Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 28 of 318
Found at i:10442043 original size:47 final size:47
Alignment explanation
Indices: 10441910--10442064 Score: 179
Period size: 47 Copynumber: 3.3 Consensus size: 47
10441900 ATAGTAAAAT
** * * *
10441910 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * *
10441959 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
*
10442005 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
10442052 TATGGTCTTATAC
1 TATGGTCTTATAC
10442065 GGAAATCACA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
46 27 0.30
47 42 0.47
48 10 0.11
49 11 0.12
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:10442073 original size:95 final size:93
Alignment explanation
Indices: 10441910--10442090 Score: 222
Period size: 95 Copynumber: 1.9 Consensus size: 93
10441900 ATAGTAAAAT
* *
10441910 TATGGTCTTGCACATAGTCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGGA
1 TATGGTCTTACACATAGTCACATATCACA-ACCGAGGCCATAGCCCAGACATGGTCTTATACGGA
10441975 TCACATATCACACTGATGCCATATCCCAGA
65 TCACATATCACA-TGATGCCATATCCCAGA
* * * * *
10442005 TATGGTCTTATACAGTAG-CACATATCAC-ACCGATGCCATATCCCGGATATGGTCTTATACGGA
1 TATGGTCTTACACA-TAGTCACATATCACAACCGAGGCCATAGCCCAGACATGGTCTTATACGG-
* *
10442068 AATCACATTTCACATGCTGCCAT
64 -ATCACATATCACATGATGCCAT
10442091 GGTCCAACCA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
93 29 0.39
94 8 0.11
95 34 0.46
96 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (93 bp):
TATGGTCTTACACATAGTCACATATCACAACCGAGGCCATAGCCCAGACATGGTCTTATACGGAT
CACATATCACATGATGCCATATCCCAGA
Found at i:10444270 original size:82 final size:82
Alignment explanation
Indices: 10444131--10444297 Score: 221
Period size: 82 Copynumber: 2.0 Consensus size: 82
10444121 TTTCACATTT
* * * *
10444131 TATAAAAGTAGCTAATTTTCAAATTTGGCCCTTCTAATATGTTTAAATTTGATATTTAATCTTTA
1 TATAAAAGTAGCTAATTTTCAAATTTGGCACTTCTAATATGCTTAAATTTGAGATTTAATCCTTA
10444196 TACT-TCAATTTCTAACA
66 TACTCT-AATTTCTAACA
* * **
10444213 TATAAAAGTGGCTAATTTTTAGTTTTGGTCACTT-TAATATGCTTAAATTTGAGATTTAATCCTT
1 TATAAAAGTAGCTAATTTTCAAATTTGG-CACTTCTAATATGCTTAAATTTGAGATTTAATCCTT
*
10444277 ATACTCTGATTTCTAACA
65 ATACTCTAATTTCTAACA
10444295 TAT
1 TAT
10444298 TTTGGTCTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 69 0.93
83 5 0.07
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (82 bp):
TATAAAAGTAGCTAATTTTCAAATTTGGCACTTCTAATATGCTTAAATTTGAGATTTAATCCTTA
TACTCTAATTTCTAACA
Found at i:10446443 original size:17 final size:17
Alignment explanation
Indices: 10446403--10446444 Score: 77
Period size: 16 Copynumber: 2.5 Consensus size: 17
10446393 CATACGATGA
10446403 TTGTTTATTTCTATTTT
1 TTGTTTATTTCTATTTT
10446420 TTG-TTATTTCTATTTT
1 TTGTTTATTTCTATTTT
10446436 TTGTTTATT
1 TTGTTTATT
10446445 GTATCTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (17 bp):
TTGTTTATTTCTATTTT
Found at i:10455843 original size:15 final size:16
Alignment explanation
Indices: 10455799--10455848 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
10455789 ATATATCAAA
*
10455799 TTTTAATTTTAATTTAAT
1 TTTTAA-TTAAATTT-AT
10455817 TTTTAGATTAAATTTAT
1 TTTTA-ATTAAATTTAT
10455834 TTTT-ATTAAATTTAT
1 TTTTAATTAAATTTAT
10455849 ATGGCACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.37
17 6 0.20
18 12 0.40
19 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTAATTAAATTTAT
Found at i:10456456 original size:32 final size:32
Alignment explanation
Indices: 10456394--10456456 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
10456384 TGTAGAATTT
* * *
10456394 TTTGAAATTTGTATTTAAACACTTTCAAAATG
1 TTTGAAATTTCTATTTAAAAACTTTAAAAATG
*
10456426 TTTGAAATTTCTCA-TTAAAAATTTTAAAAAT
1 TTTGAAATTTCT-ATTTAAAAACTTTAAAAAT
10456457 TTTAGCTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (32 bp):
TTTGAAATTTCTATTTAAAAACTTTAAAAATG
Found at i:10458346 original size:13 final size:13
Alignment explanation
Indices: 10458314--10458346 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
10458304 TACTAAGTAA
10458314 AAAACTTAAATATT
1 AAAA-TTAAATATT
10458328 -AAATTAAATATT
1 AAAATTAAATATT
10458340 AAAATTA
1 AAAATTA
10458347 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTAAATATT
Found at i:10462826 original size:16 final size:17
Alignment explanation
Indices: 10462795--10462827 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10462785 TTCATAAGTA
10462795 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
10462812 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
10462828 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:10463521 original size:46 final size:46
Alignment explanation
Indices: 10463123--10463519 Score: 519
Period size: 46 Copynumber: 8.6 Consensus size: 46
10463113 TGCCATAGCG
** * *
10463123 TCTTTCAAATATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATGGTA
* * *
10463169 TCTTTCAACCATAGTCTTATTCATTTCATGTCACGCTGTCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* *
10463215 TCTTTCAACTATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATGGTA
* * *
10463261 TCTTTTAATCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
** *
10463307 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
*
10463353 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
** * *
10463399 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* ** * *
10463445 TCTTTCAACCATGGTATTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
**
10463491 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTATTCATTTCAT
10463520 ATAAGAGAGC
Statistics
Matches: 316, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 8 0.03
46 304 0.96
47 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
Found at i:10464826 original size:46 final size:44
Alignment explanation
Indices: 10464774--10464896 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 44
10464764 CAGAAATGAG
* * *
10464774 CCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTGAT
1 CCATGTAAGTCCATATTA-AAA-ATGGCATTGGAGACAGGAATAAT
*
10464820 CCATGTAAGTCCATATTATAAATGGCATTGGAGACAGGAATAAT
1 CCATGTAAGTCCATATTAAAAATGGCATTGGAGACAGGAATAAT
* * * *
10464864 TCATATAAGTCCATGTCAAAGACATGGCATTGG
1 CCATGTAAGTCCATATTAAA-A-ATGGCATTGG
10464897 CAGGATATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 35 0.53
45 3 0.05
46 28 0.42
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (44 bp):
CCATGTAAGTCCATATTAAAAATGGCATTGGAGACAGGAATAAT
Found at i:10471253 original size:17 final size:17
Alignment explanation
Indices: 10471233--10471267 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10471223 ATTAGGACAT
10471233 GGAAGGAATTTTTGAAA
1 GGAAGGAATTTTTGAAA
10471250 GGAAGGAATTTTTGAAA
1 GGAAGGAATTTTTGAAA
10471267 G
1 G
10471268 TTTAGTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (17 bp):
GGAAGGAATTTTTGAAA
Found at i:10472250 original size:44 final size:45
Alignment explanation
Indices: 10472166--10472269 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
10472156 CAGAAATGAG
* * * *
10472166 CCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGGATTGAT
1 CCATGTAAGTCCATATTA-AAATATGACATTAGAGACAGGAATAAT
* *
10472212 CCATGTAAGTCCATATT-ATATATGGCATTAGAGACAGGAATAAT
1 CCATGTAAGTCCATATTAAAATATGACATTAGAGACAGGAATAAT
*
10472256 TCATGTAAGTCCAT
1 CCATGTAAGTCCAT
10472270 GTCAAAGACA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 34 0.67
46 17 0.33
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (45 bp):
CCATGTAAGTCCATATTAAAATATGACATTAGAGACAGGAATAAT
Found at i:10476000 original size:30 final size:30
Alignment explanation
Indices: 10475966--10476026 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10475956 TTCCCGAGCC
10475966 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
10475996 TAGGGGTAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
10476026 T
1 T
10476027 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:10476922 original size:66 final size:67
Alignment explanation
Indices: 10476794--10476922 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 67
10476784 TACTATGTGT
* * * * *
10476794 ACACCATGTAGACAAGAGAGCTACGGGATATATCTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAAAGCTACGAGATATAACTAGCTAGGTCACATGCGTGGTACCAAGTGAA
10476859 GG
66 GG
* * * *
10476861 ACACCATGTAGACAAGAAAGTTACGAGATA-AACTGGCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAAAGCTACGAGATATAACTAGCTAGGTCACATGCGTGGTACCAAGTG
10476923 TTCACCATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
66 26 0.49
67 27 0.51
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (67 bp):
ACACCATGTAGACAAGAAAGCTACGAGATATAACTAGCTAGGTCACATGCGTGGTACCAAGTGAA
GG
Found at i:10487194 original size:6 final size:6
Alignment explanation
Indices: 10487183--10487215 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10487173 TGGATTATTT
10487183 AAATTA AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAA
10487216 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:10504783 original size:11 final size:11
Alignment explanation
Indices: 10504769--10504793 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10504759 AAAGTGAAGG
10504769 AAAAGAAAAGA
1 AAAAGAAAAGA
10504780 AAAAGAAAAGA
1 AAAAGAAAAGA
10504791 AAA
1 AAA
10504794 CAGGATACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:10516409 original size:16 final size:16
Alignment explanation
Indices: 10516390--10516423 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10516380 TAGTAATACT
*
10516390 AATAATTTGACTAGAA
1 AATAATTTGACCAGAA
10516406 AATAATTTGACCAGAA
