Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 58 of 75
Found at i:18617403 original size:14 final size:15
Alignment explanation
Indices: 18617351--18617405 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
18617341 TAATTTAATC
*
18617351 ATAATTAAACATAATT
1 ATAATTAAATAT-ATT
*
18617367 ATTATTAAATATATT
1 ATAATTAAATATATT
18617382 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
18617395 ATAATTTAATA
1 ATAATTAAATA
18617406 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.26
14 4 0.12
15 11 0.32
16 10 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:18621257 original size:3 final size:3
Alignment explanation
Indices: 18621251--18621389 Score: 278
Period size: 3 Copynumber: 46.3 Consensus size: 3
18621241 TACTACTACC
18621251 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18621299 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18621347 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18621390 GTAGTAGTAG
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 136 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18621394 original size:3 final size:3
Alignment explanation
Indices: 18621388--18621458 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
18621378 TTATTATTAT
* *
18621388 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAA TTG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
*
18621436 TAG TAG TAG TAG TAA TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TA
18621459 TTTTTATTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:18623816 original size:11 final size:11
Alignment explanation
Indices: 18623772--18623840 Score: 66
Period size: 12 Copynumber: 6.0 Consensus size: 11
18623762 ATAACAAGGC
*
18623772 TAAAACTAAACA
1 TAAAAATAAA-A
*
18623784 TAAACATAAAA
1 TAAAAATAAAA
*
18623795 TTAAAATTAAAA
1 -TAAAAATAAAA
18623807 TAAAAATAAAA
1 TAAAAATAAAA
*
18623818 TAAAAAGAAAA
1 TAAAAATAAAA
*
18623829 CTAAAAAGAAAA
1 -TAAAAATAAAA
18623841 CAAATAAACT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
11 21 0.43
12 28 0.57
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:18623841 original size:12 final size:11
Alignment explanation
Indices: 18623803--18623840 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
18623793 AATTAAAATT
*
18623803 AAAATAAAAAT
1 AAAATAAAAAG
18623814 AAAATAAAAAG
1 AAAATAAAAAG
18623825 AAAACTAAAAAG
1 AAAA-TAAAAAG
18623837 AAAA
1 AAAA
18623841 CAAATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:18625285 original size:9 final size:9
Alignment explanation
Indices: 18625271--18625303 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
18625261 TGGAACAAAT
18625271 AATAATAAG
1 AATAATAAG
*
18625280 AATAATACG
1 AATAATAAG
18625289 AATAATAAG
1 AATAATAAG
18625298 AA-AATA
1 AATAATA
18625304 GATATTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (9 bp):
AATAATAAG
Found at i:18625459 original size:23 final size:22
Alignment explanation
Indices: 18625409--18625461 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 22
18625399 AAAACAAGAT
18625409 TTAAAAT-AAAAAAATGAATAG
1 TTAAAATAAAAAAAATGAATAG
*
18625430 ---AACTAAAAAAAATGAATAAG
1 TTAAAATAAAAAAAATGAAT-AG
18625450 TTAAAATAAAAA
1 TTAAAATAAAAA
18625462 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
18 3 0.12
19 12 0.48
20 2 0.08
23 8 0.32
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.21
Consensus pattern (22 bp):
TTAAAATAAAAAAAATGAATAG
Found at i:18626557 original size:94 final size:94
Alignment explanation
Indices: 18626378--18626584 Score: 220
Period size: 94 Copynumber: 2.2 Consensus size: 94
18626368 AGTCCCAAGC
* * * * * *
18626378 GTGTCCAGGCCGTGTGGGTCACACGGCCATGTCGCAAGGCTGTGTAACTCACTGTCAAATGCTCA
1 GTGTCCAGGCCGTGTGGGTCACACAGCCATGTCGCAAGGCTATGTAACGCACTATCAAATCCCCA
* * *
18626443 TTTATGCACATGGCCAAGGACATA-TCCAT
66 TTTATACACACGGCCAAGGACACACT-CAT
* * * * **
18626472 GTGTCCAGGCCGTATGGGTCACACAGCCATGTTGCCAGGCTATGTGACGCACTATCGATTTCCCC
1 GTGTCCAGGCCGTGTGGGTCACACAGCCATGTCGCAAGGCTATGTAACGCACTATC-AAATCCCC
* *
18626537 ATTT-TACACACGGCCTAGGACACACTCGT
65 ATTTATACACACGGCCAAGGACACACTCAT
*
18626566 GTGCCCAGGCCGTGTGGGT
1 GTGTCCAGGCCGTGTGGGT
18626585 AGAAAACATA
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
94 83 0.90
95 9 0.10
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.24
Consensus pattern (94 bp):
GTGTCCAGGCCGTGTGGGTCACACAGCCATGTCGCAAGGCTATGTAACGCACTATCAAATCCCCA
TTTATACACACGGCCAAGGACACACTCAT
Found at i:18632057 original size:13 final size:11
Alignment explanation
Indices: 18632026--18632064 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
18632016 TGCCAGAAGC
18632026 AAATAAAAAAT
1 AAATAAAAAAT
18632037 AAACTAAAAAAT
1 AAA-TAAAAAAT
18632049 CATAATAAAAAAT
1 -A-AATAAAAAAT
18632062 AAA
1 AAA
18632065 AATGGCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.20
12 9 0.36
13 9 0.36
14 2 0.08
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:18640010 original size:100 final size:100
Alignment explanation
Indices: 18639837--18640032 Score: 311
Period size: 100 Copynumber: 2.0 Consensus size: 100
18639827 ACGACCAAAT
**
18639837 CTTCCTTAATCGTAAATTAACCACAGGAACCACCTAAAAATTAGGCCTTATCAAACAAATAGCCC
1 CTTCCTTAATCGTAAATTAACCACAGGAACCACCTAAAAATTAAACCTTATCAAACAAATAGCCC
*
18639902 CGAAAGTCGCTTCCGTAGTTTAATCCTTCTGGAAC
66 CGAAAGTCGCTTCCATAGTTTAATCCTTCTGGAAC
* * * *
18639937 CTTCCTTAATCGTAAATTAACCACAGGAACCACCTGACAGTTAAATCTTATCAAACAAATAGCCC
1 CTTCCTTAATCGTAAATTAACCACAGGAACCACCTAAAAATTAAACCTTATCAAACAAATAGCCC
* *
18640002 CGAAAGTCGCTTTCATGGTTTAATCCTTCTG
66 CGAAAGTCGCTTCCATAGTTTAATCCTTCTG
18640033 CAACTTTGCG
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (100 bp):
CTTCCTTAATCGTAAATTAACCACAGGAACCACCTAAAAATTAAACCTTATCAAACAAATAGCCC
CGAAAGTCGCTTCCATAGTTTAATCCTTCTGGAAC
Found at i:18645743 original size:100 final size:100
Alignment explanation
Indices: 18645569--18645767 Score: 310
Period size: 100 Copynumber: 2.0 Consensus size: 100
18645559 CCAATTTTTT
* * *
18645569 CTTAATCGTAAATTAACCATAGGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCCAAA
1 CTTAATCGTAAATTAACCACAGGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAA
* *
18645634 ATTCTCTTCCATGGTCTAATCCTTCTAG-AACCTTC
66 AGTCGCTTCCATGGTCTAATCCTTCT-GCAACCTTC
* *
18645669 CTTAATCGTAAATTAATCACAGGAAACACATGACAATTAAGCCTTATCAAACAAATAGCCCCAAA
1 CTTAATCGTAAATTAACCACAGGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAA
*
18645734 AGTCGCTTCCATGGTTTAATCCTTCTGCAACCTT
66 AGTCGCTTCCATGGTCTAATCCTTCTGCAACCTT
18645768 GCAAACTATA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 89 0.99
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.28
Consensus pattern (100 bp):
CTTAATCGTAAATTAACCACAGGAAACACATAACAATTAAGCCTTATCAAACAAATAGCCCCAAA
AGTCGCTTCCATGGTCTAATCCTTCTGCAACCTTC
Found at i:18650174 original size:2 final size:2
Alignment explanation
Indices: 18650167--18650196 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18650157 TCTTGGTCCA
*
18650167 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18650197 TGTCTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18655247 original size:9 final size:9
Alignment explanation
Indices: 18655230--18655284 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
18655220 TATAGTTTAA
18655230 TATTCGAAT
1 TATTCGAAT
*
18655239 TATTTGAAT
1 TATTCGAAT
18655248 TATTCGAAT
1 TATTCGAAT
18655257 TATTCGAAT
1 TATTCGAAT
*
18655266 TATTCGAGT
1 TATTCGAAT
18655275 TATTCGAAT
1 TATTCGAAT
18655284 T
1 T
18655285 CGAAAACTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18656599 original size:26 final size:26
Alignment explanation
Indices: 18656563--18656631 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
18656553 ACCATTATCG
* *
18656563 GGTTACTAACACTAGCTTTGGATT-TA
1 GGTTGCTAACACTAGCTTTGG-TTCAA
18656589 GGTTGCTAACACTAGC-TTGGTTCAA
1 GGTTGCTAACACTAGCTTTGGTTCAA
* *
18656614 TGCTGCTAACACTAGCTT
1 GGTTGCTAACACTAGCTT
18656632 CAGAGAATCC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.51
26 16 0.43
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (26 bp):
GGTTGCTAACACTAGCTTTGGTTCAA
Found at i:18657712 original size:10 final size:10
Alignment explanation
Indices: 18657697--18657726 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
18657687 ACTTAGATTA
18657697 AATTATAATT
1 AATTATAATT
18657707 AATTATAATT
1 AATTATAATT
*
18657717 AACTATAATT
1 AATTATAATT
18657727 GACTAACGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTATAATT
Found at i:18659080 original size:51 final size:51
Alignment explanation
Indices: 18658981--18659086 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 51
18658971 ATGTATTTTT
* **
18658981 TTAATTTTTTAGAATTAGGATCAAATTGAGAACATTTGTAAATTTTGAGAG
1 TTAATTTTTTAGAATTAGGATCAAATTGAGAACATATGTAAAAATTGAGAG
* * * *
18659032 TTAATTTTTTTA-AATTATGATTAAATTGA-AATAGTATGTAAAAATTGAGGG
1 TTAA-TTTTTTAGAATTAGGATCAAATTGAGAACA-TATGTAAAAATTGAGAG
18659083 TTAA
1 TTAA
18659087 ATTTATTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 3 0.07
51 36 0.78
52 7 0.15
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (51 bp):
TTAATTTTTTAGAATTAGGATCAAATTGAGAACATATGTAAAAATTGAGAG
Found at i:18667887 original size:34 final size:32
Alignment explanation
Indices: 18667834--18667938 Score: 104
Period size: 34 Copynumber: 3.1 Consensus size: 32
18667824 CTTTTATATA
*
18667834 TTTTATGTTTTATAAATATATACATATACATTT
1 TTTTATGTTGTA-AAATATATACATATACATTT
* *
18667867 CTTTTATGTTGTAAATATATAGACTTATACATTTTT
1 -TTTTATGTTGTAAA-ATATATACATATACA--TTT
* *
18667903 TTTCTATTTTGT-AAATATATACATATGCATTT
1 TTT-TATGTTGTAAAATATATACATATACATTT
18667935 TTTT
1 TTTT
18667939 CCTTTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
31 1 0.02
32 6 0.10
33 2 0.03
34 36 0.60
35 5 0.08
36 10 0.17
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (32 bp):
TTTTATGTTGTAAAATATATACATATACATTT
Found at i:18667922 original size:36 final size:33
Alignment explanation
Indices: 18667841--18667938 Score: 103
Period size: 32 Copynumber: 3.0 Consensus size: 33
18667831 ATATTTTATG
*
18667841 TTTTATAAATATAT-ACATATACATTTCTTTTA
1 TTTTGTAAATATATAACATATACATTTCTTTTA
* * *
18667873 TGTTGTAAATATATAGACTTATACATTTTTTTTCTA
1 TTTTGTAAATATATA-ACATATACA-TTTCTTT-TA
*
18667909 TTTTGTAAATATAT-ACATATGCATTT-TTTT
1 TTTTGTAAATATATAACATATACATTTCTTTT
18667939 CCTTTATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
31 1 0.02
32 15 0.27
33 3 0.05
34 15 0.27
35 6 0.11
36 15 0.27
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (33 bp):
TTTTGTAAATATATAACATATACATTTCTTTTA
Found at i:18667947 original size:36 final size:35
Alignment explanation
Indices: 18667841--18667948 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 35
18667831 ATATTTTATG
* *
18667841 TTTTATAAATATATACATATACA--TTTCT-TTTA
1 TTTTGTAAATATATACATATACATTTTTTTCTTTA
* * *
18667873 TGTTGTAAATATATAGACTTATACATTTTTTT-TCTA
1 TTTTGTAAATATAT--ACATATACATTTTTTTCTTTA
*
18667909 TTTTGTAAATATATACATATGCATTTTTTTCCTTTA
1 TTTTGTAAATATATACATATACATTTTTTT-CTTTA
18667945 TTTT
1 TTTT
18667949 ATTTTGAATA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
32 12 0.20
34 22 0.36
36 27 0.44
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.56
Consensus pattern (35 bp):
TTTTGTAAATATATACATATACATTTTTTTCTTTA
Found at i:18669813 original size:19 final size:20
Alignment explanation
Indices: 18669776--18669815 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
18669766 TCTTTAGGCA
* *
18669776 TTCATTATATGCATTTGCAT
1 TTCATTACATGCATATGCAT
18669796 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
18669815 T
1 T
18669816 AGACACCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:18674029 original size:132 final size:132
Alignment explanation
Indices: 18673788--18674520 Score: 1036
Period size: 132 Copynumber: 5.6 Consensus size: 132
18673778 TACACAGCGA
* * *
18673788 AGCAGATCGAAGATGGCGGATTTTACCT-CCTCGTA-GTTACGGTGGAGTACATTGAAGCC--AA
1 AGCAGATCGAAGATGCCAGATTTTACCTCCCT-G-AGGTTACAGTGGAGTACATTGAAGCCAGAA
* * * *
18673849 TGATTCTAAT-TCCC-GGGACAGCAGCGGAATAGATTGA-AGATTTTAGATCTTGTCGCCCTAAG
64 T--TTCT-ATCTCCCTGGG-CAGCAGTGGAATAGA-TCACAGATTTCAGATCTTGTCTCCCTAAG
18673911 CAGTAGTGG
124 CAGTAGTGG
* * *
18673920 AGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGGACATTGAAGCCAGAATT
1 AGCAGATCGAAGATGCCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGAATT
18673985 TCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
18674050 GG
