Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
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: 4740655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 24
Found at i:1018839 original size:126 final size:130
Alignment explanation
Indices: 1018709--1019049 Score: 390
Period size: 126 Copynumber: 2.6 Consensus size: 130
1018699 AAAATTTCGG
* * *
1018709 TTAATTCAGTACGGTTAATAATTTTCAAATAAATTTTGTTTCGATTAACCGAACCGAATTAACCG
1 TTAATTCAGTTCAGTTAATAATTTTCAAATAAATTTTGTTTCGATTAACCGAACCGAATTAACAG
*
1018774 AATTTTTGCTTC-AA-TTAATA-ATTCAAAAAATCGATTAATTCGGTTAT-GTTAATAA-TTT-A
66 AATTTTTGCTTCTAAGTTAATATATTAAAAAAAT-GATTAATTCGGTT-TGGTTAATAATTTTCA
1018833 AA
129 AA
* * * *
1018835 TTAATTCTGTTCAATTAATAATTTTCAAATAAATTTTGGTTCGATTAACCGAACCGAATTAATAG
1 TTAATTCAGTTCAGTTAATAATTTTCAAATAAATTTTGTTTCGATTAACCGAACCGAATTAACAG
*
1018900 AATTTTTGCTTCGATTAATTCGGTTAATATTTTTTAAAAAAATGATTAATTCGGTTTGGTTAATA
66 AATTTTTGCTTC---TAA----GTTAATA--TATTAAAAAAATGATTAATTCGGTTTGGTTAATA
1018965 ATTTTCAAA
122 ATTTTCAAA
* * * * *
1018974 TTAATTTAGTTCTGTTAATAAATTTCAAATAAATTTTGGTTT-GATTAACCGAACCAAATTAACT
1 TTAATTCAGTTCAGTTAATAATTTTCAAATAAATTTT-GTTTCGATTAACCGAACCGAATTAACA
*
1019038 GAACTTTTGCTT
65 GAATTTTTGCTT
1019050 TGATTAATTC
Statistics
Matches: 180, Mismatches: 19, Indels: 19
0.83 0.09 0.09
Matches are distributed among these distances:
126 70 0.39
130 2 0.01
135 6 0.03
136 1 0.01
137 21 0.12
138 12 0.07
139 65 0.36
140 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (130 bp):
TTAATTCAGTTCAGTTAATAATTTTCAAATAAATTTTGTTTCGATTAACCGAACCGAATTAACAG
AATTTTTGCTTCTAAGTTAATATATTAAAAAAATGATTAATTCGGTTTGGTTAATAATTTTCAAA
Found at i:1019004 original size:139 final size:138
Alignment explanation
Indices: 1018798--1019079 Score: 410
Period size: 139 Copynumber: 2.0 Consensus size: 138
1018788 TTAATAATTC
*
1018798 AAAAAATCGATTAATTCGGTTATGTTAATAATTTAAATTAATTCTGTTCAATTAATAATTTTCAA
1 AAAAAATCGATTAATTCGGTTATGTTAATAATTTAAATTAATTCTGTTCAATTAATAAATTTCAA
* *
1018863 ATAAATTTTGGTTCGATTAACCGAACCGAATTAA-TAGAATTTTTGCTTCGATTAATTCGGTTAA
66 ATAAATTTTGGTTCGATTAACCGAACCAAATTAACT-GAACTTTTGCTTCGATTAATTCGGTTAA
* *
1018927 TATTTTTTA
130 TAATTTTCA
**
1018936 AAAAAAT-GATTAATTCGGTT-TGGTTAATAATTTTCAAATTAATT-TAGTTCTGTTAATAAATT
1 AAAAAATCGATTAATTCGGTTAT-GTTAATAA-TTT-AAATTAATTCT-GTTCAATTAATAAATT
* *
1018998 TCAAATAAATTTTGGTTTGATTAACCGAACCAAATTAACTGAACTTTTGCTTTGATTAATTCGGT
62 TCAAATAAATTTTGGTTCGATTAACCGAACCAAATTAACTGAACTTTTGCTTCGATTAATTCGGT
1019063 TAATAATTTTCA
127 TAATAATTTTCA
1019075 AAAAA
1 AAAAA
1019080 TGTTTCAGTT
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
136 1 0.01
137 21 0.16
138 11 0.08
139 96 0.74
140 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (138 bp):
AAAAAATCGATTAATTCGGTTATGTTAATAATTTAAATTAATTCTGTTCAATTAATAAATTTCAA
ATAAATTTTGGTTCGATTAACCGAACCAAATTAACTGAACTTTTGCTTCGATTAATTCGGTTAAT
AATTTTCA
Found at i:1021466 original size:22 final size:22
Alignment explanation
Indices: 1021440--1021485 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1021430 TAAAATGGAC
1021440 ATAAATTTTCATTTTTCCTTTT
1 ATAAATTTTCATTTTTCCTTTT
*
1021462 ATAAATTTTCCTTTTTCCTTTT
1 ATAAATTTTCATTTTTCCTTTT
1021484 AT
1 AT
1021486 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (22 bp):
ATAAATTTTCATTTTTCCTTTT
Found at i:1027388 original size:33 final size:33
Alignment explanation
Indices: 1027342--1027432 Score: 128
Period size: 33 Copynumber: 2.8 Consensus size: 33
1027332 TCAAGATTGG
* * *
1027342 CTTAAACCTGCGAAGGGGAGCCATCTTACTTGA
1 CTTAAACCAGCGAAGGGGAGTCATCTAACTTGA
* **
1027375 CTTAAACCCGCGAAGTAGAGTCATCTAACTTGA
1 CTTAAACCAGCGAAGGGGAGTCATCTAACTTGA
1027408 CTTAAACCAGCGAAGGGGAGTCATC
1 CTTAAACCAGCGAAGGGGAGTCATC
1027433 CAAAGAATCA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (33 bp):
CTTAAACCAGCGAAGGGGAGTCATCTAACTTGA
Found at i:1027503 original size:75 final size:75
Alignment explanation
Indices: 1027375--1027520 Score: 197
Period size: 75 Copynumber: 1.9 Consensus size: 75
1027365 TCTTACTTGA
* * * *
1027375 CTTAAACCCGCGAAGTAGAGTCATCTAACTTGACTTAAACCAGCGAAGGGGAGTCATCCAAAGAA
1 CTTAAACCCGCGAAGTAGAGTCATCTAACTTGACTCAAACCACCGAAGAGGAGTCATCCAAAAAA
*
1027440 TCAAGAGTGG
66 TAAAGAGTGG
* *
1027450 CTTAAA-CCGCGAAAAGT-GAGTCATCTCACTTGACTCAAACCCCCGAAGAGGAGTCATCCAAAA
1 CTTAAACCCGCG--AAGTAGAGTCATCTAACTTGACTCAAACCACCGAAGAGGAGTCATCCAAAA
1027513 AATAAAGA
64 AATAAAGA
1027521 CCGACCTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
74 5 0.08
75 53 0.85
76 4 0.06
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (75 bp):
CTTAAACCCGCGAAGTAGAGTCATCTAACTTGACTCAAACCACCGAAGAGGAGTCATCCAAAAAA
TAAAGAGTGG
Found at i:1029514 original size:2 final size:2
Alignment explanation
Indices: 1029509--1029614 Score: 110
Period size: 2 Copynumber: 54.0 Consensus size: 2
1029499 AATATTAGAT
1029509 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* ** * * * * *
1029551 TA TA TA TA -A T- TG GG TG TA AA TA CTA AA TT TT TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
1029591 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
1029615 ATTGGGTGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
1 3 0.03
2 86 0.95
3 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1029591 original size:56 final size:56
Alignment explanation
Indices: 1029528--1029633 Score: 203
Period size: 56 Copynumber: 1.9 Consensus size: 56
1029518 ATATATATAT
1029528 ATATATATATATATATATATATATATATATAATTGGGTGTAAATACTAAATTTTTA
1 ATATATATATATATATATATATATATATATAATTGGGTGTAAATACTAAATTTTTA
*
1029584 ATATATATATATATATATATATATATATATAATTGGGTGTAAATATTAAA
1 ATATATATATATATATATATATATATATATAATTGGGTGTAAATACTAAA
1029634 ACTTTAAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (56 bp):
ATATATATATATATATATATATATATATATAATTGGGTGTAAATACTAAATTTTTA
Found at i:1029919 original size:12 final size:11
Alignment explanation
Indices: 1029884--1029916 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
1029874 TCTTTTATTC
1029884 ATTTAATTTTT
1 ATTTAATTTTT
1029895 ATTTAATTTTT
1 ATTTAATTTTT
1029906 ATTTAATTTTT
1 ATTTAATTTTT
1029917 TATCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTAATTTTT
Found at i:1029925 original size:11 final size:11
Alignment explanation
Indices: 1029884--1029926 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1029874 TCTTTTATTC
*
1029884 ATTTAATTTTT
1 ATTTATTTTTT
*
1029895 ATTTAATTTTT
1 ATTTATTTTTT
1029906 ATTTAATTTTTT
1 ATTT-ATTTTTT
*
1029918 ATCTATTTT
1 ATTTATTTT
1029927 ATTCTAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTATTTTTT
Found at i:1029925 original size:22 final size:22
Alignment explanation
Indices: 1029884--1029926 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1029874 TCTTTTATTC
*
1029884 ATTTAATTTTTATTTAATTTTT
1 ATTTAATTTTTATCTAATTTTT
1029906 ATTTAATTTTTTATCT-ATTTT
1 ATTTAA-TTTTTATCTAATTTT
1029927 ATTCTAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
ATTTAATTTTTATCTAATTTTT
Found at i:1033443 original size:19 final size:19
Alignment explanation
Indices: 1033419--1033477 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
1033409 AAATACTAAG
1033419 ATAATTTTATTTTATTAAA
1 ATAATTTTATTTTATTAAA
** *
1033438 ATAATTATTA-TAAATTATA
1 ATAATT-TTATTTTATTAAA
*
1033457 ATAA-TTT-TTTTACTAAA
1 ATAATTTTATTTTATTAAA
1033474 ATAA
1 ATAA
1033478 GAATAGTATA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
17 11 0.35
18 1 0.03
19 16 0.52
20 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATTTTATTTTATTAAA
Found at i:1036132 original size:2 final size:2
Alignment explanation
Indices: 1036125--1036150 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1036115 CTGCTCTGAG
1036125 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
1036151 ATGCTCCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1041874 original size:13 final size:13
Alignment explanation
Indices: 1041852--1041881 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1041842 ACTAAACATC
1041852 TTTC-ACATACCT
1 TTTCAACATACCT
1041864 TTTCAACATACCT
1 TTTCAACATACCT
1041877 TTTCA
1 TTTCA