1 AATAATTTGACCAGAA
10516422 AA
1 AA
10516424 GGGAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (16 bp):
AATAATTTGACCAGAA
Found at i:10519907 original size:15 final size:16
Alignment explanation
Indices: 10519887--10519917 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10519877 TAAATTTTTT
10519887 AAAATAAA-AAATATA
1 AAAATAAACAAATATA
10519902 AAAATAAACAAATATA
1 AAAATAAACAAATATA
10519918 CAATAGTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAACAAATATA
Found at i:10523579 original size:32 final size:31
Alignment explanation
Indices: 10523521--10523580 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
10523511 TTCAGAAAAC
* *
10523521 TAACAATGTTAATCATAAGGAGCAATTTATG
1 TAACAATGCTAATCATAAGGACCAATTTATG
* *
10523552 TAACGAATGCTAATCTTAATGACCAATTT
1 TAAC-AATGCTAATCATAAGGACCAATTT
10523581 GATCCAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.17
32 20 0.83
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (31 bp):
TAACAATGCTAATCATAAGGACCAATTTATG
Found at i:10526712 original size:79 final size:79
Alignment explanation
Indices: 10526612--10526844 Score: 358
Period size: 79 Copynumber: 2.9 Consensus size: 79
10526602 CCAATATTGA
* * * * ** *
10526612 CCATAAATTCCCTCTAATAGTGGTTCTATTGTTGATATTGAGTTATTCTAGAACATCTTTTTGCC
1 CCAT-AATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCC
10526677 AAATATACTTATTCC
65 AAATATACTTATTCC
*
10526692 CCATAATCTCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
1 CCATAATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
10526757 AATATACTTATTCC
66 AATATACTTATTCC
* *
10526771 CCATAATCCCCTCTATTAGTGGTTCTGTCGTTGATATCAAGTTATTGTAGAACATCTTTTTGGCA
1 CCATAATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
*
10526836 AATTTACTT
66 AATATACTT
10526845 TCAGATATAA
Statistics
Matches: 141, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
79 137 0.97
80 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (79 bp):
CCATAATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
AATATACTTATTCC
Found at i:10527965 original size:90 final size:89
Alignment explanation
Indices: 10527812--10527989 Score: 322
Period size: 90 Copynumber: 2.0 Consensus size: 89
10527802 TTTCCTCCAA
10527812 TTTTTTTCCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGATCA
1 TTTTTTTCCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGATCA
10527877 AAAAGATTCCAACATGTTACAATAT
66 AAAAGATTCCAACAT-TTACAATAT
10527902 TTTTTTTCCCCCTTTTAATAACATGGCTCTGTAAAAG-AGTACAAAATGGCTAGTTTGGTTGATC
1 TTTTTTT-CCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGATC
*
10527966 AAAAAGATTCCAACATTTTCAATA
65 AAAAAGATTCCAACATTTACAATA
10527990 GTTTATACTT
Statistics
Matches: 86, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
89 7 0.08
90 50 0.58
91 29 0.34
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (89 bp):
TTTTTTTCCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGATCA
AAAAGATTCCAACATTTACAATAT
Found at i:10532904 original size:23 final size:22
Alignment explanation
Indices: 10532871--10532920 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
10532861 ATATTTAATA
** *
10532871 TTTTT-AATTTAATTTATTACG
1 TTTTTAAATTTAAAATAATACG
10532892 TTTTTAAATTTTAAAATAATACG
1 TTTTTAAA-TTTAAAATAATACG
10532915 TTTTTA
1 TTTTTA
10532921 TTAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 2 0.08
23 17 0.71
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTTAAATTTAAAATAATACG
Found at i:10532936 original size:28 final size:26
Alignment explanation
Indices: 10532905--10532956 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
10532895 TTAAATTTTA
*
10532905 AAATAATACGTTTTTATTAATTTATTTC
1 AAATAATAC-ATTTTATT-ATTTATTTC
*
10532933 AAATTATACATTTTATTATTTATT
1 AAATAATACATTTTATTATTTATT
10532957 ATATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 7 0.32
28 8 0.36
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
AAATAATACATTTTATTATTTATTTC
Found at i:10535356 original size:43 final size:43
Alignment explanation
Indices: 10535307--10535491 Score: 232
Period size: 43 Copynumber: 4.3 Consensus size: 43
10535297 TTTTATAAAT
* *
10535307 AAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTCCAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
10535350 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
10535393 AAACGCAGCTAAAGACTAGGACCTTTAGCGGCGCTTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCAC
* * **
10535437 AAACGCCACTATAA-A--ATAGACCTTTAGCGGCACTTTTTACAC
1 AAACGCCGCTA-AAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
*
10535479 AAACGCCGTTAAA
1 AAACGCCGCTAAA
10535492 AATATATCTT
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.02
42 17 0.13
43 86 0.68
44 19 0.15
45 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:10535813 original size:43 final size:43
Alignment explanation
Indices: 10535765--10535855 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
10535755 ACATATGCAA
* * *
10535765 GGTAATAAAATATACAATGCATTTTCTTAATC-AAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAG-AAATCTT
*
10535808 GGTAATAAAAGATATAATACATTTACTTAATCAAAGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
10535851 -GTAAT
1 GGTAAT
10535856 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 35 0.81
44 3 0.07
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
Found at i:10539304 original size:40 final size:40
Alignment explanation
Indices: 10539222--10539297 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
10539212 TTAATGCGTA
* * * *
10539222 TTTGCGGCGTTTTTATGAAAAACGCCGCTATTGCTTACCT
1 TTTGCAGCGTTTTTATCAAAAACGCCGCTAATGATTACCT
* *
10539262 TTTGCAGCGTTTTTCTCATAAACGCCGCTAATGATT
1 TTTGCAGCGTTTTTATCAAAAACGCCGCTAATGATT
10539298 GACTTTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTGCAGCGTTTTTATCAAAAACGCCGCTAATGATTACCT
Found at i:10539443 original size:6 final size:6
Alignment explanation
Indices: 10539432--10539459 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10539422 TTTATGTAAG
10539432 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
10539460 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:10539568 original size:13 final size:13
Alignment explanation
Indices: 10539550--10539576 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10539540 ATTGTCAATC
10539550 TGTTACATTAATT
1 TGTTACATTAATT
10539563 TGTTACATTAATT
1 TGTTACATTAATT
10539576 T
1 T
10539577 ATTTATGTAT
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:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:10540050 original size:7 final size:7
Alignment explanation
Indices: 10540040--10540091 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
10540030 CACTAACTCT
*
10540040 TAACCTC
1 TAACCCC
*
10540047 TAACCTC
1 TAACCCC
10540054 TAACCCC
1 TAACCCC
10540061 TAACCCC
1 TAACCCC
*
10540068 TAATCCC
1 TAACCCC
**
10540075 TAACTAC
1 TAACCCC
10540082 TAACCCC
1 TAACCCC
10540089 TAA
1 TAA
10540092 ATCTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCCC
Found at i:10540056 original size:21 final size:21
Alignment explanation
Indices: 10540027--10540091 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
10540017 TTAAACCTTA
* * *
10540027 AATCACTAACTCTTAACCTCT
1 AATCCCTAACTCCTAACCCCT
*
10540048 AA-CCTCTAACCCCTAACCCCT
1 AATCC-CTAACTCCTAACCCCT
*
10540069 AATCCCTAACTACTAACCCCT
1 AATCCCTAACTCCTAACCCCT
10540090 AA
1 AA
10540092 ATCTTATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
AATCCCTAACTCCTAACCCCT
Found at i:10540373 original size:10 final size:10
Alignment explanation
Indices: 10540360--10540431 Score: 67
Period size: 9 Copynumber: 7.1 Consensus size: 10
10540350 TTTTACATAC
*
10540360 TTTTTTAAAT
1 TTTTTTAAAA
10540370 TTTTTTAAAA
1 TTTTTTAAAA
*
10540380 -ATTTTAAAA
1 TTTTTTAAAA
10540389 TATTTTTAAAA
1 T-TTTTTAAAA
**
10540400 TACTTTTTTTAA
1 T--TTTTTAAAA
10540412 TTTTTTAAAA
1 TTTTTTAAAA
10540422 -TTTTTAAAA
1 TTTTTTAAAA
10540431 T
1 T
10540432 AAAAATGGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 17 0.34
10 16 0.32
11 9 0.18
12 8 0.16
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:10540388 original size:43 final size:42
Alignment explanation
Indices: 10540336--10540432 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 42
10540326 TTATTTTTTT
* *
10540336 AATTTTAAAATATTTTTTACATACTTTTTTAAATTTTTTTAAA
1 AATTTTAAAATATTTTTAAAATACTTTTTTAAA-TTTTTTAAA
*
10540379 AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAA
1 AATTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAA
*
10540421 ATTTTTAAAATA
1 AATTTTAAAATA
10540433 AAAATGGGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 20 0.40
43 30 0.60
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (42 bp):
AATTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAA
Found at i:10540835 original size:21 final size:20
Alignment explanation
Indices: 10540811--10540863 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
10540801 CAAATCTTTA
* *
10540811 AACCCTAAATCACTAACTCTT
1 AACCCT-AATCACTAACCCCT
*
10540832 AACCTCTAATCTCTAACCCCT
1 AACC-CTAATCACTAACCCCT
10540853 AACCCCTAATC
1 AA-CCCTAATC
10540864 CATAACTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (20 bp):
AACCCTAATCACTAACCCCT
Found at i:10540869 original size:21 final size:21
Alignment explanation
Indices: 10540831--10540882 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10540821 CACTAACTCT
* *
10540831 TAACCTCTAATCTCTAACCCC
1 TAACCCCTAATCTCTAACCAC
*
10540852 TAACCCCTAATC-CATAACTAC
1 TAACCCCTAATCTC-TAACCAC
10540873 TAACCCCTAA
