Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 6 of 253
Found at i:1671808 original size:20 final size:21
Alignment explanation
Indices: 1671754--1671811 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
1671744 TAATGCAAAT
1671754 TTATTTTAGCAGTTACAAACCA
1 TTATTTTA-CAGTTACAAACCA
**
1671776 TTATTTTCAACAGTTACAAACTG
1 TTATTTT--ACAGTTACAAACCA
1671799 TT-TTTTACAGTTA
1 TTATTTTACAGTTA
1671812 TAAAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 7 0.22
22 11 0.34
23 13 0.41
24 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTATTTTACAGTTACAAACCA
Found at i:1672337 original size:15 final size:15
Alignment explanation
Indices: 1672317--1672358 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
1672307 CTAACGAGTT
* *
1672317 TATTTTGCAATAGTA
1 TATTTTCCAACAGTA
1672332 TATTTTCCAACAGTA
1 TATTTTCCAACAGTA
1672347 TATTTTCCAACA
1 TATTTTCCAACA
1672359 CCACTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (15 bp):
TATTTTCCAACAGTA
Found at i:1678835 original size:30 final size:30
Alignment explanation
Indices: 1678795--1678969 Score: 113
Period size: 35 Copynumber: 5.4 Consensus size: 30
1678785 ACCACCAAAT
* *
1678795 ACCACCCCACTAATTCCAACAACCCACTAAA
1 ACCACTCCACTAACTCCAACAACCCACT-AA
* *
1678826 CCACTCCACTTGCCACTAACTCCATC-TCCCACTAA
1 --A--CCAC-T-CCACTAACTCCAACAACCCACTAA
1678861 ACCA-TCCTACTAACTCCAACAACCCACTAA
1 ACCACTCC-ACTAACTCCAACAACCCACTAA
* * *
1678891 ACCA-TCCCACTAACTCTAACCACCCCACTTA
1 ACCACT-CCACTAACTCCAA-CAACCCACTAA
* *
1678922 ACCACTTCACTAAACCACTCCAACCACCCCACTAA
1 ACCACTCCACT--A--ACTCCAA-CAACCCACTAA
1678957 ACCACTCCACTAA
1 ACCACTCCACTAA
1678970 ACCACCCTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
28 2 0.02
29 12 0.10
30 23 0.20
31 23 0.20
32 1 0.01
33 4 0.03
35 33 0.28
36 6 0.05
37 12 0.10
ACGTcount: A:0.35, C:0.47, G:0.01, T:0.17
Consensus pattern (30 bp):
ACCACTCCACTAACTCCAACAACCCACTAA
Found at i:1678923 original size:13 final size:13
Alignment explanation
Indices: 1678908--1679004 Score: 84
Period size: 13 Copynumber: 8.1 Consensus size: 13
1678898 CACTAACTCT
*
1678908 AACCACCCCACTT
1 AACCACCCCACTA
**
1678921 AACCACTTCACTA
1 AACCACCCCACTA
*
1678934 AACCA-CTC-C--
1 AACCACCCCACTA
1678943 AACCACCCCACTA
1 AACCACCCCACTA
*
1678956 AACCACTCCACTA
1 AACCACCCCACTA
1678969 AACCA--CC-CT-
1 AACCACCCCACTA
1678978 AACCACCCCACTA
1 AACCACCCCACTA
*
1678991 AACTACCCCACTA
1 AACCACCCCACTA
1679004 A
1 A
1679005 CTTCATCACC
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
9 10 0.14
10 4 0.06
11 6 0.09
12 4 0.06
13 45 0.65
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.13
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:1678953 original size:35 final size:35
Alignment explanation
Indices: 1678873--1679004 Score: 143
Period size: 35 Copynumber: 3.9 Consensus size: 35
1678863 CATCCTACTA
*
1678873 ACTCCAA-CAACCCACTAAACCA-TCCCACT--A--
1 ACTCCAACCACCCCACTAAACCACT-CCACTAAACC
* * *
1678903 ACTCTAACCACCCCACTTAACCACTTCACTAAACC
1 ACTCCAACCACCCCACTAAACCACTCCACTAAACC
1678938 ACTCCAACCACCCCACTAAACCACTCCACTAAACC
1 ACTCCAACCACCCCACTAAACCACTCCACTAAACC
* *
1678973 AC-CCTAACCACCCCACTAAACTACCCCACTAA
1 ACTCC-AACCACCCCACTAAACCACTCCACTAA
1679005 CTTCATCACC
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
30 6 0.07
31 17 0.20
32 1 0.01
33 1 0.01
34 2 0.02
35 59 0.69
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.14
Consensus pattern (35 bp):
ACTCCAACCACCCCACTAAACCACTCCACTAAACC
Found at i:1678981 original size:22 final size:22
Alignment explanation
Indices: 1678956--1678998 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1678946 CACCCCACTA
*
1678956 AACCACTCCACTAAACCACCCT
1 AACCACCCCACTAAACCACCCT
*
1678978 AACCACCCCACTAAACTACCC
1 AACCACCCCACTAAACCACCC
1678999 CACTAACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.51, G:0.00, T:0.12
Consensus pattern (22 bp):
AACCACCCCACTAAACCACCCT
Found at i:1680848 original size:16 final size:16
Alignment explanation
Indices: 1680827--1680867 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
1680817 CCAAGTGTTT
* *
1680827 TAATTTTAAAACATAC
1 TAATTTTAAAAAAAAC
1680843 TAA-TTTAAAAAAAAC
1 TAATTTTAAAAAAAAC
1680858 T-ATTTTAAAA
1 TAATTTTAAAA
1680868 TTGAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 1 0.05
15 18 0.82
16 3 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATTTTAAAAAAAAC
Found at i:1683294 original size:28 final size:28
Alignment explanation
Indices: 1683233--1683294 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
1683223 TATGGTACTC
*
1683233 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* *
1683261 AGTGTGCGAGATATTGAGAATGACATTT
1 AGTGTGCGAAATATTGAGAATGACACTT
1683289 AGTGTG
1 AGTGTG
1683295 TAAAATATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:1683302 original size:28 final size:28
Alignment explanation
Indices: 1683241--1683302 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
1683231 TCAGTGTACG
*
1683241 AAATATTGAGAATGACACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAGTGTGCA
* * *
1683269 AGATATTGAGAATGACATTTAGTGTGTA
1 AAATATTGAGAATGACACTTAGTGTGCA
1683297 AAATAT
1 AAATAT
1683303 CGAATGATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGCA
Found at i:1687808 original size:315 final size:316
Alignment explanation
Indices: 1687207--1687837 Score: 1054
Period size: 315 Copynumber: 2.0 Consensus size: 316
1687197 GTCAGTGTAA
* * **
1687207 CAGCCCAATTTTGGGCCTAGTCGGAACAGTGGTTTCGGGACCACTATTTTGAGGCCAGAGAAAAT
1 CAGCCCAATTTTAGGCCTAGTCAGAACAGTGGTTTCGGGACCACTATTCCGAGGCCAGAGAAAAT
* *
1687272 TATTTTAGTATTATTTTATGTGTTATAATGTGATTTTATAAGTGCATGTAAATTTTGGTAAGTTA
66 TATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAGTTA
* *
1687337 ATTTTAGCAATTTCTAGTCCAATTTTGAAAAAGGACTAAATCGCGTAAAAGGTAAAAGTTGTGTT
131 ATTTTAGCAATTTCTAGTCCAATTTCGAAAAAGGACTAAATCGCGTAAAAGGTAAAAGTTGTATT
* * * *
1687402 TTAATACCTAAAGGTGTTAAATTGCCTTTTATCTTAAATTGGGGGTCTTTAAAGTGAAATTAGGC
196 TTAATACCTAAAAGTATTAAATTGCCTTTTATATTAAATTGGGGGTATTTAAAGTGAAATTAGGC
1687467 CATTGAAAGTGTGATGGCAGGGCCATGGGAGAC-AAAATTGTTGAAAAGTCAAAAT
261 CATTGAAAGTGTGATGGCAGGGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
*
1687522 CAGCCCGATTTTAGGCCTAGTCAGAACAGTGGTTTCGGGACCACTATTCCGAGGCCAGAGAAAAT
1 CAGCCCAATTTTAGGCCTAGTCAGAACAGTGGTTTCGGGACCACTATTCCGAGGCCAGAGAAAAT
1687587 TATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAGTTA
66 TATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAGTTA
*
1687652 ATTTTAGCGATTTCTAGTCCAATTTCGAAAAATGG-CTAAATCGCGTAAAAGGTAAAAGTTGTAT
131 ATTTTAGCAATTTCTAGTCCAATTTCGAAAAA-GGACTAAATCGCGTAAAAGGTAAAAGTTGTAT
* * *
1687716 TTTGATGCCTAAAAGTATTAAATTG-CTTTGTGTATTAAATTTGGGGGTATTTAAAGTGAAATTA
195 TTTAATACCTAAAAGTATTAAATTGCCTTT-TATATTAAA-TTGGGGGTATTTAAAGTGAAATTA
1687780 GGCCATTGAAAGTGTGATGGCA-GGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
258 GGCCATTGAAAGTGTGATGGCAGGGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
1687838 TAGGTGAACT
Statistics
Matches: 295, Mismatches: 17, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
314 4 0.01
315 222 0.75
316 69 0.23
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (316 bp):
CAGCCCAATTTTAGGCCTAGTCAGAACAGTGGTTTCGGGACCACTATTCCGAGGCCAGAGAAAAT
TATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAGTTA
ATTTTAGCAATTTCTAGTCCAATTTCGAAAAAGGACTAAATCGCGTAAAAGGTAAAAGTTGTATT
TTAATACCTAAAAGTATTAAATTGCCTTTTATATTAAATTGGGGGTATTTAAAGTGAAATTAGGC
CATTGAAAGTGTGATGGCAGGGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
Found at i:1690111 original size:50 final size:50
Alignment explanation
Indices: 1690053--1690157 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
1690043 TTTTAATGTG
1690053 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1690102 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1690152 AGTATT
1 AGTATT
1690158 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:1691676 original size:46 final size:46
Alignment explanation
Indices: 1691573--1691746 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
1691563 GAGACTTGAT
* * * * *
1691573 AGCCAGTGTAAGACCATGTTTGAGACATGGCATC-GGCATTGAGACGAG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGATGAG
* *
1691621 GGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATGAG
* * * * **
1691667 AGCCAGTGTAAGACATGTCTGGGTCATGAATCGGCCTCGAGATGTT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAG
*
1691713 AGCCAGTGTAAGACATGTCTGGGACATGCGTCAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAG
1691747 GACGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 2 0.02
46 74 0.71
47 17 0.16
48 11 0.11
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAG
Found at i:1697773 original size:32 final size:32
Alignment explanation
Indices: 1697732--1697795 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1697722 AATTCTCTGC
1697732 ATAGCCTGGAGTTTCTCAGTACCTTAATCTTA
1 ATAGCCTGGAGTTTCTCAGTACCTTAATCTTA
1697764 ATAGCCTGGAGTTTCTCAGTACCTTAATCTTA
1 ATAGCCTGGAGTTTCTCAGTACCTTAATCTTA
1697796 CTCTGAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (32 bp):