131 GG
* *
18674052 AGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGAATT
1 AGCAGATCGAAGATGCCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGAATT
18674117 TCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
18674182 GG
131 GG
* * * * * *
18674184 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGCACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGCCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG-AAT
* * * *
18674248 TTCTATCTCCCTGGGCAACAGTGGAATAGATTGA-AGATTACAGATCTTGCCTCCCTAAGCAGTA
65 TTCTATCTCCCTGGGCAGCAGTGGAATAGA-TCACAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18674312 GTGG
129 GTGG
* *
18674316 AGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGAATT
1 AGCAGATCGAAGATGCCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGAATT
18674381 TCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
18674446 GG
131 GG
* * * * * *
18674448 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGCACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGCCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG-AAT
18674512 TTCTATCTC
65 TTCTATCTC
18674521 GATGGAGTGG
Statistics
Matches: 546, Mismatches: 43, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
131 9 0.02
132 522 0.96
133 12 0.02
134 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (132 bp):
AGCAGATCGAAGATGCCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGAATT
TCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
GG
Found at i:18674037 original size:44 final size:44
Alignment explanation
Indices: 18673987--18674435 Score: 145
Period size: 44 Copynumber: 10.2 Consensus size: 44
18673977 CCAGAATTTC
*
18673987 TATCTCCCTGGGCAGCAGTGGAATAGA-TCACAGATTTCAGATCT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTCA-AGATTCCAGATCT
* ** * ** * * *
18674031 TGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGCCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTCAAGATTCCAGATCT
* ** * * * *
18674075 TACCTCCCTGAGGTTGCAGTGGAGTACATTGAAG---CCAGAATTT
1 TATCTCCCTG-GGCAGCAGTGGAATAGATTCAAGATTCCAG-ATCT
*
18674118 CTATCTCCCTGGGCAGCAGTGGAATAGA-TCACAGATTTCAGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTCA-AGATTCCAGATCT
* ** * ** ** * *
18674163 TGTCTCCCTAAGCAGTAGTGGAGCAGA-TCAAAGATGGCGGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTC-AAGATTCCAGATCT
* * * ** * *
18674207 TACCTCCCTGTGGTTA-CAATGGAGCACATTGAAG---CCAGTAAT-T
1 TATCTCCCTG-GG-CAGCAGTGGAATAGATTCAAGATTCCAG--ATCT
* * *
18674250 CTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTCAAGATTCCAGATCT
** ** * ** * * *
18674295 TGCCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGCCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTCAAGATTCCAGATCT
* ** * * * *
18674339 TACCTCCCTGAGGTTGCAGTGGAGTACATTGAAG---CCAGAATTT
1 TATCTCCCTG-GGCAGCAGTGGAATAGATTCAAGATTCCAG-ATCT
*
18674382 CTATCTCCCTGGGCAGCAGTGGAATAGA-TCACAGATTTCAGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTCA-AGATTCCAGATCT
*
18674427 TGTCTCCCT
1 TATCTCCCT
18674436 AAGCAGTAGT
Statistics
Matches: 295, Mismatches: 83, Indels: 54
0.68 0.19 0.12
Matches are distributed among these distances:
42 15 0.05
43 55 0.19
44 157 0.53
45 57 0.19
46 11 0.04
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTCAAGATTCCAGATCT
Found at i:18674139 original size:43 final size:42
Alignment explanation
Indices: 18673934--18674404 Score: 130
Period size: 44 Copynumber: 10.7 Consensus size: 42
18673924 GATTGAAGAT
* ** *
18673934 GCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGGACATTGA-A
1 GCCAGATTTTATCTCCCTG-GGCAGCAGTGGAGTACATTGACA
* * *
18673976 GCCAGAATTTCTATCTCCCTGGGCAGCAGTGGAATAGA-TCACA
1 GCCAG-ATTT-TATCTCCCTGGGCAGCAGTGGAGTACATTGACA
* * * ** * * * *
18674019 GATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
1 G---CCAGATTTTATCTCCCTGGGCAGCAGTGGAGTACATTG-ACA
* **
18674065 TGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGA-A
1 -GCCAGATTTTATCTCCCTG-GGCAGCAGTGGAGTACATTGACA
* * *
18674108 GCCAGAATTTCTATCTCCCTGGGCAGCAGTGGAATAGA-TCACA
1 GCCAG-ATTT-TATCTCCCTGGGCAGCAGTGGAGTACATTGACA
* * * ** * * * ** *
18674151 GATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
1 G---CCAGATTTTATCTCCCTGGGCAGCAGTGGAGTACAT-TGACA
* * * * * *
18674197 TGGCGGATTTTACCTCCCTGTGGTTA-CAATGGAGCACATTGA-A
1 -GCCAGATTTTATCTCCCTG-GG-CAGCAGTGGAGTACATTGACA
* * * *
18674240 GCCAGTAATTCTATCTCCCTGGGCAACAGTGGAATAGATTGA-A
1 GCCAG--ATTTTATCTCCCTGGGCAGCAGTGGAGTACATTGACA
* * ** ** * * * *
18674283 GATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
1 G---CCAGATTTTATCTCCCTGGGCAGCAGTGGAGTACATTG-ACA
* **
18674329 TGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGA-A
1 -GCCAGATTTTATCTCCCTG-GGCAGCAGTGGAGTACATTGACA
18674372 GCCAGAATTTCTATCTCCCTGGGCAGCAGTGGA
1 GCCAG-ATTT-TATCTCCCTGGGCAGCAGTGGA
18674405 ATAGATCACA
Statistics
Matches: 305, Mismatches: 91, Indels: 65
0.66 0.20 0.14
Matches are distributed among these distances:
42 23 0.08
43 70 0.23
44 147 0.48
45 47 0.15
46 15 0.05
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (42 bp):
GCCAGATTTTATCTCCCTGGGCAGCAGTGGAGTACATTGACA
Found at i:18674520 original size:396 final size:396
Alignment explanation
Indices: 18673788--18674520 Score: 1204
Period size: 396 Copynumber: 1.9 Consensus size: 396
18673778 TACACAGCGA
* ** * *
18673788 AGCAGATCGAAGATGGCGGATTTTACCTCCTCGTAGTTACGGTGGAGTACATTGAAGCCAATGAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCTCGTAGTTACAATGGAGCACATTGAAGCCAATAAT
* ** *
18673853 TCTAATTCCCGGGACAGCAGCGGAATAGATTGAAGATTTTAGATCTTGTCGCCCTAAGCAGTAGT
66 TCTAATTCCCGGGACAACAGCGGAATAGATTGAAGATTACAGATCTTGCCGCCCTAAGCAGTAGT
18673918 GGAGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGGACATTGAAGCCAGAA
131 GGAGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGGACATTGAAGCCAGAA
18673983 TTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTA
196 TTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTA
** * * *
18674048 GTGGAGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAG
261 GTGGAGCAGATCAAAGATGCCAGATTTTACCTCCCTGAGGTTACAATGGAGCACATTGAAGCCAG
18674113 AATTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAG
326 AATTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAG
18674178 TAGTGG
391 TAGTGG
* *
18674184 AGCAGATCAAAGATGGCGGATTTTACCTCC-CTGTGGTTACAATGGAGCACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGCGGATTTTACCTCCTC-GTAGTTACAATGGAGCACATTGAAGCCAATAA
* *
18674248 TTCT-ATCTCCCTGGG-CAACAGTGGAATAGATTGAAGATTACAGATCTTGCCTCCCTAAGCAGT
65 TTCTAAT-TCCC-GGGACAACAGCGGAATAGATTGAAGATTACAGATCTTGCCGCCCTAAGCAGT
*
18674311 AGTGGAGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCA
128 AGTGGAGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGGACATTGAAGCCA
18674376 GAATTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCA
193 GAATTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCA
* * *
18674441 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGCACATTGAAGC
258 GTAGTGGAGCAGATCAAAGATGCCAGATTTTACCTCCCTGAGGTTACAATGGAGCACATTGAAGC
18674506 CAGTAA-TTCTATCTC
323 CAG-AATTTCTATCTC
18674521 GATGGAGTGG
Statistics
Matches: 311, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
395 3 0.01
396 303 0.97
397 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (396 bp):
AGCAGATCAAAGATGGCGGATTTTACCTCCTCGTAGTTACAATGGAGCACATTGAAGCCAATAAT
TCTAATTCCCGGGACAACAGCGGAATAGATTGAAGATTACAGATCTTGCCGCCCTAAGCAGTAGT
GGAGCAGATTGAAGATGCCAGATTTTACCTCCCTGAGGTTGCAGTGGAGGACATTGAAGCCAGAA
TTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAGTA
GTGGAGCAGATCAAAGATGCCAGATTTTACCTCCCTGAGGTTACAATGGAGCACATTGAAGCCAG
AATTTCTATCTCCCTGGGCAGCAGTGGAATAGATCACAGATTTCAGATCTTGTCTCCCTAAGCAG
TAGTGG
Found at i:18679134 original size:17 final size:18
Alignment explanation
Indices: 18679114--18679163 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
18679104 AAAAAAAAAG
18679114 AAAATATAT-TAAAAATT
1 AAAATATATATAAAAATT
* * *
18679131 AAAA-AAATCTCAAAATT
1 AAAATATATATAAAAATT
*
18679148 AAAATGTATATAAAAA
1 AAAATATATATAAAAA
18679164 ATACACCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
16 3 0.12
17 15 0.60
18 7 0.28
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATATATATAAAAATT
Found at i:18685942 original size:20 final size:20
Alignment explanation
Indices: 18685919--18685984 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
18685909 TTTTTTTTAA
18685919 TTTTTGTAATATTTTTAATT
1 TTTTTGTAATATTTTTAATT
*
18685939 TTTTAGATATATATTTTTATAATT
1 TTTTTG-TA-ATA-TTTT-TAATT
* *
18685963 TCTTT-T-ATATTTTCAATT
1 TTTTTGTAATATTTTTAATT
18685981 TTTT
1 TTTT
18685985 ATATTTTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
18 7 0.19
19 4 0.11
20 8 0.22
21 2 0.05
22 4 0.11
23 4 0.11
24 8 0.22
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTGTAATATTTTTAATT
Found at i:18685948 original size:18 final size:18
Alignment explanation
Indices: 18685902--18685948 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
18685892 CTAACTTGAA
*
18685902 TTTTAGATTTTTTTTAATT
1 TTTTAGA-TATTTTTAATT
18685921 TTTGTA-ATATTTTTAATT
1 TTT-TAGATATTTTTAATT
18685939 TTTTAGATAT
1 TTTTAGATAT
18685949 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 17 0.68
19 4 0.16
20 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTTAGATATTTTTAATT
Found at i:18723646 original size:13 final size:13
Alignment explanation
Indices: 18723628--18723680 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
18723618 ATTTTTGTTC
18723628 ATGTATATAGTTA
1 ATGTATATAGTTA
18723641 ATGTATATAGTTAA
1 ATGTATATAGTT-A
* * *
18723655 AT-T-TTTTGTTC
1 ATGTATATAGTTA
18723666 ATGTATATAGTTA
1 ATGTATATAGTTA
18723679 AT
1 AT
18723681 TTTTTAATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
11 2 0.06
12 6 0.19
13 20 0.65
14 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (13 bp):
ATGTATATAGTTA
Found at i:18723675 original size:25 final size:25
Alignment explanation
Indices: 18723641--18723765 Score: 119
Period size: 24 Copynumber: 4.9 Consensus size: 25
18723631 TATATAGTTA
*
18723641 ATGTATATAGTTAAATTTTTTGTTC
1 ATGTATATAGTTAAATTTTTTATTC
*
18723666 ATGTATATAGTT-AATTTTTTAATC
1 ATGTATATAGTTAAATTTTTTATTC
* *
18723690 ATGTATATAGTTAGATTTTTTATAC
1 ATGTATATAGTTAAATTTTTTATTC
* * * * *
18723715 -TGTTTTTTGTTAATATTGTTTTTTGTTT
1 ATGTATATAGTTAA-A---TTTTTTATTC
18723743 ATGTATATAGTTAAATTTTTTAT
1 ATGTATATAGTTAAATTTTTTAT
18723766 ACACATGTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
24 31 0.40
25 29 0.37
28 8 0.10
29 10 0.13
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (25 bp):
ATGTATATAGTTAAATTTTTTATTC
Found at i:18725067 original size:72 final size:72
Alignment explanation
Indices: 18724949--18725112 Score: 224
Period size: 72 Copynumber: 2.3 Consensus size: 72
18724939 CAAAATATGT
* * * * *
18724949 TTTTATCAATAGTTATTTATGTTTAGTTTTTAGATATTGAACTTATGTTCTACTTATTTATGT-G
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTATGTTCCACTTATTT-TGTAC
18725013 T-AATCTAG
65 TAAAT-TAG
* * *
18725021 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCCACTTATTTTTTACT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTATGTTCCACTTATTTTGTACT
18725086 AAATTAG
66 AAATTAG
18725093 TTTTATTAATAGTTGTTTAT
1 TTTTATTAATAGTTGTTTAT
18725113 ATGTGATTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 2 0.02
72 77 0.94
73 3 0.04
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (72 bp):
TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTATGTTCCACTTATTTTGTACT
AAATTAG
Found at i:18728635 original size:9 final size:9
Alignment explanation
Indices: 18728618--18728654 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
18728608 TGAGTTTTCG
18728618 AATTCGAAT
1 AATTCGAAT
*
18728627 AACTCGAAT
1 AATTCGAAT
*
18728636 AATTTGAAT
1 AATTCGAAT
18728645 AATTCGAAT
1 AATTCGAAT
18728654 A
1 A
18728655 TGAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18730892 original size:28 final size:27
Alignment explanation
Indices: 18730841--18730898 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
18730831 ACCTAACTTC
*
18730841 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGATTTCATTA
18730868 AAATGTAAAAA-CTTCAATGATTTCATTA
1 AAATGTAAAAACCTT--ATGATTTCATTA
18730896 AAA
1 AAA
18730899 CATAGCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.11
27 11 0.39
28 14 0.50
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGATTTCATTA
Found at i:18731251 original size:15 final size:16