1 TAACCCCTAA
10540883 ATCTTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACCCCTAATCTCTAACCAC
Found at i:10541122 original size:14 final size:15
Alignment explanation
Indices: 10541103--10541131 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10541093 AACCAGAATT
10541103 CCTAATC-CATAATC
1 CCTAATCTCATAATC
10541117 CCTAATCTCATAATC
1 CCTAATCTCATAATC
10541132 TATAAACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (15 bp):
CCTAATCTCATAATC
Found at i:10541689 original size:40 final size:41
Alignment explanation
Indices: 10541554--10541714 Score: 261
Period size: 41 Copynumber: 4.0 Consensus size: 41
10541544 TCAAAAACGG
* *
10541554 GCATTAGTGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGA
10541595 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGA
* *
10541636 GCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGG-CTGA
1 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGA
**
10541676 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCC
10541715 AAAAACCCAA
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 36 0.32
41 75 0.68
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.18
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGA
Found at i:10541709 original size:81 final size:82
Alignment explanation
Indices: 10541554--10541714 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 82
10541544 TCAAAAACGG
* * *
10541554 GCATTAGTGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCCTCAAAAA
1 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTACTCAAAAA
10541619 CGCCGCTAAAGGCCCGA
66 CGCCGCTAAAGGCCCGA
* * *
10541636 GCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGG-CTGAGCATTAGCGGCGCTTATTCAAAAA
1 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTACTCAAAAA
10541700 CGCCGCTAAAGGCCC
66 CGCCGCTAAAGGCCC
10541715 AAAAACCCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 40 0.55
82 33 0.45
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.18
Consensus pattern (82 bp):
GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTACTCAAAAA
CGCCGCTAAAGGCCCGA
Found at i:10541833 original size:40 final size:39
Alignment explanation
Indices: 10541749--10541882 Score: 164
Period size: 40 Copynumber: 3.4 Consensus size: 39
10541739 GGGTTTAGGC
*
10541749 TTTTT-GCGGCGCTTTTCAAAAAACGCCGCTAATG-TTTA
1 TTTTTAGCGGCG-TTTTCAAAAAACGCCGCTAATGCTTGA
*
10541787 TTTTTAGCGGCGTTTTCCAAAAAACGCTGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT-CAAAAAACGCCGCTAATGCTTGA
** * *
10541827 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCA-AAAAACGCCGCTAATGCTTGA
*
10541867 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
10541883 TTGCCCGAGC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 9 0.11
39 24 0.29
40 49 0.60
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCAAAAAACGCCGCTAATGCTTGA
Found at i:10545571 original size:30 final size:31
Alignment explanation
Indices: 10545537--10545603 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
10545527 TATAATAGTT
*
10545537 AAATTTATTAGGTCAA-CCTAAATAAATT-TA
1 AAATTTATTAGAT-AATCCTAAATAAATTATA
* * *
10545567 AAATTTTTTAGATAATCGTAATTAAATTATA
1 AAATTTATTAGATAATCCTAAATAAATTATA
10545598 AAATTT
1 AAATTT
10545604 TGAGATGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 2 0.06
30 21 0.68
31 8 0.26
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (31 bp):
AAATTTATTAGATAATCCTAAATAAATTATA
Found at i:10548596 original size:4 final size:4
Alignment explanation
Indices: 10548587--10548617 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
10548577 TAGATATCTA
10548587 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
10548618 ATACCTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:10554838 original size:24 final size:25
Alignment explanation
Indices: 10554791--10554838 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
10554781 GAAACTAAAA
* **
10554791 AATTTAATATAAATGATATTTTAAT
1 AATTTAAAATAAATGATAGATTAAT
10554816 AATTTAAAAT-AATGATAGATTAA
1 AATTTAAAATAAATGATAGATTAA
10554839 ATATTCAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (25 bp):
AATTTAAAATAAATGATAGATTAAT
Found at i:10554841 original size:25 final size:25
Alignment explanation
Indices: 10554786--10554841 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
10554776 GTTTAGAAAC
* * *
10554786 TAAAAAATTTAATATAAATGATATT
1 TAAATAATTTAAAATAAATGATAAT
*
10554811 TTAATAATTTAAAAT-AATGATAGAT
1 TAAATAATTTAAAATAAATGATA-AT
10554836 TAAATA
1 TAAATA
10554842 TTCAAGTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
TAAATAATTTAAAATAAATGATAAT
Found at i:10558183 original size:29 final size:29
Alignment explanation
Indices: 10558117--10558185 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
10558107 GTTATTAGCT
10558117 TTTAAGTACTAAAATAGATAAAGAAAAAGG
1 TTTAAGTACTAAAATAGATAAAGAAAAA-G
*
10558147 TTCAAGTACTAAAATATGATAAA-AAATAA-
1 TTTAAGTACTAAAATA-GATAAAGAAA-AAG
10558176 TTTAAGTACT
1 TTTAAGTACT
10558186 CAATTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 9 0.26
30 18 0.51
31 8 0.23
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.29
Consensus pattern (29 bp):
TTTAAGTACTAAAATAGATAAAGAAAAAG
Found at i:10562643 original size:27 final size:27
Alignment explanation
Indices: 10562613--10562672 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
10562603 CAACCTCTAC
10562613 GAAAACTCGTTGTATGGTTCACTAAGG
1 GAAAACTCGTTGTATGGTTCACTAAGG
10562640 GAAAACTCGTTGTATGGTTCACTAAGG
1 GAAAACTCGTTGTATGGTTCACTAAGG
*
10562667 AAAAAC
1 GAAAAC
10562673 ATCGGTTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (27 bp):
GAAAACTCGTTGTATGGTTCACTAAGG
Found at i:10564392 original size:23 final size:25
Alignment explanation
Indices: 10564366--10564412 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10564356 TATCATTCAT
*
10564366 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
10564389 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
10564413 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:10567759 original size:46 final size:46
Alignment explanation
Indices: 10567705--10567959 Score: 321
Period size: 46 Copynumber: 5.7 Consensus size: 46
10567695 TGCCGTAGTG
* ** * *
10567705 TCTTTCAACTATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATGGTA
** * *
10567751 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTA
* *
10567797 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTA
10567843 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTA
*
10567889 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTA
*
10567927 TCTTTCAACCATGATCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTACACATTTCATATCA
10567960 GAGAGCACAC
Statistics
Matches: 187, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 31 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 142 0.76
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTA
Found at i:10567928 original size:38 final size:38
Alignment explanation
Indices: 10567877--10567949 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
10567867 TTCATATCAC
*
10567877 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGATCTTACACACAG
10567915 GTTGCCATGGTATCTTTCAACCATGATCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGATCTTACACA
10567950 TTTCATATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGATCTTACACACAG
Found at i:10573235 original size:3 final size:3
Alignment explanation
Indices: 10573229--10573256 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10573219 TTATAAAAAA
10573229 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
10573257 CTCAACCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10574302 original size:22 final size:22
Alignment explanation
Indices: 10574234--10574322 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
10574224 GATACTTTTA
10574234 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
* ** *
10574257 ACGTGG-ACAATATTGTTGTTATC
1 ATGTGGTGTAATA-T-TAGTTATC
10574280 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
10574302 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
10574323 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 31 0.57
23 13 0.24
24 10 0.19
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:10574382 original size:68 final size:68
Alignment explanation
Indices: 10574237--10574385 Score: 201
Period size: 68 Copynumber: 2.2 Consensus size: 68
10574227 ACTTTTAATG
* * *
10574237 TGGTGTAATATTAGTTATGCACGTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACGTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
10574302 ATA
66 ATA
* * * *
10574305 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACGTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-
* *
10574370 TATT
65 CATA
10574374 TGG-ATAATATTA
1 TGGTATAATATTA
10574386 TTAATTTCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 67 0.93
69 5 0.07
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.44
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACGTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:10574836 original size:14 final size:14
Alignment explanation
Indices: 10574777--10574830 Score: 90
Period size: 14 Copynumber: 3.8 Consensus size: 14
10574767 ACAGAAAAGT
10574777 AAATCATTTTCCAG
1 AAATCATTTTCCAG
10574791 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
*
10574806 AAATTATTTTCCAG
1 AAATCATTTTCCAG
10574820 AAATCATTTTC
1 AAATCATTTTC
10574831 TGGAAAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 24 0.65