1041882 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:1050358 original size:15 final size:15
Alignment explanation
Indices: 1050334--1050371 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1050324 AAAGATTTTT
1050334 AAAATAATTTATTAC
1 AAAATAATTTATTAC
*
1050349 AAACTAATTTATTAC
1 AAAATAATTTATTAC
1050364 AAAATAAT
1 AAAATAAT
1050372 GATAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATAATTTATTAC
Found at i:1051451 original size:25 final size:24
Alignment explanation
Indices: 1051408--1051456 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1051398 AAAATAAGGA
* *
1051408 TAAAAAATAAATTTAAAAATTTAC
1 TAAAAAATAAATTAAAAAAATTAC
1051432 TAAAAAATAAAGTTAAAAAAATTAC
1 TAAAAAATAAA-TTAAAAAAATTAC
1051457 CTTACAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAAAAATAAATTAAAAAAATTAC
Found at i:1055841 original size:24 final size:23
Alignment explanation
Indices: 1055814--1055870 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
1055804 GGTTAGTTTA
1055814 GGTTAGGGTTCTGGGTCGGG-TCTT
1 GGTT-GGGTTCTGGGTCGGGTTC-T
*
1055838 GGTTTGGGCTCTGGGTCGGGTTCT
1 GG-TTGGGTTCTGGGTCGGGTTCT
1055862 GGTTGGGTT
1 GGTTGGGTT
1055871 TTGTTTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 6 0.21
24 19 0.66
25 4 0.14
ACGTcount: A:0.02, C:0.12, G:0.47, T:0.39
Consensus pattern (23 bp):
GGTTGGGTTCTGGGTCGGGTTCT
Found at i:1055978 original size:23 final size:23
Alignment explanation
Indices: 1055950--1055993 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1055940 TGGTTTGTAA
* *
1055950 ATAATAATATTTATAATATAAAT
1 ATAATAATAATAATAATATAAAT
1055973 ATAATAATAATAATAATATAA
1 ATAATAATAATAATAATATAA
1055994 GGGTAGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATAATAATAATAATATAAAT
Found at i:1056696 original size:42 final size:41
Alignment explanation
Indices: 1056597--1056699 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 41
1056587 GCCCGAAGGT
* * * * *
1056597 CTTATGGATGGCCCGAATGATTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGATTTAGCACCATGCTCGAAAGA
** *
1056638 CTTATAGATGATCCGAAGGATTTAAGCACCATGCTTGAAAGA
1 CTTATAGATGGCCCGAAGGATTT-AGCACCATGCTCGAAAGA
1056680 CTTACT-GATGGCCCGAAGGA
1 CTTA-TAGATGGCCCGAAGGA
1056700 CTTACTAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 19 0.38
42 30 0.60
43 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGATTTAGCACCATGCTCGAAAGA
Found at i:1056880 original size:241 final size:240
Alignment explanation
Indices: 1056453--1057189 Score: 1028
Period size: 241 Copynumber: 3.0 Consensus size: 240
1056443 CCGATTGCCT
* * *
1056453 GAAGGACTTACTAAGTAAGAAACTTTGGACATCATTATCTTACTTTTCAGAAAAAATCAGTTTTC
1 GAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAG-AAAAATCAGTTTTC
* * *
1056518 AGAAAAGAATTAAATGAGAAACTTTGGAAATCGCTTTCTC-TTTTTTTGAAAATCATATGAAAAT
65 AGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAAA
* * **
1056582 ATCATGCCCGAAGGTCTTATGGATGGCCCGAATGATTTATCATCTTGCTCGAAAGACTTATAGAT
130 ATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGACTTATAGAT
* *
1056647 GATCCGAAGGATTTAAGCACCATGCTTGAAAGACTTACTGATGGCCC
195 GA-CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCC
* * *
1056694 GAAGGACTTACTAAGTAAGAAAATTTAGAAATCGTTTTATTACTTTTCAGAAAAATCAGTTTTCA
1 GAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAGAAAAATCAGTTTTCA
* * *
1056759 GAAAAGATTTAAATGAAAAACGTTGGAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACA
66 GAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAAAA
* * *
1056824 TCATGTCCGAAGGTCTTATGGATGGCCCGAAGGACTAATCATCTTGCTTAAAAGACTCATAGATG
131 TCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGACTTATAGATG
*
1056889 ACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCC
196 A-CCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCC
* * * *
1056935 GAAAGACTTACTAAGTAA-AATACTTTGGAAATCGTTTTCTTGCTTTTAAAAAAAAAATCAGTTT
1 GAAGGACTTACTAAGTAAGAA-ACTTTGGAAATCGTTTTCTTACTTTT--CAGAAAAATCAGTTT
** * ***
1056999 TCAGAAAAGATTTAAATGAGAAACTTTAAAAATCGCTTTCTTATTTTTCAAAAAATCATGTGAAA
63 TCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAA
* * * *
1057064 AAATCCTGCCCGAAGGTCTTATGGATGGCCAGAAGGACTTATAATCTTGCTTAAAAGTCTTATAG
128 AAATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGACTTATAG
* * * *
1057129 ATGACTCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGACCT
193 ATGAC-CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCC
*
1057178 GAAGGACATACT
1 GAAGGACTTACT
1057190 CATCAAGAAA
Statistics
Matches: 439, Mismatches: 52, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
240 53 0.12
241 206 0.47
242 1 0.00
243 179 0.41
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (240 bp):
GAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAGAAAAATCAGTTTTCA
GAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAAAA
TCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGACTTATAGATG
ACCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCC
Found at i:1057403 original size:57 final size:57
Alignment explanation
Indices: 1057189--1057403 Score: 195
Period size: 57 Copynumber: 3.8 Consensus size: 57
1057179 AAGGACATAC
* * ** * * *
1057189 TCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAAACTTTCGTT-TATAGCTA
1 TCATCAAGAAACCCCTAAAAATCAAGCTTAGTTTCTTAAAAAAATTCATTGGA-A-ATA
* * * *
1057247 TCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAAATT-ATTGGAAATTA
1 TCATCAAGAAACCCCTAAAAATCAAGCTTAGTTTCTTAAAAAAATTCATTGGAAA-TA
* * * * *
1057304 TCATAAAGAAACCCCTGAAAATCAGGCTTAGTTTATT-TAAAAATTCATTGGAAATAA
1 TCATCAAGAAACCCCTAAAAATCAAGCTTAGTTTCTTAAAAAAATTCATTGGAAAT-A
* * *
1057361 TCATTAAGAAACCCTTAAAAATCAAGCTTAATTTC-TAAAAAAA
1 TCATCAAGAAACCCCTAAAAATCAAGCTTAGTTTCTTAAAAAAA
1057404 CGCGTTAGCC
Statistics
Matches: 128, Mismatches: 24, Indels: 11
0.79 0.15 0.07
Matches are distributed among these distances:
56 9 0.07
57 80 0.62
58 39 0.30
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (57 bp):
TCATCAAGAAACCCCTAAAAATCAAGCTTAGTTTCTTAAAAAAATTCATTGGAAATA
Found at i:1064423 original size:20 final size:20
Alignment explanation
Indices: 1064394--1064432 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1064384 ATAGCTCATA
*
1064394 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
1064414 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
1064433 GTGTTGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:1066638 original size:24 final size:23
Alignment explanation
Indices: 1066607--1066656 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
1066597 TGAAACAAGT
*
1066607 AAATAAAATATAAACATAAATATA
1 AAATAAAAGATAAAC-TAAATATA
* *
1066631 AAATAAAAGGTAAACTAATTATA
1 AAATAAAAGATAAACTAAATATA
1066654 AAA
1 AAA
1066657 GAAACACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (23 bp):
AAATAAAAGATAAACTAAATATA
Found at i:1067705 original size:12 final size:12
Alignment explanation
Indices: 1067688--1067755 Score: 63
Period size: 12 Copynumber: 6.0 Consensus size: 12
1067678 AAATACGATA
1067688 TGAACAGTACCG
1 TGAACAGTACCG
* *
1067700 TGAACATTA--A
1 TGAACAGTACCG
* *
1067710 TGAACAGTGCCA
1 TGAACAGTACCG
1067722 TGAACAGTA--G
1 TGAACAGTACCG
*
1067732 TGAACAATACCG
1 TGAACAGTACCG
1067744 TGAACAGTACCG
1 TGAACAGTACCG
1067756 AATGTTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
10 15 0.34
12 29 0.66
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:1067715 original size:22 final size:22
Alignment explanation
Indices: 1067687--1067752 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
1067677 AAAATACGAT
*
1067687 ATGAACAGTACCGTGAACATTA
1 ATGAACAGTACCGTGAACAGTA
* *
1067709 ATGAACAGTGCCATGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
* *
1067731 GTGAACAATACCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
1067753 CCGAATGTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAGTA
Found at i:1067806 original size:22 final size:22
Alignment explanation
Indices: 1067776--1067826 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
1067766 TTTTCCATAT
* * *
1067776 TGCTTCAGGGGTATCTATACCC
1 TGCTACAGGGGTACCGATACCC
1067798 TGCTACA-GGGTACCGATACCC
1 TGCTACAGGGGTACCGATACCC
1067819 TGCTACAG
1 TGCTACAG