ATAGCCTGGAGTTTCTCAGTACCTTAATCTTA
Found at i:1699472 original size:46 final size:44
Alignment explanation
Indices: 1699334--1699493 Score: 155
Period size: 46 Copynumber: 3.5 Consensus size: 44
1699324 GTCGATGCTG
* ** * *
1699334 TGTCCCAGACAGGTCTTACACTAACACATGTAACCGT-GCCTATGCA
1 TGTCCCAGACATGTCTTACACTAGGACATCT---CGTAGCCGATGCA
* *
1699380 TGTCCCAGACATGTCTTACACTAGGACATCTCGTAGCTGACGCA
1 TGTCCCAGACATGTCTTACACTAGGACATCTCGTAGCCGATGCA
* *
1699424 TGTTCCAGACATGTCTGACACT-GGCTAACATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGG---ACATCTCGTA-GCCGATGCA
1699470 TGTCCCAGACATGTCTTACACTAG
1 TGTCCCAGACATGTCTTACACTAG
1699494 CCCTCGTCTC
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
43 5 0.05
44 26 0.27
45 1 0.01
46 62 0.65
47 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGGACATCTCGTAGCCGATGCA
Found at i:1701017 original size:50 final size:49
Alignment explanation
Indices: 1700958--1701059 Score: 177
Period size: 50 Copynumber: 2.1 Consensus size: 49
1700948 CATGACTAAC
*
1700958 ACTACCTTAATAACAAGCCAATACCTTTGGCTAAATCATAATATTACAAT
1 ACTACCTTAATAACAAGCCAATACCTTTGGCTAAATCATAATACTAC-AT
*
1701008 ACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATACTACAT
1 ACTACCTTAATAACAAGCCAATACCTTTGGCTAAATCATAATACTACAT
1701057 ACT
1 ACT
1701060 CACATTAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 5 0.10
50 45 0.90
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (49 bp):
ACTACCTTAATAACAAGCCAATACCTTTGGCTAAATCATAATACTACAT
Found at i:1702893 original size:19 final size:19
Alignment explanation
Indices: 1702857--1702894 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1702847 CTCATAATTT
1702857 CAACTATTTCACACACTTA
1 CAACTATTTCACACACTTA
*
1702876 CAACTCATTTTACA-ACTTA
1 CAACT-ATTTCACACACTTA
1702895 GCAATCTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (19 bp):
CAACTATTTCACACACTTA
Found at i:1703671 original size:9 final size:9
Alignment explanation
Indices: 1703649--1703703 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
1703639 TTTTTATTTA
1703649 TTAAATTA-
1 TTAAATTAT
*
1703657 TTAAATAAT
1 TTAAATTAT
1703666 TTAAATTAT
1 TTAAATTAT
*
1703675 TTGTAATTA-
1 TT-AAATTAT
*
1703684 TTAAATAAT
1 TTAAATTAT
1703693 TTAAATTAT
1 TTAAATTAT
1703702 TT
1 TT
1703704 GTACTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 11 0.29
9 22 0.58
10 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TTAAATTAT
Found at i:1703675 original size:35 final size:36
Alignment explanation
Indices: 1703636--1703703 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
1703626 TTTAGAATTT
* * *
1703636 TTATTTTTATTTATTAAATTA-TTAAATAATTTAAA
1 TTATTTGTAATTATTAAATAATTTAAATAATTTAAA
*
1703671 TTATTTGTAATTATTAAATAATTTAAATTATTT
1 TTATTTGTAATTATTAAATAATTTAAATAATTT
1703704 GTACTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 18 0.64
36 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (36 bp):
TTATTTGTAATTATTAAATAATTTAAATAATTTAAA
Found at i:1703714 original size:27 final size:27
Alignment explanation
Indices: 1703652--1703706 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1703642 TTATTTATTA
1703652 AATTATTAAATAATTTAAATTATTTGT
1 AATTATTAAATAATTTAAATTATTTGT
1703679 AATTATTAAATAATTTAAATTATTTGT
1 AATTATTAAATAATTTAAATTATTTGT
1703706 A
1 A
1703707 CTTTTTAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
AATTATTAAATAATTTAAATTATTTGT
Found at i:1706297 original size:31 final size:31
Alignment explanation
Indices: 1706262--1706321 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1706252 TTACAAAGTC
* *
1706262 AACATTGAAGCCGAACTCAGGTATCAAATTG
1 AACATTAAAGCCAAACTCAGGTATCAAATTG
* * *
1706293 AACATTAAAGTCAAATTTAGGTATCAAAT
1 AACATTAAAGCCAAACTCAGGTATCAAAT
1706322 AGTATATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (31 bp):
AACATTAAAGCCAAACTCAGGTATCAAATTG
Found at i:1717761 original size:13 final size:14
Alignment explanation
Indices: 1717729--1717760 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1717719 TTGTTTCACT
*
1717729 AAAAATAATTTTTG
1 AAAAATGATTTTTG
1717743 AAAAATGATTTTTG
1 AAAAATGATTTTTG
1717757 AAAA
1 AAAA
1717761 TAGATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (14 bp):
AAAAATGATTTTTG
Found at i:1717766 original size:14 final size:14
Alignment explanation
Indices: 1717730--1717766 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1717720 TGTTTCACTA
1717730 AAAATA-ATTTTTG
1 AAAATAGATTTTTG
1717743 AAAA-ATGATTTTTG
1 AAAATA-GATTTTTG
1717757 AAAATAGATT
1 AAAATAGATT
1717767 AATTTTCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 4 0.19
14 15 0.71
15 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (14 bp):
AAAATAGATTTTTG
Found at i:1718026 original size:28 final size:28
Alignment explanation
Indices: 1717970--1718027 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
1717960 ATAATATTTT
* *
1717970 ATAATAATTAATATAATATATAAAGTTA
1 ATAATAAATAATATAATATATAAACTTA
1717998 ATAATAAATAATATCTAAT-TA-AAACTTA
1 ATAATAAATAATA--TAATATATAAACTTA
1718026 AT
1 AT
1718028 TTAATTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 20 0.77
29 2 0.08
30 4 0.15
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (28 bp):
ATAATAAATAATATAATATATAAACTTA
Found at i:1718309 original size:13 final size:13
Alignment explanation
Indices: 1718293--1718331 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1718283 TTTTAAGATT
*
1718293 AAATAATTTATTA
1 AAATAATTAATTA
1718306 AAATAATTAATTA
1 AAATAATTAATTA
*
1718319 AATTAA-TAATTA
1 AAATAATTAATTA
1718331 A
1 A
1718332 TCATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATAATTAATTA
Found at i:1727346 original size:16 final size:16
Alignment explanation
Indices: 1727327--1727357 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1727317 ATAAAAAATA
1727327 ATATAAGGTTTATAAT
1 ATATAAGGTTTATAAT
1727343 ATATAAGGTTTATAA
1 ATATAAGGTTTATAA
1727358 ATTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (16 bp):
ATATAAGGTTTATAAT
Found at i:1727939 original size:13 final size:11
Alignment explanation
Indices: 1727899--1727933 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1727889 CGGCCCACCC
1727899 TTAT-TAATTT
1 TTATATAATTT
*
1727909 TTATATTATTT
1 TTATATAATTT
1727920 TTATATAATTT
1 TTATATAATTT
1727931 TTA
1 TTA
1727934 AATATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATAATTT
Found at i:1728048 original size:30 final size:30
Alignment explanation
Indices: 1728014--1728076 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
1728004 ACTTAATAAG
1728014 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
1728044 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
1728074 CAA
1 CAA
1728077 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:1728146 original size:22 final size:22
Alignment explanation
Indices: 1728105--1728153 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1728095 ATATCCAAAC
1728105 AATAACAATAAAATAATAGCAA
1 AATAACAATAAAATAATAGCAA
* * **
1728127 CATAATAATAAAATGGTAGCAA
1 AATAACAATAAAATAATAGCAA
1728149 AATAA
1 AATAA
1728154 AGAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAATAGCAA
Found at i:1732340 original size:21 final size:21
Alignment explanation
Indices: 1732314--1732354 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1732304 ATCTGCTCAA
* *
1732314 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1732335 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1732355 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1739240 original size:3 final size:3
Alignment explanation
Indices: 1739163--1739220 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
1739153 ATAGAAGAAT
*
1739163 AGA AGA AGA AGA ATA AG- AGA AGA A-A CAG- AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA
*
1739206 AAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA
1739221 GGAGGAGGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 5 0.11
3 42 0.89
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:1743876 original size:13 final size:14
Alignment explanation
Indices: 1743850--1743878 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1743840 AATTATTGAA
1743850 TTACTAATTTAACC
1 TTACTAATTTAACC
1743864 TTACTAA-TTAACC
1 TTACTAATTTAACC
1743877 TT
1 TT
1743879 TAAATCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (14 bp):
TTACTAATTTAACC
Found at i:1750635 original size:17 final size:15
Alignment explanation
Indices: 1750593--1750635 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
1750583 AATGTTTTTC
1750593 TTTCTTTTCCTTCCT
1 TTTCTTTTCCTTCCT
1750608 TTTCCATTTTCCTTCGCT
1 TTT-C-TTTTCCTTC-CT
1750626 TTTCTGTTTC
1 TTTCT-TTTC
1750636 TTTTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 14 0.58
18 5 0.21
ACGTcount: A:0.02, C:0.30, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTCTTTTCCTTCCT
Found at i:1753783 original size:36 final size:36
Alignment explanation
Indices: 1753732--1753805 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
1753722 TTTGGAAGAC
* * *