15 13 0.35
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:10576878 original size:23 final size:25
Alignment explanation
Indices: 10576852--10576898 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10576842 TATCATTCAT
*
10576852 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
10576875 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
10576899 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:10577419 original size:46 final size:46
Alignment explanation
Indices: 10577159--10577470 Score: 385
Period size: 46 Copynumber: 7.0 Consensus size: 46
10577149 TTCGACGTGA
* * * * *
10577159 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * *
10577205 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTGTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATT-TCATATCAGGT
* ** * *
10577251 TGCCATGATATCTTTCAACCATGGTCTTATTC-TTGTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATT-TCATATCAGGT
*
10577297 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10577343 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10577389 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10577427 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10577471 AGAGCACACT
Statistics
Matches: 243, Mismatches: 12, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
38 33 0.14
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 5 0.02
45 3 0.01
46 195 0.80
47 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:10577435 original size:38 final size:38
Alignment explanation
Indices: 10577384--10577459 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
10577374 CATTTCATAT
10577384 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
10577422 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
10577460 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:10592849 original size:44 final size:43
Alignment explanation
Indices: 10592800--10593298 Score: 177
Period size: 44 Copynumber: 11.6 Consensus size: 43
10592790 ATCTACTCTG
* * * *
10592800 CTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCCTTT-CTTCAATCTGCTCCA
* ** * * *
10592844 CTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
**
10592887 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATC-CTTTCTTCAATCTGCTCCA
* ** *
10592931 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTC-TCTGGTCTACTCCA
1 CTGTAATCTCAGGGAGATAAGATCCT----TTCTTC-AATCTGCTCCA
* * * * * * *
10592977 CTGTAACCTCAGGGAAATAAGA-CCTGAT-GT-GATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCCT-TTCTTCAATCTGCTCCA
* *
10593018 CTGTAA-CTTCAGAGAGATAAGATCC--T-TT-AATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
* * * * * ** *
10593057 TTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGA-TCCTTTCTTCAATCTGCTCCA
* ** * *
10593101 CTG-ATATCTCAGGGAGATAAGAT-CTGAAAGTCTTCGGTCTACTCTA
1 CTGTA-ATCTCAGGGAGATAAGATCCT----TTCTTCAATCTGCTCCA
* ** * * **
10593147 CTGTAACCTCAGGGAGATAAGA-CC-TGGTGCGATCTGCTCTG
1 CTGTAATCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
* * * * * * *
10593188 CTGTAA-CTTCAGAGAAATAAGATCATTTATTTTAATCCGCTTCA
1 CTGTAATC-TCAGGGAGATAAGATCCTTT-CTTCAATCTGCTCCA
* ** * * *
10593232 CTGTAA-CTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
*
10593275 CTGTAACCTCAGGGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATC
10593299 TAAAATTCTT
Statistics
Matches: 340, Mismatches: 85, Indels: 61
0.70 0.17 0.13
Matches are distributed among these distances:
39 25 0.07
40 5 0.01
41 54 0.16
42 8 0.02
43 67 0.20
44 115 0.34
45 2 0.01
46 63 0.19
47 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
CTGTAATCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
Found at i:10592904 original size:87 final size:87
Alignment explanation
Indices: 10592788--10592949 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 87
10592778 AGACTTGATG
* * * * *
10592788 CGATCTACTCTGCTGTAATCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
10592852 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * *
10592875 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
10592940 CAGGGAGATA
66 CAGGGAGATA
10592950 AGATCTGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
87 64 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:10593018 original size:46 final size:46
Alignment explanation
Indices: 10592926--10593019 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
10592916 CTTCAATCTG
* * ** *
10592926 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTCTGGTCTA
1 CTCCACTGTAACCTCAGGGAAATAAGACCTGAAATGATCTGCTCTA
** *
10592972 CTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTA
1 CTCCACTGTAACCTCAGGGAAATAAGACCTGAAATGATCTGCTCTA
10593018 CT
1 CT
10593020 GTAACTTCAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (46 bp):
CTCCACTGTAACCTCAGGGAAATAAGACCTGAAATGATCTGCTCTA
Found at i:10593075 original size:170 final size:170
Alignment explanation
Indices: 10592881--10593309 Score: 551
Period size: 170 Copynumber: 2.5 Consensus size: 170
10592871 TCTTCGATCT
* * * * *
10592881 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-TCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGA
*
10592946 GATAAGATCTGAAATTC-TCTGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGAT
65 GATAAGATCTGAAATTCTTC-GGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGAT
* *
10593010 CTTCTCTACTGTAACTTCAGAGAGATAAGATC-CTTTAATCC
129 CTGCTCTACTGTAACTTCAGAGAAATAAGATCTCTTTAATCC
* * * * *
10593051 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTG-ATATCTCAGGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATT-CTGTCTTCGATCTGCTCCGCTGTA-ACCTCAGGG
* * * *
10593115 AGATAAGATCTGAAAGTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGGTGCGAT
64 AGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGAT
* *
10593180 CTGCTCTGCTGTAACTTCAGAGAAATAAGATCATTTATTTTAATCC
129 CTGCTCTACTGTAACTTCAGAGAAATAAGATC---T-CTTTAATCC
* *
10593226 GCTTCACTGTAA-CTTCAGGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAACCTCAGGGA
1 GCTCCACTGTAATC-TCAGGGAGATAGGATTCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGA
*
10593290 GATAAGATCTAAAATTCTTC
65 GATAAGATCTGAAATTCTTC
10593310 AGCCAGTTTC
Statistics
Matches: 221, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
169 2 0.01
170 136 0.62
171 2 0.01
174 47 0.21
175 34 0.15
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (170 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTCTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCT
GCTCTACTGTAACTTCAGAGAAATAAGATCTCTTTAATCC
Found at i:10593428 original size:86 final size:86
Alignment explanation
Indices: 10593348--10594002 Score: 895
Period size: 86 Copynumber: 7.6 Consensus size: 86
10593338 AAGGTTCGTC
* * * * * *
10593348 TTCGACCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCA-TCACA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTCAACCAGCTCCACT-GCA
* *
10593412 ACCGA-GAGAGGTAAGG-TTTGTGT
64 ACCAATGA-AGGCAAGGCTTTGT-T
* * * **
10593435 CTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACTGCA
1 -TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTCAACCAGCTCCACTGCA
10593500 ACCAATGAAGGCAAGGCTTTGTT
64 ACCAATGAAGGCAAGGCTTTGTT
* * * * *
10593523 TTCGATCTGCTTCGCTATTAACACAGGAAGGTAAGATCTGCTTCTTTAACCATCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAAC
10593588 CAATGAAGGCAAGGCTTTGTT
66 CAATGAAGGCAAGGCTTTGTT
* * *
10593609 TTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGTAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAAC
10593674 CAATGAAGGCAAGGCTTTGTT
66 CAATGAAGGCAAGGCTTTGTT
* *
10593695 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGTAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAAC
10593760 CAATGAAGGCAAGGCTTTGTT
66 CAATGAAGGCAAGGCTTTGTT
* *
10593781 TTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAAC
10593846 CAATGAAGGCAAGGCTTTGTT
66 CAATGAAGGCAAGGCTTTGTT
** *
10593867 TTTAATCTGCTTCACTGTTAACGCAGGAAGG-AAGGATCTGCTATCTTCAACCAGCTCCACTGCA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAA-GATCTGCT-TCTTCAACCAGCTCCACTGCA
* * *
10593931 ACCGATGGAGGCAAGGATTTGTT
64 ACCAATGAAGGCAAGGCTTTGTT
* * *
10593954 TTCGATCTGCTTCACTGTTAACGTAGGAAGGCAAGATCTGATGTCTTCA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTCA
10594003 TTGATCTGTT
Statistics
Matches: 526, Mismatches: 35, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
85 2 0.00
86 328 0.62
87 115 0.22
88 73 0.14
89 8 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (86 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCACTGCAAC
CAATGAAGGCAAGGCTTTGTT
Found at i:10593987 original size:43 final size:43
Alignment explanation
Indices: 10593506--10593988 Score: 253
Period size: 43 Copynumber: 11.2 Consensus size: 43
10593496 TGCAACCAAT
* ** * * *
10593506 GAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTATTAACACAG
1 GAAGGCAAGGATTTGTTTTTAATCTGCTTCACTGTTAACGCAG
* * * * * *
10593549 GAAGGTAA-GATCTGCTTCTTTAACCAT-CTCCACTG-CAAC-CAAT
1 GAAGGCAAGGATTTG-TT-TTTAATC-TGCTTCACTGTTAACGC-AG
* * *
10593592 GAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGATTTGTTTTTAATCTGCTTCACTGTTAACGCAG
* * * * *
10593635 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-TAAC-CAAT
1 GAAGGCAAGGATTTG-TT-TTTAATCTGCTTCACTGTTAACGC-AG
* ** *
10593678 GAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGATTTGTTTTTAATCTGCTTCACTGTTAACGCAG
* * * * *
10593721 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-TAAC-CAAT