Alignment explanation
Indices: 18731207--18731248 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
18731197 TGTGTAAAAA
18731207 AAACAT-AAATATAAAT
1 AAACATGAAA-ATAAAT
*
18731223 AAACATGAAAATAATT
1 AAACATGAAAATAAAT
*
18731239 AAAGATGAAA
1 AAACATGAAA
18731249 TAAGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (16 bp):
AAACATGAAAATAAAT
Found at i:18731664 original size:11 final size:11
Alignment explanation
Indices: 18731648--18731676 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18731638 ATTCATTCTT
18731648 TCATTTTAACC
1 TCATTTTAACC
18731659 TCATTTTAACC
1 TCATTTTAACC
18731670 TCATTTT
1 TCATTTT
18731677 TTTCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (11 bp):
TCATTTTAACC
Found at i:18744819 original size:13 final size:13
Alignment explanation
Indices: 18744801--18744825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18744791 CTGCATAACT
18744801 AAAAAGGTAATCC
1 AAAAAGGTAATCC
18744814 AAAAAGGTAATC
1 AAAAAGGTAATC
18744826 TAATTTTTTT
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:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAGGTAATCC
Found at i:18747209 original size:19 final size:19
Alignment explanation
Indices: 18747185--18747222 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18747175 GATGTTTGTG
18747185 ATATGGAAAATACACAAAA
1 ATATGGAAAATACACAAAA
18747204 ATATGGAAAATACACAAAA
1 ATATGGAAAATACACAAAA
18747223 GAATCATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.11, T:0.16
Consensus pattern (19 bp):
ATATGGAAAATACACAAAA
Found at i:18750084 original size:42 final size:42
Alignment explanation
Indices: 18750030--18750153 Score: 124
Period size: 42 Copynumber: 3.0 Consensus size: 42
18750020 ACATACATTC
* * * * *
18750030 TCCTA-TCTCTATGGGTCACACCACAACACCACCTACCGATAT
1 TCCTACTC-CTATGGATCCCACCACAACACCACCCAACAATAT
* * *
18750072 TCCTACTCCTATGGACCCCATCACAACACCACCCAACAATCT
1 TCCTACTCCTATGGATCCCACCACAACACCACCCAACAATAT
* * * *
18750114 TCCCACTCTTATGGATCCCACCACAACACCATCCACCAAT
1 TCCTACTCCTATGGATCCCACCACAACACCACCCAACAAT
18750154 TTCACGTCTC
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 65 0.97
43 2 0.03
ACGTcount: A:0.30, C:0.43, G:0.06, T:0.21
Consensus pattern (42 bp):
TCCTACTCCTATGGATCCCACCACAACACCACCCAACAATAT
Found at i:18754036 original size:91 final size:91
Alignment explanation
Indices: 18753930--18754098 Score: 329
Period size: 91 Copynumber: 1.9 Consensus size: 91
18753920 CTTCTCTTGT
18753930 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACAATACACTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACAATACACTCCTT
18753995 GTGACCCTTGAGATCCGTGACCGAGC
66 GTGACCCTTGAGATCCGTGACCGAGC
*
18754021 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACAATACACTCCTT
18754086 GTGACCCTTGAGA
66 GTGACCCTTGAGA
18754099 GATGAAATTG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (91 bp):
TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACAATACACTCCTT
GTGACCCTTGAGATCCGTGACCGAGC
Found at i:18760775 original size:17 final size:17
Alignment explanation
Indices: 18760753--18760804 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
18760743 TAACCGAATT
18760753 TTTTTATTTATTGTT-TA
1 TTTTTATTTATT-TTATA
18760770 TTTTTATTTATTTTATA
1 TTTTTATTTATTTTATA
18760787 -TTTTA--TATTTTATA
1 TTTTTATTTATTTTATA
18760801 TTTT
1 TTTT
18760805 ATGTTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.27
15 3 0.09
16 7 0.21
17 14 0.42
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTATTTATTTTATA
Found at i:18760805 original size:7 final size:7
Alignment explanation
Indices: 18760778--18760806 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
18760768 TATTTTTATT
18760778 TATTTTA
1 TATTTTA
18760785 TATTTTA
1 TATTTTA
18760792 TATTTTA
1 TATTTTA
18760799 TATTTTA
1 TATTTTA
18760806 T
1 T
18760807 GTTCTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTA
Found at i:18765758 original size:15 final size:15
Alignment explanation
Indices: 18765738--18765773 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18765728 AAAAAAGAAC
18765738 AAAAAAATAAAAACA
1 AAAAAAATAAAAACA
*
18765753 AAAAAAATAAAAGCA
1 AAAAAAATAAAAACA
18765768 AAAAAA
1 AAAAAA
18765774 TAAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.06
Consensus pattern (15 bp):
AAAAAAATAAAAACA
Found at i:18765783 original size:13 final size:14
Alignment explanation
Indices: 18765737--18765786 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
18765727 CAAAAAAGAA
*
18765737 CAAAAAAATAAAAA
1 CAAAAAAATAAAAG
18765751 CAAAAAAAATAAAAG
1 C-AAAAAAATAAAAG
*
18765766 CAAAAAAATAAGAG
1 CAAAAAAATAAAAG
18765780 -AAAAAAA
1 CAAAAAAA
18765787 ACCTCTATCG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 7 0.21
14 13 0.39
15 13 0.39
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (14 bp):
CAAAAAAATAAAAG
Found at i:18765785 original size:15 final size:14
Alignment explanation
Indices: 18765731--18765787 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
18765721 GGAGGCCAAA
18765731 AAAGAACAAAAAAAT
1 AAAGAA-AAAAAAAT
*
18765746 AAAAACAAAAAAAAT
1 AAAGA-AAAAAAAAT
*
18765761 AAA-AGCAAAAAAAT
1 AAAGA-AAAAAAAAT
18765775 AAGAGAAAAAAAA
1 AA-AGAAAAAAAA
18765788 CCTCTATCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 11 0.31
15 22 0.63
16 2 0.06
ACGTcount: A:0.82, C:0.05, G:0.07, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAAAAAT
Found at i:18766243 original size:17 final size:17
Alignment explanation
Indices: 18766221--18766273 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
18766211 TACTTCACTT
*
18766221 GAAAAAAGAAACGAAAA
1 GAAAAAAGAAAAGAAAA
18766238 GAAAAAAGAAAAGAAAA
1 GAAAAAAGAAAAGAAAA
18766255 GAATAATAA-AAAAGAAAA
1 GAA-AA-AAGAAAAGAAAA
18766273 G
1 G
18766274 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 19 0.58
18 12 0.36
19 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (17 bp):
GAAAAAAGAAAAGAAAA
Found at i:18766265 original size:23 final size:22
Alignment explanation
Indices: 18766224--18766273 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
18766214 TTCACTTGAA
*
18766224 AAAAGAAACGAAAAGAAAAAAG
1 AAAAGAAAAGAAAAGAAAAAAG
*
18766246 AAAAGAAAAGAATAATAAAAAAG
1 AAAAGAAAAGAA-AAGAAAAAAG
18766269 AAAAG
1 AAAAG
18766274 GAGAGGCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (22 bp):
AAAAGAAAAGAAAAGAAAAAAG
Found at i:18767742 original size:99 final size:100
Alignment explanation
Indices: 18767497--18767753 Score: 338
Period size: 99 Copynumber: 2.6 Consensus size: 100
18767487 ATGAAGTTAC
* **
18767497 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGTTACGACGGCGAATCTTGCTTCCCTGGTATTGC
1 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
* ** *
18767562 AATTAAAAAGATTGAAGCTGCAACGGCGAATCTTA
66 AATTAAAAAGATTAAAGCCACAACGGCGAATCTCA
* * * * * *
18767597 CTTTCCTGGC-GATGCAGTGGATCAGATTGAAGCTACAACGACGAATCTTG-TTCCCTGACATTG
1 CTTCCCTGGCAG-TACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTG
*
18767660 CAATTAAAGAGATTAAAGCCACAACGGCGAATCTCA
65 CAATTAAAAAGATTAAAGCCACAACGGCGAATCTCA
* * *
18767696 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTACTTTCCTG
1 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTG
18767754 GCGATGCAGT
Statistics
Matches: 131, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 83 0.63
100 48 0.37
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (100 bp):
CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
AATTAAAAAGATTAAAGCCACAACGGCGAATCTCA
Found at i:18767768 original size:149 final size:150
Alignment explanation
Indices: 18767570--18768498 Score: 641
Period size: 149 Copynumber: 6.2 Consensus size: 150
18767560 GCAATTAAAA
* * * *
18767570 AGATTGAAGCTGCAACGGCGAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTACA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCTGGCGATTGCAGTGGATCAGATTGAAGCTACA
* *
18767634 ACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTAAAGCCACAACGGCGAATCTCACTT
66 ACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTTACTT
18767699 CCCTGGCAGTACAGTGGAGC
131 CCCTGGCAGTACAGTGGAGC
* *
18767719 AGATTAAAGCTACGACGGTGAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTACA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCTGGCGATTGCAGTGGATCAGATTGAAGCTACA
* * *
18767783 ACGACGAATCTTGTTCCCCGATATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTT
66 ACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTTACTT
* *
18767848 CCCTGGCAGTACAGTGCAAC
131 CCCTGGCAGTACAGTGGAGC
* * * * * ** ** **
18767868 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGG-TATTACAATTAAAAAGATTGAAGCCGCA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCTGGCGATTGCAGTGGATCAGATTGAAGCTACA
* * * * * * ** ** * * * *
18767932 ACGGCAAATCTTACTTTCCTGGCGA-TGCAGTGGATCAAATTGAAGCTACAACGGTGAATCTT-G
66 ACGACGAATCTT-GTTCCCTGAC-ATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTTAC
* * * * **
18767995 TTCTCC-GACATTGCATTTAAAG-
129 TTC-CCTGGCAGTACA-GTGGAGC
* * * * ** * * * * *
18768017 AGATTGAAGCCACAATGGCGAATCTCCCTTCCCTGGC-AGTACAGTGGAGCAGATTAAAGCTACG
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCTGGCGATTGCAGTGGATCAGATTGAAGCTACA
* * * * *
18768081 ACGACGAATCTTGCTTCCCT-AGTATTGCAATTAAAAAGATTGAAGCCGCAGCGGCAAATCTTAC
66 ACGACGAATCTTG-TTCCCTGA-CATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTTAC
* *
18768145 TTTCCTGGCGATGTA-A-TGGATC
129 TTCCCTGGC-A-GTACAGTGGAGC
* * * * * ** ** *
18768167 AGATTGAAGCTACAACGGTGAATCTT-GTTCCCCGAC-ATTGCATTTAAAGAGATTGAAGCCACA
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCTGGCGATTGCAGTGGATCAGATTGAAGCTACA
* * ** * * * * ** * * * *
18768230 ATGGCGAATCTCACTTCCCTGGCAGTAC-AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGC
66 ACGACGAATCT-TGTTCCCTGACATTGCAATTAAAG-AGATTGAAGCCACAACGGCGAATCTTAC
* * * * ** **
18768294 TTCCCTGGTATTGCAATTAAAA
129 TTCCCTGGCAGTACAGTGGAGC
** * * *
18768316 AGATTGAAGC--CGCAGCGGCAAATCTTACTTTCCTGGCGA-TGTAATGGATCAGATTGAAGCTA
1 AGATTGAAGCTACG-A-CGGTGAATCTTACTTCCCTGGCGATTGCAGTGGATCAGATTGAAGCTA
* * * * **
18768378 CAACGGCGAATCTTGTTCCCCGACATTGTAATTAAAGAGATCGAAGCCACAACGGTAAATCTTAC
64 CAACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTTAC
* *
18768443 TTTTCCTGGCGGTACAGTGGAGC
129 -TTCCCTGGCAGTACAGTGGAGC
* *
18768466 AGATTGAAGCTACGACGGTGAATATTGCTTCCC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCC
18768499 CGACATTGCA
Statistics
Matches: 576, Mismatches: 177, Indels: 53
0.71 0.22 0.07
Matches are distributed among these distances:
147 2 0.00
148 8 0.01
149 422 0.73
150 136 0.24
151 5 0.01
152 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (150 bp):
AGATTGAAGCTACGACGGTGAATCTTACTTCCCTGGCGATTGCAGTGGATCAGATTGAAGCTACA
ACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTTACTT
CCCTGGCAGTACAGTGGAGC
Found at i:18767852 original size:199 final size:197
Alignment explanation
Indices: 18767739--18768550 Score: 1167
Period size: 199 Copynumber: 4.1 Consensus size: 197
18767729 TACGACGGTG
* *
18767739 AATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGACGAATCTTGTTCCCCGA
1 AATCTTACTTTCCTGGCGATGCAATGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGA
*
18767804 TATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGCAA-C
66 CATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTG-AAGC
*
18767868 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGGTATTACAATTAAAAAGATTGAAGCCGCAA
130 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTACAATTAAAAAGATTGAAGCCG--A
18767933 CGGCA
193 CGGCA
* * * *
18767938 AATCTTACTTTCCTGGCGATGCAGTGGATCAAATTGAAGCTACAACGGTGAATCTTGTTCTCCGA
1 AATCTTACTTTCCTGGCGATGCAATGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGA
* * * *
18768003 CATTGCATTTAAAGAGATTGAAGCCACAATGGCGAATCTCCCTTCCCTGGCAGTACAGTGGAGCA
66 CATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGAAGCA
* * *
18768068 GATTAAAGCTACGACGACGAATCTTGCTTCCCTAGTATTGCAATTAAAAAGATTGAAGCCGCAGC
131 GATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTACAATTAAAAAGATTGAAGCCG-A-C
18768133 GGCA
194 GGCA
* *
18768137 AATCTTACTTTCCTGGCGATGTAATGGATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCCGA
1 AATCTTACTTTCCTGGCGATGCAATGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGA
* * *
18768202 CATTGCATTTAAAGAGATTGAAGCCACAATGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGCA
66 CATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGAAGCA
*