1753732 TTCATCTCCTCCTATCTCCTCCTCACTTGTATCTTG
1 TTCATCTCCTACTATCTCCTCCTCACTTATAACTTG
1753768 TTCATCTCCTACTATCTCCTCCTCACTTATAACTTG
1 TTCATCTCCTACTATCTCCTCCTCACTTATAACTTG
1753804 TT
1 TT
1753806 TCATAGACTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.15, C:0.36, G:0.04, T:0.45
Consensus pattern (36 bp):
TTCATCTCCTACTATCTCCTCCTCACTTATAACTTG
Found at i:1757264 original size:6 final size:6
Alignment explanation
Indices: 1757253--1757291 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1757243 GTATTTGGCA
* * *
1757253 TATTGT TATTGT TATTGT TATTAT TATTTT TATTAT TAT
1 TATTGT TATTGT TATTGT TATTGT TATTGT TATTGT TAT
1757292 AAACTACACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (6 bp):
TATTGT
Found at i:1757270 original size:12 final size:12
Alignment explanation
Indices: 1757253--1757291 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1757243 GTATTTGGCA
*
1757253 TATTGTTATTGT
1 TATTGTTATTAT
1757265 TATTGTTATTAT
1 TATTGTTATTAT
*
1757277 TATTTTTATTAT
1 TATTGTTATTAT
1757289 TAT
1 TAT
1757292 AAACTACACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TATTGTTATTAT
Found at i:1757794 original size:15 final size:15
Alignment explanation
Indices: 1757774--1757815 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
1757764 AGAATAGAAA
1757774 ATAAAGAAAAAAAAT
1 ATAAAGAAAAAAAAT
1757789 ATAAAGTTAAAAAAAAT
1 ATAAAG--AAAAAAAAT
*
1757806 A-AAACAAAAA
1 ATAAAGAAAAA
1757816 GATTAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 3 0.12
17 10 0.42
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (15 bp):
ATAAAGAAAAAAAAT
Found at i:1759685 original size:8 final size:8
Alignment explanation
Indices: 1759672--1759704 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
1759662 ATTTTTACTA
1759672 CGCGGATT
1 CGCGGATT
1759680 CGCGGATT
1 CGCGGATT
1759688 CGCGGATT
1 CGCGGATT
1759696 CGCGGATT
1 CGCGGATT
1759704 C
1 C
1759705 AAGTCCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.36, T:0.24
Consensus pattern (8 bp):
CGCGGATT
Found at i:1762893 original size:13 final size:13
Alignment explanation
Indices: 1762836--1762894 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
1762826 AATTTTATGT
*
1762836 ATATATAAAATAA
1 ATATTTAAAATAA
* *
1762849 ATAATTAAAATAT
1 ATATTTAAAATAA
*
1762862 ATATGTTGAAATAAA
1 ATAT-TTAAAAT-AA
*
1762877 ATATTTTAAATAA
1 ATATTTAAAATAA
1762890 ATATT
1 ATATT
1762895 ACAATTATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 20 0.54
14 12 0.32
15 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:1762919 original size:15 final size:16
Alignment explanation
Indices: 1762899--1762929 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1762889 AATATTACAA
1762899 TTATTAA-AAATAATT
1 TTATTAATAAATAATT
1762914 TTATTAATAAATAATT
1 TTATTAATAAATAATT
1762930 AAAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATTAATAAATAATT
Found at i:1762925 original size:34 final size:33
Alignment explanation
Indices: 1762874--1762944 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 33
1762864 ATGTTGAAAT
*
1762874 AAAATATTTTAAATAAAT-ATTACAATTAT-TA
1 AAAATATTTTAAATAAATAATTAAAATTATATA
*
1762905 AAAATAATTTTATTAATAAATAATTAAAATTTTATA
1 AAAAT-ATTTTA--AATAAATAATTAAAATTATATA
1762941 AAAA
1 AAAA
1762945 ATCATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 5 0.15
32 6 0.18
34 7 0.21
35 9 0.27
36 6 0.18
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
AAAATATTTTAAATAAATAATTAAAATTATATA
Found at i:1763314 original size:28 final size:29
Alignment explanation
Indices: 1763282--1763342 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
1763272 AATTTACAAG
1763282 AATTGAATC-AAATAAAAATT-ATGTATAA
1 AATTGAA-CAAAATAAAAATTCATGTATAA
* * *
1763310 AATTGCACAAAATCAAAATTCATGTATAG
1 AATTGAACAAAATAAAAATTCATGTATAA
1763339 AATT
1 AATT
1763343 ACACATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 16 0.57
29 11 0.39
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (29 bp):
AATTGAACAAAATAAAAATTCATGTATAA
Found at i:1763337 original size:29 final size:28
Alignment explanation
Indices: 1763291--1763347 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
1763281 GAATTGAATC
*
1763291 AAATAAAAATTATGTATAAAATTGCACA
1 AAATAAAAATTATGTATAAAATTACACA
* *
1763319 AAATCAAAATTCATGTATAGAATTACACA
1 AAATAAAAATT-ATGTATAAAATTACACA
1763348 TTAAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (28 bp):
AAATAAAAATTATGTATAAAATTACACA
Found at i:1765320 original size:39 final size:40
Alignment explanation
Indices: 1765247--1765327 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
1765237 ATAAATTTTA
**
1765247 TTTTATTGTTAATTTTTTTTACTATTTTATAGGTATTTGC
1 TTTTATTGTTAATTTTTGCTACTATTTTATAGGTATTTGC
1765287 TTTTATTGTTAA-TTTTGCTACTATTTTATAGGTATTTGC
1 TTTTATTGTTAATTTTTGCTACTATTTTATAGGTATTTGC
1765326 TT
1 TT
1765328 GCTAAGTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 27 0.69
40 12 0.31
ACGTcount: A:0.20, C:0.06, G:0.11, T:0.63
Consensus pattern (40 bp):
TTTTATTGTTAATTTTTGCTACTATTTTATAGGTATTTGC
Found at i:1765657 original size:15 final size:15
Alignment explanation
Indices: 1765637--1765672 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1765627 CAATACTAAG
1765637 ATTTTTAAAATATAT
1 ATTTTTAAAATATAT
* *
1765652 ATTTTTACAATATTT
1 ATTTTTAAAATATAT
1765667 ATTTTT
1 ATTTTT
1765673 CTTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAAAATATAT
Found at i:1766142 original size:27 final size:27
Alignment explanation
Indices: 1766112--1766165 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1766102 ACGAGTAAAA
1766112 TATTCAAACTCAACTATGTTATTATCG
1 TATTCAAACTCAACTATGTTATTATCG
1766139 TATTCAAACTCAACTATGTTATTATCG
1 TATTCAAACTCAACTATGTTATTATCG
1766166 AATCGAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (27 bp):
TATTCAAACTCAACTATGTTATTATCG
Found at i:1769503 original size:17 final size:17
Alignment explanation
Indices: 1769478--1769511 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1769468 GGGCTGAGAA
1769478 TCCTAAGAGAAAACATC
1 TCCTAAGAGAAAACATC
*
1769495 TCCTGAGAGAAAACATC
1 TCCTAAGAGAAAACATC
1769512 AGTACTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.18
Consensus pattern (17 bp):
TCCTAAGAGAAAACATC
Found at i:1770293 original size:14 final size:14
Alignment explanation
Indices: 1770274--1770302 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1770264 GTAATGGGAT
1770274 TATTTCTTGACTGA
1 TATTTCTTGACTGA
1770288 TATTTCTTGACTGA
1 TATTTCTTGACTGA
1770302 T
1 T
1770303 GTTTTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (14 bp):
TATTTCTTGACTGA
Found at i:1776928 original size:42 final size:42
Alignment explanation
Indices: 1776873--1776966 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 42
1776863 TTTCTCTAAA
*
1776873 TAAAA-AATAAATTAG-TTTTTTATTAAAGTTTTATTCATTTT
1 TAAAATAA-AAATTAGTTTTTTTATTAAAGTTTCATTCATTTT
*
1776914 TAAAACTAAAAATTAGTTTTTTTATTAAAGTTTCATTTATTTT
1 TAAAA-TAAAAATTAGTTTTTTTATTAAAGTTTCATTCATTTT
*
1776957 TACAATAAAA
1 TAAAATAAAA
1776967 TTGACATGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
41 5 0.11
42 12 0.26
43 30 0.64
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (42 bp):
TAAAATAAAAATTAGTTTTTTTATTAAAGTTTCATTCATTTT
Found at i:1779894 original size:34 final size:34
Alignment explanation
Indices: 1779851--1779916 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
1779841 CAGCTTAGTT
* *
1779851 TGACTATTAAGTACATTATATTATAAAT-ATAAAA
1 TGACTATTAAG-ACATTAAATTAGAAATGATAAAA
1779885 TGACTATTAAGACATTAAATTAGAAATGATAA
1 TGACTATTAAGACATTAAATTAGAAATGATAA
1779917 TGTATTTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 14 0.48
34 15 0.52
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (34 bp):
TGACTATTAAGACATTAAATTAGAAATGATAAAA
Found at i:1780080 original size:35 final size:35
Alignment explanation
Indices: 1780004--1780089 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
1779994 AATCATATAG
*
1780004 AATAAAAT--TAAAATATTTTTAAATTATATTCAT
1 AATAAAATAATAAAATATTTTCAAATTATATTCAT
*
1780037 AATAAAAT-ATCAAAATATTTTACAAATTATATTTA-
1 AATAAAATAAT-AAAATATTTT-CAAATTATATTCAT
*
1780072 AATCAAATAATAAAATAT
1 AATAAAATAATAAAATAT
1780090 AAATTAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 8 0.17
34 1 0.02
35 24 0.52
36 13 0.28
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (35 bp):
AATAAAATAATAAAATATTTTCAAATTATATTCAT
Found at i:1780632 original size:25 final size:25
Alignment explanation
Indices: 1780598--1780645 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1780588 TTTTGAATAG
* * *
1780598 AAAACGTGCTATTAGAAGTAGACAA
1 AAAACATGCTATCAGAAGCAGACAA
1780623 AAAACATGCTATCAGAAGCAGAC
1 AAAACATGCTATCAGAAGCAGAC
1780646 TAATCAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (25 bp):
AAAACATGCTATCAGAAGCAGACAA
Found at i:1787222 original size:39 final size:39
Alignment explanation
Indices: 1787168--1787247 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
1787158 GTAGTTATAC
*
1787168 ATGCAAATGTTGGATCAATCCAGCAGTCAACATAGACTA
1 ATGCAAATATTGGATCAATCCAGCAGTCAACATAGACTA