1067827 TACTGCTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (22 bp):
TGCTACAGGGGTACCGATACCC
Found at i:1068605 original size:31 final size:31
Alignment explanation
Indices: 1068532--1068625 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 31
1068522 GAACCTTGAC
* *
1068532 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
1068563 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
1068594 AACTGTCCATATGTCTC-AAAAGACATAGGTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGTA
1068625 A
1 A
1068626 CCCTCGACTC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 2 0.04
31 51 0.96
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:1071078 original size:23 final size:23
Alignment explanation
Indices: 1071052--1071097 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1071042 TTGGGCTCTG
1071052 GGTTGACTTCTGGTTGGGTTTTA
1 GGTTGACTTCTGGTTGGGTTTTA
** *
1071075 GGTTGGGTTCTGTTTGGGTTTTA
1 GGTTGACTTCTGGTTGGGTTTTA
1071098 TTTTGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.07, C:0.07, G:0.37, T:0.50
Consensus pattern (23 bp):
GGTTGACTTCTGGTTGGGTTTTA
Found at i:1072267 original size:20 final size:19
Alignment explanation
Indices: 1072205--1072271 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 19
1072195 AAAATGGTTC
1072205 ATCCCTTGCTCAAAAGGATCG
1 ATCCCTT-CTC-AAAGGATCG
* *
1072226 ATCCCTTCAGGCAAATGATCG
1 ATCCCTTC--TCAAAGGATCG
1072247 ATCCCTTCTCTAAAGGATCG
1 ATCCCTTCTC-AAAGGATCG
1072267 ATCCC
1 ATCCC
1072272 AAACTCACTG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 14 0.36
21 23 0.59
22 1 0.03
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (19 bp):
ATCCCTTCTCAAAGGATCG
Found at i:1080050 original size:15 final size:15
Alignment explanation
Indices: 1080027--1080064 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1080017 CAAGGGTTCG
*
1080027 AGCACTAGCGGCTGT
1 AGCAATAGCGGCTGT
1080042 AGCAATAGCGGCTGT
1 AGCAATAGCGGCTGT
1080057 AGCAATAG
1 AGCAATAG
1080065 GGATGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.18
Consensus pattern (15 bp):
AGCAATAGCGGCTGT
Found at i:1082030 original size:15 final size:15
Alignment explanation
Indices: 1082005--1082041 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1081995 AATGAATCAT
*
1082005 AAAAGAAAGAAAGGG
1 AAAAGAGAGAAAGGG
*
1082020 AGAAGAGAGAAAGGG
1 AAAAGAGAGAAAGGG
1082035 AAAAGAG
1 AAAAGAG
1082042 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AAAAGAGAGAAAGGG
Found at i:1084824 original size:17 final size:15
Alignment explanation
Indices: 1084802--1084841 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
1084792 GTTGCAAATG
1084802 TTAAATATTATTAAAA
1 TTAAATATTA-TAAAA
*
1084818 CTTAAATATTATAATA
1 -TTAAATATTATAAAA
1084834 TTAAATAT
1 TTAAATAT
1084842 GCATATCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 10 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATTATAAAA
Found at i:1084913 original size:22 final size:23
Alignment explanation
Indices: 1084866--1084914 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1084856 GAAATGTAAA
*
1084866 AAATATAAATTTGACATATTTAT
1 AAATATAAATTTGACATAGTTAT
1084889 AAATATAAATTTGAC-TAGTTAT
1 AAATATAAATTTGACATAGTTAT
1084911 AAAT
1 AAAT
1084915 TCAATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (23 bp):
AAATATAAATTTGACATAGTTAT
Found at i:1085063 original size:14 final size:14
Alignment explanation
Indices: 1084985--1085063 Score: 51
Period size: 14 Copynumber: 5.9 Consensus size: 14
1084975 TAGTAATCAT
1084985 TATTAAATCATTAG
1 TATTAAATCATTAG
* *
1084999 TATCAAATCATTAT
1 TATTAAATCATTAG
* *
1085013 TA-TAATTTCATTTG
1 TATTAA-ATCATTAG
*
1085027 TACT-AATCA-T--
1 TATTAAATCATTAG
* *
1085037 TACTAAATTATTAG
1 TATTAAATCATTAG
1085051 TATTAAATCATTA
1 TATTAAATCATTA
1085064 AATATTAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
10 4 0.08
11 4 0.08
12 2 0.04
13 5 0.10
14 33 0.67
15 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.46
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:1085070 original size:21 final size:22
Alignment explanation
Indices: 1085040--1085084 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1085030 TAATCATTAC
* *
1085040 TAAATTATTAGTATTAAATCAT
1 TAAATTATTAATAATAAATCAT
1085062 TAAA-TATTAATAATAAATCAT
1 TAAATTATTAATAATAAATCAT
1085083 TA
1 TA
1085085 TTAATAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATTATTAATAATAAATCAT
Found at i:1085342 original size:13 final size:13
Alignment explanation
Indices: 1085324--1085381 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
1085314 TTATTCCATA
1085324 ATTATTAATAATC
1 ATTATTAATAATC
1085337 ATTATT-A-AATC
1 ATTATTAATAATC
1085348 ATTATT-ATAATTGC
1 ATTATTAATAA-T-C
*
1085362 ATTATTACTAATC
1 ATTATTAATAATC
1085375 ATTATTA
1 ATTATTA
1085382 TCAAATCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
11 11 0.28
12 3 0.08
13 15 0.38
14 8 0.20
15 3 0.08
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (13 bp):
ATTATTAATAATC
Found at i:1085354 original size:27 final size:27
Alignment explanation
Indices: 1085324--1085382 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
1085314 TTATTCCATA
*
1085324 ATTATTAATAA-T-CATTATTA-AATC
1 ATTATTATTAATTGCATTATTACAATC
1085348 ATTATTA-TAATTGCATTATTACTAATC
1 ATTATTATTAATTGCATTATTAC-AATC
1085375 ATTATTAT
1 ATTATTAT
1085383 CAAATCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.10
24 8 0.27
25 8 0.27
27 11 0.37
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (27 bp):
ATTATTATTAATTGCATTATTACAATC
Found at i:1085382 original size:41 final size:41
Alignment explanation
Indices: 1085309--1085392 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
1085299 TGAAATTAAA
* * *
1085309 TATTATTATTCCATAATTATTAATAATCATTATTAAATCAT
1 TATTATAATTCCATAATTACTAATAATCATTATCAAATCAT
* * * *
1085350 TATTATAATTGCATTATTACTAATCATTATTATCAAATCAT
1 TATTATAATTCCATAATTACTAATAATCATTATCAAATCAT
1085391 TA
1 TA
1085393 AATATTAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.01, T:0.48
Consensus pattern (41 bp):
TATTATAATTCCATAATTACTAATAATCATTATCAAATCAT
Found at i:1085390 original size:14 final size:14
Alignment explanation
Indices: 1085337--1085392 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
1085327 ATTAATAATC
*
1085337 ATTATTAAATCATT
1 ATTATCAAATCATT
*
1085351 ATTAT-AATTGCATT
1 ATTATCAAAT-CATT
*
1085365 ATTA-CTAATCATT
1 ATTATCAAATCATT
1085378 ATTATCAAATCATT
1 ATTATCAAATCATT
1085392 A
1 A
1085393 AATATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 11 0.31
14 24 0.69
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (14 bp):
ATTATCAAATCATT
Found at i:1085430 original size:35 final size:36
Alignment explanation
Indices: 1085371--1085449 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
1085361 CATTATTACT
*
1085371 AATCATTATTATCAAATCATTAAAT-ATTAATAAT-A
1 AATCATTATTATCAAATCAGTAAATCATTAAT-ATCA
* *
1085406 AATCATTATTA-CTAATCTAGTAAATCATTACTATCA
1 AATCATTATTATCAAATC-AGTAAATCATTAATATCA
1085442 AATCATTA
1 AATCATTA
1085450 AATATTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 5 0.13
35 19 0.50
36 14 0.37
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (36 bp):
AATCATTATTATCAAATCAGTAAATCATTAATATCA
Found at i:1085446 original size:57 final size:58
Alignment explanation
Indices: 1085367--1085509 Score: 218
Period size: 57 Copynumber: 2.5 Consensus size: 58
1085357 ATTGCATTAT
*
1085367 TACT-AATCATTATTATCAAATCATTAAATATTAATAATAAATCATTATTACTAATC-
1 TACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATCATTATTACTAATCA
* * *
1085423 TAGTAAATCATTACTATCAAATCATTAAATATTAATAATAAATCATTTTTAGTAATCA
1 TACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATCATTATTACTAATCA
*
1085481 TTACTAAATCATTAGTATCAAATCATTAA
1 -TACTAAATCATTACTATCAAATCATTAA
1085510 TAAATTCGAC
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
56 3 0.04
57 49 0.63
59 26 0.33
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (58 bp):
TACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATCATTATTACTAATCA
Found at i:1085451 original size:22 final size:22
Alignment explanation