18768267 GATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGCAATTAAAAAGATTGAAGCCGCAGC
131 GATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTACAATTAAAAAGATTGAAGCCG-A-C
18768332 GGCA
194 GGCA
*
18768336 AATCTTACTTTCCTGGCGATGTAATGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGA
1 AATCTTACTTTCCTGGCGATGCAATGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGA
* * ** * * * *
18768401 CATTGTAATTAAAGAGATCGAAGCCACAACGGTAAATCTTACTTTTCCTGGCGGTACAGTGGAGC
66 CATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCAC-TTCCCTGGCAGTACAGTGAAGC
* * * * ** * *
18768466 AGATTGAAGCTACGACGGTGAATATTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAA
130 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTACAATTAAAAAGATTGAAGCCG--A
*
18768531 CGGCG
193 CGGCA
*
18768536 AATCTTACTTCCCTG
1 AATCTTACTTTCCTG
18768551 AGGTTGCAGT
Statistics
Matches: 568, Mismatches: 41, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
198 2 0.00
199 472 0.83
200 93 0.16
201 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (197 bp):
AATCTTACTTTCCTGGCGATGCAATGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGA
CATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAGTACAGTGAAGCA
GATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTACAATTAAAAAGATTGAAGCCGACGG
CA
Found at i:18767942 original size:100 final size:99
Alignment explanation
Indices: 18767739--18768550 Score: 873
Period size: 100 Copynumber: 8.2 Consensus size: 99
18767729 TACGACGGTG
* * * *
18767739 AATCTTACTTTCCTGGC-GATGCAGTGGATCAGATTGAAGCTACAACGACGAATCTTGTTCCCCG
1 AATCTTACTTCCCTGGCAG-TACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCG
* * *
18767803 ATATTGCAATTAAAGAGATTGAAGCCACAACGGCG
65 ACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
* * * * * * *
18767838 AATCTCACTTCCCTGGCAGTACAGTGCAACAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCAGTACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTG-TTCCCCG
** * *
18767903 GTATTACAATTAAAAAGATTGAAGCCGCAACGGCA
65 ACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
* * * * * *
18767938 AATCTTACTTTCCTGGC-GATGCAGTGGATCAAATTGAAGCTACAACGGTGAATCTTGTTCTCCG
1 AATCTTACTTCCCTGGCAG-TACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCG
* * * *
18768002 ACATTGCATTTAAAGAGATTGAAGCCACAATGGCG
65 ACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
** * * * *
18768037 AATCTCCCTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGACGAATCTTGCTT-CCCT
1 AATCTTACTTCCCTGGCAGTACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTG-TTCCCCG
* * *
18768101 AGTATTGCAATTAAAAAGATTGAAGCCGCAGCGGCA
65 A-CATTGCAATTAAAAAGATTGAAGCCACAACGGCA
* * *
18768137 AATCTTACTTTCCTGGCGATGTA-A-TGGATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCC
1 AATCTTACTTCCCTGGC-A-GTACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTGTTCCCC
* * * *
18768200 GACATTGCATTTAAAGAGATTGAAGCCACAATGGCG
64 GACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
* * * *
18768236 AATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCAGTACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTG-TTCCCCG
** * *
18768301 GTATTGCAATTAAAAAGATTGAAGCCGCAGCGGCA
65 ACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
* *
18768336 AATCTTACTTTCCTGGCGATGTA-A-TGGATCAGATTGAAGCTACAACGGCGAATCTTGTTCCCC
1 AATCTTACTTCCCTGGC-A-GTACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTGTTCCCC
* * * *
18768399 GACATTGTAATTAAAGAGATCGAAGCCACAACGGTA
64 GACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
* * * * *
18768435 AATCTTACTTTTCCTGGCGGTACAGTGGAGCAGATTGAAGCTACGACGGTGAATATTGCTTCCCC
1 AATCTTAC-TTCCCTGGCAGTACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTG-TTCCCC
* * *
18768500 GACATTGCAATTTAAAAGATTGAAGCCGCAACGGCG
64 GACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
18768536 AATCTTACTTCCCTG
1 AATCTTACTTCCCTG
18768551 AGGTTGCAGT
Statistics
Matches: 585, Mismatches: 110, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
97 3 0.01
98 5 0.01
99 242 0.41
100 282 0.48
101 47 0.08
102 6 0.01
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (99 bp):
AATCTTACTTCCCTGGCAGTACAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTGTTCCCCGA
CATTGCAATTAAAAAGATTGAAGCCACAACGGCA
Found at i:18768249 original size:348 final size:348
Alignment explanation
Indices: 18767497--18768251 Score: 888
Period size: 348 Copynumber: 2.2 Consensus size: 348
18767487 ATGAAGTTAC
* * * * ** * *
18767497 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGTTACGACGGCGAATCTTGCTTCCCTGGTATTGC
1 CTTCCCCGACAGTACAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCTGGTATTAC
* * *
18767562 AATTAAAAAGATTGAAGCTGCAACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGA
66 AATTAAAAAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGCAGTGGATCAAATTGA
18767627 AGCTACAACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTAAAGCCACAACGGCGAAT
131 AGCTACAACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTAAAGCCACAACGGCGAAT
** * *
18767692 CTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTACTTTCCTGGCG
196 CTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGACGAATCTTACTTCCCTAGCG
* * ** * * * * *
18767757 ATGCAGTGGATCAGATTGAAGCTACAACGACGAATCTTGTTCCCCGATATTGCAATTAAAGAGAT
261 ATGCAATGAAAAAGATTGAAGCCACAACGACAAATCTTGTTCCCCGAGATTGCAATGAAACAGAT
18767822 TGAAGCCACAACGGCGAATCTCA
326 TGAAGCCACAACGGCGAATCTCA
* * * * * *
18767845 CTTCCCTGGCAGTACAGTGCAACAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGGTATTAC
1 CTTCCCCGACAGTACAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCTGGTATTAC
18767910 AATTAAAAAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGCAGTGGATCAAATTGA
66 AATTAAAAAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGCAGTGGATCAAATTGA
** * * *
18767975 AGCTACAACGGTGAATCTTGTTCTCC-GACATTGCATTTAAAGAGATTGAAGCCACAATGGCGAA
131 AGCTACAACGACGAATCTTGTTC-CCTGACATTGCAATTAAAGAGATTAAAGCCACAACGGCGAA
* *
18768039 TCTCCCTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGACGAATCTTGCTTCCCTAG-
195 TCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGACGAATCTTACTTCCCTAGC
* * * * * * ** * * * *
18768103 TATTGCAATTAAAAAGATTGAAGCCGCAGCGGCAAATCTTACTTTCCTGGCGA-TGTAATGGATC
260 GA-TGCAATGAAAAAGATTGAAGCCACAACGACAAATCTT--GTTCCCCGAGATTGCAATGAAAC
* * *
18768167 AGATTGAAGCTACAACGGTGAATCT-T
322 AGATTGAAGCCACAACGGCGAATCTCA
* * * * * * * * **
18768193 GTTCCCCGACATTGCATTTAAAGAGATTGAAGCCACAATGGCGAATCTCACTTCCCTGG
1 CTTCCCCGACAGTACAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCTGG
18768252 CAGTACAGTG
Statistics
Matches: 344, Mismatches: 59, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
347 1 0.00
348 306 0.89
349 31 0.09
350 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (348 bp):
CTTCCCCGACAGTACAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCTGGTATTAC
AATTAAAAAGATTGAAGCCGCAACGGCAAATCTTACTTTCCTGGCGATGCAGTGGATCAAATTGA
AGCTACAACGACGAATCTTGTTCCCTGACATTGCAATTAAAGAGATTAAAGCCACAACGGCGAAT
CTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGACGAATCTTACTTCCCTAGCG
ATGCAATGAAAAAGATTGAAGCCACAACGACAAATCTTGTTCCCCGAGATTGCAATGAAACAGAT
TGAAGCCACAACGGCGAATCTCA
Found at i:18770178 original size:8 final size:8
Alignment explanation
Indices: 18770165--18770208 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
18770155 TTTAACCGAA
18770165 TTTTTATT
1 TTTTTATT
18770173 TTTTTATTT
1 TTTTTA-TT
18770182 ATTGTTTATT
1 -TT-TTTATT
18770192 TTTTTA-T
1 TTTTTATT
18770199 TTTTTATT
1 TTTTTATT
18770207 TT
1 TT
18770209 ATATTTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.22
8 13 0.41
9 4 0.12
10 4 0.12
11 4 0.12
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:18770189 original size:7 final size:7
Alignment explanation
Indices: 18770165--18770215 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
18770155 TTTAACCGAA
18770165 TTTTTA-
1 TTTTTAT
18770171 TTTTT-T
1 TTTTTAT
*
18770177 TATTTAT
1 TTTTTAT
*
18770184 TGTTTATT
1 TTTTTA-T
18770192 TTTTTAT
1 TTTTTAT
18770199 TTTTTAT
1 TTTTTAT
*
18770206 TTTATAT
1 TTTTTAT
18770213 TTT
1 TTT
18770216 ATGTTCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
6 9 0.24
7 23 0.61
8 6 0.16
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:18770199 original size:15 final size:16
Alignment explanation
Indices: 18770174--18770210 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
18770164 ATTTTTATTT
18770174 TTTTATTTATTGTTTA
1 TTTTATTTATTGTTTA
*
18770190 TTTT-TTTATTTTTTA
1 TTTTATTTATTGTTTA
18770205 TTTTAT
1 TTTTAT
18770211 ATTTTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTATTTATTGTTTA
Found at i:18778067 original size:2 final size:2
Alignment explanation
Indices: 18778060--18778084 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18778050 TTAAGATCAT
18778060 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18778085 TTACATGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18779570 original size:30 final size:30
Alignment explanation
Indices: 18779524--18779586 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
18779514 GGTTAAGATA
* * *
18779524 GTGCCACACACGGTCGCACCACATGATCGT
1 GTGCCACACACAGTCGCACCACACGACCGT
*
18779554 GTGCTACACACAGTCGCACCACACGACCGT
1 GTGCCACACACAGTCGCACCACACGACCGT
18779584 GTG
1 GTG
18779587 GACTATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.16
Consensus pattern (30 bp):
GTGCCACACACAGTCGCACCACACGACCGT
Found at i:18780125 original size:14 final size:15
Alignment explanation
Indices: 18780106--18780143 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
18780096 TGTTTCATTG
18780106 AAAATGACTTT-TGA
1 AAAATGACTTTCTGA
*
18780120 AAAATGA-TTTCTGG
1 AAAATGACTTTCTGA
18780134 AAAATGACTT
1 AAAATGACTT
18780144 ACTCTCCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (15 bp):
AAAATGACTTTCTGA
Found at i:18785928 original size:1 final size:1
Alignment explanation
Indices: 18785922--18785952 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
18785912 CTTCTTCTTC
18785922 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18785953 ATCTCAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18792580 original size:17 final size:17
Alignment explanation
Indices: 18792554--18792620 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
18792544 ACCTGAATTG
18792554 AATCACTACATAATTAA
1 AATCACTACATAATTAA
* **
18792571 AATCATTACATAAGTCTTTG
1 AATCACTACATAA---TTAA
18792591 AATCACTACATAATTAA
1 AATCACTACATAATTAA
* *
18792608 AAACATTACATAA
1 AATCACTACATAA
18792621 GTCTTGAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 25 0.64
20 14 0.36
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.31
Consensus pattern (17 bp):
AATCACTACATAATTAA
Found at i:18792597 original size:37 final size:37
Alignment explanation
Indices: 18792551--18792625 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
18792541 ATTACCTGAA
*
18792551 TTGAATCACTACATAATTAAAATCATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
18792588 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
18792625 T
1 T
18792626 GAAATTAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:18792639 original size:37 final size:37
Alignment explanation
Indices: 18792551--18792642 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
18792541 ATTACCTGAA
* *
18792551 TTGAATCACTACATAATTAAAATCATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
18792588 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
18792624 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
18792643 GAAATGTAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 3 0.06
37 45 0.88
38 3 0.06
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:18796733 original size:38 final size:39
Alignment explanation
Indices: 18796691--18796807 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 39
18796681 GTTAGAGACT
18796691 TAGACTTTAGTTTTAGTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
18796729 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTAGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
18796768 TAGATTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
18796807 T
1 T
18796808 TGGGTTGGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 28 0.37
39 47 0.63
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:18796806 original size:13 final size:13
Alignment explanation
Indices: 18796788--18796812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18796778 TTTTAGTTTT