1787207 ATGCAAATATTGGATCAATCCAGCAGTCAACATAGACTA
1 ATGCAAATATTGGATCAATCCAGCAGTCAACATAGACTA
1787246 AT
1 AT
1787248 ACCCTCACTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (39 bp):
ATGCAAATATTGGATCAATCCAGCAGTCAACATAGACTA
Found at i:1789122 original size:28 final size:26
Alignment explanation
Indices: 1789070--1789122 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
1789060 TCCTTAGTTG
* * *
1789070 TTTTATAATTTTTTGTTTTTGAAAAT
1 TTTTATAATATTTTGTATTTCAAAAT
1789096 TTTTATAAATATTTTGATATTTCAAAA
1 TTTTAT-AATATTTTG-TATTTCAAAA
1789123 ATTATTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 6 0.27
27 8 0.36
28 8 0.36
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATAATATTTTGTATTTCAAAAT
Found at i:1790987 original size:26 final size:26
Alignment explanation
Indices: 1790958--1791117 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
1790948 TGGTACAAAT
1790958 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
1790984 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1791010 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
1791036 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1791062 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1791088 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1791114 TGAT
1 TGAT
1791118 GGGTATTTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 121 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1791020 original size:52 final size:52
Alignment explanation
Indices: 1790958--1791117 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
1790948 TGGTACAAAT
1790958 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
1791010 TGATAATGGGTTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
1791062 TGATAATGGGTTAGGTAAATGTTCTATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1791114 TGAT
1 TGAT
1791118 GGGTATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:1793191 original size:137 final size:137
Alignment explanation
Indices: 1792905--1793178 Score: 512
Period size: 137 Copynumber: 2.0 Consensus size: 137
1792895 GAGTAGTCTC
1792905 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1792970 TGTTATATGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATATGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
1793035 ATTGTTA
131 ACTGTTA
1793042 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
1793107 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGTTCTGGCCCAGTACC
66 TGTTATATGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
1793172 ACTGTTA
131 ACTGTTA
1793179 TCTGAATGGG
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATATGAATAAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1798274 original size:26 final size:26
Alignment explanation
Indices: 1798245--1798402 Score: 239
Period size: 26 Copynumber: 6.2 Consensus size: 26
1798235 TGGTACAAAT
1798245 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
1798271 TGAT-ATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1798296 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
1798322 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1798348 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1798374 TGATAAT-GTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1798399 TGAT
1 TGAT
1798403 GGGTATTTCA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
25 43 0.36
26 75 0.64
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1798304 original size:51 final size:52
Alignment explanation
Indices: 1798245--1798402 Score: 266
Period size: 52 Copynumber: 3.1 Consensus size: 52
1798235 TGGTACAAAT
1798245 TGATAATGGGTTAGGTAAATGTTCCATGAT-ATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
1798296 TGATAATGGGTTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
1798348 TGATAATGGGTTAGGTAAATGTTCTATGATAAT-GTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1798399 TGAT
1 TGAT
1798403 GGGTATTTCA
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
51 49 0.49
52 52 0.51
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:1800420 original size:137 final size:137
Alignment explanation
Indices: 1800170--1800456 Score: 504
Period size: 137 Copynumber: 2.1 Consensus size: 137
1800160 GAGTAGTCTC
1800170 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
1800235 TGTTATATGAATAGGGGCTAAGGCCCAGTTTTTTGTAATCTGAGAAAGGGCTCTGGCCCAGTACC
66 TGTTATATGAATAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC
*
1800300 ATTGTTA
131 ACTGTTA
1800307 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
1800372 T-TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTAC
66 TGTTATATGAAT-AGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTAC
1800436 CACTGTTA
130 CACTGTTA
**
1800444 CCTGAATGGGCTT
1 CCCAAATGGGCTT
1800457 AGACCCAATG
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
136 9 0.06
137 134 0.94
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATATGAATAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:1802612 original size:30 final size:30
Alignment explanation
Indices: 1802578--1802733 Score: 109
Period size: 30 Copynumber: 5.0 Consensus size: 30
1802568 GAAACCTCCT
* * *
1802578 AACCCACTACCTCCGCCAGCTCCTCCACCA
1 AACCCACTACCGCCACCAGCTCCACCACCA
* *
1802608 AACCCATTACCGGCACCAGCTCCACCACCA
1 AACCCACTACCGCCACCAGCTCCACCACCA
* * * *
1802638 CCAA-CGACTACCTCCGCC-GCTCCTCCACCA
1 --AACCCACTACCGCCACCAGCTCCACCACCA
* *
1802668 AACCCATTACCGGCACCAGCTCCACCACCACCAA
1 AACCCACTACCGCCACCAGCT---CCACCACC-A
* *
1802702 CGAACCCACCACCGGCACCAGCTCCACCACCA
1 --AACCCACTACCGCCACCAGCTCCACCACCA
1802734 CCAACGAACC
Statistics
Matches: 97, Mismatches: 19, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
28 2 0.02
29 9 0.09
30 39 0.40
31 9 0.09
32 3 0.03
33 15 0.15
34 1 0.01
36 19 0.20
ACGTcount: A:0.27, C:0.54, G:0.10, T:0.10
Consensus pattern (30 bp):
AACCCACTACCGCCACCAGCTCCACCACCA
Found at i:1802677 original size:60 final size:61
Alignment explanation
Indices: 1802583--1802704 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 61
1802573 CTCCTAACCC
1802583 ACTACCTCCGCCAGCTCCTCCACCAAACCCATTACCGGCACCAGCTCCACCACCACCAACG
1 ACTACCTCCGCCAGCTCCTCCACCAAACCCATTACCGGCACCAGCTCCACCACCACCAACG
1802644 ACTACCTCCGCC-GCTCCTCCACCAAACCCATTACCGGCACCAGCTCCACCACCACCAACG
1 ACTACCTCCGCCAGCTCCTCCACCAAACCCATTACCGGCACCAGCTCCACCACCACCAACG
1802704 A
1 A
1802705 ACCCACCACC
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 49 0.80
61 12 0.20
ACGTcount: A:0.26, C:0.52, G:0.10, T:0.11
Consensus pattern (61 bp):
ACTACCTCCGCCAGCTCCTCCACCAAACCCATTACCGGCACCAGCTCCACCACCACCAACG
Found at i:1802712 original size:18 final size:18
Alignment explanation
Indices: 1802689--1802751 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
1802679 GGCACCAGCT
1802689 CCACCACCACCAACGAAC
1 CCACCACCACCAACGAAC
** * *
1802707 CCACCACCGGC-ACCAGC
1 CCACCACCACCAACGAAC
1802724 TCCACCACCACCAACGAAC
1 -CCACCACCACCAACGAAC
1802743 CCACCACCA
1 CCACCACCA
1802752 GCTCCAAACC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
17 4 0.11
18 27 0.77
19 4 0.11
ACGTcount: A:0.33, C:0.57, G:0.08, T:0.02
Consensus pattern (18 bp):
CCACCACCACCAACGAAC
Found at i:1802716 original size:36 final size:36
Alignment explanation
Indices: 1802676--1802750 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
1802666 CAAACCCATT
1802676 ACCGGCACCAGCTCCACCACCACCAACGAACCCACC
1 ACCGGCACCAGCTCCACCACCACCAACGAACCCACC
1802712 ACCGGCACCAGCTCCACCACCACCAACGAACCCACC
1 ACCGGCACCAGCTCCACCACCACCAACGAACCCACC
1802748 ACC
1 ACC
1802751 AGCTCCAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.31, C:0.56, G:0.11, T:0.03
Consensus pattern (36 bp):
ACCGGCACCAGCTCCACCACCACCAACGAACCCACC
Found at i:1805639 original size:16 final size:16
Alignment explanation
Indices: 1805614--1805644 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1805604 TTTAACATAT
*
1805614 AAAAATTATATAAAAG
1 AAAAAATATATAAAAG
1805630 AAAAAATATATAAAA
1 AAAAAATATATAAAA
1805645 ATTAGTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAAATATATAAAAG
Found at i:1806549 original size:23 final size:25
Alignment explanation
Indices: 1806517--1806563 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
1806507 TTTCCTTTGC
1806517 TTTTTAAAAAT-ATTTTT-TTTTTA
1 TTTTTAAAAATAATTTTTATTTTTA
*
1806540 TTTTTTAAAATAATTTTTATTTTT
1 TTTTTAAAAATAATTTTTATTTTT
1806564 TAAAAACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 6 0.29
25 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTAAAAATAATTTTTATTTTTA
Found at i:1806777 original size:17 final size:17
Alignment explanation
Indices: 1806755--1806790 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1806745 TAAAAAAAAA
1806755 TTTTAT-TATTTTTTATT
1 TTTTATATA-TTTTTATT
1806772 TTTTATATATTTTTATT
1 TTTTATATATTTTTATT
1806789 TT
1 TT
1806791 CTAACAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATATATTTTTATT
Found at i:1809799 original size:23 final size:23
Alignment explanation
Indices: 1809773--1809817 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1809763 TAAAGAGAAA