1 GAAGGCAAGGATTTG-TT-TTTAATCTGCTTCACTGTTAACGC-AG
* * *
10593764 GAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGATTTGTTTTTAATCTGCTTCACTGTTAACGCAG
* * * * * *
10593807 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAAC-CAAT
1 GAAGGCAAGGATTTG-TT-TTTAATCTGCTTCACTGTTAACGC-AG
*
10593850 GAAGGCAAGGCTTTGTTTTTAATCTGCTTCACTGTTAACGCAG
1 GAAGGCAAGGATTTGTTTTTAATCTGCTTCACTGTTAACGCAG
* * * * * *
10593893 GAAGG-AAGGATCTGCTATCTTCAACCAGCTCCACTG-CAAC-CGATG
1 GAAGGCAAGGATTTG-T-T-TTTAATCTGCTTCACTGTTAACGC-A-G
** *
10593938 G-AGGCAAGGATTTGTTTTCGATCTGCTTCACTGTTAACGTAG
1 GAAGGCAAGGATTTGTTTTTAATCTGCTTCACTGTTAACGCAG
10593980 GAAGGCAAG
1 GAAGGCAAG
10593989 ATCTGATGTC
Statistics
Matches: 321, Mismatches: 84, Indels: 70
0.68 0.18 0.15
Matches are distributed among these distances:
41 1 0.00
42 90 0.28
43 133 0.41
44 73 0.23
45 24 0.07
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (43 bp):
GAAGGCAAGGATTTGTTTTTAATCTGCTTCACTGTTAACGCAG
Found at i:10595263 original size:14 final size:13
Alignment explanation
Indices: 10595238--10595262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10595228 TTTTTCATTT
10595238 TTTCATTTTTTTA
1 TTTCATTTTTTTA
10595251 TTTCATTTTTTT
1 TTTCATTTTTTT
10595263 TTTTGAGTCT
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCATTTTTTTA
Found at i:10612767 original size:32 final size:32
Alignment explanation
Indices: 10612731--10612793 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
10612721 CTAAATAGTA
*
10612731 TGTGATGAAATACA-TTTTATGGATTGCTTGTC
1 TGTGATAAAATA-AGTTTTATGGATTGCTTGTC
*
10612763 TGTGATAAAATAAGTTTTATGGGTTGCTTGT
1 TGTGATAAAATAAGTTTTATGGATTGCTTGT
10612794 TATATTCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.44
Consensus pattern (32 bp):
TGTGATAAAATAAGTTTTATGGATTGCTTGTC
Found at i:10612873 original size:96 final size:97
Alignment explanation
Indices: 10612703--10612898 Score: 340
Period size: 96 Copynumber: 2.0 Consensus size: 97
10612693 GGTGGATTGC
10612703 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
* *
10612768 TAAAATAAGTTTTATGGGTTGCTTGTTATATT
66 TAAAATAAGTTTTATGAGTTGCTTCTTATATT
*
10612800 CTGCTTACATCTCTTAAGCT-AATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
* *
10612864 TAAAGTAAGTTTTATGAGTTGCTTCTTATGTT
66 TAAAATAAGTTTTATGAGTTGCTTCTTATATT
10612896 CTG
1 CTG
10612899 TTTATGGATA
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 74 0.79
97 20 0.21
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (97 bp):
CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
TAAAATAAGTTTTATGAGTTGCTTCTTATATT
Found at i:10612876 original size:32 final size:32
Alignment explanation
Indices: 10612827--10612887 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10612817 GCTAATAGTA
*
10612827 TGTGATGAAATACGTTTTATG-GATTGCTTGTC
1 TGTGATGAAATAAGTTTTATGAG-TTGCTTGTC
10612859 TGTGAT-AAAGTAAGTTTTATGAGTTGCTT
1 TGTGATGAAA-TAAGTTTTATGAGTTGCTT
10612888 CTTATGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 3 0.12
32 22 0.85
33 1 0.04
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.44
Consensus pattern (32 bp):
TGTGATGAAATAAGTTTTATGAGTTGCTTGTC
Found at i:10614146 original size:45 final size:46
Alignment explanation
Indices: 10614095--10614188 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
10614085 TTAATGTTTG
10614095 AATAAAA-TTTCTTTT-TGATACAATATTTTGTAAATTTGCAATAAC
1 AATAAAATTTTCTTTTGT-ATACAATATTTTGTAAATTTGCAATAAC
*
10614140 AATAAAATTTTCTTTTGTTTACAATATTTTGTAAATTTGCAATAAC
1 AATAAAATTTTCTTTTGTATACAATATTTTGTAAATTTGCAATAAC
10614186 AAT
1 AAT
10614189 GTCGATAATG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 7 0.15
46 38 0.83
47 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (46 bp):
AATAAAATTTTCTTTTGTATACAATATTTTGTAAATTTGCAATAAC
Found at i:10630432 original size:33 final size:32
Alignment explanation
Indices: 10630395--10630467 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
10630385 ACATACATAA
10630395 ATTATAAA-A-TAGATAATATAGTCATGTATATAT
1 ATTATAAATATTAGA-AATATA-T-ATGTATATAT
*
10630428 ATTATTAAATATTAGACATATATATGTATATAT
1 ATTA-TAAATATTAGAAATATATATGTATATAT
10630461 ATATATA
1 AT-TATA
10630468 GTAAGATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
33 18 0.51
34 7 0.20
35 6 0.17
36 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (32 bp):
ATTATAAATATTAGAAATATATATGTATATAT
Found at i:10631634 original size:15 final size:15
Alignment explanation
Indices: 10631608--10631640 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
10631598 TTTGATGATT
10631608 TTGGGCTATTGGGCTG
1 TTGGGCTATTGGG-TG
10631624 TTGGG-TATTGGGTG
1 TTGGGCTATTGGGTG
10631638 TTG
1 TTG
10631641 TAATTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.06, C:0.06, G:0.45, T:0.42
Consensus pattern (15 bp):
TTGGGCTATTGGGTG
Found at i:10632336 original size:87 final size:87
Alignment explanation
Indices: 10632226--10632387 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
10632216 AGACTTGATG
* * * * *
10632226 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
10632290 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * *
10632313 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
10632378 CAGGGAGATA
66 CAGGGAGATA
10632388 AGATCTGAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:10632578 original size:214 final size:214
Alignment explanation
Indices: 10632205--10632654 Score: 670
Period size: 214 Copynumber: 2.1 Consensus size: 214
10632195 TACTGCATCT
* *
10632205 TCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCC----TTT
* * *
10632270 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
62 TAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCTCCGCTGTAATCTC
*
10632335 AGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAGATT
127 AGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
*
10632400 CTCCGGTCTACTCTACTGTAACC
192 CTCCGGTCTACTCCACTGTAACC
* * *
10632423 TCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC-TTTAAT
1 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTTAAT
* *
10632487 CCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAG
66 CCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCTGCTCCGCTGTAATCTCAG
10632551 GGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCT
129 GGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCT
** ** *
10632616 TTGGTCTGTTCCACTGTAATC
194 CCGGTCTACTCCACTGTAACC
*
10632637 TCAGGGAGATAAGACCTG
1 TCAGGGAAATAAGACCTG
10632655 TATAATAAAC
Statistics
Matches: 212, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
212 1 0.00
213 32 0.15
214 126 0.59
218 53 0.25
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (214 bp):
TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTTAAT
CCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCTCCGCTGTAATCTCAGGG
AGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTCC
GGTCTACTCCACTGTAACC
Found at i:10632646 original size:46 final size:44
Alignment explanation
Indices: 10632238--10632650 Score: 248
Period size: 44 Copynumber: 9.5 Consensus size: 44
10632228 ATCTACTCTG
* * * * * *
10632238 CTGTAACCTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-CTATGTCTTTGATCTGCTCCA
* * *
10632282 CTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
10632325 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* ** * * *
10632369 CTGTAACCTCAGGGAGATAAGATCTGA-GATTCTCCGGTCTACTCTA
1 CTGTAATCTCAGGGAGATAAGATCT-ATG--TCTTTGATCTGCTCCA
* * * * *
10632415 CTGTAACCTCAGGGAAATAAGACCTGATG----TGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCT-ATGTCTTTGATCTGCTCCA
* * *
10632456 CTGTAA-CTTCAGAGAGATAAGATC-----CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * * * *
10632495 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
10632539 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * *
10632583 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATGTCTTTGATCTGCTCCA
10632629 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
10632651 CCTGTATAAT
Statistics
Matches: 287, Mismatches: 57, Indels: 48
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.09
40 2 0.01
41 29 0.10
42 2 0.01
43 30 0.10
44 128 0.45
45 2 0.01
46 67 0.23
47 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
Found at i:10646127 original size:20 final size:17
Alignment explanation
Indices: 10646100--10646145 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
10646090 ATATATTTTG
10646100 AGAAAAAAAAG-AAATAA
1 AGAAAAAAAAGTAAAT-A
10646117 ATGTAAAAAAAAGTAAATA
1 A-G-AAAAAAAAGTAAATA
10646136 AGAAAAAAAA
1 AGAAAAAAAA
10646146 AGGAAAACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.35
18 2 0.08
19 11 0.42
20 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AGAAAAAAAAGTAAATA
Found at i:10656082 original size:32 final size:32
Alignment explanation
Indices: 10656046--10656108 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
10656036 CTAAATAGTA
*
10656046 TGTGATGAAATACA-TTTTATGGATTGCTTGTC
1 TGTGATAAAATA-AGTTTTATGGATTGCTTGTC
*
10656078 TGTGATAAAATAAGTTTTATGGGTTGCTTGT
1 TGTGATAAAATAAGTTTTATGGATTGCTTGT
10656109 TATATTCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.44
Consensus pattern (32 bp):
TGTGATAAAATAAGTTTTATGGATTGCTTGTC
Found at i:10656188 original size:96 final size:97
Alignment explanation
Indices: 10656018--10656213 Score: 340
Period size: 96 Copynumber: 2.0 Consensus size: 97
10656008 GGTGGATTGC
10656018 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
* *
10656083 TAAAATAAGTTTTATGGGTTGCTTGTTATATT