Indices: 1085404--1085469 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
1085394 ATATTAATAA
* * *
1085404 TAAATCATTATTA-CTAATCTAG
1 TAAATCATTAATATCAAATC-AT
*
1085426 TAAATCATTACTATCAAATCAT
1 TAAATCATTAATATCAAATCAT
1085448 TAAAT-ATTAATAAT-AAATCAT
1 TAAATCATTAAT-ATCAAATCAT
1085469 T
1 T
1085470 TTTAGTAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 13 0.34
22 20 0.53
23 5 0.13
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:1085627 original size:12 final size:12
Alignment explanation
Indices: 1085610--1085646 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1085600 ACTACGGTTA
1085610 GAAAGCTAAGTT
1 GAAAGCTAAGTT
1085622 GAAAGCTAAGTT
1 GAAAGCTAAGTT
**
1085634 GACTGCTAAGTT
1 GAAAGCTAAGTT
1085646 G
1 G
1085647 TTTTTGTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (12 bp):
GAAAGCTAAGTT
Found at i:1088691 original size:13 final size:14
Alignment explanation
Indices: 1088663--1088709 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
1088653 CTAATATTAC
*
1088663 TAATAATGATTTAA
1 TAATAATTATTTAA
*
1088677 TAATTATTA-TTAA
1 TAATAATTATTTAA
1088690 T-ATAATTATTTAA
1 TAATAATTATTTAA
1088703 TAATAAT
1 TAATAAT
1088710 ATGATTTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 6 0.21
13 10 0.36
14 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TAATAATTATTTAA
Found at i:1088855 original size:21 final size:20
Alignment explanation
Indices: 1088834--1088891 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
1088824 TTATTTTTTA
1088834 AAATATCAAACAAATTTGTT
1 AAATATCAAACAAATTTGTT
* *
1088854 AATTAATCAATCAAATTTGTT
1 AAAT-ATCAAACAAATTTGTT
*
1088875 AAATATCAAATAAATTT
1 AAATATCAAACAAATTT
1088892 TAAGATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATATCAAACAAATTTGTT
Found at i:1088970 original size:16 final size:16
Alignment explanation
Indices: 1088951--1089008 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
1088941 CTAATATAAA
1088951 TTAAACAAAATATTTT
1 TTAAACAAAATATTTT
1088967 TTAAACAACAATAAATATTT
1 TTAAACAA-AAT--AT-TTT
*
1088987 TTAAACACAATATTTT
1 TTAAACAAAATATTTT
1089003 TTAAAC
1 TTAAAC
1089009 GGAAATAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 17 0.46
17 5 0.14
19 5 0.14
20 10 0.27
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAACAAAATATTTT
Found at i:1088989 original size:20 final size:20
Alignment explanation
Indices: 1088958--1088998 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1088948 AAATTAAACA
1088958 AAATATTTTTTAAACAACAAT
1 AAATATTTTTTAAAC-ACAAT
1088979 AAATA-TTTTTAAACACAAT
1 AAATATTTTTTAAACACAAT
1088998 A
1 A
1088999 TTTTTTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATTTTTTAAACACAAT
Found at i:1089538 original size:21 final size:21
Alignment explanation
Indices: 1089514--1089557 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1089504 AATATAATAT
1089514 ATAATTTAAACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
1089535 ATAATTTAAACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
1089556 AT
1 AT
1089558 TAACTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATTTAAACTAACAAACTA
Found at i:1089565 original size:21 final size:21
Alignment explanation
Indices: 1089514--1089565 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1089504 AATATAATAT
*
1089514 ATAATTTAAACTAACAAACTA
1 ATAATCTAAACTAACAAACTA
*
1089535 ATAATTTAAACTAACAAACTA
1 ATAATCTAAACTAACAAACTA
1089556 ATTAA-CTAAA
1 A-TAATCTAAA
1089566 TTTTAGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAATCTAAACTAACAAACTA
Found at i:1090745 original size:21 final size:22
Alignment explanation
Indices: 1090721--1090762 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1090711 ATTGGTATCA
*
1090721 AAATTATGGAAATA-AATAAAT
1 AAATTATGAAAATATAATAAAT
1090742 AAATTATGAAAATATAATAAA
1 AAATTATGAAAATATAATAAA
1090763 ATAAGTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATTATGAAAATATAATAAAT
Found at i:1091463 original size:2 final size:2
Alignment explanation
Indices: 1091448--1091652 Score: 54
Period size: 2 Copynumber: 102.5 Consensus size: 2
1091438 TTTCTTTTTT
*
1091448 TA TA CTA TA T- TA TA TA TA TA -A TA TA TA TA GTT TA TA TA CTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* * * * * *
1091489 TG CA GTT TA TA TA TA GTA TA TA AA TA TA AA CTA TA TA CTA TG TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * * *
1091533 GTT TA TA TA TA -A TT TA TG T- TA T- TA TT TA TA -A TT TA TA -A
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1091571 TT TA TA -A TA TA TA TA GA T- TA TA TA TT TA TA TA GTT TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
1091612 TA CTA TA TA AA TA TA AA CTA TA TA T- TT TA TA TA T- TA TA TA T
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T
1091653 TTTATAAATA
Statistics
Matches: 143, Mismatches: 38, Indels: 44
0.64 0.17 0.20
Matches are distributed among these distances:
1 11 0.08
2 117 0.82
3 15 0.10
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1091516 original size:40 final size:38
Alignment explanation
Indices: 1091457--1091543 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 38
1091447 TTATACTATA
* ***
1091457 TTATATATATAATATATATAGTTTATATACTATGCAGT
1 TTATATATATAATAAATATAAACTATATACTATGCAGT
*
1091495 TTATATATAGTATATAAATATAAACTATATACTATGTAGT
1 TTATATATA-TA-ATAAATATAAACTATATACTATGCAGT
1091535 TTATATATA
1 TTATATATA
1091544 ATTTATGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 9 0.21
39 2 0.05
40 31 0.74
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (38 bp):
TTATATATATAATAAATATAAACTATATACTATGCAGT
Found at i:1091642 original size:9 final size:9
Alignment explanation
Indices: 1091630--1091676 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
1091620 AAATATAAAC
1091630 TATATATTT
1 TATATATTT
1091639 TATATA--T
1 TATATATTT
1091646 TATATATTT
1 TATATATTT
* *
1091655 TATAAATAT
1 TATATATTT
1091664 TATATTATTT
1 TATA-TATTT
1091674 TAT
1 TAT
1091677 GGTTTACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
7 7 0.23
9 18 0.58
10 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TATATATTT
Found at i:1094716 original size:24 final size:24
Alignment explanation
Indices: 1094672--1094728 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1094662 CAAATGAACG
* * *
1094672 AACATAAACAAAGGGATGTAAACA
1 AACATAAACAAACGAACGTAAACA
**
1094696 AACATAAACAAACGAACGTAAATG
1 AACATAAACAAACGAACGTAAACA
1094720 AACATAAAC
1 AACATAAAC
1094729 CAAAACAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.16, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAAACAAACGAACGTAAACA
Found at i:1095290 original size:43 final size:43
Alignment explanation
Indices: 1095243--1095381 Score: 242
Period size: 43 Copynumber: 3.2 Consensus size: 43
1095233 TTCATTTTAT
*
1095243 TAAACGAACACAAAATCTTGTTCATGTTTGTTCGTTTAACAAA
1 TAAACGAACACAAAATCTTGTTCGTGTTTGTTCGTTTAACAAA
1095286 TAAACGAACACAAAATCTTGTTCGTGTTTGTTCGTTTAACAAA
1 TAAACGAACACAAAATCTTGTTCGTGTTTGTTCGTTTAACAAA
* *
1095329 TAAACGAACACAAAATCTCGTTCGTGTTTGTTCGTTTAATAAA
1 TAAACGAACACAAAATCTTGTTCGTGTTTGTTCGTTTAACAAA
*
1095372 TAAATGAACA
1 TAAACGAACA
1095382 TAAACAAACT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (43 bp):
TAAACGAACACAAAATCTTGTTCGTGTTTGTTCGTTTAACAAA
Found at i:1096326 original size:18 final size:18
Alignment explanation
Indices: 1096303--1096340 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1096293 ACCCTGAAAA
1096303 TTTAAAATTATTATATAT
1 TTTAAAATTATTATATAT
* *
1096321 TTTAAATTTTTTATATAT
1 TTTAAAATTATTATATAT
1096339 TT
1 TT
1096341 CTATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAAAATTATTATATAT
Found at i:1100569 original size:29 final size:29
Alignment explanation
Indices: 1100510--1100566 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
1100500 GGGGCCTCTT
1100510 TGCTCTAAAATGAAATATTAGGGACCAAA
1 TGCTCTAAAATGAAATATTAGGGACCAAA
* *
1100539 TGCTCTATAA-GAAATGTTAGGGACCAAA
1 TGCTCTAAAATGAAATATTAGGGACCAAA
1100567 ATGATTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (29 bp):
TGCTCTAAAATGAAATATTAGGGACCAAA
Found at i:1111795 original size:20 final size:20