1809773 AAACAGATTATGAATTGAAACTT
1 AAACAGATTATGAATTGAAACTT
1809796 AAACAGATTATGAATTGAAACT
1 AAACAGATTATGAATTGAAACT
1809818 AGGAAGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (23 bp):
AAACAGATTATGAATTGAAACTT
Found at i:1818505 original size:58 final size:58
Alignment explanation
Indices: 1818360--1818516 Score: 149
Period size: 58 Copynumber: 2.7 Consensus size: 58
1818350 AGTCCCTTTG
* * * * * *
1818360 TGAATCCTTTGGGCTCTC-G-ACGAAGGTGAGGCATAACTTCTACATTTGGGCCCCTTCG
1 TGAACCCTTTGAGCTCTCAGTA-GAA-GTGAGGCATATCTTCTACATTCGGGCCCCTCCA
* * *
1818418 TGAACCCTTTGAGCTCTCAGTGGAGGTGAGGCATATCTTCTACATTCGGGTCCCTCCA
1 TGAACCCTTTGAGCTCTCAGTAGAAGTGAGGCATATCTTCTACATTCGGGCCCCTCCA
** * *
1818476 TGAACTTTTTGAGCTTTCTA-TAGAAGTGAGACATATCTTCT
1 TGAACCCTTTGAGCTCTC-AGTAGAAGTGAGGCATATCTTCT
1818517 TCATAAAAAT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
58 77 0.95
59 4 0.05
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (58 bp):
TGAACCCTTTGAGCTCTCAGTAGAAGTGAGGCATATCTTCTACATTCGGGCCCCTCCA
Found at i:1819952 original size:14 final size:16
Alignment explanation
Indices: 1819915--1819953 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1819905 AATTGATAAA
*
1819915 TATTTTTTTTAATATC
1 TATTATTTTTAATATC
1819931 TATTATTTTTAATAT-
1 TATTATTTTTAATATC
1819946 T-TTATTTT
1 TATTATTTT
1819954 ACACCTACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.32
15 1 0.05
16 14 0.64
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTATTTTTAATATC
Found at i:1820154 original size:20 final size:20
Alignment explanation
Indices: 1820131--1820171 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1820121 TTAAATAATA
1820131 ATAACAAAAATAACGAAATG
1 ATAACAAAAATAACGAAATG
1820151 ATAACAAAAATAACGAAATG
1 ATAACAAAAATAACGAAATG
1820171 A
1 A
1820172 GGCTTTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.15
Consensus pattern (20 bp):
ATAACAAAAATAACGAAATG
Found at i:1821044 original size:80 final size:82
Alignment explanation
Indices: 1820919--1821081 Score: 219
Period size: 80 Copynumber: 2.0 Consensus size: 82
1820909 ATTTAACTCA
*
1820919 TAAATAAATAAATAAAACCACAAATAATATAAAAATTTATATGTATA-TTTGCATTTTATA-TTC
1 TAAATAAATAAATAAAACCACAAATAATATAAAAATTTAAATGTATATTTTGCATTTTATACTT-
1820982 T-TTTTACAAAATAAGTG
65 TGTTTTACAAAATAAGTG
* * **
1820999 TAAATAAA-AAATAAAATCATC-AATAATTTGAAATTTTTAAATGTATATTTTGCATTTTATACT
1 TAAATAAATAAATAAAACCA-CAAATAATAT-AAAAATTTAAATGTATATTTTGCATTTTATACT
1821062 TTGTTTTACAAAATAAGTG
64 TTGTTTTACAAAATAAGTG
1821081 T
1 T
1821082 TAAGTATATA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
79 17 0.23
80 23 0.32
81 14 0.19
82 19 0.26
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (82 bp):
TAAATAAATAAATAAAACCACAAATAATATAAAAATTTAAATGTATATTTTGCATTTTATACTTT
GTTTTACAAAATAAGTG
Found at i:1825944 original size:117 final size:116
Alignment explanation
Indices: 1825760--1825972 Score: 311
Period size: 117 Copynumber: 1.8 Consensus size: 116
1825750 TCCTTAGCTA
* **
1825760 CATACAACTTTTGAGTTTGAGAAACATAACTGTATGAAGAAATGTGGAGCAAATGGATCTCAATT
1 CATACAACATTTGAGTTTGAGAAACATAACTGTATGAAGAAACATGGAGCAAATGGATCTCAATT
1825825 TCAGGAGTCATTTCAGTTAGTGATTCAATTTGAATTTGAGAAATGTGGCTG
66 TCAGGAGTCATTTCAGTTAGTGATTCAATTTGAATTTGAGAAATGTGGCTG
* * * **
1825876 CATACAGCATTTGAGTTTGAGAAACATGAACTGTATGGAA-AAACATGGAGCAAATTGTTCTCGG
1 CATACAACATTTGAGTTTGAGAAACAT-AACTGTAT-GAAGAAACATGGAGCAAATGGATCTCAA
* *
1825940 TTTCAGGAGTCATTTCAGTTAGTGGTTTAATTT
64 TTTCAGGAGTCATTTCAGTTAGTGATTCAATTT
1825973 TGTCCTGAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
116 25 0.29
117 57 0.67
118 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (116 bp):
CATACAACATTTGAGTTTGAGAAACATAACTGTATGAAGAAACATGGAGCAAATGGATCTCAATT
TCAGGAGTCATTTCAGTTAGTGATTCAATTTGAATTTGAGAAATGTGGCTG
Found at i:1826009 original size:117 final size:115
Alignment explanation
Indices: 1825772--1826009 Score: 241
Period size: 117 Copynumber: 2.0 Consensus size: 115
1825762 TACAACTTTT
**
1825772 GAGTTTGAGAAACATAACTGTATGAAGAAATGTGGAGCAAATGGATCTCAATTTCAGGAGTCATT
1 GAGTTTGAGAAACATAACTGTATGAAGAAACATGGAGCAAATGGATCTCAATTTCAGGAGTCATT
* * * * * * *
1825837 TCAGTTAGTGATTCAATTTGAATTTGAGAAATGTGGCTGCATACAGCATTT
66 TCAGTTAGTGATTCAATTTG-ATCTGAAAAATGTAGCTACAAAAAGCATTG
* * **
1825888 GAGTTTGAGAAACATGAACTGTATGGAA-AAACATGGAGCAAATTGTTCTCGGTTTCAGGAGTCA
1 GAGTTTGAGAAACAT-AACTGTAT-GAAGAAACATGGAGCAAATGGATCTCAATTTCAGGAGTCA
* * *
1825952 TTTCAGTTAGTGGTTTAATTTTG-TCCTGAAAGAAT-TATCTCACAAAAAGCA-TG
64 TTTCAGTTAGTGATTCAA-TTTGAT-CTGAAA-AATGTAGCT-ACAAAAAGCATTG
1826005 GAGTT
1 GAGTT
1826010 CTTTTAGATT
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
116 16 0.16
117 67 0.67
118 17 0.17
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (115 bp):
GAGTTTGAGAAACATAACTGTATGAAGAAACATGGAGCAAATGGATCTCAATTTCAGGAGTCATT
TCAGTTAGTGATTCAATTTGATCTGAAAAATGTAGCTACAAAAAGCATTG
Found at i:1829591 original size:14 final size:15
Alignment explanation
Indices: 1829561--1829601 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1829551 GATTATTCGC
1829561 TGTACTTCTAAAATT
1 TGTACTTCTAAAATT
*
1829576 TGTACTT-TAAATTT
1 TGTACTTCTAAAATT
1829590 TG-ACTTACTAAA
1 TGTACTT-CTAAA
1829602 TTCAGTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 11 0.48
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (15 bp):
TGTACTTCTAAAATT
Found at i:1831331 original size:48 final size:48
Alignment explanation
Indices: 1831260--1831357 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
1831250 AATGTTGAAG
*
1831260 ACATCATCTTTCTGTACCGGTACAATTCTGTTGCATTTATATCACGTT
1 ACATCATCTTTCTGTACCGGTACAATTCCGTTGCATTTATATCACGTT
* *
1831308 ACATCATCTTTCTGTATCGGTACAGTTCCGTTGCATTTATATCACGTT
1 ACATCATCTTTCTGTACCGGTACAATTCCGTTGCATTTATATCACGTT
1831356 AC
1 AC
1831358 CGGAATCACA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (48 bp):
ACATCATCTTTCTGTACCGGTACAATTCCGTTGCATTTATATCACGTT
Found at i:1839488 original size:64 final size:62
Alignment explanation
Indices: 1839375--1839495 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 62
1839365 AGGTTTGATG
*
1839375 GGTGAGGAGTGAAATGAATGGTTGTGTTTTAATAGAAGGTTTCAAGGGTGAGAGATTTCTTA
1 GGTGAGGACTGAAATGAATGGTTGTGTTTTAATAGAAGGTTTCAAGGGTGAGAGATTTCTTA
* * *
1839437 GGTGAGGACTGAAATGAATGATTTTGTGCTTTT-ATAGAAGGTTTCATGGGTGATAGATT
1 GGTGAGGACTGAAATGAATG--GTTGTG-TTTTAATAGAAGGTTTCAAGGGTGAGAGATT
1839496 ACTTTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
62 19 0.37
64 29 0.56
65 4 0.08
ACGTcount: A:0.28, C:0.04, G:0.32, T:0.36
Consensus pattern (62 bp):
GGTGAGGACTGAAATGAATGGTTGTGTTTTAATAGAAGGTTTCAAGGGTGAGAGATTTCTTA
Found at i:1850607 original size:16 final size:17
Alignment explanation
Indices: 1850588--1850625 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1850578 ATTGCATTTC
1850588 AATTTCA-AACCAAAAA
1 AATTTCAGAACCAAAAA
* *
1850604 AATTTCAGAACTATAAA
1 AATTTCAGAACCAAAAA
1850621 AATTT
1 AATTT
1850626 GAACGTAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (17 bp):
AATTTCAGAACCAAAAA
Found at i:1853310 original size:16 final size:17
Alignment explanation
Indices: 1853289--1853321 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1853279 AGTAAATAAT
1853289 TTAAAATTA-AAAAATA
1 TTAAAATTATAAAAATA
1853305 TTAAAATTATAAAAATA
1 TTAAAATTATAAAAATA
1853322 AAAATATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAATTATAAAAATA
Found at i:1853523 original size:20 final size:18
Alignment explanation
Indices: 1853498--1853535 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
1853488 TTATCATTAT
1853498 ACATATTATTTATTACAATA
1 ACATATT-TTTATT-CAATA
1853518 ACATATTTTTATTCAATA
1 ACATATTTTTATTCAATA
1853536 TTTTTTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (18 bp):
ACATATTTTTATTCAATA
Found at i:1854206 original size:18 final size:17
Alignment explanation
Indices: 1854165--1854207 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
1854155 CCCTAAAATT
*
1854165 TAAAATTTTATATTATTT
1 TAAAA-TTTATATTATTA
*
1854183 TTAAATTTATATTATTAA
1 TAAAATTTATATTATT-A
1854201 TAAAATT
1 TAAAATT
1854208 CTTAATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAAATTTATATTATTA
Found at i:1855104 original size:15 final size:16
Alignment explanation
Indices: 1855096--1855133 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
1855086 AAATATTTAT
1855096 TTAAAAAATAATTAAA
1 TTAAAAAATAATTAAA
*
1855112 TTAAAAAAT--TAAAA
1 TTAAAAAATAATTAAA
1855126 TTAAAAAA
1 TTAAAAAA
1855134 AAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAAATAATTAAA
Found at i:1856259 original size:20 final size:20
Alignment explanation
Indices: 1856231--1856274 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1856221 AAATTTATTA
1856231 AAAACTAAAGA-ATATATAAT
1 AAAACTAAA-ATATATATAAT
* *
1856251 AAAATTAAAATATTTATAAT
1 AAAACTAAAATATATATAAT
1856271 AAAA
1 AAAA
1856275 AACTCAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAACTAAAATATATATAAT
Found at i:1856977 original size:21 final size:21
Alignment explanation
Indices: 1856946--1856985 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1856936 TTAATGTATT