66 TAAAATAAGTTTTATGAGTTGCTTCTTATATT
*
10656115 CTGCTTACATCTCTTAAGCT-AATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
* *
10656179 TAAAGTAAGTTTTATGAGTTGCTTCTTATGTT
66 TAAAATAAGTTTTATGAGTTGCTTCTTATATT
10656211 CTG
1 CTG
10656214 TTTATGGATA
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 74 0.79
97 20 0.21
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (97 bp):
CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
TAAAATAAGTTTTATGAGTTGCTTCTTATATT
Found at i:10656191 original size:32 final size:32
Alignment explanation
Indices: 10656142--10656202 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10656132 GCTAATAGTA
*
10656142 TGTGATGAAATACGTTTTATG-GATTGCTTGTC
1 TGTGATGAAATAAGTTTTATGAG-TTGCTTGTC
10656174 TGTGAT-AAAGTAAGTTTTATGAGTTGCTT
1 TGTGATGAAA-TAAGTTTTATGAGTTGCTT
10656203 CTTATGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 3 0.12
32 22 0.85
33 1 0.04
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.44
Consensus pattern (32 bp):
TGTGATGAAATAAGTTTTATGAGTTGCTTGTC
Found at i:10657464 original size:45 final size:46
Alignment explanation
Indices: 10657413--10657506 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
10657403 TTAATGTTTG
10657413 AATAAAA-TTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
1 AATAAAATTTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
*
10657458 AATAAAATTTTCTTTTGTTTACAATATTTTGTAAATTTGCAATAAC
1 AATAAAATTTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
10657504 AAT
1 AAT
10657507 GTCGATAATG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 7 0.15
46 40 0.85
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (46 bp):
AATAAAATTTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
Found at i:10664418 original size:22 final size:22
Alignment explanation
Indices: 10664393--10664464 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 22
10664383 AATTCAGAAC
10664393 ATTACAAAAATTATAGATAATT
1 ATTACAAAAATTATAGATAATT
* * * *
10664415 ATTATAAAAA--ATA-TTTA-C
1 ATTACAAAAATTATAGATAATT
10664433 ATTACAAAAATTATAGATAATT
1 ATTACAAAAATTATAGATAATT
*
10664455 ATTATAAAAA
1 ATTACAAAAA
10664465 ATATTTGCAT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
18 9 0.24
19 2 0.05
20 6 0.16
21 2 0.05
22 18 0.49
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (22 bp):
ATTACAAAAATTATAGATAATT
Found at i:10664435 original size:40 final size:40
Alignment explanation
Indices: 10664391--10664475 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
10664381 CTAATTCAGA
10664391 ACATTACAAAAATTATAGATAATTATTATAAAAAATATTT
1 ACATTACAAAAATTATAGATAATTATTATAAAAAATATTT
10664431 ACATTACAAAAATTATAGATAATTATTATAAAAAATATTT
1 ACATTACAAAAATTATAGATAATTATTATAAAAAATATTT
*
10664471 GCATT
1 ACATT
10664476 GATTTGTAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (40 bp):
ACATTACAAAAATTATAGATAATTATTATAAAAAATATTT
Found at i:10666691 original size:54 final size:54
Alignment explanation
Indices: 10666609--10666718 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
10666599 ATGCTTGGTA
10666609 CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
1 CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
10666663 CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
1 CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
10666717 CA
1 CA
10666719 ATTTTTTATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.36
Consensus pattern (54 bp):
CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
Found at i:10668740 original size:16 final size:16
Alignment explanation
Indices: 10668686--10668745 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
10668676 TTTTGCCTAT
10668686 GTTTTTTAGGGTTAG-
1 GTTTTTTAGGGTTAGA
* *
10668701 GATTTTTAAGGTTTA-A
1 G-TTTTTTAGGGTTAGA
*
10668717 -TTGATTTAGGGTTAGA
1 GTT-TTTTAGGGTTAGA
10668733 GTTTTTTAGGGTT
1 GTTTTTTAGGGTT
10668746 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
14 2 0.06
15 9 0.26
16 21 0.62
17 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (16 bp):
GTTTTTTAGGGTTAGA
Found at i:10668885 original size:20 final size:19
Alignment explanation
Indices: 10668835--10668885 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 19
10668825 AGTTTAGGGT
10668835 ATTA-GGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
10668853 ATTAGGG---ATTGATTAA
1 ATTAGGGTTAATTGATTAA
10668869 ATTTAGGGTTAATTGAT
1 A-TTAGGGTTAATTGAT
10668886 ACATAATCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 10 0.36
17 6 0.21
18 4 0.14
19 2 0.07
20 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:10669642 original size:126 final size:126
Alignment explanation
Indices: 10669417--10669661 Score: 391
Period size: 126 Copynumber: 1.9 Consensus size: 126
10669407 TTTCTGCAAG
* *
10669417 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGTAGAATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGAATGCACTGTC
*
10669482 AGCAAAATTTCTGAAAAAAGCTCCCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTACCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAA
* **
10669543 AATAATTCTGAGTATACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGTTGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGAATGCACTGTC
* * ** *
10669608 AGTAAAATTTCTGAAAAAAGCTACCACGTGGACGCTCTTTTGCTATAGTAGTTC
66 AGCAAAATTTCTGAAAAAAGCTACCACATGGACGCTCTTTCACTACAGTAGTTC
10669662 ATATTCAGCA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 108 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGAATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTACCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAA
Found at i:10669685 original size:60 final size:61
Alignment explanation
Indices: 10669606--10669721 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
10669596 GGTTGCACTG
* * * *
10669606 TCAGTAAAATTTCT-GAAAAAAGCTACCACGTGGACGCTCTTTTGCTATAGTAGTTCATAT
1 TCAGCAAAATTTCTAAAAAAAAGCTACCACGTAGACGCTCTTTTGCTACAGTAGTTCATAT
*
10669666 TCAGCAAAATTTCTAAAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTT
1 TCAGCAAAATTTCTAAAAAAAAGCTACCACGTAGACGCTCTTTTGCTACAGTAGTT
10669722 TGTAGAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 13 0.26
61 37 0.74
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (61 bp):
TCAGCAAAATTTCTAAAAAAAAGCTACCACGTAGACGCTCTTTTGCTACAGTAGTTCATAT
Found at i:10669707 original size:187 final size:186
Alignment explanation
Indices: 10669480--10669850 Score: 582
Period size: 187 Copynumber: 2.0 Consensus size: 186
10669470 GAATGCACTG
* *
10669480 TCAGCAAAATTTCTGAAAAAAGCTCCCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAAAA
1 TCAGCAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTCACTACAGTAGTTCGTAGAAAAA
* * **
10669545 TAATTCTGAGTATACGTTTCTGAACAAATAGTGTCGAAAA-CGCTTCAAGCAGGTTGCACTGTCA
66 TAATTCTGAATAGACGTTTCTGAACAAATAGTGTC-AAAATCGCTTCAAGCAGAATGCACTGTCA
* * *
10669609 GTAAAATTTCTGAAAAAAGCTACCACGTGGACGCTCTTTTGCTATAGTAGTTCATAT
130 GTAAAATTTCTGAAAAAAACTACCACGTAGACGCTCTTTTGCTACAGTAGTTCATAT
* ** *
10669666 TCAGCAAAATTTCTAAAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTTTGTAGAAAA
1 TCAGCAAAATTTCT-AAAAAAAGCTCCCACATAGACGCTCTTTCACTACAGTAGTTCGTAGAAAA
*
10669731 ATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAATCGCTTCAAGCAGAATGCATTGTCA
65 ATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAATCGCTTCAAGCAGAATGCACTGTCA
*
10669796 GTAAAATTTCTGAAAAAAACTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCAT
130 GTAAAATTTCTGAAAAAAACTACCACGTAGACGCTCTTTTGCTACAGTAGTTCAT
10669851 GGAAAAATAA
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
186 18 0.11
187 150 0.89
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (186 bp):
TCAGCAAAATTTCTAAAAAAAGCTCCCACATAGACGCTCTTTCACTACAGTAGTTCGTAGAAAAA
TAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAATCGCTTCAAGCAGAATGCACTGTCAG
TAAAATTTCTGAAAAAAACTACCACGTAGACGCTCTTTTGCTACAGTAGTTCATAT
Found at i:10669915 original size:126 final size:126
Alignment explanation
Indices: 10669666--10669984 Score: 462
Period size: 126 Copynumber: 2.5 Consensus size: 126
10669656 TAGTTCATAT
* * *
10669666 TCAGCAAAATTTCTAAAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTTTGTAGAAAA
1 TCAGTAAAATTTCTGAAAAAAA-CTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCGTAGAAAA
* * * *
10669731 ATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAATCGCTTCAAGCAGAATGCATTG
65 ATAATTCTGAATAGACGTGTCTGAACAAATAGTGTCAAAATCACTTCAAGAAGAATGCACTG
* *
10669793 TCAGTAAAATTTCTGAAAAAAACTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCATGGAAAAA
1 TCAGTAAAATTTCTGAAAAAAACTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAA
* *
10669858 TAATTCTGAGTAGACGTGTCTGAACAAATAGTGTTGAAAA-CACTTCAAGTAAG-ATGCACTG
66 TAATTCTGAATAGACGTGTCTGAACAAATAGTG-TCAAAATCACTTCAAG-AAGAATGCACTG
* * * *
10669919 CCAGTAAAATTTCTGAAAAAAACTCCCACATGGACGCTCTTTTGCTATAGTAGTTCGTAGAAAAA
1 TCAGTAAAATTTCTGAAAAAAACTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAA
10669984 T
66 T
10669985 GAGGCTATAA
Statistics
Matches: 173, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
126 146 0.84
127 27 0.16
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
TCAGTAAAATTTCTGAAAAAAACTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAA
TAATTCTGAATAGACGTGTCTGAACAAATAGTGTCAAAATCACTTCAAGAAGAATGCACTG
Found at i:10671644 original size:46 final size:46
Alignment explanation
Indices: 10671586--10671769 Score: 296
Period size: 46 Copynumber: 4.0 Consensus size: 46
10671576 TTTCTGTCAT
* * *
10671586 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