18796788 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
18796801 ATTGGGTTGGGT
1 ATTGGGTTGGGT
18796813 TGGATAATTT
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:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:18803821 original size:154 final size:154
Alignment explanation
Indices: 18803621--18804121 Score: 738
Period size: 154 Copynumber: 3.2 Consensus size: 154
18803611 TTTTTTATTG
18803621 AAAGTAATAAAATCCGGAAAAAAAATACGAACAAAGGGCCGACATAAGGGTTTTTTTTAAAAATT
1 AAAGTAATAAAATCCGG-AAAAAAATACGAACAAAGGGCCGACATAAGGGTTTTTTTTAAAAATT
18803686 TATTTAAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATTAA
65 TATTTAAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA-TAA
*
18803751 -AAAATTAGAAAATAGCATATTTTTT
129 TAAAATTAGAAAATAGTATATTTTTT
18803776 AAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGACATAAGGGTTTTTTTTAAAAATTT
1 AAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGACATAAGGGTTTTTTTTAAAAATTT
18803841 ATTTAAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
66 ATTTAAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
18803906 AAA-TACGAAAATAATATATTTTTATT
131 AAATTA-GAAAATAGTATA-TTTT-TT
* ** * * * * ** **
18803932 AAAAATAATAAAATTTGGGAAAAAATACGAATAAAGGGTCGAAATAAGGG-TTTTTAAAAAAAAA
1 -AAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGACATAAGGGTTTTTTTTAAAAATT
* * *
18803996 AATTTTAAAACACACACTAAATGAATACATTTCAAACATAATGTACTGAAATAATGTAAAATAAT
65 TATTTAAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* *
18804061 GAAATTAGAAAATAGTATTTTTTTT
130 AAAATTAGAAAATAGTATATTTTTT
*
18804086 AAAGTAATAAAATCCGAGGAAAAAATTACGAACAAA
1 AAAGTAATAAAATCC--GGAAAAAAATACGAACAAA
18804122 TAGCTGAAAT
Statistics
Matches: 313, Mismatches: 25, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
153 17 0.05
154 124 0.40
155 41 0.13
156 87 0.28
157 44 0.14
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (154 bp):
AAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGACATAAGGGTTTTTTTTAAAAATTT
ATTTAAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATAGTATATTTTTT
Found at i:18816820 original size:16 final size:16
Alignment explanation
Indices: 18816799--18816850 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
18816789 TTTGGTTCGC
*
18816799 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
18816815 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
18816831 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
18816847 TGTA
1 TGTA
18816851 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18816936 original size:39 final size:43
Alignment explanation
Indices: 18816831--18816940 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
18816821 GGATTAGAGG
18816831 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
18816876 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
18816916 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
18816941 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:18817107 original size:18 final size:17
Alignment explanation
Indices: 18817086--18817120 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18817076 TTATTATTAA
*
18817086 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18817104 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18817121 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18817234 original size:14 final size:15
Alignment explanation
Indices: 18817185--18817236 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
18817175 ATAAAATATA
18817185 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
18817200 TATTAAATATATTAT
1 AATTAAATATATTAT
18817215 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
18817228 AATTTAATA
1 AATTAAATA
18817237 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:18817284 original size:120 final size:120
Alignment explanation
Indices: 18817069--18817300 Score: 437
Period size: 120 Copynumber: 1.9 Consensus size: 120
18817059 ATCATATTTA
*
18817069 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
18817134 TATTCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT
66 TATTCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT
18817189 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
18817254 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA
66 TATTCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAA
18817301 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT
Found at i:18817299 original size:61 final size:61
Alignment explanation
Indices: 18817114--18817300 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
18817104 ATATAATTTA
*
18817114 ATAAAATTCTTAATAATTAATATTCTGATATGAATTTACTCAAATAATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACT
* * * * * * * *
18817175 ATAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T-AATTAA-AATATATAAT-TT
1 ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGAAT-TTACTCAAATAATAATATATGATACT
*
18817233 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACT
18817295 ATAAAA
1 ATAAAA
18817301 NNNNNNNNNN
Statistics
Matches: 96, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 9 0.09
58 7 0.07
59 21 0.22
60 17 0.18
61 27 0.28
62 7 0.07
63 8 0.08
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAATAATATATGATACT
Found at i:18834014 original size:16 final size:16
Alignment explanation
Indices: 18833995--18834043 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
18833985 TAGAATTTGG
*
18833995 TTGAAAAATTATTTAA
1 TTGAAAAATTAATTAA
*
18834011 TTGAGAAATTAATTAA
1 TTGAAAAATTAATTAA
*
18834027 TTG--AATTTAATTAA
1 TTGAAAAATTAATTAA
18834041 TTG
1 TTG
18834044 TTTAAGTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 13 0.43
16 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
TTGAAAAATTAATTAA
Found at i:18840086 original size:13 final size:13
Alignment explanation
Indices: 18840068--18840094 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18840058 AAAGTATTTT
18840068 AGAAATTGAATTG
1 AGAAATTGAATTG
18840081 AGAAATTGAATTG
1 AGAAATTGAATTG
18840094 A
1 A
18840095 TTATTATTGT
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:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
AGAAATTGAATTG
Found at i:18840808 original size:16 final size:16
Alignment explanation
Indices: 18840771--18840810 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18840761 TTGATAAAAT
* *
18840771 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
18840787 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
18840803 TAAAATTA
1 TAAAATTA
18840811 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:18840904 original size:75 final size:74
Alignment explanation
Indices: 18840805--18840944 Score: 244
Period size: 75 Copynumber: 1.9 Consensus size: 74
18840795 ATTGTTAGTA
* *
18840805 AAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGT
1 AAATTATCAAATTATTAATTGTTAATTATATTAATTGTTGTAACAAAATCTAACATTTGATTAGT
18840870 AAAATTATC
66 AAAATTATC
*
18840879 AAATTATTAAATGTATTAATTGTTAATTATATTAATTGTTGTAACAAAATCTAACATTTGATTAG
1 AAATTATCAAAT-TATTAATTGTTAATTATATTAATTGTTGTAACAAAATCTAACATTTGATTAG
18840944 T
65 T
18840945 TTACATTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
74 11 0.18
75 51 0.82
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (74 bp):
AAATTATCAAATTATTAATTGTTAATTATATTAATTGTTGTAACAAAATCTAACATTTGATTAGT
AAAATTATC
Found at i:18841154 original size:20 final size:19
Alignment explanation
Indices: 18841095--18841150 Score: 94
Period size: 20 Copynumber: 2.9 Consensus size: 19
18841085 TCTGTCGGGG
*
18841095 AAATGAAATTGAAAACTAA
1 AAATAAAATTGAAAACTAA
18841114 AAATAAAATTGAAAACATAA
1 AAATAAAATTGAAAAC-TAA
18841134 AAATAAAATTGAAAACT
1 AAATAAAATTGAAAACT
18841151 TAAACNNNNN
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.21
Consensus pattern (19 bp):
AAATAAAATTGAAAACTAA
Found at i:18841261 original size:16 final size:16
Alignment explanation
Indices: 18841240--18841272 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18841230 TATTTTTTTT
18841240 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
18841256 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
18841272 A
1 A
18841273 TATATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:18843737 original size:22 final size:22
Alignment explanation
Indices: 18843707--18843750 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18843697 AATCCTATCC
*
18843707 ATTACTTTAAATCCCGTTTTTT
1 ATTACTTTAAATCCCATTTTTT
*
18843729 ATTATTTTAAATCCCATTTTTT
1 ATTACTTTAAATCCCATTTTTT
18843751 CTTTAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTACTTTAAATCCCATTTTTT
Found at i:18843936 original size:74 final size:74
Alignment explanation
Indices: 18843851--18844104 Score: 447
Period size: 74 Copynumber: 3.4 Consensus size: 74
18843841 TTTTTAAAGA
*
18843851 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTTAATTAAAATAAT
1 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTTAATTAAAATAAT
18843916 TTTTTTAAT
66 TTTTTTAAT
18843925 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTTAATTAAAATAAT
1 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTTAATTAAAATAAT
18843990 TTTTTTAAT
66 TTTTTTAAT
*
18843999 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTACG-TTTTTTAATTAAAATAAA
1 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTTAATTAAAAT-AA
*
18844063 TTTTTTAAAT
65 TTTTTTTAAT
* *
18844073 AAAATCAATTTATTTCTTTAAATTGATTTATC
1 AAAATAAATTTATTCCTTTAAATTGATTTATC
18844105 TTGTAAAACT
Statistics
Matches: 174, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
73 15 0.09
74 159 0.91
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (74 bp):
AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTTAATTAAAATAAT
TTTTTTAAT
Found at i:18844009 original size:18 final size:18
Alignment explanation
Indices: 18843897--18844005 Score: 73
Period size: 18 Copynumber: 6.0 Consensus size: 18
18843887 AATTATTAGG
18843897 TTTTTTTAATTAAAATAA
1 TTTTTTTAATTAAAATAA
18843915 TTTTTTTAA-TAAAATAAA
1 TTTTTTTAATTAAAAT-AA
* *** * *
18843933 TTTATTCCTTTAAATTGA
1 TTTTTTTAATTAAAATAA
* *
18843951 TTTATCATTTAATT--ATTAGG
1 TTT-T--TTTAATTAAAATA-A
18843971 TTTTTTTAATTAAAATAA
1 TTTTTTTAATTAAAATAA
18843989 TTTTTTTAA-TAAAATAA
1 TTTTTTTAATTAAAATAA
18844006 ATTTATTCCT
Statistics
Matches: 69, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
17 21 0.30
18 29 0.42
19 12 0.17
20 3 0.04
21 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTTTTTAATTAAAATAA
Found at i:18844068 original size:18 final size:18
Alignment explanation
Indices: 18844045--18844083 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18844035 AATTATTACG
*
18844045 TTTTTTAATTAAAATAAA
1 TTTTTTAAATAAAATAAA
*
18844063 TTTTTTAAATAAAATCAA
1 TTTTTTAAATAAAATAAA
18844081 TTT
1 TTT
18844084 ATTTCTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTTTAAATAAAATAAA
Found at i:18847095 original size:18 final size:19
Alignment explanation
Indices: 18847060--18847097 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
18847050 GAATAGAAAT
*
18847060 AAATCATTTGATTATAGAA
1 AAATCATTTGAATATAGAA
*
18847079 AAATCA-TTGAATGTAGAA
1 AAATCATTTGAATATAGAA
18847097 A
1 A
18847098 TATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (19 bp):
AAATCATTTGAATATAGAA
Found at i:18848131 original size:49 final size:48
Alignment explanation
Indices: 18848014--18848132 Score: 116
Period size: 49 Copynumber: 2.4 Consensus size: 48
18848004 GATATTAAAT
* **
18848014 GCCATCATTGTCGGGCTATCTGGGATGGCAGGATAAGTAAATTGTGAAA
1 GCCATCATTGTCGGGCTATCCGGGATGGCA-GATAAGTAAATAATGAAA
* *** *
18848063 ACCATCATTGTCAAACTATCCGGGATGGTA-A-AATGTAAGAATAATGAAA
1 GCCATCATTGTCGGGCTATCCGGGATGGCAGATAA-GT-A-AATAATGAAA
18848112 GCCATCATTGTCGGGCTATCC
1 GCCATCATTGTCGGGCTATCC
18848133 CAAATAATAG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
46 2 0.04
47 3 0.05
48 1 0.02
49 49 0.89
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (48 bp):
GCCATCATTGTCGGGCTATCCGGGATGGCAGATAAGTAAATAATGAAA
Found at i:18855234 original size:27 final size:27
Alignment explanation
Indices: 18855198--18855282 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
18855188 ATACAGTAGA
* *
18855198 AAAAGAAAGCCTTTGTGGCGATCGATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* *
18855225 AAAAGGAAGCCTTTGTAGCGACCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* * *