1856946 TTTTATTTTATATTATTTAAAC
1 TTTTATTTTATATT-TTTAAAC
1856968 TTTT-TTTTATATTTTTAA
1 TTTTATTTTATATTTTTAA
1856986 TTAATGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATTTTATATTTTTAAAC
Found at i:1857982 original size:12 final size:12
Alignment explanation
Indices: 1857967--1857995 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1857957 ACGAAGACTT
1857967 CGAGGAAGAAGA
1 CGAGGAAGAAGA
1857979 CGAGGAAGAAGA
1 CGAGGAAGAAGA
1857991 -GAGGA
1 CGAGGA
1857996 GGAGAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.48, C:0.07, G:0.45, T:0.00
Consensus pattern (12 bp):
CGAGGAAGAAGA
Found at i:1858178 original size:15 final size:15
Alignment explanation
Indices: 1858148--1858192 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1858138 GGAGGAAGTG
* *
1858148 GAGGAGGAAGAAGAA
1 GAGGAAGAAGAGGAA
* *
1858163 GATGAAGATGAGGAA
1 GAGGAAGAAGAGGAA
1858178 GAGGAAGAAGAGGAA
1 GAGGAAGAAGAGGAA
1858193 AGTGAGAGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.44, T:0.04
Consensus pattern (15 bp):
GAGGAAGAAGAGGAA
Found at i:1858198 original size:24 final size:23
Alignment explanation
Indices: 1858139--1858208 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 23
1858129 AACGGCGAAG
*
1858139 GAGGAAGTGGAGGAGGAAGAAGAA
1 GAGGAAGT-GAGGAAGAAGAAGAA
* *
1858163 GATGAAGATGAGGAAGAGGAAGAA
1 GAGGAAG-TGAGGAAGAAGAAGAA
1858187 GAGGAAAGTGAGAGAAGGAAGA
1 GAGG-AAGTGAG-GAA-GAAGA
1858209 GAAAGATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
24 26 0.70
25 7 0.19
26 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.46, T:0.06
Consensus pattern (23 bp):
GAGGAAGTGAGGAAGAAGAAGAA
Found at i:1868668 original size:29 final size:29
Alignment explanation
Indices: 1868626--1868683 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
1868616 GAAGTTAGAT
1868626 TGCATTTTGCCCTATCTACTCAAAACATA
1 TGCATTTTGCCCTATCTACTCAAAACATA
*
1868655 TGCATTTTGCCCTATTTACTCAAAACATA
1 TGCATTTTGCCCTATCTACTCAAAACATA
1868684 AGCAAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (29 bp):
TGCATTTTGCCCTATCTACTCAAAACATA
Found at i:1873376 original size:30 final size:30
Alignment explanation
Indices: 1873340--1873401 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1873330 AACACTGTTA
1873340 AAATCAGTTTGTTAAATTCAAATTCATTAC
1 AAATCAGTTTGTTAAATTCAAATTCATTAC
1873370 AAATCAGTTTGTTAAATTCAAATTCATTAC
1 AAATCAGTTTGTTAAATTCAAATTCATTAC
1873400 AA
1 AA
1873402 CGTGTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (30 bp):
AAATCAGTTTGTTAAATTCAAATTCATTAC
Found at i:1873897 original size:6 final size:6
Alignment explanation
Indices: 1873886--1873922 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
1873876 CCCCTAGTGT
* *
1873886 TGGTGC TGGTGC TGGCGC TGGTGC TGGTGC TAGTGC T
1 TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC T
1873923 AGTTGTAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.03, C:0.19, G:0.46, T:0.32
Consensus pattern (6 bp):
TGGTGC
Found at i:1880264 original size:3 final size:3
Alignment explanation
Indices: 1880250--1880284 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1880240 TTATATGCAG
1880250 CAT CAT -AT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1880285 AATAATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
CAT
Found at i:1881570 original size:18 final size:18
Alignment explanation
Indices: 1881532--1881577 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1881522 TATTCGGTTT
* **
1881532 AAATAAATAAATTATTTA
1 AAATAAAAAAATTATAAA
1881550 AAATAAAAAAATTATAAA
1 AAATAAAAAAATTATAAA
1881568 AAATATAAAA
1 AAATA-AAAA
1881578 TCTAATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAAAAAAATTATAAA
Found at i:1883329 original size:982 final size:951
Alignment explanation
Indices: 1881502--1883390 Score: 2351
Period size: 982 Copynumber: 1.9 Consensus size: 951
1881492 AGTTTGAAAC
* *
1881502 TTTGAATAATTTAATTGGTTTATTCGGTTTAAATAAATAAATTATTTAAAATAAAAAAATTATAA
1 TTTGAATAATTTAATTGGTCTATTCGGTTCAAATAAATAAATTATTTAAAAT---AAAA-TATAA
*
1881567 AAAATATAAAATCTAATTCTACCAATTTTTAACTCAAGTCAATTGATCTATTCCTGTTTGTGAAT
62 AAAATATAAAATCTAATTCTACCAATTTTTAACTCAAGTCAATTGATCTATACCTGTTTGTGAAT
* * * * * *
1881632 CAATCAATTTTTTATCACTTTCTAAACTAATACCTCGATATGTTCTTAATCCAACCGACTGATCT
127 CAAACAATTTTTTATCACTCTCCAAACTAATACCTCGACATGTTCCTAATCCAACCGACTGATCC
* *
1881697 AGACTAATTCAAACATCACTTATTTCAAGCTGACAAAAAAAATTGATCTAAAATAGACTATACCT
192 AGACTAATCCAAACATCACTTATTTCAAGCTCACAAAAAAAATTGATCTAAAATAGACTATACCT
*
1881762 GGTTTAGCTGGCCATCAAAGTTTGCAACAAAATTTTGCTTCACAAAAATCCACATGTAACACGAT
257 GGTTTAGCTGGCCATCAAAGTTTGCAACAAAATTTTGCTTCACAAAAATCCACATGTAACACAAT
*
1881827 AATTGCCTTGTCAGTTTCAAGAATTATTAGGGTTGGAAAAAAGAATCAAGAAATCTAAAACTGAT
322 AATTGCCTTGTCAGTTTCAAGAATTATTAGGGTTGGAAAAAAGAATCAACAAATCTAAAACTGAT
* * * *
1881892 CTGAATAATTAAGGGTGTTTAAATGGTTAGTTTAGTTATTACTCGAATTGAATTATTATTAATTG
387 CTGAATAAATAAGGGTGCTCAAATGG-TA--TTAG-TATTA-TCG-A--G----ATTATTAATCG
* * * * * * *
1881957 AATTATTTGATATGTAAAAATTTTTAACTGTTAACTGAATCGATTTTTTTTAAATATATTAACCG
440 AATTATCTGAAATATAAAAATCTTTAACCGTTAACTGAATCAATTTTTTTTAAATACATTAACCG
* *
1882022 AACTGAAATATTTCGGTTAACCGAATTAACTAAAATTTTAATAAGTATAAAATATATAAAAATAC
505 AACCGAAATATTTCGGTTAACCGAATTAACTAAAATTTTAATAAGTATAAAACATATAAAAATAC
* *
1882087 ATTGTTAATGTTCATTTTTTAATCGTTTAAAAAATATATTATATATAATATATATTTTTTATTTC
570 ATTGTTAATGTTCATTTTTTAATAGTTTAAAAAATATATTATATATAATATATATTATTTATTTC
*
1882152 GATTAATATAAAAAAATAATAGTCCAGAAAATACATTGTCAATATAAAAATATATTATATAAATT
635 GATTAATAT-AAAAAATAATAGTCCAAAAAATACATTGTCAATATAAAAATATATTATATAAATT
* * *
1882217 ATATATATTTATTTCGTTTAATTACCTGATTTCAAATCGAATTAACCGATAATCGAAATTTCAAT
699 ATATATATTTATTTCGGTTAATTACCTGATTTCAAATCGAATTAACCGATAATCAAAATTTCAAA
* ** * * **
1882282 AAATTATTAATTGACCTTCGACCGAACTAAATTTGGCCATCGACCGATTAACCGAATTAGATCGA
764 AAATCATTAACCGACCTCCAACCGAACTAAATTCAGCCATCGACCGATTAACCGAATTAGATCGA
* ** *
1882347 TTCAATTGATCAATTCGGCTTTAACCAAACTATGAACACCCCTATGAATAAGTAGTGTTTAATTG
829 TTCAATCGATCAATTCAACTTTAACCAAACTATGAACACCCCTATGAATAAGTAGTATTTAATTG
1882412 TATAACATGTTTTTGAAATCGGATTAATGGCTAAATTGGTCAATTTATTAATTTTCAG
894 TATAACATGTTTTTGAAATCGGATTAATGGCTAAATTGGTCAATTTATTAATTTTCAG
*
1882470 TTTGAATAATTTAATTGGTCTATTCGGTTCAAAGTAAATAAATTCTTTAAAAT-AAA-A-AAAAA
1 TTTGAATAATTTAATTGGTCTATTCGGTTCAAA-TAAATAAATTATTTAAAATAAAATATAAAAA
** * * * *
1882532 AT-TAAAATCTGGTTCTACCAATTTTTTTAACTCGATTCAATTGATCTGTACCTGTTTGTGAGTC
65 ATATAAAATCTAATTCTACCAA--TTTTTAACTCAAGTCAATTGATCTATACCTGTTTGTGAATC
* *
1882596 AAACATTTTTTTATCACTCTCCAAATTAATACCTCGACATGTTCCTAATCCAACCGACTGATCCA
128 AAACAATTTTTTATCACTCTCCAAACTAATACCTCGACATGTTCCTAATCCAACCGACTGATCCA
* *
1882661 GTCTAATCCAAACATCACTTATTTCAAGTTCACAAAGAAAAATTGATCTAAAATAGACTATACCT
193 GACTAATCCAAACATCACTTATTTCAAGCTCACAAA-AAAAATTGATCTAAAATAGACTATACCT
1882726 GGATTATAGACAAGCTGGCCATC-AAGTTTGCAACAAAATTTTGCTTCACAAAATTGTGATTGAT
257 GG-TT-T-----AGCTGGCCATCAAAGTTTGCAACAAAATTTTGCTTCAC--AA-----A---A-
* *
1882790 TTTCACCTCCACATGT-ACACAATAATTTCCTTGTTAGTTTCAAGAATTATTAGGGTTGGAAAAA
304 ----A--TCCACATGTAACACAATAATTGCCTTGTCAGTTTCAAGAATTATTAGGGTTGGAAAAA
* * * *
1882854 A-AATCAACAAATCTAAAA-TCGATTTGAATAAATATGGGTGCTCAAAT-G-A-TCG-GTT-T-G
363 AGAATCAACAAATCTAAAACT-GATCTGAATAAATAAGGGTGCTCAAATGGTATTAGTATTATCG
* * *
1882911 -G-TTATTAATCGAATTATCTGAAATATAAAAGTCTTTAACCGTT-AGTCGAATTAATTTTTTTT
427 AGATTATTAATCGAATTATCTGAAATATAAAAATCTTTAACCGTTAACT-GAATCAATTTTTTTT
*
1882973 CAAATACATTAACCGAACCGAAATATTTCGGTTAACCGAATTAACTAAATTTTTTTTTGTCTTTT
491 -AAATACATTAACCGAACCGAAATATTTCGGTTAACCGAATTAACTAAA-------------ATT
*
1883038 AGTTAAAATAAGTATAAAACATATAAAACATATATTGTTAATGTTCATTTTTTAATAGTTTAAAA
542 --TT--AATAAGTATAAAACATATAAAA-ATACATTGTTAATGTTCATTTTTTAATAGTTTAAAA
*
1883103 AATATATTATATATAATATATATTATTTATTTCGATTAATAT-AAAAA-AATAGTTCAAAAAATA
602 AATATATTATATATAATATATATTATTTATTTCGATTAATATAAAAAATAATAGTCCAAAAAATA
**
1883166 CATTG-CTAATATAAAAAATATATTATATATGTTATATATATTTATTTCGGTTAATTACCTGATT
667 CATTGTC-AATAT-AAAAATATATTATATAAATTATATATATTTATTTCGGTTAATTACCTGATT
*
1883230 TCAAATCGAATTAACCGATAATCAAAATTTTAAAAAATCATTAACCGACCTCCAACCGAACTAAA
730 TCAAATCGAATTAACCGATAATCAAAATTTCAAAAAATCATTAACCGACCTCCAACCGAACTAAA
* ** * * *
1883295 TTCAGCTATCGACTTATTAACCGAATTAGATCGATTTAGTCGATCAATTCAATTTTAACCAAACT
795 TTCAGCCATCGACCGATTAACCGAATTAGATCGATTCAATCGATCAATTCAACTTTAACCAAACT
1883360 ATGAACACCCCTATGAATAAGTAGTATTTAA
860 ATGAACACCCCTATGAATAAGTAGTATTTAA
1883391 ATGGTTTAAA
Statistics
Matches: 795, Mismatches: 75, Indels: 88
0.83 0.08 0.09
Matches are distributed among these distances:
961 17 0.02
962 7 0.01
963 126 0.16
964 32 0.04
965 53 0.07
966 47 0.06
968 31 0.04
969 18 0.02
970 27 0.03
971 11 0.01
972 2 0.00
974 1 0.00
975 1 0.00
977 3 0.00
979 4 0.01
980 2 0.00
981 26 0.03
982 195 0.25
983 21 0.03
984 77 0.10
985 39 0.05
986 46 0.06
987 9 0.01
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (951 bp):
TTTGAATAATTTAATTGGTCTATTCGGTTCAAATAAATAAATTATTTAAAATAAAATATAAAAAA
TATAAAATCTAATTCTACCAATTTTTAACTCAAGTCAATTGATCTATACCTGTTTGTGAATCAAA