Alignment explanation
Indices: 1111772--1111809 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1111762 TTCTATATTC
1111772 TTTCACAC-TCTTCCATAAGG
1 TTTCACACATC-TCCATAAGG
1111792 TTTCACACATCTCCATAA
1 TTTCACACATCTCCATAA
1111810 TTTTCTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (20 bp):
TTTCACACATCTCCATAAGG
Found at i:1125445 original size:13 final size:13
Alignment explanation
Indices: 1125427--1125457 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1125417 TCGATTAGTG
1125427 GTGGCAGGTCAGT
1 GTGGCAGGTCAGT
*
1125440 GTGGCAGGTCATT
1 GTGGCAGGTCAGT
1125453 GTGGC
1 GTGGC
1125458 GTGGAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.45, T:0.26
Consensus pattern (13 bp):
GTGGCAGGTCAGT
Found at i:1125878 original size:136 final size:136
Alignment explanation
Indices: 1125657--1126424 Score: 930
Period size: 136 Copynumber: 5.6 Consensus size: 136
1125647 CTTTCTACTA
* * * * *
1125657 GAAATATTGATCCCTCGAGTGAGGCGTTGCTGATTCGAAATGCCATGAATTGAGCAATAGGTCGA
1 GAAATGTTAATCCCTCAAGTGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
* * ** *
1125722 ACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCTGTCGGATGAGTTCTTCTTGTTATGAACTTT
66 ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
1125787 CCATTT
131 CCATTT
* ** *
1125793 GAAATGTTAATCCCTCAAGCGAGGC-TTCGCTGATTCGAAATGTTGTGAATCGAGCGATAGGTCG
1 GAAATGTTAATCCCTCAAGTGAGGCGTT-GCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCG
* * *
1125857 AACAAACTCTTCTCATTATGAACTTCTTGTCCCTCTGTCGGATGAGTTCTTCTAATTATGAACTC
65 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
* *
1125922 TCCAATG
130 TCCATTT
* * * *
1125929 GAAATATTAATCCCTCAAGAGAGGCGTTGCTGATTCGAAATGTCGTGAATCAAGCAATAGGTCGA
1 GAAATGTTAATCCCTCAAGTGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
* * * * *
1125994 ACAAGTTCTTCTCATTATGAACATCTTCTCTCTCTGTAGGATGAGTTCTTCTCATTATGAGCTCT
66 ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
*
1126059 CAATTT
131 CCATTT
* * * * * * * ** **
1126065 GAAATATTTAATCCCTCAAATGAGACATCGTTGATTCAAAATGCCGTGAATCGAGTGATAGGTTA
1 GAAAT-GTTAATCCCTCAAGTGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCG
1126130 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
65 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
1126195 TCCATTT
130 TCCATTT
* * * * * *
1126202 GAAGTGTTAATCCCTCAAGCGAGGAGTCGCTGATTAGAAATGCCGTGAATCGAGCGATAGGTCGA
1 GAAATGTTAATCCCTCAAGTGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
* * *
1126267 ACAAGCTCTTCTCAATATGAACTTCTTCT-CCTCTGTTGGATGAGCTCTTCTCATT-TGGAACTC
66 ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT-GAACTC
* *
1126330 TCTATTG
130 TCCATTT
* * ** * *** *
1126337 GCAATGTCAATCCCTTGAGTAAGGCGTTGCTGATTCGAAATGTTATGAATCGAGCAATAGGTCAA
1 GAAATGTTAATCCCTCAAGTGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
* *
1126402 ACAAGTTCTTCTCACTATGAACT
66 ACAAGCTCTTCTCATTATGAACT
1126425 CTCTATTGGA
Statistics
Matches: 539, Mismatches: 89, Indels: 9
0.85 0.14 0.01
Matches are distributed among these distances:
134 1 0.00
135 108 0.20
136 313 0.58
137 117 0.22
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (136 bp):
GAAATGTTAATCCCTCAAGTGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
CCATTT
Found at i:1126214 original size:273 final size:271
Alignment explanation
Indices: 1125657--1126424 Score: 926
Period size: 273 Copynumber: 2.8 Consensus size: 271
1125647 CTTTCTACTA
* * * * *
1125657 GAAATATTGATCCCTCGAGTGAGGCGTTGCTGATTCGAAATGCCATGAATTGAGCAATAGGTCGA
1 GAAATATTAATCCCTCAAGAGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
* * ** *
1125722 ACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCTGTCGGATGAGTTCTTCTTGTTATGAACTTT
66 ACAAGTTCTTCTCATTATGAACTTCTTCT-CCTCTGTAGGATGAGTTCTTCTCATTATGAACTCT
* * * * * **
1125787 CCATTTGAAATGTTAATCCCTCAAGCGAGGCTTCGCTGATTCGAAATGTTGTGAATCGAGCGATA
130 CAATTTGAAATGTTAATCCCTCAAACGAGACATCGCTGATTCAAAATGCCGTGAATCGAGCGATA
* *
1125852 GGTCGAACAAACTCTTCTCATTATGAACTTCTTGTCCCTCTGTCGGATGAGTTCTTCTAATTATG
195 GGTCAAACAAACTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTAATTATG
1125917 AACTCTCCAATG
260 AACTCTCCAATG
* *
1125929 GAAATATTAATCCCTCAAGAGAGGCGTTGCTGATTCGAAATGTCGTGAATCAAGCAATAGGTCGA
1 GAAATATTAATCCCTCAAGAGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
* *
1125994 ACAAGTTCTTCTCATTATGAACATCTTCTCTCTCTGTAGGATGAGTTCTTCTCATTATGAGCTCT
66 ACAAGTTCTTCTCATTATGAACTTCTTCTC-CTCTGTAGGATGAGTTCTTCTCATTATGAACTCT
* * * *
1126059 CAATTTGAAATATTTAATCCCTCAAATGAGACATCGTTGATTCAAAATGCCGTGAATCGAGTGAT
130 CAATTTGAAAT-GTTAATCCCTCAAACGAGACATCGCTGATTCAAAATGCCGTGAATCGAGCGAT
* * *
1126124 AGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
194 AGGTCAAACAAACTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTAATTAT
* *
1126189 GAACTCTCCATTT
259 GAACTCTCCAATG
* * * * * * *
1126202 GAAGTGTTAATCCCTCAAGCGAGGAGTCGCTGATTAGAAATGCCGTGAATCGAGCGATAGGTCGA
1 GAAATATTAATCCCTCAAGAGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
* * * *
1126267 ACAAGCTCTTCTCAATATGAACTTCTTCTCCTCTGTTGGATGAGCTCTTCTCATT-TGGAACTCT
66 ACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTGTAGGATGAGTTCTTCTCATTAT-GAACTCT
* * * * ** *** * * * * *** *
1126331 CTATTGGCAATGTCAATCCCTTGAGTAAGGCGTTGCTGATTCGAAATGTTATGAATCGAGCAATA
130 CAATTTGAAATGTTAATCCCTCAAACGAGACATCGCTGATTCAAAATGCCGTGAATCGAGCGATA
** *
1126396 GGTCAAACAAGTTCTTCTCACTATGAACT
195 GGTCAAACAAACTCTTCTCATTATGAACT
1126425 CTCTATTGGA
Statistics
Matches: 424, Mismatches: 69, Indels: 7
0.85 0.14 0.01
Matches are distributed among these distances:
271 66 0.16
272 161 0.38
273 197 0.46
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (271 bp):
GAAATATTAATCCCTCAAGAGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAATAGGTCGA
ACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTGTAGGATGAGTTCTTCTCATTATGAACTCTC
AATTTGAAATGTTAATCCCTCAAACGAGACATCGCTGATTCAAAATGCCGTGAATCGAGCGATAG
GTCAAACAAACTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTAATTATGA
ACTCTCCAATG
Found at i:1127016 original size:42 final size:41
Alignment explanation
Indices: 1126901--1127019 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
1126891 CATGTGAAAA
* * * * * *
1126901 CATCCTGCCCGAAAGTCTTATGGATGGCCCGAAGAATTTAT
1 CATCATGCTCGAAAGACTTATAGATGGCCCGAAGGATTTAG
* * * *
1126942 CATCTTGCTTGAAAGACTTATATATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTATAGATGGCCCGAAGGATTT-AG
*
1126984 CATCATGCTCGAAAGCCTTACT-GATGGCCCGAAGGA
1 CATCATGCTCGAAAGACTTA-TAGATGGCCCGAAGGA
1127020 CTTACTAAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 31 0.50
42 30 0.48
43 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (41 bp):
CATCATGCTCGAAAGACTTATAGATGGCCCGAAGGATTTAG
Found at i:1127202 original size:136 final size:135
Alignment explanation
Indices: 1126958--1127203 Score: 336
Period size: 136 Copynumber: 1.8 Consensus size: 135
1126948 GCTTGAAAGA
* *
1126958 CTTATATATGACCCGAAGGATTTAAGCATCATGCTCGAAAGCCTTACTGATGGCCCGAAGGACTT
1 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* * * * *
1127023 ACTAAGTAAGAAACTTTGGAAATAGTTTTCTCATTTTCTAAAAATCATGTGAAAACATCCTGCCT
66 ACTAAGTAAGAAACCTTGAAAATAGCTTACT-ATTATCTAAAAATCATGTGAAAACATCCTGCCT
1127088 GAAGGT
130 GAAGGT
*
1127094 CTTATAGATGGCCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
1 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* *
1127159 ACTCA-TCAAGAAACCCTTGAAAATCAAGCTTAGT-TTAT-TAAAAAT
66 ACTAAGT-AAGAAA-CCTTGAAAAT--AGCTTACTATTATCTAAAAAT
1127204 TTTTGTTTAC
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
135 1 0.01
136 79 0.82
137 11 0.11
139 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (135 bp):
CTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
ACTAAGTAAGAAACCTTGAAAATAGCTTACTATTATCTAAAAATCATGTGAAAACATCCTGCCTG
AAGGT
Found at i:1127313 original size:53 final size:52
Alignment explanation
Indices: 1127224--1127355 Score: 131
Period size: 53 Copynumber: 2.5 Consensus size: 52
1127214 AATTATCATA
* *
1127224 AAGAAACCGCTAAAAATTAGGCTTAGCTTTAAAAAAA-TCATTTGAAAACATT
1 AAGAAACC-CTAAAAAATAGGCTTAGCTTTAAAAAAATTCATTTGAAAACATC
* ** * * *