10671632 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
10671678 GTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
10671724 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
10671770 AGAGCACACT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:10677563 original size:16 final size:18
Alignment explanation
Indices: 10677537--10677574 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
10677527 TTTCATCCTT
10677537 TTTTTCTTTTTCTATT-C
1 TTTTTCTTTTTCTATTCC
10677554 TTTTTCTTTTT-TATTCC
1 TTTTTCTTTTTCTATTCC
10677571 TTTT
1 TTTT
10677575 ATCTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTCTATTCC
Found at i:10680422 original size:18 final size:18
Alignment explanation
Indices: 10680396--10680438 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10680386 GACTAGGAAA
* *
10680396 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
10680414 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
10680432 AGGATAC
1 AGGATAC
10680439 GCACCTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:10682145 original size:48 final size:46
Alignment explanation
Indices: 10682060--10682193 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 46
10682050 ATGCAAACAT
* **
10682060 CATAAATGAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAA-TTTAATTA-AATTTG
10682107 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
10682155 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
10682194 AATTATCACT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
47 12 0.16
48 59 0.77
49 6 0.08
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:10682327 original size:15 final size:16
Alignment explanation
Indices: 10682295--10682327 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10682285 TTTTTAATTT
10682295 AAAAAAATTAAATTCAA
1 AAAAAAATTAAA-TCAA
10682312 AAAAAAATTAAA-CAA
1 AAAAAAATTAAATCAA
10682327 A
1 A
10682328 GAATTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAAATTAAATCAA
Found at i:10684787 original size:26 final size:28
Alignment explanation
Indices: 10684737--10684790 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10684727 GAGCTCATCT
* *
10684737 AAAATCAGTCAGTGTTATAACCTTTTAA
1 AAAACCAGTCAGTGTTACAACCTTTTAA
10684765 AAAACCAGTCAGTG-TACAA-CTTTTAA
1 AAAACCAGTCAGTGTTACAACCTTTTAA
10684791 GTGAGAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.29
27 4 0.17
28 13 0.54
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (28 bp):
AAAACCAGTCAGTGTTACAACCTTTTAA
Found at i:10688642 original size:33 final size:33
Alignment explanation
Indices: 10688595--10688659 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10688585 ATCTTTATCT
* *
10688595 CTATCTCTGTCTCTGACC-CTATCGCTATCCCTC
1 CTATATCTGTCTCTG-CCTCTATCCCTATCCCTC
*
10688628 CTATATCTGTCTCTGCCTCTGTCCCTATCCCT
1 CTATATCTGTCTCTGCCTCTATCCCTATCCCT
10688660 ACCCTCTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.11, C:0.42, G:0.09, T:0.38
Consensus pattern (33 bp):
CTATATCTGTCTCTGCCTCTATCCCTATCCCTC
Found at i:10696229 original size:84 final size:84
Alignment explanation
Indices: 10696115--10696747 Score: 730
Period size: 84 Copynumber: 7.6 Consensus size: 84
10696105 AGTCGCTTCC
* * * * * ****
10696115 GCTTTAGCGATCTCAAAATCGGCCCATTTTCTTGCTTCAACAGCCTTCTTCTTGGTTTCTTCTGC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
* * *
10696180 AATCTTTCTTTGCGCCTCT
66 AATCTTCCTTTGCTCCTGT
* ** ** * *
10696199 GCTTCAGCCATCTGTAAATCAGCATGTTTTCGTTCTTCAACTGCCTTCTTCTT-AATCTCTTCTG
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAA-CTCTTCTG
10696263 CAATCTT-CTTCTGCTCCTGT
65 CAATCTTCCTT-TGCTCCTGT
* *
10696283 GCTTTAGCCATCTCCAAAGC--CACATGTTTTCTTTCTTCAACAGCCTTCTTCTTCGACTCTTCT
1 GCTTTAGCCATCTCCAAATCAGCACA--TTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCT
*
10696346 GCAATCTTCCTTTCCTCCTGT
64 GCAATCTTCCTTTGCTCCTGT
* ** *
10696367 GCTTTAGCCATCTCCAAAGCAGCATGTTTTCTTTCTTCAGA-AGCCTTCTTCTTCAATTCTTCTG
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCA-ACAGCCTTCTTCTTCAACTCTTCTG
*
10696431 CAGTCTTCCTCTT-CTCCTGT
65 CAATCTTCCT-TTGCTCCTGT
* *
10696451 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
*
10696516 AGTCTTCCTTTGCTCCTGT
66 AATCTTCCTTTGCTCCTGT
* *
10696535 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCATCTCTTCTGC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
* * *
10696600 AACCTTCCTCTCCTCCTGT
66 AATCTTCCTTTGCTCCTGT
* * * *
10696619 GCTTTAGCCATCTCCAGATCAGCACATTTTCTATCTTCAACAG-C-T-TTCTT-AGATTTTTC-G
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCA-ACTCTTCTG
* * *
10696679 ACAAACTTCCTCTGCTCCTTT
65 -CAATCTTCCTTTGCTCCTGT
*
10696700 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACCGCCTTC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTC
10696748 CTTGTTTCTT
Statistics
Matches: 479, Mismatches: 53, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
80 2 0.00
81 66 0.14
82 4 0.01
83 8 0.02
84 390 0.81
85 7 0.01
86 2 0.00
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (84 bp):
GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
AATCTTCCTTTGCTCCTGT
Found at i:10697263 original size:17 final size:17
Alignment explanation
Indices: 10697237--10697271 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10697227 GGGCAAAGTT
*
10697237 ACCAATTAGGGGAACAA
1 ACCAAATAGGGGAACAA
10697254 ACCAAATAGGGGAACAA
1 ACCAAATAGGGGAACAA
10697271 A
1 A
10697272 TATTGAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (17 bp):
ACCAAATAGGGGAACAA
Found at i:10698518 original size:29 final size:28
Alignment explanation
Indices: 10698478--10698532 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
10698468 TATATATTTA
* *
10698478 AAAATCGTAAAATTTCAAAATTTTTTTCT
1 AAAATCGTAAAATGT-AAAATATTTTTCT
10698507 AAAATACG-AAAATGTAAAATATTTTT
1 AAAAT-CGTAAAATGTAAAATATTTTT
10698533 AAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.43
29 11 0.48
30 2 0.09
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (28 bp):
AAAATCGTAAAATGTAAAATATTTTTCT
Found at i:10698613 original size:18 final size:18
Alignment explanation
Indices: 10698579--10698616 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10698569 TCAAAAAATC
10698579 ATAAAAATAAACTTTTTTA
1 ATAAAAATAAAC-TTTTTA
10698598 ATAAAAATATAA-TTTTTA
1 ATAAAAATA-AACTTTTTA
10698616 A
1 A
10698617 AGTAGTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 9 0.50
20 2 0.11
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAAATAAACTTTTTA
Found at i:10706338 original size:46 final size:46
Alignment explanation
Indices: 10706288--10706389 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
10706278 TTTTTGGGTT
*
10706288 TTATGGTTTTTAGTTTTTAGGGTTTAGGATTCATGATTTTTAGGGC
1 TTATGGTTTTTAGTTTTTAGGGTTTAGGATTCACGATTTTTAGGGC
* * * * * * *
10706334 TTATGATTTATGGTTTTTAGGGTTTATGATTTACGGTTTTTAGGGT
1 TTATGGTTTTTAGTTTTTAGGGTTTAGGATTCACGATTTTTAGGGC
10706380 TTATGGTTTT
1 TTATGGTTTT
10706390 ATGTTTATGG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.55
Consensus pattern (46 bp):
TTATGGTTTTTAGTTTTTAGGGTTTAGGATTCACGATTTTTAGGGC
Found at i:10706395 original size:23 final size:23
Alignment explanation
Indices: 10706276--10706395 Score: 115
Period size: 23 Copynumber: 5.2 Consensus size: 23
10706266 TAGTGTTTTG
*
10706276 TGTTTTT-GGGTTTTATGG-TTTT
1 TGTTTTTAGGG-TTTATGGATTTA
*
10706298 TAGTTTTTAGGGTTTA-GGATTCA
1 T-GTTTTTAGGGTTTATGGATTTA
*
10706321 TGATTTTTAGGGCTTAT-GATTTA
1 TG-TTTTTAGGGTTTATGGATTTA
10706344 TGGTTTTTAGGGTTTAT-GATTTA
1 T-GTTTTTAGGGTTTATGGATTTA
* *
10706367 CGGTTTTTAGGGTTTATGGTTTTA
1 -TGTTTTTAGGGTTTATGGATTTA
10706391 TGTTT
1 TGTTT
10706396 ATGGGTTAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.05
23 69 0.84
24 9 0.11
ACGTcount: A:0.15, C:0.03, G:0.26, T:0.57
Consensus pattern (23 bp):
TGTTTTTAGGGTTTATGGATTTA
Found at i:10706589 original size:15 final size:16
Alignment explanation
Indices: 10706552--10706592 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
10706542 TGTTTATTAA
*
10706552 TTTTAGGGTTTAGTGG
1 TTTTAAGGTTTAGTGG
10706568 -TTT-AGGTTTAG-GG
1 TTTTAAGGTTTAGTGG
10706581 TTTTAAGGTTTA
1 TTTTAAGGTTTA
10706593 TGATTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 10 0.45
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (16 bp):
TTTTAAGGTTTAGTGG
Found at i:10706611 original size:29 final size:29
Alignment explanation
Indices: 10706552--10706613 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
10706542 TGTTTATTAA
* * * *
10706552 TTTTAGGGTTTAGTGGTTTAGGTTTAGGG
1 TTTTAAGGTTTAGTGATTTAGGCTTAAGG
10706581 TTTTAAGGTTTA-TGATTTATGGCTTAAGG
1 TTTTAAGGTTTAGTGATTTA-GGCTTAAGG
10706610 TTTT
1 TTTT
10706614 GGTGGTGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.52
Consensus pattern (29 bp):
TTTTAAGGTTTAGTGATTTAGGCTTAAGG
Found at i:10706657 original size:24 final size:23
Alignment explanation
Indices: 10706624--10706669 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
10706614 GGTGGTGGTG
*
10706624 TTGTTTTAGGGTTTATTGTTTTA
1 TTGTTTTAGGGTTTAGTGTTTTA
10706647 TTGTTATTAGGGTTTAGTGTTTT
1 TTGTT-TTAGGGTTTAGTGTTTT
10706670 TGAGGTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.13, C:0.00, G:0.24, T:0.63
Consensus pattern (23 bp):
TTGTTTTAGGGTTTAGTGTTTTA
Found at i:10706789 original size:16 final size:15
Alignment explanation
Indices: 10706738--10706795 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
10706728 AGGTTTTTTG
*
10706738 TTTAGGGTTTATAAT
1 TTTAGGGTTTATATT
* * *
10706753 TTAAGGTTTTAGTGTT
1 TTTAGGGTTTA-TATT
*