CAATTTTTTATCACTCTCCAAACTAATACCTCGACATGTTCCTAATCCAACCGACTGATCCAGAC
TAATCCAAACATCACTTATTTCAAGCTCACAAAAAAAATTGATCTAAAATAGACTATACCTGGTT
TAGCTGGCCATCAAAGTTTGCAACAAAATTTTGCTTCACAAAAATCCACATGTAACACAATAATT
GCCTTGTCAGTTTCAAGAATTATTAGGGTTGGAAAAAAGAATCAACAAATCTAAAACTGATCTGA
ATAAATAAGGGTGCTCAAATGGTATTAGTATTATCGAGATTATTAATCGAATTATCTGAAATATA
AAAATCTTTAACCGTTAACTGAATCAATTTTTTTTAAATACATTAACCGAACCGAAATATTTCGG
TTAACCGAATTAACTAAAATTTTAATAAGTATAAAACATATAAAAATACATTGTTAATGTTCATT
TTTTAATAGTTTAAAAAATATATTATATATAATATATATTATTTATTTCGATTAATATAAAAAAT
AATAGTCCAAAAAATACATTGTCAATATAAAAATATATTATATAAATTATATATATTTATTTCGG
TTAATTACCTGATTTCAAATCGAATTAACCGATAATCAAAATTTCAAAAAATCATTAACCGACCT
CCAACCGAACTAAATTCAGCCATCGACCGATTAACCGAATTAGATCGATTCAATCGATCAATTCA
ACTTTAACCAAACTATGAACACCCCTATGAATAAGTAGTATTTAATTGTATAACATGTTTTTGAA
ATCGGATTAATGGCTAAATTGGTCAATTTATTAATTTTCAG
Found at i:1888457 original size:272 final size:271
Alignment explanation
Indices: 1887960--1888502 Score: 754
Period size: 272 Copynumber: 2.0 Consensus size: 271
1887950 TTAATAATTT
* * * * *
1887960 AATTGGCACGGGTTCAAGTCCCATCGTATGTATATTTTTTAATTGGTTTTGCTAAAATGAAAAGA
1 AATTGGCACGGGGTCAAATCCCACCATATGCATATTTTTTAATTGGTTTTGCTAAAATGAAAAGA
* * * **
1888025 TTAAAATACCCTTGACTAATATAACTTTTTTTAATTACGAAAAGACATTTCCGTAATTTTTTGCC
66 TTAAAATACCCTTAAATAATATAACTCTTTTTAATTACGAAAAGACATTTCCGTAATTTTTAACC
* * * * * *
1888090 TGAGTTGGTGACTATGTTGAGGGTGACACCAATTTAGTCAGGGGCTTAATAAATAGTAAGTATGG
131 TGAGTTGGTGACTAGGTTGAGGGTGACACCAACTCAGTCAAGGGCTCAATAAATAGTAAGTATAG
* *
1888155 ATATACAACTGATGAAAATAATATATTGTGCATATTAAAACCAAAATGTATAAAAATACATTAAA
196 ATATAAAACTGATGAAAATAATAAATTGTGCATATTAAAACCAAAATGTAT-AAAATACATTAAA
1888220 ATA-ATGCTTTGG
260 ATAGA-GCTTTGG
*
1888232 AATTGGCA-GAGGGTCAAATCCCACCATATGCATATTTTTTAATTGGTTTTTGTTAAAATGAAAA
1 AATTGGCACG-GGGTCAAATCCCACCATATGCATATTTTTTAATTGG-TTTTGCTAAAATGAAAA
* * *
1888296 GATTAAAATACCCTTAAATGATATAAC-CTTTTTAATTACG-AAAGAATATTTTCGTAATTTCTT
64 GATTAAAATACCCTTAAATAATATAACTCTTTTTAATTACGAAAAG-ACATTTCCGTAATTT-TT
* *
1888359 AACC-GAGTTGGTGACTCGGTTGAGGGTGACACCAACTCAGTCAAGGGCTCAATACATAGTAAGT
127 AACCTGAGTTGGTGACTAGGTTGAGGGTGACACCAACTCAGTCAAGGGCTCAATAAATAGTAAGT
* * *
1888423 ATAGATATAAAAGTGATGAAGATAATAAATTGTGCATATTAAAACCAAAATGTATAAAATATATT
192 ATAGATATAAAACTGATGAAAATAATAAATTGTGCATATTAAAACCAAAATGTATAAAATACATT
1888488 AAAATAGAGCTTTGG
257 AAAATAGAGCTTTGG
1888503 TTGAGTGATG
Statistics
Matches: 239, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
271 27 0.11
272 168 0.70
273 44 0.18
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (271 bp):
AATTGGCACGGGGTCAAATCCCACCATATGCATATTTTTTAATTGGTTTTGCTAAAATGAAAAGA
TTAAAATACCCTTAAATAATATAACTCTTTTTAATTACGAAAAGACATTTCCGTAATTTTTAACC
TGAGTTGGTGACTAGGTTGAGGGTGACACCAACTCAGTCAAGGGCTCAATAAATAGTAAGTATAG
ATATAAAACTGATGAAAATAATAAATTGTGCATATTAAAACCAAAATGTATAAAATACATTAAAA
TAGAGCTTTGG
Found at i:1888988 original size:29 final size:29
Alignment explanation
Indices: 1888939--1888996 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1888929 TTTTGTCATT
1888939 CAACTATAAAAAATTACAAAATAATCACC
1 CAACTATAAAAAATTACAAAATAATCACC
* * *
1888968 CAACTATGAAAAGTTGA-AAAATGATCACC
1 CAACTATAAAAAATT-ACAAAATAATCACC
1888997 TAGCTATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.53, C:0.19, G:0.07, T:0.21
Consensus pattern (29 bp):
CAACTATAAAAAATTACAAAATAATCACC
Found at i:1893630 original size:30 final size:30
Alignment explanation
Indices: 1893556--1893631 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
1893546 GCCCAGAATA
*
1893556 CCACACGCCCGTATGGTCCACCCGTGTGAC
1 CCACACGCCCGTGTGGTCCACCCGTGTGAC
1893586 CCACACGCCCGTGTGGTCCACCCGTGTGAC
1 CCACACGCCCGTGTGGTCCACCCGTGTGAC
* *
1893616 CCATACGCCTGTGTGG
1 CCACACGCCCGTGTGG
1893632 CCTACACGGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.14, C:0.41, G:0.26, T:0.18
Consensus pattern (30 bp):
CCACACGCCCGTGTGGTCCACCCGTGTGAC
Found at i:1896450 original size:42 final size:42
Alignment explanation
Indices: 1896403--1896486 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
1896393 TCACCACCCA
*
1896403 TTCAAACCCACCCTAAGTATATCTAATAGATATCTAATAAGT
1 TTCAAACACACCCTAAGTATATCTAATAGATATCTAATAAGT
1896445 TTCAAACACACCCTAAGTATATCTAATAGATATCTAATAAGT
1 TTCAAACACACCCTAAGTATATCTAATAGATATCTAATAAGT
1896487 GCAAGGAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (42 bp):
TTCAAACACACCCTAAGTATATCTAATAGATATCTAATAAGT
Found at i:1897362 original size:13 final size:13
Alignment explanation
Indices: 1897344--1897369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1897334 AAATAATTTA
1897344 AAATTTAAAAAAT
1 AAATTTAAAAAAT
1897357 AAATTTAAAAAAT
1 AAATTTAAAAAAT
1897370 TAATACAAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTAAAAAAT
Found at i:1897701 original size:30 final size:30
Alignment explanation
Indices: 1897667--1897726 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1897657 AGACAGTGAG
1897667 AGCCTTATATAATTGACCTCAGCTTTCCTC
1 AGCCTTATATAATTGACCTCAGCTTTCCTC
*
1897697 AGCCTTGTATAATTGACCTCAGCTTTCCTC
1 AGCCTTATATAATTGACCTCAGCTTTCCTC
1897727 TTCTTCAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.37
Consensus pattern (30 bp):
AGCCTTATATAATTGACCTCAGCTTTCCTC
Found at i:1899596 original size:31 final size:32
Alignment explanation
Indices: 1899527--1899599 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
1899517 AAAAAATTAC
*
1899527 CAACTTTTAAGGGGCTCCAAAATTATTTTTTT
1 CAACTTTTAAGGGACTCCAAAATTATTTTTTT
* *
1899559 -AGCTTTTAAGGGAC-CTAAAATT-TTTTTCTT
1 CAACTTTTAAGGGACTCCAAAATTATTTTT-TT
1899589 CAACTTTTAAG
1 CAACTTTTAAG
1899600 AAATCTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 5 0.14
30 9 0.26
31 21 0.60
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (32 bp):
CAACTTTTAAGGGACTCCAAAATTATTTTTTT
Found at i:1900884 original size:15 final size:15
Alignment explanation
Indices: 1900864--1900918 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
1900854 TTCAATATTT
1900864 ATATTTTAATAATAA
1 ATATTTTAATAATAA
*
1900879 ATATTTATTCAATTATAA
1 ATA-TT-TT-AATAATAA
*
1900897 ATATATTAATAATAA
1 ATATTTTAATAATAA
*
1900912 ATGTTTT
1 ATATTTT
1900919 GTAGTATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 15 0.47
16 4 0.12
17 3 0.09
18 10 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATTTTAATAATAA
Found at i:1907185 original size:14 final size:15
Alignment explanation
Indices: 1907158--1907195 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1907148 CAATTTTCTT
1907158 TATTTTATAAATATA
1 TATTTTATAAATATA
*
1907173 TATTTTA-AAATATT
1 TATTTTATAAATATA
1907187 TAATTTTAT
1 T-ATTTTAT
1907196 TCATTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTATAAATATA
Found at i:1922641 original size:23 final size:23
Alignment explanation
Indices: 1922601--1922645 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1922591 TTCTAAATTT
*
1922601 AAGGAAATATGTCAGTGATTTTA
1 AAGGAAATACGTCAGTGATTTTA
**
1922624 AAGGAAATACGTTGGTGATTTT
1 AAGGAAATACGTCAGTGATTTT
1922646 GAAGAGAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (23 bp):
AAGGAAATACGTCAGTGATTTTA
Found at i:1923030 original size:25 final size:26
Alignment explanation
Indices: 1922973--1923048 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
1922963 TTCTAATTTT
*
1922973 CTATTTCACTTTCTTGTTTTTTTTTC
1 CTATTTCACTTTCTTGTTTTTCTTTC
* *
1922999 CTTTTTCCCTTT-TT-TTTATTCTTTC
1 CTATTTCACTTTCTTGTTT-TTCTTTC
* *
1923024 CTATTTCAATTTTCTT-TCTTTCTTT
1 CTATTTC-ACTTTCTTGTTTTTCTTT
1923049 TCTTCCTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
24 3 0.08
25 14 0.35
26 19 0.47
27 4 0.10
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.70
Consensus pattern (26 bp):
CTATTTCACTTTCTTGTTTTTCTTTC
Found at i:1924008 original size:22 final size:22
Alignment explanation
Indices: 1923978--1924021 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1923968 TTTGGTATTG
1923978 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
1924000 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
1924022 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:1927941 original size:22 final size:22
Alignment explanation
Indices: 1927898--1927942 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1927888 TGTAACAAAA
***
1927898 TTTTAATTTAACATGTTTAATT
1 TTTTAATTTAACATGAACAATT
*
1927920 TTTTAATTTAACTTGAACAATT
1 TTTTAATTTAACATGAACAATT
1927942 T
1 T
1927943 CACTCGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAACAATT
Found at i:1928796 original size:18 final size:18
Alignment explanation
Indices: 1928764--1928813 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1928754 TTTTTATTTA
**
1928764 CTTTTTTTAACTTTTATC
1 CTTTTTTTATTTTTTATC
1928782 CTTTTTTTATTTTTTTATC
1 CTTTTTTTA-TTTTTTATC
*
1928801 C-TTATTTATTTTT
1 CTTTTTTTATTTTT
1928814 ATTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 15 0.54
19 8 0.29
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTTTTTTATTTTTTATC
Found at i:1928797 original size:19 final size:18
Alignment explanation
