAGGGACT
2202981 TTT
1 TTT
2202984 TTTGAAATTT
Statistics
Matches: 42, Mismatches: 14, Indels: 9
0.65 0.22 0.14
Matches are distributed among these distances:
27 3 0.07
28 8 0.19
29 26 0.62
30 2 0.05
31 3 0.07
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.48
Consensus pattern (29 bp):
TTTAGGTATTTTTCCATGATCTAGGGACT
Found at i:2204884 original size:59 final size:58
Alignment explanation
Indices: 2204787--2204913 Score: 202
Period size: 59 Copynumber: 2.2 Consensus size: 58
2204777 AGAAGAAACA
2204787 ACAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTGAAATGAATAAGAAAAAAAATG
1 ACAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTGAAATGAATAAGAAAAAAAATG
* * *
2204845 ACAGCAACAAATGAATTA-AAAAAATAATTAAGTTGCTGAAATGAATAAGAGAAAAAATT
1 ACAGCAACAAATGAA--AGAAAAAATAATTAAGCTGCTGAAATGAATAAGAAAAAAAATG
2204904 ACAGCAACAA
1 ACAGCAACAA
2204914 GAAATGAAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
58 15 0.23
59 48 0.75
60 1 0.02
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.17
Consensus pattern (58 bp):
ACAGCAACAAATGAAAGAAAAAATAATTAAGCTGCTGAAATGAATAAGAAAAAAAATG
Found at i:2204904 original size:30 final size:31
Alignment explanation
Indices: 2204801--2204904 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 31
2204791 CAACAAATGA
2204801 AAGAAAAAATAATTAAGCTGCTGAAATGAAT
1 AAGAAAAAATAATTAAGCTGCTGAAATGAAT
* **
2204832 AAGAAAAAA-AATGACAGCAAC--AAATGAAT
1 AAGAAAAAATAATTA-AGCTGCTGAAATGAAT
* *
2204861 TA-AAAAAATAATTAAGTTGCTGAAATGAAT
1 AAGAAAAAATAATTAAGCTGCTGAAATGAAT
*
2204891 AAGAGAAAA-AATTA
1 AAGAAAAAATAATTA
2204905 CAGCAACAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
28 9 0.16
29 13 0.22
30 18 0.31
31 18 0.31
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (31 bp):
AAGAAAAAATAATTAAGCTGCTGAAATGAAT
Found at i:2205050 original size:28 final size:26
Alignment explanation
Indices: 2205016--2205086 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
2205006 AACAACAAGA
*
2205016 AGAAGAAGAAAGAAAAAAAATTGAAAC
1 AGAAGAAGAAAGAAAAAAAA-CGAAAC
*
2205043 AGCAAGAAGAAA-AAAAGAAACGAAAC
1 AG-AAGAAGAAAGAAAAAAAACGAAAC
2205069 AG-AG-AGAAAAGAAAAAAA
1 AGAAGAAG-AAAGAAAAAAA
2205087 TAGCATTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.05
24 5 0.13
25 6 0.16
26 7 0.18
27 9 0.24
28 9 0.24
ACGTcount: A:0.72, C:0.06, G:0.20, T:0.03
Consensus pattern (26 bp):
AGAAGAAGAAAGAAAAAAAACGAAAC
Found at i:2206782 original size:20 final size:20
Alignment explanation
Indices: 2206759--2206798 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2206749 TGAGATGCTG
* *
2206759 AACATATTAAAAATGTATGA
1 AACATAGTAAAAATGCATGA
*
2206779 AACATAGTGAAAATGCATGA
1 AACATAGTAAAAATGCATGA
2206799 TCAAAGGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (20 bp):
AACATAGTAAAAATGCATGA
Found at i:2207746 original size:51 final size:50
Alignment explanation
Indices: 2207686--2207797 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 50
2207676 AATTAACTAG
* * *
2207686 ATGTATCGATAAATTGAATAATGTATCGATACATCTAGGTAACAAAACAGA
1 ATGTATCGATAAATTGAAAAATGTATCAATACATCAAGGTAA-AAAACAGA
** * * **
2207737 ATGTATCGATGCATTGAAAAATGTATTAATATATCAAGGTAAAAATTAGA
1 ATGTATCGATAAATTGAAAAATGTATCAATACATCAAGGTAAAAAACAGA
2207787 ATGTATCGATA
1 ATGTATCGATA
2207798 CATGTACTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
50 16 0.31
51 35 0.69
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (50 bp):
ATGTATCGATAAATTGAAAAATGTATCAATACATCAAGGTAAAAAACAGA
Done.