10706769 CTTAGGGTTTATTATT
1 TTTAGGGTTTA-TATT
10706785 TTTAGGGTTTA
1 TTTAGGGTTTA
10706796 GGATTTTATT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
15 9 0.28
16 23 0.72
ACGTcount: A:0.21, C:0.02, G:0.22, T:0.55
Consensus pattern (15 bp):
TTTAGGGTTTATATT
Found at i:10706832 original size:29 final size:29
Alignment explanation
Indices: 10706783--10706861 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
10706773 GGGTTTATTA
10706783 TTTTTAGGGTTTA-GGATTTTATTA-TCATGG
1 TTTTTA-GGTTTATGG--TTTATTACTCATGG
*
10706813 TTTTTAGGTTTATGGCTTTATTACTTATGG
1 TTTTTAGGTTTATGG-TTTATTACTCATGG
* *
10706843 TTTAT-GATTTATGGTTTAT
1 TTTTTAGGTTTATGGTTTAT
10706862 GGTTTATGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.12
29 21 0.49
30 17 0.40
ACGTcount: A:0.19, C:0.04, G:0.20, T:0.57
Consensus pattern (29 bp):
TTTTTAGGTTTATGGTTTATTACTCATGG
Found at i:10706847 original size:7 final size:7
Alignment explanation
Indices: 10706809--10706873 Score: 67
Period size: 7 Copynumber: 9.0 Consensus size: 7
10706799 TTTTATTATC
10706809 ATGGTTT
1 ATGGTTT
*
10706816 TTAGGTTT
1 AT-GGTTT
10706824 ATGGCTTT
1 ATGG-TTT
***
10706832 ATTACTT
1 ATGGTTT
10706839 ATGGTTT
1 ATGGTTT
*
10706846 ATGATTT
1 ATGGTTT
10706853 ATGGTTT
1 ATGGTTT
10706860 ATGGTTT
1 ATGGTTT
10706867 ATGGTTT
1 ATGGTTT
10706874 TAAGATTTAG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
7 35 0.76
8 11 0.24
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.57
Consensus pattern (7 bp):
ATGGTTT
Found at i:10706889 original size:14 final size:14
Alignment explanation
Indices: 10706841--10706889 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10706831 TATTACTTAT
*
10706841 GGTTTATGATTTAT
1 GGTTTATGATTTAG
*
10706855 GGTTTATGGTTTATG
1 GGTTTATGATTTA-G
* *
10706870 GTTTTAAGATTTAG
1 GGTTTATGATTTAG
10706884 GGTTTA
1 GGTTTA
10706890 GTAGTATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (14 bp):
GGTTTATGATTTAG
Found at i:10707059 original size:21 final size:21
Alignment explanation
Indices: 10707006--10707143 Score: 68
Period size: 21 Copynumber: 6.2 Consensus size: 21
10706996 TTTTATTTTT
**
10707006 TTTAGGATTTTAGAGTTT-GGG
1 TTTAGG-TTTTATTGTTTAGGG
*
10707027 TTTAGGATTTATTGTTTAGGG
1 TTTAGGTTTTATTGTTTAGGG
* **
10707048 TTTAGGTTTTATGGTTTTAGTAT
1 TTTAGGTTTTATTG-TTTAG-GG
**
10707071 TTGTAGAG-TTTATTGTTTTTAGTA
1 TT-TAG-GTTTTATTG--TTTAGGG
10707095 TTTAGGGTTTTTATT-TTTAGGGTG
1 TTTA-GG-TTTTATTGTTTA-GG-G
10707119 TTTAGGTTTT-TATGTTTAGGG
1 TTTAGGTTTTAT-TGTTTAGGG
10707140 TTTA
1 TTTA
10707144 TTGCTTATAG
Statistics
Matches: 92, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
20 8 0.09
21 27 0.29
22 16 0.17
23 12 0.13
24 16 0.17
25 13 0.14
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (21 bp):
TTTAGGTTTTATTGTTTAGGG
Found at i:10707113 original size:15 final size:16
Alignment explanation
Indices: 10707085--10707123 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10707075 AGAGTTTATT
10707085 GTTTTTAGTATTTAGG
1 GTTTTTAGTATTTAGG
*
10707101 GTTTTTA-TTTTTAGG
1 GTTTTTAGTATTTAGG
*
10707116 GTGTTTAG
1 GTTTTTAG
10707124 GTTTTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (16 bp):
GTTTTTAGTATTTAGG
Found at i:10707126 original size:23 final size:24
Alignment explanation
Indices: 10707095--10707140 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
10707085 GTTTTTAGTA
*
10707095 TTTAGGGTTTTTATTTTTAGGGTG
1 TTTAGGGTTTTTATGTTTAGGGTG
10707119 TTTA-GGTTTTTATGTTTAGGGT
1 TTTAGGGTTTTTATGTTTAGGGT
10707141 TTATTGCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.59
Consensus pattern (24 bp):
TTTAGGGTTTTTATGTTTAGGGTG
Found at i:10707156 original size:21 final size:21
Alignment explanation
Indices: 10707128--10707184 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
10707118 GTTTAGGTTT
*
10707128 TTAT-GTTTAGGGTTTATTGC
1 TTATAGTTTAGGGTTTATAGC
* *
10707148 TTATAGTTTAAGGTTTATAGT
1 TTATAGTTTAGGGTTTATAGC
*
10707169 TTATATTTTAAGGGTT
1 TTATAGTTT-AGGGTT
10707185 AGTGTTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (21 bp):
TTATAGTTTAGGGTTTATAGC
Found at i:10707191 original size:21 final size:21
Alignment explanation
Indices: 10707127--10707198 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
10707117 TGTTTAGGTT
*
10707127 TTTAT-GTTT-AGGGTTTATTG
1 TTTATAGTTTAAGGG-TTATAG
* *
10707147 CTTATAGTTTAAGGTTTATAG
1 TTTATAGTTTAAGGGTTATAG
*
10707168 TTTATATTTTAAGGGTTAGT-G
1 TTTATAGTTTAAGGGTTA-TAG
*
10707189 TTTATGGTTT
1 TTTATAGTTT
10707199 TATTATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.21, C:0.01, G:0.22, T:0.56
Consensus pattern (21 bp):
TTTATAGTTTAAGGGTTATAG
Found at i:10707251 original size:22 final size:22
Alignment explanation
Indices: 10707225--10707303 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
10707215 TAAGAATTAT
*
10707225 GGTTTATTGTTTTTGTTTTTAG
1 GGTTTATTGTTTTTATTTTTAG
* *
10707247 GGTTTAGTGTTTTTATTTTTAA
1 GGTTTATTGTTTTTATTTTTAG
*
10707269 GGTATTA-TGTTTTTATGTTTAG
1 GGT-TTATTGTTTTTATTTTTAG
*
10707291 GGTTTCTTGTTTT
1 GGTTTATTGTTTT
10707304 AGTGCCTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.04
22 44 0.90
23 3 0.06
ACGTcount: A:0.13, C:0.01, G:0.22, T:0.65
Consensus pattern (22 bp):
GGTTTATTGTTTTTATTTTTAG
Found at i:10707422 original size:22 final size:23
Alignment explanation
Indices: 10707397--10707447 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
10707387 GGAGTTATAG
*
10707397 TTTTAGAT-T-TGAGTTTCAGGGT
1 TTTTAGATCTATGAGTTT-AGGAT
10707419 TTTTAGATCTATGAGTTTAGGAT
1 TTTTAGATCTATGAGTTTAGGAT
10707442 TTTTAG
1 TTTTAG
10707448 TTTATTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 11 0.42
24 7 0.27
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.51
Consensus pattern (23 bp):
TTTTAGATCTATGAGTTTAGGAT
Found at i:10707554 original size:15 final size:14
Alignment explanation
Indices: 10707536--10707581 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
10707526 GTGTTTGTGA
*
10707536 TTTTATGTTTATGG
1 TTTTTTGTTTATGG
*
10707550 TTTTTGTGTTTATTG
1 TTTTT-TGTTTATGG
*
10707565 TTTTTTATTTATGG
1 TTTTTTGTTTATGG
10707579 TTT
1 TTT
10707582 AGCATATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.72
Consensus pattern (14 bp):
TTTTTTGTTTATGG
Found at i:10709760 original size:28 final size:29
Alignment explanation
Indices: 10709705--10709760 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
10709695 GATTTGAAAC
**
10709705 CTTTACTATACATATTTTGAAATGTGAGG
1 CTTTACTATACATATTTTGAAACCTGAGG
10709734 CTTTACTATACATA-TTTGAAACCTGAG
1 CTTTACTATACATATTTTGAAACCTGAG
10709761 TTTAGGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (29 bp):
CTTTACTATACATATTTTGAAACCTGAGG
Found at i:10712529 original size:25 final size:25
Alignment explanation
Indices: 10712478--10712526 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
10712468 AATTTAAATT
10712478 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAATATAA
*
10712503 TTATATTAATCTTAAATAAA-ATAA
1 TTATATTAATATTAAATAAATATAA
10712527 ATTCCCCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATTAATATTAAATAAATATAA
Found at i:10717866 original size:22 final size:22
Alignment explanation
Indices: 10717810--10717866 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
10717800 ATAATTAATG
* *
10717810 TTTAATTATATTTAATATATTTA
1 TTTAAATATATTT-TTATATTTA
* *
10717833 TTTATATATATTTTTATATTTT
1 TTTAAATATATTTTTATATTTA
*
10717855 TTTAAATTTATT
1 TTTAAATATATT
10717867 GATGTTGTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAAATATATTTTTATATTTA
Found at i:10723644 original size:27 final size:28
Alignment explanation
Indices: 10723611--10723663 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
10723601 AACTAAATAT
*
10723611 ATGATGTTTTATACTAT-CTAATTTTAC
1 ATGATGTTTTATACCATACTAATTTTAC
10723638 ATGATGTTTTATACCATACTAATTTT
1 ATGATGTTTTATACCATACTAATTTT
10723664 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (28 bp):
ATGATGTTTTATACCATACTAATTTTAC
Found at i:10726598 original size:21 final size:21
Alignment explanation
Indices: 10726572--10726617 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10726562 TATATTTAAT
* * *
10726572 TGTTGAGGATTTAGTGGGGGC
1 TGTTGAAGATGTAGTGGGAGC
*
10726593 TGTTGAATATGTAGTGGGAGC
1 TGTTGAAGATGTAGTGGGAGC
10726614 TGTT
1 TGTT
10726618 ACTAGTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.04, G:0.41, T:0.37
Consensus pattern (21 bp):
TGTTGAAGATGTAGTGGGAGC
Found at i:10727155 original size:15 final size:15
Alignment explanation
Indices: 10727135--10727164 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10727125 ATGAATCTCT
*
10727135 CTCTTGAGCAGTTGA
1 CTCTTGAACAGTTGA
10727150 CTCTTGAACAGTTGA
1 CTCTTGAACAGTTGA
10727165 ACTACAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
CTCTTGAACAGTTGA
Found at i:10729504 original size:12 final size:12
Alignment explanation
Indices: 10729489--10729514 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10729479 TAAAATAATT
10729489 ATATGCAAAAGG
1 ATATGCAAAAGG
10729501 ATATGCAAAAGG
1 ATATGCAAAAGG
10729513 AT
1 AT
10729515 TTTATAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (12 bp):
ATATGCAAAAGG
Found at i:10729623 original size:15 final size:15
Alignment explanation
Indices: 10729603--10729635 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10729593 ATCACTTGAC
10729603 ATTGAACTTAATTAG
1 ATTGAACTTAATTAG
10729618 ATTGAACTTAATTAG
1 ATTGAACTTAATTAG
10729633 ATT
1 ATT
10729636 TTATTGGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (15 bp):
ATTGAACTTAATTAG
Done.