1127276 AAGAAACCCTAAAACAAATAGGCTTGGCTTTTTAAAAATTCATTTGGAGATATC
1 AAGAAACCCT-AAA-AAATAGGCTTAGCTTTAAAAAAATTCATTTGAAAACATC
**
1127330 AAGAAACCCTTGAAAATCAGGCTTAG
1 AAGAAACCCTAAAAAAT-AGGCTTAG
1127356 TTTCTTTCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
51 2 0.03
52 15 0.23
53 27 0.42
54 21 0.32
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (52 bp):
AAGAAACCCTAAAAAATAGGCTTAGCTTTAAAAAAATTCATTTGAAAACATC
Found at i:1127335 original size:54 final size:51
Alignment explanation
Indices: 1127224--1127355 Score: 129
Period size: 54 Copynumber: 2.5 Consensus size: 51
1127214 AATTATCATA
* *
1127224 AAGAAACCGCTAAAAATTAGGCTTAGCTTTAAAAAAATCATTTGAAAACATT
1 AAGAAACC-CTAAAAAATAGGCTTAGCTTTAAAAAAATCATTTGAAAACATC
* * * * * *
1127276 AAGAAACCCTAAAACAAATAGGCTTGGCTTTTTAAAAATTCATTTGGAGATATC
1 AAGAAACCCT-AAA-AAATAGGCTTAGC-TTTAAAAAAATCATTTGAAAACATC
**
1127330 AAGAAACCCTTGAAAATCAGGCTTAG
1 AAGAAACCCTAAAAAAT-AGGCTTAG
1127356 TTTCTTTCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
51 2 0.03
52 15 0.23
53 19 0.29
54 29 0.45
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (51 bp):
AAGAAACCCTAAAAAATAGGCTTAGCTTTAAAAAAATCATTTGAAAACATC
Found at i:1128227 original size:17 final size:15
Alignment explanation
Indices: 1128205--1128244 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 15
1128195 ATGCTAGTTA
1128205 TATTTTTTTTATGTTGT
1 TATTTTTTTTAT-TT-T
1128222 TATTTTTTTTATTTT
1 TATTTTTTTTATTTT
1128237 TATTTTTT
1 TATTTTTT
1128245 AATTAGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.39
16 2 0.09
17 12 0.52
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.82
Consensus pattern (15 bp):
TATTTTTTTTATTTT
Found at i:1133069 original size:20 final size:19
Alignment explanation
Indices: 1133021--1133071 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
1133011 TTTTTTTTCA
* *
1133021 AAAAAAATAAAAAAAAGGC
1 AAAAAAACAAAAAAAAGCC
1133040 AAAAAAACAAAAAAAAGCC
1 AAAAAAACAAAAAAAAGCC
1133059 AAAAAAGACAAAA
1 AAAAAA-ACAAAA
1133072 TTTCAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.80, C:0.10, G:0.08, T:0.02
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAGCC
Found at i:1139090 original size:27 final size:27
Alignment explanation
Indices: 1139060--1139123 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
1139050 AAAATGACTG
*
1139060 AAATACCCTCGAGCT-TTAAAATAACCA
1 AAATACCCTCGA-CTCCTAAAATAACCA
* * *
1139087 AAATACCCTTGACTCCTAAAATGACCT
1 AAATACCCTCGACTCCTAAAATAACCA
1139114 AAATACCCTC
1 AAATACCCTC
1139124 ATGAATTGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.41, C:0.30, G:0.06, T:0.23
Consensus pattern (27 bp):
AAATACCCTCGACTCCTAAAATAACCA
Found at i:1141755 original size:27 final size:27
Alignment explanation
Indices: 1141689--1141761 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
1141679 AAAGTGGTTA
1141689 AAATGA-CTGAAATACCCTCGATCTTTC
1 AAATGACCT-AAATACCCTCGATCTTTC
* * * *
1141716 AAATAACCAAAATACCCTTGA-CTCTTG
1 AAATGACCTAAATACCCTCGATCT-TTC
*
1141743 AAATGACCTAAATAACCTC
1 AAATGACCTAAATACCCTC
1141762 ATGAATTGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.06
27 33 0.92
28 1 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (27 bp):
AAATGACCTAAATACCCTCGATCTTTC
Found at i:1145935 original size:11 final size:11
Alignment explanation
Indices: 1145919--1145943 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1145909 TTGTAAAGAA
1145919 AAAAAAGAAAG
1 AAAAAAGAAAG
1145930 AAAAAAGAAAG
1 AAAAAAGAAAG
1145941 AAA
1 AAA
1145944 GTGGCTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1151055 original size:9 final size:9
Alignment explanation
Indices: 1151041--1151068 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1151031 GGGGGCAAAT
1151041 AGAAGAATA
1 AGAAGAATA
1151050 AGAAGAATA
1 AGAAGAATA
1151059 AGAAGAATA
1 AGAAGAATA
1151068 A
1 A
1151069 ATAAATGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (9 bp):
AGAAGAATA
Found at i:1151491 original size:18 final size:18
Alignment explanation
Indices: 1151468--1151546 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
1151458 TCAAGTTGAT
*
1151468 AAAATAGAGAGAAAGAAG
1 AAAATAGATAGAAAGAAG
* *
1151486 AAAATATATAGAAAAAACAG
1 AAAATAGATAG-AAAGA-AG
*
1151506 AAAAATAGATAAAAAGAA-
1 -AAAATAGATAGAAAGAAG
1151524 AAAA-A-A-AGAAAGAAG
1 AAAATAGATAGAAAGAAG
1151539 AAAATAGA
1 AAAATAGA
1151547 CAGATCCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
14 7 0.15
15 5 0.10
16 2 0.04
17 5 0.10
18 9 0.19
19 5 0.10
20 6 0.12
21 9 0.19
ACGTcount: A:0.73, C:0.01, G:0.16, T:0.09
Consensus pattern (18 bp):
AAAATAGATAGAAAGAAG
Found at i:1151519 original size:17 final size:16
Alignment explanation
Indices: 1151493--1151526 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1151483 AAGAAAATAT
1151493 ATAGAAAAAACAGAAAA
1 ATAGAAAAAA-AGAAAA
*
1151510 ATAGATAAAAAGAAAA
1 ATAGAAAAAAAGAAAA
1151526 A
1 A
1151527 AAAAGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAGAAAAAAAGAAAA
Found at i:1151846 original size:11 final size:11
Alignment explanation
Indices: 1151830--1151856 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1151820 AGAGACTATC
1151830 TTCAGATTTTA
1 TTCAGATTTTA
1151841 TTCAGATTTTA
1 TTCAGATTTTA
1151852 TTCAG
1 TTCAG
1151857 CCTTTGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (11 bp):
TTCAGATTTTA
Found at i:1153609 original size:44 final size:43
Alignment explanation
Indices: 1153546--1153705 Score: 257
Period size: 44 Copynumber: 3.7 Consensus size: 43
1153536 CTTGATAGAA
*
1153546 CAACGTGATATGTAGGGGTTCCTTGATGATAAGATTGAAGTGAC
1 CAACGTGATATGTAGGGGTTCCTTGATGATAAGATTG-AGGGAC
* * *
1153590 CAACGTGATATGTAGGGGTTCCTTGATGACAAGCTGGAGGGAC
1 CAACGTGATATGTAGGGGTTCCTTGATGATAAGATTGAGGGAC
1153633 CAACGTGATATGTAGGGGTTCCTTGATGATAAGACTTGAGGGAC
1 CAACGTGATATGTAGGGGTTCCTTGATGATAAGA-TTGAGGGAC
*
1153677 CAACGTGATATGTAGAGGTTCCTTGATGA
1 CAACGTGATATGTAGGGGTTCCTTGATGA
1153706 CAACTAAGAA
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 37 0.35
44 70 0.65
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (43 bp):
CAACGTGATATGTAGGGGTTCCTTGATGATAAGATTGAGGGAC
Found at i:1153679 original size:87 final size:87
Alignment explanation
Indices: 1153546--1153708 Score: 292
Period size: 87 Copynumber: 1.9 Consensus size: 87
1153536 CTTGATAGAA
* *
1153546 CAACGTGATATGTAGGGGTTCCTTGATGATAAGATTGAAGTGACCAACGTGATATGTAGGGGTTC
1 CAACGTGATATGTAGGGGTTCCTTGATGATAAGATTGAAGGGACCAACGTGATATGTAGAGGTTC
1153611 CTTGATGACAAGCTGGAGGGAC
66 CTTGATGACAAGCTGGAGGGAC
1153633 CAACGTGATATGTAGGGGTTCCTTGATGATAAGACTTG-AGGGACCAACGTGATATGTAGAGGTT
1 CAACGTGATATGTAGGGGTTCCTTGATGATAAGA-TTGAAGGGACCAACGTGATATGTAGAGGTT
1153697 CCTTGATGACAA
65 CCTTGATGACAA
1153709 CTAAGAAACT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
87 70 0.96
88 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (87 bp):
CAACGTGATATGTAGGGGTTCCTTGATGATAAGATTGAAGGGACCAACGTGATATGTAGAGGTTC
CTTGATGACAAGCTGGAGGGAC
Found at i:1153849 original size:42 final size:40
Alignment explanation
Indices: 1153743--1153856 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 40
1153733 AGGGTTTCTT
*
1153743 GATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
1 GATGA-TAAGTCCTTCGGGCCATCA-TAAGTCTTTCGAGCAA
* * * * *
1153785 TATGCGTACGTCCTTCGAGCCATCTATAAGTCTTTCGATCAA
1 GATG-ATAAGTCCTTCGGGCCATC-ATAAGTCTTTCGAGCAA
*
1153827 GATGATAAGTCCTTTGGGGCCATCCATAAG
1 GATGATAAGTCC-TTCGGGCCAT-CATAAG
1153857 ACCCTCGGGA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
41 6 0.11
42 49 0.86
43 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (40 bp):
GATGATAAGTCCTTCGGGCCATCATAAGTCTTTCGAGCAA
Found at i:1154076 original size:36 final size:36
Alignment explanation
Indices: 1154036--1154152 Score: 144
Period size: 36 Copynumber: 3.2 Consensus size: 36
1154026 TATGTTTCTT
* * *
1154036 TTGAAACAAAGTTTGTCTCTTTTGAGACGGTTTCTC
1 TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCCC
* * *
1154072 TTGAAGCTAATTTTGTCTCTCTTGAGACAGTTTCCC
1 TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCCC
* *
1154108 TTGAAACAGAAGATTTGTCTCGCTTGCGACAGTTTCCC