Indices: 1928775--1928813 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
1928765 TTTTTTTAAC
*
1928775 TTTTATCCTTTTTTTATTT
1 TTTTATCC-TTATTTATTT
1928794 TTTTATCCTTATTTATTT
1 TTTTATCCTTATTTATTT
1928812 TT
1 TT
1928814 ATTTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATCCTTATTTATTT
Found at i:1928875 original size:25 final size:24
Alignment explanation
Indices: 1928846--1928910 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 24
1928836 ACTTGAAATG
1928846 TATATTTGAAATATTTTATAATATA
1 TATATTTGAAATATTTTA-AATATA
*
1928871 TATATTT-TAA-ATTTTAAATATA
1 TATATTTGAAATATTTTAAATATA
*
1928893 TATTTTTGAAATTATTTT
1 TATATTTGAAA-TATTTT
1928911 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 12 0.35
23 8 0.24
24 2 0.06
25 12 0.35
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATTTGAAATATTTTAAATATA
Found at i:1928897 original size:36 final size:36
Alignment explanation
Indices: 1928859--1928941 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 36
1928849 ATTTGAAATA
1928859 TTTTATAATATATATATTTT-AAATTTTAAATATATAT
1 TTTTA-AATATAT-TATTTTAAAATTTTAAATATATAT
*
1928896 TTTTGAAAT-TATTTTTTTAAAATTTTAAATAT-TATT
1 TTTT-AAATATATTATTTTAAAATTTTAAATATATA-T
1928932 TTTTAAATAT
1 TTTTAAATAT
1928942 TAAATATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
35 11 0.27
36 22 0.54
37 7 0.17
38 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTTAAATATATTATTTTAAAATTTTAAATATATAT
Found at i:1928929 original size:23 final size:22
Alignment explanation
Indices: 1928903--1928953 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
1928893 TATTTTTGAA
*
1928903 ATTATTTTTTTAAAATTTTAAAT
1 ATTATTTTTTT-AAATATTAAAT
1928926 ATTA-TTTTTTAAATATTAAAT
1 ATTATTTTTTTAAATATTAAAT
1928947 A-TATTTT
1 ATTATTTT
1928954 AATAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 14 0.54
22 6 0.23
23 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTATTTTTTTAAATATTAAAT
Found at i:1928933 original size:21 final size:21
Alignment explanation
Indices: 1928896--1928953 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1928886 AAATATATAT
1928896 TTTTGAAATTATT-TTTTTAAAA
1 TTTT-AAA-TATTATTTTTAAAA
*
1928918 TTTTAAATATTATTTTTTAAA
1 TTTTAAATATTATTTTTAAAA
*
1928939 TATTAAATA-TATTTT
1 TTTTAAATATTATTTT
1928954 AATAATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.30
21 19 0.58
22 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTAAATATTATTTTTAAAA
Found at i:1928971 original size:17 final size:20
Alignment explanation
Indices: 1928910--1928987 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
1928900 GAAATTATTT
*
1928910 TTTTAA-AATTTTAAATATTA
1 TTTTAATAATATTAAATA-TA
*
1928930 TTTT-TTAAATATTAAATATA
1 TTTTAAT-AATATTAAATATA
1928950 TTTTAATAATA-TAAA-ATA
1 TTTTAATAATATTAAATATA
* *
1928968 TTTAAAT-ATTTTAAATATA
1 TTTTAATAATATTAAATATA
1928987 T
1 T
1928988 GAACTTTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.04
18 13 0.27
19 8 0.17
20 14 0.29
21 11 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTAATAATATTAAATATA
Found at i:1929056 original size:11 final size:11
Alignment explanation
Indices: 1929040--1929073 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1929030 ATATTTTAAA
1929040 TTTTAAATATT
1 TTTTAAATATT
*
1929051 TTTTAATTTATT
1 TTTTAA-ATATT
1929063 TTTTAAATATT
1 TTTTAAATATT
1929074 AAATATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:1929085 original size:30 final size:30
Alignment explanation
Indices: 1929017--1929096 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
1929007 TAGTTTTATA
* * *
1929017 ATATTTTAAATGTATATTTTAAATTTTAAAT
1 ATATTTT-AATTTATTTTTTAAATATTAAAT
*
1929048 ATTTTTTAATTTATTTTTTAAATATTAAAT
1 ATATTTTAATTTATTTTTTAAATATTAAAT
1929078 ATATTTT-ATTTATTTTTTA
1 ATATTTTAATTTATTTTTTA
1929097 TTATTAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 12 0.27
30 26 0.59
31 6 0.14
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
ATATTTTAATTTATTTTTTAAATATTAAAT
Found at i:1929151 original size:23 final size:21
Alignment explanation
Indices: 1929125--1929173 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
1929115 TTGAAATGTG
*
1929125 TATTTGAAATATTTTATAATATA
1 TATTTGAAA-ATTTTA-AATACA
*
1929148 TATTTTTAAAATTTTAAATACA
1 TA-TTTGAAAATTTTAAATACA
1929170 TATT
1 TATT
1929174 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.09
22 7 0.30
23 8 0.35
24 6 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTGAAAATTTTAAATACA
Found at i:1929172 original size:22 final size:21
Alignment explanation
Indices: 1929135--1929244 Score: 105
Period size: 22 Copynumber: 4.9 Consensus size: 21
1929125 TATTTGAAAT
*
1929135 ATTTTATAATATATATTTTTAAA
1 ATTTTA-AATA-ATATTTTTTAA
1929158 ATTTTAAATACATATTATTATTTTTAA
1 ATTTTAAAT--A-A-TA-T-TTTTTAA
1929185 ATTTTAAATATATATTTTTTAA
1 ATTTTAAATA-ATATTTTTTAA
*
1929207 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATAATATTTTTTAA
*
1929228 ATGTTAAAT-ATATTTTT
1 ATTTTAAATAATATTTTT
1929245 AATAATATAA
Statistics
Matches: 78, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.09
21 18 0.23
22 20 0.26
23 7 0.09
24 5 0.06
25 5 0.06
26 1 0.01
27 15 0.19
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (21 bp):
ATTTTAAATAATATTTTTTAA
Found at i:1929201 original size:21 final size:22
Alignment explanation
Indices: 1929135--1929244 Score: 134
Period size: 21 Copynumber: 4.8 Consensus size: 22
1929125 TATTTGAAAT
*
1929135 ATTTTATAATATATATTTTTAAA
1 ATTTTA-AATATATATTTTTTAA
1929158 ATTTTAAATACATATTATTATTTTTAA
1 ATTTTAAAT--ATA-TA-T-TTTTTAA
1929185 ATTTTAAATATATATTTTTTAA
1 ATTTTAAATATATATTTTTTAA
1929207 ATTTTAAATAT-TATTTTTTAA
1 ATTTTAAATATATATTTTTTAA
*
1929228 ATGTTAAATATAT-TTTT
1 ATTTTAAATATATATTTT
1929245 AATAATATAA
Statistics
Matches: 79, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
21 24 0.30
22 22 0.28
23 7 0.09
24 5 0.06
25 5 0.06
26 1 0.01
27 15 0.19
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (22 bp):
ATTTTAAATATATATTTTTTAA
Found at i:1929439 original size:291 final size:286
Alignment explanation
Indices: 1928896--1929466 Score: 753
Period size: 291 Copynumber: 2.0 Consensus size: 286
1928886 AAATATATAT
1928896 TTTTGAAATTATTTTTTTAAAATTTTAAATATTATTTTTTAAATATTAAATATATTTTAATAATA
1 TTTTGAAATTATTTTTTTAAAATTTTAAATATTATTTTTTAAATATTAAATATATTTTAATAATA
* *
1928961 TAAAATATTTAAATATTTTAAATATATGAACTTTCAAATTTATTATTAGTTTTATAATATTTTAA
66 TAAAACATTTAAATATTTTAAAGATATGAACTTTCAAATTTATTATTAGTTTTATAATATTTTAA
* *
1929026 ATGTATATTTTAAATTTTAAATATTTTTTAATTTATTTTTTAAATATTAAATATATTTTATTTAT
131 ATGTATATTTTAAATTTTAAATATTTTTTAATTTATTCTATAAATATTAAATATATTTTATTTAT
** ** * * * *
1929091 TTTTTATTATTAATTTTAAAAAATTTGAAATGTGTATTTGAAATATTTTATAATATATATTTTTA
196 AATTTA-TAAAAATTTAAAAAAATTTGAAATATGTATTTGAAATA-TTTA-AAAATATATATTTA
*
1929156 AAATTTTAAATACATATTATTATTTTTAAA
258 AAATTTGAAATACATA-TATTATTTTTAAA
*
1929186 TTTT-AAATATATATTTTTT-AAATTTTAAATATTATTTTTTAAATGTTAAATATATTTTTAATA
1 TTTTGAAAT-TAT-TTTTTTAAAATTTTAAATATTATTTTTTAAATATTAAATATA-TTTTAATA
* *
1929249 ATATAAAACATTTAAATATTTTAAAGATATGACCTTTCAAATTTATTTTTAGTTTTATAATATTT
63 ATATAAAACATTTAAATATTTTAAAGATATGAACTTTCAAATTTATTATTAGTTTTATAATATTT
* *
1929314 TAAATGTATATTTTAAATTTTAAATATTTTTTAATTTGTTCTAT-AATATTTTAA-ATATTTT-T
128 TAAATGTATATTTTAAATTTTAAATATTTTTTAATTTATTCTATAAATA-TTAAATATATTTTAT
* * * *
1929376 TTA-AATTTA-AAAAAGTTTCAAAAATATATATTTTAAATATTTTTTTTAAAT-TTTAAAAATAT
192 TTATAATTTATAAAAA-TTT--AAAA-A-A-ATTTGAAATATGTATTTGAAATATTTAAAAATAT
*
1929438 ATATTTAAAATTTGAAATATATATATTAT
251 ATATTTAAAATTTGAAATACATATATTAT
1929467 AAAACATTTC
Statistics
Matches: 248, Mismatches: 23, Indels: 22
0.85 0.08 0.08
Matches are distributed among these distances:
286 3 0.01
287 3 0.01
288 10 0.04
289 37 0.15
290 57 0.23
291 121 0.49
292 17 0.07
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (286 bp):
TTTTGAAATTATTTTTTTAAAATTTTAAATATTATTTTTTAAATATTAAATATATTTTAATAATA
TAAAACATTTAAATATTTTAAAGATATGAACTTTCAAATTTATTATTAGTTTTATAATATTTTAA
ATGTATATTTTAAATTTTAAATATTTTTTAATTTATTCTATAAATATTAAATATATTTTATTTAT
AATTTATAAAAATTTAAAAAAATTTGAAATATGTATTTGAAATATTTAAAAATATATATTTAAAA
TTTGAAATACATATATTATTTTTAAA
Found at i:1929448 original size:22 final size:23
Alignment explanation
Indices: 1929423--1929470 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
1929413 TATTTTTTTT
*
1929423 AAATTTTAAAAATATATATT-TA
1 AAATTTGAAAAATATATATTATA
*
1929445 AAATTTGAAATATATATATTATA
1 AAATTTGAAAAATATATATTATA
1929468 AAA
1 AAA
1929471 CATTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTTGAAAAATATATATTATA
Found at i:1929481 original size:25 final size:22
Alignment explanation
Indices: 1929423--1929483 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
1929413 TATTTTTTTT
* *
1929423 AAATTTTAAAAATATATATTTA
1 AAATTTCAAATATATATATTTA
*
1929445 AAATTTGAAATATATATATTATAA
1 AAATTTCAAATATATATATT-T-A
1929469 AACATTTCAAATATA
1 AA-ATTTCAAATATA
1929484 CATTTCAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.55
23 1 0.03
24 3 0.09
25 11 0.33
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATTTCAAATATATATATTTA
Done.