18855252 AAAATGAAGTCTTTGTGGCGATTTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
18855279 AAAA
1 AAAA
18855283 ATGAAGTCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGGCGATCTATG
Found at i:18855381 original size:27 final size:27
Alignment explanation
Indices: 18855351--18855410 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
18855341 CTTTACAGCA
18855351 TATTCT-GTAAGAGAAGCCTTTGTGGCG
1 TATTCTAGTAAGA-AAGCCTTTGTGGCG
* *
18855378 TATT-TAGTAATAAAGCCTTTGTGGTG
1 TATTCTAGTAAGAAAGCCTTTGTGGCG
18855404 TATTCTA
1 TATTCTA
18855411 ATAGATTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (27 bp):
TATTCTAGTAAGAAAGCCTTTGTGGCG
Found at i:18857516 original size:16 final size:18
Alignment explanation
Indices: 18857490--18857522 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18857480 TTAAATTAGA
18857490 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
18857507 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
18857523 CCCAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:18861315 original size:17 final size:17
Alignment explanation
Indices: 18861292--18861327 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18861282 AATAAAAAAA
*
18861292 ATAAAAAAATTGATTATT
1 ATAAAAATATT-ATTATT
18861310 ATAAAAATATTATTATT
1 ATAAAAATATTATTATT
18861327 A
1 A
18861328 AATTAAGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATAAAAATATTATTATT
Found at i:18863141 original size:23 final size:25
Alignment explanation
Indices: 18863114--18863162 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
18863104 AATTTAAGTT
18863114 AAATTAAAA-AAT-TTAAAAATATG
1 AAATTAAAATAATGTTAAAAATATG
*
18863137 AAATTAAAATAATGTTTAAAATATG
1 AAATTAAAATAATGTTAAAAATATG
18863162 A
1 A
18863163 TTAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
24 3 0.13
25 11 0.48
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (25 bp):
AAATTAAAATAATGTTAAAAATATG
Found at i:18863165 original size:23 final size:22
Alignment explanation
Indices: 18863115--18863166 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
18863105 ATTTAAGTTA
18863115 AATTAAAAAATTTAAAAATATG
1 AATTAAAAAATTTAAAAATATG
*
18863137 AAATTAAAATAATGTTTAAAATATG
1 -AATTAAAA-AAT-TTAAAAATATG
18863162 -ATTAA
1 AATTAA
18863167 TTTTTAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 3 0.12
25 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (22 bp):
AATTAAAAAATTTAAAAATATG
Found at i:18864189 original size:28 final size:28
Alignment explanation
Indices: 18864157--18864227 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
18864147 AAAACAACTT
*
18864157 TATTAAAACTTATTTTTATTTA-ATAAAA
1 TATTAAAACTTATTGTT-TTTATATAAAA
18864185 TATTATAAA--TATTGTTTTTATATAAAA
1 TATTA-AAACTTATTGTTTTTATATAAAA
18864212 T-TTAAATACTTTATTG
1 TATTAAA-AC-TTATTG
18864228 CAACAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
25 2 0.06
26 8 0.22
27 13 0.36
28 5 0.14
29 8 0.22
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (28 bp):
TATTAAAACTTATTGTTTTTATATAAAA
Found at i:18865243 original size:2 final size:2
Alignment explanation
Indices: 18865236--18865263 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18865226 TGCTTTATTC
18865236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18865264 TTGAGTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18877017 original size:21 final size:21
Alignment explanation
Indices: 18876974--18877018 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18876964 CTAAAAATTT
* * **
18876974 AAAAATATTATATATATTCTA
1 AAAAATATTAAAAATATGATA
18876995 AAAAATATTAAAAATATGATA
1 AAAAATATTAAAAATATGATA
18877016 AAA
1 AAA
18877019 TCTCATAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATATTAAAAATATGATA
Found at i:18880995 original size:12 final size:12
Alignment explanation
Indices: 18880978--18881003 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18880968 CTTTTCCCTT
18880978 CCATCGGTTCTG
1 CCATCGGTTCTG
18880990 CCATCGGTTCTG
1 CCATCGGTTCTG
18881002 CC
1 CC
18881004 GTCACTTAAT
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:0.08, C:0.38, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATCGGTTCTG
Found at i:18881597 original size:14 final size:14
Alignment explanation
Indices: 18881578--18881609 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18881568 TGTGAATAAA
18881578 CCTTCATCTAAAGC
1 CCTTCATCTAAAGC
18881592 CCTTCATCTAAAGC
1 CCTTCATCTAAAGC
18881606 CCTT
1 CCTT
18881610 ATCAAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (14 bp):
CCTTCATCTAAAGC
Found at i:18883952 original size:39 final size:42
Alignment explanation
Indices: 18883907--18884007 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 42
18883897 TTTCCTTATG
*
18883907 CTATTACACCTCTATTT-CATTCAACCAAACACAAA-AA-TAC
1 CTATTACGCCTCTATTTCCATTCAACCAAACA-AAAGAATTAC
18883947 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTA-T---TTCCATTCAACCAAACAAAAGAATTAC
18883992 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
18884008 CTATTACACT
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
39 11 0.21
40 2 0.04
42 1 0.02
43 5 0.10
44 16 0.31
45 5 0.10
46 12 0.23
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.30
Consensus pattern (42 bp):
CTATTACGCCTCTATTTCCATTCAACCAAACAAAAGAATTAC
Found at i:18884013 original size:16 final size:16
Alignment explanation
Indices: 18883992--18884047 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
18883982 AAAGAATTAC
*
18883992 CTATTACGCCTCTATT
1 CTATTACACCTCTATT
*
18884008 CTATTACACTTCTATT
1 CTATTACACCTCTATT
*
18884024 CCATTACACCTCTATT
1 CTATTACACCTCTATT
18884040 CTATTACA
1 CTATTACA
18884048 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:18884437 original size:17 final size:17
Alignment explanation
Indices: 18884392--18884447 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
18884382 TGAAAAAAAA
*
18884392 TAAAA-ATAAAAATCAAT
1 TAAAATATAAAAAT-TAT
*
18884409 TAAAGTTATAAAAATTAT
1 TAAA-ATATAAAAATTAT
18884427 TAAAATATAAAAA-TAT
1 TAAAATATAAAAATTAT
18884443 TAAAA
1 TAAAA
18884448 ATTANNNNNN
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 8 0.24
17 12 0.35
18 6 0.18
19 8 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAATATAAAAATTAT
Found at i:18884632 original size:16 final size:17
Alignment explanation
Indices: 18884602--18884634 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18884592 GCAATTTATA
18884602 ATTTTTCTATAATTTTT
1 ATTTTTCTATAATTTTT
*
18884619 ATTTTT-TATCATTTTT
1 ATTTTTCTATAATTTTT
18884635 CGCCATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTCTATAATTTTT
Found at i:18884749 original size:9 final size:9
Alignment explanation
Indices: 18884735--18884825 Score: 56
Period size: 10 Copynumber: 9.4 Consensus size: 9
18884725 TTTTGATGCA
18884735 TTTTATAAT
1 TTTTATAAT
*
18884744 TTTTATAAAA
1 TTTTAT-AAT
*
18884754 TTATATATAT
1 TTTTATA-AT
**
18884764 TTTTACGAT
1 TTTTATAAT
18884773 TTTTATAATT
1 TTTTATAA-T
*
18884783 TTTTCTAAT
1 TTTTATAAT
* *
18884792 TTCTAATAAAA
1 TT-TTAT-AAT
*
18884803 TTTAATAAT
1 TTTTATAAT
18884812 TTTTATAAAT
1 TTTTAT-AAT
18884822 TTTT
1 TTTT
18884826 GCCACATGTC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
9 25 0.40
10 33 0.53
11 4 0.06
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18886940 original size:33 final size:33
Alignment explanation
Indices: 18886891--18887013 Score: 201
Period size: 33 Copynumber: 3.7 Consensus size: 33
18886881 ATGATCACTT
* *
18886891 GAGCCAATCCATCCATCACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
*
18886924 GAGCTAATCCAACCATCACACCGATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
*
18886957 GAGCTAAACCAACCATCACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
*
18886990 GAGCTAATCCAACCAACACACCAA
1 GAGCTAATCCAACCATCACACCAA
18887014 AAAGAGAGTA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (33 bp):
GAGCTAATCCAACCATCACACCAATGCTCATAA
Found at i:18890581 original size:22 final size:19
Alignment explanation
Indices: 18890544--18890587 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
18890534 AACCATAAAA
18890544 ACATTAAATTTAACACATT
1 ACATTAAATTTAACACATT
18890563 ACATATAAACTTTAAACACATT
1 ACAT-TAAA-TTT-AACACATT
18890585 ACA
1 ACA
18890588 ATTCCAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 3 0.14
22 11 0.50
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (19 bp):
ACATTAAATTTAACACATT
Found at i:18891158 original size:20 final size:20
Alignment explanation
Indices: 18891133--18891201 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
18891123 CAGAGACATA
18891133 GAAGTGTAAACAAAGGCACC
1 GAAGTGTAAACAAAGGCACC
* *
18891153 GAAGTGCAAACAAAGGCA-A
1 GAAGTGTAAACAAAGGCACC
* * * *
18891172 GATTGTGTAATCAGAGACACC
1 GA-AGTGTAAACAAAGGCACC
18891193 GAAGTGTAA
1 GAAGTGTAA
18891202 GTAGAGGCAC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.26, T:0.14
Consensus pattern (20 bp):
GAAGTGTAAACAAAGGCACC
Found at i:18891210 original size:60 final size:60
Alignment explanation
Indices: 18891106--18891221 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
18891096 ATGCTATAAG
* * * *
18891106 AGGCACGATTATGCAATCAGAGACATAGAAGTGTAAACAAAGGCACCGAAGTGCAAACAA
1 AGGCAAGATTATGCAATCAGAGACACAGAAGTGTAAACAAAGGCACCAAAATGCAAACAA
* * * ** *
18891166 AGGCAAGATTGTGTAATCAGAGACACCGAAGTGTAAGTAGAGGCACCAAAATGCAA
1 AGGCAAGATTATGCAATCAGAGACACAGAAGTGTAAACAAAGGCACCAAAATGCAA
18891222 CCTCGTACAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (60 bp):
AGGCAAGATTATGCAATCAGAGACACAGAAGTGTAAACAAAGGCACCAAAATGCAAACAA
Found at i:18903127 original size:16 final size:16
Alignment explanation
Indices: 18903106--18903160 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
18903096 AAATAAATTA
18903106 TGAAGAGTTAGAAATG
1 TGAAGAGTTAGAAATG
*
18903122 TGAAGAAACTT-G-AA-G
1 TGAAG--AGTTAGAAATG
18903137 ATGAAGAGTTAGAAATG
1 -TGAAGAGTTAGAAATG
18903154 TGAAGAG
1 TGAAGAG
18903161 ACTTGAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
14 3 0.10
15 2 0.06
16 21 0.68
17 2 0.06
18 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.31, T:0.22
Consensus pattern (16 bp):
TGAAGAGTTAGAAATG
Found at i:18903146 original size:32 final size:32
Alignment explanation
Indices: 18903105--18903179 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
18903095 AAAATAAATT
18903105 ATGAAGAGTTAGAAATGTGAAGAAACTTGAAG
1 ATGAAGAGTTAGAAATGTGAAGAAACTTGAAG
*
18903137 ATGAAGAGTTAGAAATGTGAAGAGACTTGAAG
1 ATGAAGAGTTAGAAATGTGAAGAAACTTGAAG
18903169 ATGAAGAGTTA
1 ATGAAGAGTTA
18903180 CACACATACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.45, C:0.03, G:0.29, T:0.23
Consensus pattern (32 bp):
ATGAAGAGTTAGAAATGTGAAGAAACTTGAAG
Found at i:18903173 original size:16 final size:16
Alignment explanation
Indices: 18903122--18903176 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
18903112 GTTAGAAATG
*
18903122 TGAAGAAACTTGAAGA
1 TGAAGAGACTTGAAGA
18903138 TGAAGAG--TTAGAA-A
1 TGAAGAGACTT-GAAGA
18903152 TGTGAAGAGACTTGAAGA
1 --TGAAGAGACTTGAAGA
18903170 TGAAGAG
1 TGAAGAG
18903177 TTACACACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 20 0.62
17 3 0.09
18 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.31, T:0.20
Consensus pattern (16 bp):
TGAAGAGACTTGAAGA
Found at i:18903243 original size:39 final size:39
Alignment explanation
Indices: 18903189--18903277 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
18903179 ACACACATAC
18903189 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
*
18903228 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
18903267 ATGAATAGTCA
1 ATGAATAGTCA
18903278 TTTACAACTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
Found at i:18910889 original size:498 final size:499
Alignment explanation
Indices: 18909889--18912365 Score: 3021
Period size: 501 Copynumber: 4.9 Consensus size: 499
18909879 CTCTATTTTC
* **
18909889 AAATTAAAACAGAATTTGAAGAGATAAACTCAGCTGAGGAAAAATAAAAAAATGTATTGGGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * *
18909954 AATATCCGTAAGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATAATAGGATAAAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGAT----
** * * * *
18910019 CCAGAAAAATATAGATATATATATATATATAATCTAAAAAACATAAATTGGAAA-TAAAACTGGA
127 -C-G---AA-CCAGA-ACATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGA
* * *
18910083 TCGAAATTGTATACTCGTAGGT-AGGCAAAAATTCGATTGGTAGTTGAGGCTTGTTTTCACAGTT
185 TCGAAATTGTATACTCGTAGGTAAGG-AAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTT
* ** * * * * *
18910147 TCTTTAAGGTAGATTTGGCTGCTCCTTTGGTGCTAGAGAAATGTTGGTCGACTATCTCCCAAGAT
249 TCCTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGAT
* * * * * * *
18910212 ACAATAACGATATGAGCACACCAGTAGCACGGCTACAGTGATCAACGAATTGTAGCCTAGCTTTC
314 ACAACAACGAGATGAACACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTC
* * * * * *
18910277 TTCTATCACTGAAAACAT-GTTCAAAATATGAAGGGAAAATATGTCGAAACTTTTGCAGAAAAAA
379 TTCTATCATTGAAAAC-TGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAG-GAAAA
* * *
18910341 T-GGGAAAATTTAAGTTTTTTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
442 TCGGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * * *
18910398 AAATTAAAACAGAATTTGAAGAGATAAAATGCTGCTAATGAAAATTAAAATTATGTATTGGGCTA
1 AAATTAAAACAGAATTTGAAGAGATAAACT-CTGCTGAGGAAAAATAAAATTATGTATTGGGCTA
* * * *
18910463 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATATAAAATATTAATTTAAATAATAGGATCAA
65 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCGA
* * *
18910528 ACCAGAACA-ATATATATATAATCTAAAAAATAGAAATTGGAAATAAAAACTTGATAGAAATTGT
130 ACCAGAACATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCGAAATTGT
18910592 ATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAG-TTCCTTAAGACA
195 ATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTTCCTTAAGACA
* * * *
18910656 GATTAGACTGCTACTTTGGTGTTGGAGAAATATTGGTCGACTGTCTCCCAGGATACAACAACGAG
260 GATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAACAACGAG
* * ** ** *
18910721 ATGAACACAGTAGTAACACAACTGCAACGATCAACGAACTGTAGCTTAGCTTTCTTCTATCATTG
325 ATGAACACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTATCATTG
* * * *
18910786 AAAACTGGTTCGAAATATGAAGGGAAAAGTTCTCGAATTTTTTGTAGGAAAATCGGGAAAAATGC
390 AAAACTGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAATCGGGAAAAATTC
18910851 AGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
455 AGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * *
18910896 AAATTAAAATAGAATTTGAAGAGATAAACTCTGCTGAGGAAAACTAAAATTATGTATTAGGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * * *
18910961 AATATCCACAGGTCTAGGAAAATTTAATAGTAATGTAAAATATAGATTTCAATCATAGGATCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCGAA
*
18911026 CCAGAACAATATATATATATATATATATATATATATATAATCTAAAATAGAAATTGGAAAGAAAA
131 CCAGAAC-------------ATATATATATATA-ATCTAA---AAAATAGAAATTGGAAAGAAAA
* **
18911091 ACTGGATCGAAATTGTATAGTCAAAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCA
179 ACTGGATCGAAATTGTATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCA
* * * * *
18911156 CAGTTTCTTTAAGACAAATTCGGCTGCTCCTTTGGTGCTGAAGAAATGTTGGTTGACTGTCTCCC
244 CAGTTTCCTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCC
* * * * *
18911221 AGCATACAACAACAAGATGAGCACAGCAGTATCATGGCTGCAGTGATCAACGAATTGTAGCCTAG
309 AGGATACAACAACGAGATGAACACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAG
* * *
18911286 CTTTCTTCTATCATAGAAAATTGGTTCGAAATATGAAGAGAAAAGATCTCGAAATTTTTGCAGGA
374 CTTTCTTCTATCATTGAAAACTGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGG-
** *
18911351 AAAATATGGAAAAATTTAGTTTTCTTTTTCCTAAAGATTATTCTTTTTTTCCTTTTAATTCCAA
438 AAAATCGGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTC--TTTTTCCTTTTAATTCCAA
* * *
18911415 AAATTAAAACAGAATTTGAAGAGGTAAACTCTGCTGAGGAAAAATAAAATTAAGTATTGAGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* *
18911480 AATATCCGCAGGTTTAGGAAAAATTATTAGTAATGTAAAATATTGATTTAAATCATAGGATCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCGAA
* * * * * * * *
18911545 CCAGAACA-ATATAGATAAAATTTGAAAAACAGAAATTAGAAAGAAAAACTGGACCGAAATTGCA
131 CCAGAACATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCGAAATTGTA
* * * * * **
18911609 TACTTGTAGGTAGGGAAAAATCCAACTGGTAGTTGAGGCCTGTTTTTATAGTTTCCTTAAGATTG
196 TACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTTCCTTAAGACAG
* * * * * *
18911674 ATTTGACCGCTCCTTTGCTGCTGGAGAAATGTTGATCGACTGTCTCACAGGATACAACAACAAGA
261 ATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAACAACGAGA
* * * * * * **
18911739 TTATCACAGCAGTATCAGGGTTGCAGTGATCAACGAAATGTAGCCTAGCTTTCTTCTGTCACAGA
326 TGAACACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTATCATTGA
* * * *
18911804 AAACAGGTTCGAAATATGTAGGGAAAAGATCTCGAAATTTTTGGAGGAAAAATCAGGAAAAATTC
391 AAACTGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGG-AAAATCGGGAAAAATTC
18911869 AGTTTTCTTTTTCCTAAAGATTATTAC-TTTTCCTTTTAATTCCAA
455 AGTTTTCTTTTTCCTAAAGATTATT-CTTTTTCCTTTTAATTCCAA
* * *
18911914 AAATTAAAACAGAATTTGAAAAGATAAACTCTGTTGAGGAAAAATAAAATTGTGTATTGGGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * * * *
18911979 AATATCCACAGGTCTAGGAAAAATTAATAGGAGTGTAAAAAATTGATTTAAATCATAGGACCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCGAA
*
18912044 CCAGAACAATATAGATATATATATATATAAAATCTAAAAAATAGAATTTGGAAAGAAAAACTGGA
131 CCAGAAC---------ATATATATATAT--AATCTAAAAAATAGAAATTGGAAAGAAAAACTGGA
* * * * *
18912109 TCGAAATTGTATACTCGTAGGT-AGGCAAAAATCTGACTGGTAGTTGAGGCCTGTTGTGATAATT
185 TCGAAATTGTATACTCGTAGGTAAGG-AAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTT
* * * *
18912173 TCCTTAAGACAGATTCGA-TCGCTCATTTGTTGCTGGAGAAATGTTGGCCGACTGTCTCCCAAGA
249 TCCTTAAGACAGATTCGACT-GCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGA
* * *
18912237 TACAACAACGAGATAAACACAGCAATATCACGGCTGCAGTGATTAACGAACTGTAGCCTAGCTTT
313 TACAACAACGAGATGAACACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTT
* * ** * *
18912302 TTTCTATCATTGAAAACTTGTTTAAAATATGAAGGGAAAAGATCTTGAAATTTTTGCTGGAAAA
378 CTTCTATCATTGAAAACTGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAA
18912366 ATATGAAAAA
Statistics
Matches: 1699, Mismatches: 227, Indels: 83
0.85 0.11 0.04
Matches are distributed among these distances:
497 101 0.06
498 267 0.16
499 206 0.12
500 6 0.00
501 286 0.17
502 1 0.00
504 4 0.00
505 10 0.01
506 1 0.00
508 1 0.00
509 37 0.02
510 93 0.05
511 251 0.15
512 5 0.00
515 84 0.05
516 163 0.10
517 39 0.02
519 144 0.08
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (499 bp):
AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCGAA
CCAGAACATATATATATATAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCGAAATTGTA
TACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTTCCTTAAGACAG
ATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAACAACGAGA
TGAACACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTATCATTGA
AAACTGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAATCGGGAAAAATTCA
GTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
Found at i:18911041 original size:2 final size:2
Alignment explanation
Indices: 18911034--18911064 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18911024 AACCAGAACA
18911034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18911065 ATCTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18912277 original size:511 final size:509
Alignment explanation
Indices: 18909889--18913663 Score: 3734
Period size: 510 Copynumber: 7.4 Consensus size: 509
18909879 CTCTATTTTC
* * **
18909889 AAATTAAAACAGAATTTGAAGAGATAAACTCAGCTGAGGAAAAATAAAAAAATGTATTGGGCTAA
1 AAATTAAAACAGAATTTGAAAAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
** * * *
18909954 AATATCCGTAAGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATAATAGGATAAAA
66 AATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAAA
* * * *
18910019 CCAGAAAAATATAGATATATATATATATATAATCTAAAAAACATAAATTGGAAA-TAAAACTGGA
131 CCAGAACAATATAGATATATATATATATAAAATCTAAAAAACAGAAATTGGAAAGAAAAACTGGA
* * *
18910083 TCGAAATTGTATACTCGTAGGTAGGCAAAAATTCGATTGGTAGTTGAGGCTTGTTTTCACAGTTT
196 TCGAAATTGTATACTCGTAGGTAGG-AAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTT
* ** * * * * *
18910148 CTTTAAGGTAGATTTGGCTGCTCCTTTGGTGCTAGAGAAATGTTGGTCGACTATCTCCCAAGATA
260 CCTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATA
* * * * *
18910213 CAATAACGATATGAGCACACCAGTAGCACGGCTACAGTGATCAACGAATTGTAGCCTAGCTTTCT
325 CAACAACGAGATGAGCACAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCT
* * * * * * *
18910278 TCTATCACTGAAAACATGTTCAAAATATGAAGGGAAAATATGTCGAAACTTTTGCAGAAAAAATG
390 TCTATCACTGAAAACAGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATA
* * *
18910343 GGAAAATTTAAGTTTTTTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
455 GGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * * * *
18910398 AAATTAAAACAGAATTTGAAGAGATAAAATGCTGCTAATGAAAATTAAAATTATGTATTGGGCTA
1 AAATTAAAACAGAATTTGAAAAGATAAACT-CTGCTGAGGAAAAATAAAATTATGTATTGGGCTA
* * * *
18910463 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATATAAAATATTAATTTAAATAATAGGATCAA
65 AAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAA
* * *
18910528 ACCAGAAC---------A-ATATATATAT--AATCTAAAAAATAGAAATTGGAAATAAAAACTTG
130 ACCAGAACAATATAGATATATATATATATAAAATCTAAAAAACAGAAATTGGAAAGAAAAACTGG
*
18910581 ATAGAAATTGTATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAG-T
195 ATCGAAATTGTATACTCGTAGGT-AGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTT
* * * *
18910645 TCCTTAAGACAGATTAGACTGCTACTTTGGTGTTGGAGAAATATTGGTCGACTGTCTCCCAGGAT
259 TCCTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGAT
* * * ** ** *
18910710 ACAACAACGAGATGAACACAGTAGTAACACAACTGCAACGATCAACGAACTGTAGCTTAGCTTTC
324 ACAACAACGAGATGAGCACAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTC
* * * * *
18910775 TTCTATCATTGAAAACTGGTTCGAAATATGAAGGGAAAAGTTCTCGAATTTTTTGTAGG-AAAAT
389 TTCTATCACTGAAAACAGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAAT
* *
18910839 CGGGAAAAATGCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
454 -AGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * * *
18910896 AAATTAAAATAGAATTTGAAGAGATAAACTCTGCTGAGGAAAACTAAAATTATGTATTAGGCTAA
1 AAATTAAAACAGAATTTGAAAAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * * *
18910961 AATATCCACAGGTCTAGGAAAATTTAATAGTAATGTAAAATATAGATTTCAATCATAGGATCGAA
66 AATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAAA
* * *
18911026 CCAGAACAATATATATATATATATATATATATATATATAATCTAAAATAGAAATTGGAAAGAAAA
131 CCAGAACAATATAGATATATATATATATA-A-A-ATCTAA---AAAACAGAAATTGGAAAGAAAA
* **
18911091 ACTGGATCGAAATTGTATAGTCAAAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCA
190 ACTGGATCGAAATTGTATACTCGTAGGT-AGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCA
* * * * *
18911156 CAGTTTCTTTAAGACAAATTCGGCTGCTCCTTTGGTGCTGAAGAAATGTTGGTTGACTGTCTCCC
254 CAGTTTCCTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCC
* * * * *
18911221 AGCATACAACAACAAGATGAGCACAGCAGTATCATGGCTGCAGTGATCAACGAATTGTAGCCTAG
319 AGGATACAACAACGAGATGAGCACAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAG
** *
18911286 CTTTCTTCTATCA-TAGAAAATTGGTTCGAAATATGAAGAGAAAAGATCTCGAAATTTTTGCAGG
384 CTTTCTTCTATCACT-GAAAACAGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGG
*
18911350 AAAAATATGGAAAAATTTAGTTTTCTTTTTCCTAAAGATTATTCTTTTTTTCCTTTTAATTCCAA
448 AAAAATA-GGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTC--TTTTTCCTTTTAATTCCAA
* * * *
18911415 AAATTAAAACAGAATTTGAAGAGGTAAACTCTGCTGAGGAAAAATAAAATTAAGTATTGAGCTAA
1 AAATTAAAACAGAATTTGAAAAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * * *
18911480 AATATCCGCAGGTTTAGGAAAAATTATTAGTAATGTAAAATATTGATTTAAATCATAGGATCGAA
66 AATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAAA
* *
18911545 CCAGAACAATATAG----ATA-A-A-AT----T-TGAAAAACAGAAATTAGAAAGAAAAACTGGA
131 CCAGAACAATATAGATATATATATATATAAAATCTAAAAAACAGAAATTGGAAAGAAAAACTGGA
* * * * * *
18911598 CCGAAATTGCATACTTGTAGGTAGGGAAAAATCCAACTGGTAGTTGAGGCCTGTTTTTATAGTTT
196 TCGAAATTGTATACTCGTAGGTA-GGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTT
** * * * * *
18911663 CCTTAAGATTGATTTGACCGCTCCTTTGCTGCTGGAGAAATGTTGATCGACTGTCTCACAGGATA
260 CCTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATA
* * * * * * *
18911728 CAACAACAAGATTATCACAGCAGTATCAGGGTTGCAGTGATCAACGAAATGTAGCCTAGCTTTCT
325 CAACAACGAGATGAGCACAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCT
* * * *
18911793 TCTGTCACAGAAAACAGGTTCGAAATATGTAGGGAAAAGATCTCGAAATTTTTGGAGGAAAAATC
390 TCTATCACTGAAAACAGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAAT-
18911858 AGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTAC-TTTTCCTTTTAATTCCAA
454 AGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATT-CTTTTTCCTTTTAATTCCAA
* *
18911914 AAATTAAAACAGAATTTGAAAAGATAAACTCTGTTGAGGAAAAATAAAATTGTGTATTGGGCTAA
1 AAATTAAAACAGAATTTGAAAAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * * * *
18911979 AATATCCACAGGTCTAGGAAAAATTAATAGGAGTGTAAAAAATTGATTTAAATCATAGGACCGAA
66 AATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAAA
* *
18912044 CCAGAACAATATAGATATATATATATATAAAATCTAAAAAATAGAATTTGGAAAGAAAAACTGGA
131 CCAGAACAATATAGATATATATATATATAAAATCTAAAAAACAGAAATTGGAAAGAAAAACTGGA
* * * * *
18912109 TCGAAATTGTATACTCGTAGGTAGGCAAAAATCTGACTGGTAGTTGAGGCCTGTTGTGATAATTT
196 TCGAAATTGTATACTCGTAGGTAGG-AAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTT
* * * *
18912174 CCTTAAGACAGATTCGA-TCGCTCATTTGTTGCTGGAGAAATGTTGGCCGACTGTCTCCCAAGAT
260 CCTTAAGACAGATTCGACT-GCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGAT
* * * * * *
18912238 ACAACAACGAGATAAACACAGCAATATCACGGCTGCAGTGATTAACGAACTGTAGCCTAGCTTTT
324 ACAACAACGAGATGAGCACAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTC
* ** ** * *
18912303 TTCTATCATTGAAAACTTGTTTAAAATATGAAGGGAAAAGATCTTGAAATTTTTGCTGGAAAAAT
389 TTCTATCACTGAAAACAGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAAT
* * **** * * * ** **
18912368 ATGAAAAAATTTAGTTTTCAAAAT-ATGAAA-A-AATTCAGTTTT-C--AAAATATGAAA
454 A-GGAAAAATTCAGTTTTCTTTTTCCT-AAAGATTATTC-TTTTTCCTTTTAAT-TCCAA
******** ** ** ** * ** *
18912422 AAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTTCCTTTTAATTCCAAAAATTAAAA-CA-
1 AAATT-AAAACAGAATTT-GAAAAGA-TAAAC-----T-CTGCTGA--GGAAAAA-TAAAATTAT
* * * * ** *** ** * *
18912485 GAATTTGAAGAGATAAACTATGCTTA-GAAAATTAAAATTATGTATTGGGCTAAAATAGCCGCAG
54 GTA-TTG--G-GCTAAAATATCCACAGGTCTAGGAAAA--AT-TAAT-AG-T--AAT--------
* ** * * * * * *
18912549 GTCTAGGAAATATTAATTGTAATGTAAAATATTGATTTAAATCATAGGATCGAACCA-A-A-ACA
100 G--TA--AAATATTGATT-TAA---ATCATA-GGA-TCAAA-C-CA-GAAC-AA-TATAGATATA
* * * * * * **
18912611 -ATATATATATAATCTGAAAAAAAAAGAAATTAGAAATAAAAACTAGATCGAAATTATATACTTA
150 TATATATATAAAATCT--AAAAAACAGAAATTGGAAAGAAAAACTGGATCGAAATTGTATACTCG
* * *
18912675 TAGGTAGGGAAAAATCCGAGTGGTAGTTGAGGCCTATTTTGACAGTTTCCTTAAGACAGATTCGA
213 TAGGTA-GGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTTCCTTAAGACAGATTCGA
* * * * *
18912740 CTGTTCCTTTGGTGTTAGAGAAATGTTGATCGACTGTCTCCCAGGATACAACAATGAGATGAGCA
277 CTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATACAACAACGAGATGAGCA
* * * * * ** * *
18912805 CAGCAGTAGCACAGCTGTAGTGATCAATGAACTTTTGTTTGGCTTTCTTCTATAACTGAAATA-A
342 CAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTATCACTGAAA-ACA
* * * ** * * *
18912869 AGTTTGAAATATGTACAGAAAAGATCTCGAAATTTTTGCAGGAAAAATTGGGAAAAATCCTGTTT
406 GGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAA-TAGGAAAAATTCAGTTT
* *
18912934 TCTTTTTCCTACAGGTTATTCTTTTTCCTTTTAATTCCAA
470 TCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * * *
18912974 GAATTAAAAAAGAATTTGAAGAA-ATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTGGGCTA
1 AAATTAAAACAGAATTTGAA-AAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTA
* * *
18913038 AAATATCCATATGTTTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAA
65 AAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAA
* * * * * *
18913103 ACCAGAACAATATAGATATCTATGTATA-AAAATCTAAAAAACAGAAATTTGAAATAAGAACTAG
130 ACCAGAACAATATAGATATATATATATATAAAATCTAAAAAACAGAAATTGGAAAGAAAAACTGG
*
18913167 ATCGAAATTGTATACTAGTAGGTAGGAAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTT
195 ATCGAAATTGTATACTCGTAGGTAGG-AAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTT
* * * * * * * *
18913232 TCATTAAGACAAATTCGGCCGCTCCTTTGGTGCTGGAGAAATATTGGGCAACTGTCTCTCAGGAT
259 TCCTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGAT
* * * *
18913297 ACAACAACGAGATGAGTACAGCAATAGCACGGCTGCAGTGATCAACGAGCTATAGCCTAGCTTTC
324 ACAACAACGAGATGAGCACAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTC
* * * * **
18913362 TTCTATCACTGAAAACATGTTCGAAATATGTAGAGAAAAGATCTCAAAATTTTTGCAAAAAAAAT
389 TTCTATCACTGAAAACAGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAAT
* * *
18913427 TGAGAAAAATTCAGTTTTCTTTTTCCTACAGATTATTCTTTTTCCTTTTAATTTCAA
454 AG-GAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* ** ***
18913484 AAATTAAAACAGAATTT-AAAGAGATAAACTCTACCAAGGAAAAATAAAATTATGTATTAACCTA
1 AAATTAAAACAGAATTTGAAA-AGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTA
* * * *
18913548 AAATATCTACAGATCTTA-AAAAAATTAATAGTAATAG-AAAATATTTATTTAAATCATAGGAT-
65 AAATATCCACAGGTC-TAGGAAAAATTAATAGTAAT-GTAAAATATTGATTTAAATCATAGGATC
* * *
18913610 AGAACCAAAACAATATAG----ATATATATATAAAATCTGAAAAACAGAAATTAGAAA
128 A-AACCAGAACAATATAGATATATATATATATAAAATCTAAAAAACAGAAATTGGAAA
18913664 TAAACCTATA
Statistics
Matches: 2690, Mismatches: 450, Indels: 254
0.79 0.13 0.07
Matches are distributed among these distances:
497 100 0.04
498 257 0.10
499 211 0.08
500 14 0.01
501 283 0.11
502 2 0.00
503 3 0.00
504 3 0.00
505 2 0.00
506 10 0.00
507 37 0.01
508 10 0.00
509 47 0.02
510 520 0.19
511 274 0.10
512 15 0.01
513 8 0.00
514 5 0.00
515 90 0.03
516 167 0.06
517 44 0.02
518 2 0.00
519 161 0.06
520 15 0.01
521 7 0.00
522 12 0.00
523 2 0.00
524 4 0.00
525 1 0.00
528 2 0.00
532 3 0.00
534 1 0.00
535 1 0.00
536 4 0.00
537 2 0.00
538 13 0.00
539 7 0.00
540 14 0.01
541 11 0.00
542 2 0.00
543 3 0.00
544 5 0.00
545 2 0.00
546 2 0.00
547 15 0.01
548 3 0.00
549 257 0.10
550 15 0.01
551 12 0.00
552 7 0.00
553 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (509 bp):
AAATTAAAACAGAATTTGAAAAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
AATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGGATCAAA
CCAGAACAATATAGATATATATATATATAAAATCTAAAAAACAGAAATTGGAAAGAAAAACTGGA
TCGAAATTGTATACTCGTAGGTAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCACAGTTTC
CTTAAGACAGATTCGACTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGGATAC
AACAACGAGATGAGCACAGCAGTAGCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTT
CTATCACTGAAAACAGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAG
GAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
Found at i:18912395 original size:24 final size:24
Alignment explanation
Indices: 18912363--18912434 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
18912353 TTTTGCTGGA
*
18912363 AAAATATGAAAAAATTTAGTTTTC
1 AAAATATGAAAAAATTCAGTTTTC
18912387 AAAATATGAAAAAATTCAGTTTTC
1 AAAATATGAAAAAATTCAGTTTTC
18912411 AAAATATGAAAAAATTCAGTTTTC
1 AAAATATGAAAAAATTCAGTTTTC
18912435 TTTTTCCTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAATATGAAAAAATTCAGTTTTC
Found at i:18914023 original size:27 final size:27
Alignment explanation
Indices: 18913985--18914049 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
18913975 TCTGTCAGGT
18913985 AGGCGCCAATGAATGTGCCTCATAGAG
1 AGGCGCCAATGAATGTGCCTCATAGAG
*
18914012 AGGCGCCAATGAATGTGCCTCATAGGG
1 AGGCGCCAATGAATGTGCCTCATAGAG
18914039 AGGCGCCAATG
1 AGGCGCCAATG
18914050 GTGGCCTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.32, T:0.17
Consensus pattern (27 bp):
AGGCGCCAATGAATGTGCCTCATAGAG
Found at i:18914377 original size:19 final size:19
Alignment explanation
Indices: 18914331--18914392 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
18914321 TTGGATTAGT
*
18914331 ATTTTGTATGAATATTCTA
1 ATTTTGTATGAATATTGTA
18914350 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
*
18914371 ATTTTGTATGAATCTTGTA
1 ATTTTGTATGAATATTGTA
18914390 ATT
1 ATT
18914393 ATTTATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 21 0.54
21 18 0.46
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:18914479 original size:61 final size:63
Alignment explanation
Indices: 18914353--18914527 Score: 232
Period size: 61 Copynumber: 2.7 Consensus size: 63
18914343 TATTCTAATT
*
18914353 TTTTGTATGAATATTGTAATTTTGTATGAATCTTGTAATTATTTATTTATAGTTTTGGATTAGTA
1 TTTTGTATGAATATTGTAATTTTTTATGAA--TTGTAATTATTTATTTATAGTTTTGGATTAGTA
18914418 TTTTGTATGAATATTGTAATTATTTTAT-AA-T-TAATT-TTGTATTTATAGTTTTGGATTAGTA
1 TTTTGTATGAATATTGTAATT-TTTTATGAATTGTAATTATT-TATTTATAGTTTTGGATTAGTA
18914479 TTTTGTATGAATATTGTAATTTTTTGTATGAATATTGGTAATTATTTAT
1 TTTTGTATGAATATTGTAA-TTTTT-TATG-A-ATT-GTAATTATTTAT
18914528 AATTAATTTG
Statistics
Matches: 98, Mismatches: 1, Indels: 19
0.83 0.01 0.16
Matches are distributed among these distances:
60 2 0.02
61 49 0.50
62 6 0.06
64 1 0.01
65 24 0.24
66 6 0.06
68 8 0.08
69 2 0.02
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.57
Consensus pattern (63 bp):
TTTTGTATGAATATTGTAATTTTTTATGAATTGTAATTATTTATTTATAGTTTTGGATTAGTA
Found at i:18914520 original size:22 final size:21
Alignment explanation
Indices: 18914332--18914521 Score: 108
Period size: 21 Copynumber: 9.0 Consensus size: 21
18914322 TGGATTAGTA
*
18914332 TTTTGTATGAATATTCTAATT
1 TTTTGTATGAATATTGTAATT
18914353 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
18914372 TTTTGTATGAATCTTGTAATT
1 TTTTGTATGAATATTGTAATT
* * * * *
18914393 ATTTATTTAT-AGTTTTGGATTAGTA
1 -TTT-TGTATGAATATT-G--TAATT
18914418 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* * *
18914439 ATTTTATAATTAATTTTGT-ATT
1 -TTTTGT-ATGAATATTGTAATT
* * * * *
18914461 TATAGTTTTGGAT-TAGT-A--
1 TTTTG-TATGAATATTGTAATT
18914479 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
18914500 TTTTGTATGAATATTGGTAATT
1 TTTTGTATGAATATT-GTAATT
18914522 ATTTATAATT
Statistics
Matches: 126, Mismatches: 27, Indels: 31
0.68 0.15 0.17
Matches are distributed among these distances:
17 5 0.04
18 6 0.05
19 19 0.15
20 4 0.03
21 41 0.33
22 22 0.17
23 19 0.15
24 7 0.06
25 3 0.02
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:18914992 original size:25 final size:25
Alignment explanation
Indices: 18914964--18915011 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
18914954 TGTTATTTGC
18914964 TGAATTAAATTATATCGTATTAAGT
1 TGAATTAAATTATATCGTATTAAGT
*
18914989 TGAATTAAATTATATTGTATTAA
1 TGAATTAAATTATATCGTATTAA
18915012 CTATTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (25 bp):
TGAATTAAATTATATCGTATTAAGT
Found at i:18919462 original size:27 final size:27
Alignment explanation
Indices: 18919432--18919486 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18919422 CTCAACATGA
* *
18919432 CACCACTAATGGCGCCTCTCAGATAGG
1 CACCACCAATGGCGACTCTCAGATAGG
* *
18919459 CACCACCATTGGCGACTCTGAGATAGG
1 CACCACCAATGGCGACTCTCAGATAGG
18919486 C
1 C
18919487 GTCACTACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCACCAATGGCGACTCTCAGATAGG
Found at i:18920221 original size:3 final size:3
Alignment explanation
Indices: 18920213--18920249 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18920203 ACTTCAAAGC
18920213 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18920250 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18923988 original size:5 final size:5
Alignment explanation
Indices: 18923978--18924010 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
18923968 CTTAGACTTC
18923978 TCTTT TCTTT TCTTT T-TTT TCTTTT TCTTT TCT
1 TCTTT TCTTT TCTTT TCTTT TC-TTT TCTTT TCT
18924011 AACTCAGGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TCTTT
Found at i:18927209 original size:45 final size:46
Alignment explanation
Indices: 18927140--18927226 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 46
18927130 GCAAAAAAAA
*
18927140 AAAAACTAAATTATAATAAAAAA-TTATTTATAAATCATAAACACT
1 AAAAACTAAATTATAATAAAAAATTTATTTATAAATAATAAACACT
* *
18927185 AAAAACTAATTTATAATAATAAATTTATTTATAAATAATAAA
1 AAAAACTAAATTATAATAAAAAATTTATTTATAAATAATAAA
18927227 TTCCAAACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (46 bp):
AAAAACTAAATTATAATAAAAAATTTATTTATAAATAATAAACACT
Found at i:18927216 original size:18 final size:19
Alignment explanation
Indices: 18927193--18927228 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18927183 CTAAAAACTA
18927193 ATTTAT-AATAATAAATTT
1 ATTTATAAATAATAAATTT
18927211 ATTTATAAATAATAAATT
1 ATTTATAAATAATAAATT
18927229 CCAAACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTATAAATAATAAATTT
Found at i:18927216 original size:46 final size:45
Alignment explanation
Indices: 18927140--18927226 Score: 138
Period size: 46 Copynumber: 1.9 Consensus size: 45
18927130 GCAAAAAAAA
*
18927140 AAAAACTAAATTATAATAAAAAATTATTTATAAATCATAAACACT
1 AAAAACTAAATTATAATAAAAAATTATTTATAAATAATAAACACT
* *
18927185 AAAAACTAATTTATAATAATAAATTTATTTATAAATAATAAA
1 AAAAACTAAATTATAATAA-AAAATTATTTATAAATAATAAA
18927227 TTCCAAACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 18 0.47
46 20 0.53
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (45 bp):
AAAAACTAAATTATAATAAAAAATTATTTATAAATAATAAACACT
Done.