1 TTGAAACA-AAG-TTTGTCTCTCTTGAGACAGTTTCCC
1154146 TTGAAAC
1 TTGAAAC
1154153 CAGAAATTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
36 36 0.53
37 2 0.03
38 30 0.44
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (36 bp):
TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCCC
Found at i:1154214 original size:75 final size:75
Alignment explanation
Indices: 1154124--1154266 Score: 214
Period size: 75 Copynumber: 1.9 Consensus size: 75
1154114 CAGAAGATTT
* * * * ** *
1154124 GTCTCGCTTGCGACAGTTTCCCTTGAAACCAGAAATTTTATCTTACTTAAGATGGCTTTTCTTAA
1 GTCTCGCTTGAGACAGTTTCCCTTGAAACAAGAAATTTTATCTCACTCAAGAAAGCTTCTCTTAA
1154189 AACCAACTTA
66 AACCAACTTA
*
1154199 GTCTCGCTTGAGACAGTTTCCCTTGAAATAAGAAATTTTATCTCACTCAAGAAAGCTTCTCTTAA
1 GTCTCGCTTGAGACAGTTTCCCTTGAAACAAGAAATTTTATCTCACTCAAGAAAGCTTCTCTTAA
1154264 AAC
66 AAC
1154267 ATGTTTCTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (75 bp):
GTCTCGCTTGAGACAGTTTCCCTTGAAACAAGAAATTTTATCTCACTCAAGAAAGCTTCTCTTAA
AACCAACTTA
Found at i:1155086 original size:134 final size:133
Alignment explanation
Indices: 1154617--1155582 Score: 1212
Period size: 134 Copynumber: 7.3 Consensus size: 133
1154607 TTCAACCTTG
* * *
1154617 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGTTCAAATCCATCACACAAG
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAG
* ** *
1154682 TAGTTGGATCAGTTTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACAT
66 GAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACAT
1154747 CTC
131 CTC
* * * * *
1154750 ATTCGATTCCATCACATAAGGAGGTGGATCGACA--TTTA-CTTCACTCAAATCCATCGTAGAAG
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAG
* * * * * * * *
1154812 GAGTTGGATCAGCGTCAGCTTTTTGTTTGATTCTATCACAGAAGGAGATAGATTAGCATCGACAT
66 GAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACAT
*
1154877 CTT
131 CTC
* *
1154880 GTTCGATTCCATCACAGAAAGAGGTGGATCGACATTTTTATTTTCGCTCAAATTCATCGCAGAAG
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAG
* * * * * *
1154945 GAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCATAGAAGGTGGTAGATCAACACCAACAT
66 GAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACAT
1155010 CTC
131 CTC
* *
1155013 GTTCGATTTCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCTATCGCAGAA
1 GTTCGA-TTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAA
* * * * * *
1155078 GGAGTTGGATCAGCGTCAACTTTTTGCTCGATTTTATCACAAAAGGAGGTAGATCAGCATCGATA
65 GGAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACA
1155143 TCTC
130 TCTC
* * * * *
1155147 GTTCGATTCCATCACAGAAAGATGTGGATCGATATTTTTATTTTTTGCTCAAATCCATCGTAGAA
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTA-TTTTCGCTCAAATCCATCGCAGAA
* * *
1155212 GGGGTTGGATCAACATCAACTTTTAGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCGACA
65 GGAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACA
1155277 TCTC
130 TCTC
* * * * *
1155281 ATTCAATTCCATCACAGAAGGAGGTGGATTGAC--GTTTA-CTTCGCTCAAATCCATCGCAGAAG
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAG
* * * ** *
1155343 GAGTTGGATCAGTATAAACTTTTAGATCGATTCTATTGCAGAAGGAGGTAGATCAGCAAC-AGCA
66 GAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGA-CA
1155407 TCTC
130 TCTC
* * *
1155411 GTTCGATTCTATCACAGAAGGAGGTGGATCGACATTTTTATTTTC-CTTCAAATCCATTGTAGAA
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGC-TCAAATCCATCGCAGAA
* * *
1155475 GGAGTTAGATCAGCATCAACTTTTAGCTCAATTCTATCACAGAAGGAGGTAGATCAGCAAAC-AC
65 GGAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGC-ACCGAC
* *
1155539 ACCTT
129 ATCTC
* * *
1155544 GTTTTGATTCCATCACAGAAGAAGGTGGATTGACATTTT
1 G-TTCGATTCCATCACAGAAGGAGGTGGATCGACATTTT
1155583 CATTCATCAC
Statistics
Matches: 717, Mismatches: 104, Indels: 23
0.85 0.12 0.03
Matches are distributed among these distances:
129 1 0.00
130 212 0.30
131 4 0.01
132 13 0.02
133 220 0.31
134 267 0.37
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (133 bp):
GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAG
GAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACAT
CTC
Found at i:1155427 original size:397 final size:395
Alignment explanation
Indices: 1154617--1155581 Score: 1220
Period size: 397 Copynumber: 2.4 Consensus size: 395
1154607 TTCAACCTTG
* * *
1154617 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGTTCAAATCCATCACACAAG
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAG
* ** *
1154682 TAGTTGGATCAGTTTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACAT
66 GAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACAT
* *
1154747 CTCATTCGATTCCATCACATAAGGAGGTGGATCGACATTTACTTCACTCAAATCCATCGTAGAAG
131 CTCATTCGATTCCATCACAGAAAGAGGTGGATCGACATTTACTTCACTCAAATCCATCGTAGAAG
* * * * * * * *
1154812 GAGTTGGATCAGCGTCAGCTTTTTGTTTGATTCTATCACAGAAGGAGATAGATTAGCATCGACAT
196 GAGTTGGATCAACATCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAGCACCGACAT
** * * * *
1154877 CTTGTTCGATTCCATCACAGAAAGAGGTGGATCGACATTTTTATTTTCGCTCAAATTCATCGCAG
261 CTCATTCAATTCCATCACAGAAAGAGGTGGATCGACA-GTTTATCTTCGCTCAAATCCATCGCAG
* * * * * * *
1154942 AAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCATAGAAGGTGGTAGATCAACACCAA
325 AAGGAGTTGGATCAGCATAAACTTTTAGATCGATTCTATCACAGAAGGAGGTAGATCAACAACAA
1155007 CATCTC
390 CATCTC
* *
1155013 GTTCGATTTCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCTATCGCAGAA
1 GTTCGA-TTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAA
* * * * * *
1155078 GGAGTTGGATCAGCGTCAACTTTTTGCTCGATTTTATCACAAAAGGAGGTAGATCAGCATCGATA
65 GGAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACA
* * * * **
1155143 TCTCGTTCGATTCCATCACAGAAAGATGTGGATCGATATTTTTATTTTTTGCTCAAATCCATCGT
130 TCTCATTCGATTCCATCACAGAAAGAGGTGGATCGACA--TTTA--CTTCACTCAAATCCATCGT
* * *
1155208 AGAAGGGGTTGGATCAACATCAACTTTTAGCTCGATTCTATCACAGAATGAGGTAGATCAGCACC
191 AGAAGGAGTTGGATCAACATCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAGCACC
* *
1155273 GACATCTCATTCAATTCCATCACAGAAGGAGGTGGATTGAC-GTTTA-CTTCGCTCAAATCCATC
256 GACATCTCATTCAATTCCATCACAGAAAGAGGTGGATCGACAGTTTATCTTCGCTCAAATCCATC
* ** *
1155336 GCAGAAGGAGTTGGATCAGTATAAACTTTTAGATCGATTCTATTGCAGAAGGAGGTAGATCAGCA
321 GCAGAAGGAGTTGGATCAGCATAAACTTTTAGATCGATTCTATCACAGAAGGAGGTAGATCAACA
*
1155401 ACAGCATCTC
386 ACAACATCTC
* * *
1155411 GTTCGATTCTATCACAGAAGGAGGTGGATCGACATTTTTATTTTC-CTTCAAATCCATTGTAGAA
1 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGC-TCAAATCCATCGCAGAA
* * *
1155475 GGAGTTAGATCAGCATCAACTTTTAGCTCAATTCTATCACAGAAGGAGGTAGATCAGCAAAC-AC
65 GGAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGC-ACCGAC
* ** * *
1155539 ACCTTGTTTTGATTCCATCACAG-AAGAAGGTGGATTGACATTT
129 ATC-TCATTCGATTCCATCACAGAAAG-AGGTGGATCGACATTT
1155582 TCATTCATCA
Statistics
Matches: 487, Mismatches: 73, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
396 10 0.02
397 251 0.52
398 112 0.23
399 8 0.02
401 106 0.22
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (395 bp):
GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAG
GAGTTGGATCAGCATCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACAT
CTCATTCGATTCCATCACAGAAAGAGGTGGATCGACATTTACTTCACTCAAATCCATCGTAGAAG
GAGTTGGATCAACATCAACTTTTAGCTCGATTCTATCACAGAAGGAGATAGATCAGCACCGACAT
CTCATTCAATTCCATCACAGAAAGAGGTGGATCGACAGTTTATCTTCGCTCAAATCCATCGCAGA
AGGAGTTGGATCAGCATAAACTTTTAGATCGATTCTATCACAGAAGGAGGTAGATCAACAACAAC
ATCTC
Found at i:1155522 original size:44 final size:44
Alignment explanation
Indices: 1154622--1155533 Score: 244
Period size: 44 Copynumber: 20.7 Consensus size: 44
1154612 CCTTGGTTCG
* ** *
1154622 ATTCCATCACAGAAGGAGGTGGATC-GACATTTTTA-TTTTCGTTCA
1 ATTCTATCACAGAAGGAGGTGGATCAG-CA--TCAACTTTTCGCTCA
* * * * * ** * *
1154667 AATCCATCACACAAGTAGTTGGATCAGTTTCAACTTTTAGCTCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
* * * * * * ** *
1154711 ATTCTATCACAGAAGGAGGTAGATCAACACCGACATCTCATTCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
* * ** *
1154755 ATTCCATCACATAAGGAGGTGGATC-GACATTTAC--TTCACTCA
1 ATTCTATCACAGAAGGAGGTGGATCAG-CATCAACTTTTCGCTCA
* * ** * * * * * **
1154797 AATCCATCGTAGAAGGAGTTGGATCAGCGTCAGCTTTTTGTTTG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
* * * * * * *
1154841 ATTCTATCACAGAAGGAGATAGATTAGCATCGACATCTT-GTTCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAAC-TTTTCGCTCA
* * **
1154885 ATTCCATCACAGAAAGAGGTGGATC-GACATTTTTA-TTTTCGCTCAA
1 ATTCTATCACAGAAGGAGGTGGATCAG-CA--TCAACTTTTCGCTC-A
* * * * *
1154931 ATTC-ATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
* * * * * * * *
1154974 ATTCTATCATAGAAGGTGGTAGATCAACACCAACATCTCGTTCGA
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTC-A
* * * **
1155019 TTTCCATCACAGAATGAGGTGGATC-GACATTTTTA-TTTTCGCTCA
1 ATTCTATCACAGAAGGAGGTGGATCAG-CA--TCAACTTTTCGCTCA
* * * * * *
1155064 AATCTATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
* * * * * * *
1155108 ATTTTATCACAAAAGGAGGTAGATCAGCATCGA-TATCTCGTTCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACT-TTTCGCTCA
* * * * ** * *
1155152 ATTCCATCACAGAAAGATGTGGATC-GATATTTTTATTTTTTGCTCA
1 ATTCTATCACAGAAGGAGGTGGATCAG-CA--TCAACTTTTCGCTCA
* * ** * * *
1155198 AATCCATCGTAGAAGG-GGTTGGATCAACATCAACTTTTAGCTCG
1 ATTCTATCACAGAAGGAGG-TGGATCAGCATCAACTTTTCGCTCA
* * * * * * **
1155242 ATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTCATTCA
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
* * * **
1155286 ATTCCATCACAGAAGGAGGTGGAT-TGACGTTTAC--TTCGCTCA
1 ATTCTATCACAGAAGGAGGTGGATCAG-CATCAACTTTTCGCTCA
* * * * * * * * *
1155328 AATCCATCGCAGAAGGAGTTGGATCAGTATAAACTTTTAGATCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
** * * * * * * *
1155372 ATTCTATTGCAGAAGGAGGTAGATCAGCAACAGCATCTCGTTCG
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
**
1155416 ATTCTATCACAGAAGGAGGTGGATC-GACATTTTTA-TTTTC-CTTCA
1 ATTCTATCACAGAAGGAGGTGGATCAG-CA--TCAACTTTTCGC-TCA
* * *** * * *
1155461 AATCCATTGTAGAAGGAGTTAGATCAGCATCAACTTTTAGCTCA
1 ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
*
1155505 ATTCTATCACAGAAGGAGGTAGATCAGCA
1 ATTCTATCACAGAAGGAGGTGGATCAGCA
1155534 AACACACCTT
Statistics
Matches: 596, Mismatches: 231, Indels: 81
0.66 0.25 0.09
Matches are distributed among these distances:
42 57 0.10
43 19 0.03
44 360 0.60
45 116 0.19
46 42 0.07
47 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
ATTCTATCACAGAAGGAGGTGGATCAGCATCAACTTTTCGCTCA
Found at i:1160467 original size:22 final size:22
Alignment explanation
Indices: 1160442--1160488 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1160432 TTCAACCACT
* *
1160442 AAGATAAAATTTAATATATATA
1 AAGATAAAATTTAATAAATAGA
1160464 AAGATAAAATTTAATAAATAGA
1 AAGATAAAATTTAATAAATAGA
1160486 AAG
1 AAG
1160489 GAGTATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AAGATAAAATTTAATAAATAGA
Found at i:1165107 original size:18 final size:18
Alignment explanation
Indices: 1165060--1165117 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
1165050 GAAATTATTA
1165060 AAAAT-TAAGAAATAAAAT
1 AAAATATAA-AAATAAAAT
1165078 AAAA-ATATAAAATAAAAT
1 AAAATATA-AAAATAAAAT
* *
1165096 AAAATGTGAAAAATTAAAT
1 AAAATAT-AAAAATAAAAT
1165115 AAA
1 AAA
1165118 CAAAAAGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 19 0.56
19 14 0.41
20 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAATATAAAAATAAAAT
Found at i:1167333 original size:2 final size:2
Alignment explanation
Indices: 1167326--1167372 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1167316 TTTATGACTT
1167326 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1167368 TA TA T
1 TA TA T
1167373 GGGATTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1169074 original size:27 final size:27
Alignment explanation
Indices: 1169036--1169089 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1169026 TAATTTATGT
1169036 GTATTTTATATTTAGGTCACTGATTTA
1 GTATTTTATATTTAGGTCACTGATTTA
1169063 GTATTTTATATTTAGGTCACTGATTTA
1 GTATTTTATATTTAGGTCACTGATTTA
1169090 TTTCTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (27 bp):
GTATTTTATATTTAGGTCACTGATTTA
Found at i:1169152 original size:2 final size:2
Alignment explanation
Indices: 1169147--1169186 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1169137 TTTTAAAAAG
*
1169147 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1169187 TTAGTTTGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1173118 original size:3 final size:3
Alignment explanation
Indices: 1173099--1173132 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
1173089 ATATTATAAA
1173099 TAT TAAT TAT ATAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TA
1173133 ATACAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1183964 original size:225 final size:225
Alignment explanation
Indices: 1183670--1184213 Score: 901
Period size: 225 Copynumber: 2.4 Consensus size: 225
1183660 TCACAATTTA
*
1183670 TAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCTTCGGGTCATCTGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCTTCGGGTCATCTGTAA
**
1183735 GCCTTTCAAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCAC
66 GCCTTTCAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCAC
1183800 ATGTCTATCGAAAAATGAGAAAGATTTCTCATTAAAATCTGAAGATTTGAAAAGTAAGAAAGATT
131 ATGTCTATCGAAAAATGAGAAAGATTTCTCATTAAAATCTGAAGATTTGAAAAGTAAGAAAGATT
* *
1183865 TCTTACCTAGTAAATTATTTCCAAAATTGG
196 TCTTACCTAGTAAACTATTTCCAAAATTAG
*
1183895 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCTTCCGGTCATCTGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCTTCGGGTCATCTGTAA
*
1183960 GCCTTTCAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGGCATGATGTTTTCAC
66 GCCTTTCAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCAC
*
1184025 ATGTCTATTGAAAAATGAGAAAGATTTCTCATTAAAATCTGAAGATTTGAAAAGTAAGAAAGATT
131 ATGTCTATCGAAAAATGAGAAAGATTTCTCATTAAAATCTGAAGATTTGAAAAGTAAGAAAGATT
*
1184090 TCTTACTTAGTAAACTATTTCCAAAATTAG
196 TCTTACCTAGTAAACTATTTCCAAAATTAG
* * * * *
1184120 TAAGTCCTTCGGGCCATCAGTATGTCTTTCGAGCATGATGATGAAATCCTTCGGGACAT-TAGTA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCTTCGGGTCATCT-GTA
* * * *
1184184 AGTCTTTCGAGCATGATGATGAAATCCTTC
65 AGCCTTTCAAGCAAGATGAT-AAGTCCTTC
1184214 GGGTAATTTA
Statistics
Matches: 298, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
224 1 0.00
225 289 0.97
226 8 0.03
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (225 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCTTCGGGTCATCTGTAA
GCCTTTCAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCAC
ATGTCTATCGAAAAATGAGAAAGATTTCTCATTAAAATCTGAAGATTTGAAAAGTAAGAAAGATT
TCTTACCTAGTAAACTATTTCCAAAATTAG
Found at i:1184189 original size:42 final size:42
Alignment explanation
Indices: 1184124--1184562 Score: 235
Period size: 42 Copynumber: 10.3 Consensus size: 42
1184114 AATTAGTAAG
* *
1184124 TCCTTCGGGCCATCAGTATGTCTTTCGAGCATGATGATGAAA
1 TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
*
1184166 TCCTTCGGGACATTAGTAAGTCTTTCGAGCATGATGATGAAA
1 TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
* * * *
1184208 TCCTTCGGGTA-ATTTA-TAAGCCTTCACCGAAG-A-GTAGTGAAGCAAA
1 TCCTTCGGG-ACA-TCAGTAAGTCTT--TCG-AGCATG-A-TGATG-AAA
* *
1184254 T-C-T------ATCAGTAAGTCTTTCGAGCATGATGAGGAAG
1 TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
* * * * *
1184288 TCCTTCGGGCCATCAATAAGTCTTTCAAGCATAATGATTAAA
1 TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
* ** * * *
1184330 TCCTTCAGGTA-ATTTGTAAGCCTTCACCGAAG-A-GTAGTGAAGCAAA
1 TCCTTC-GGGACATCAGTAAGTCTT--TCG-AGCATG-A-TGATG-AAA
*
1184376 TCCATTAGTAAGTG-CTATCAGTAAGTCTTTCGAGCATGATGATGAAA
1 TCC-TTCG---G-GAC-ATCAGTAAGTCTTTCGAGCATGATGATGAAA
* * * * *
1184423 TCTTTCGGGATATCAATAAGTCTTTCGATCATGATGATTAAA
1 TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
* ** * *
1184465 TCCTTCGGGTCATTTGTAAGTCTTTCGAGCAAGATGATTAAA
1 TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
* ** * * *
1184507 TCCTTCTGGTTATCAGTAAGTCTTTCGAGCATGACGATTAAG
1 TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
*
1184549 TCCTTCGGGCCATC
1 TCCTTCGGGACATC
1184563 TTAAGCCTTC
Statistics
Matches: 302, Mismatches: 59, Indels: 72
0.70 0.14 0.17
Matches are distributed among these distances:
34 3 0.01
35 7 0.02
36 5 0.02
37 3 0.01
38 8 0.03
42 205 0.68
43 8 0.03
44 8 0.03
45 12 0.04
46 14 0.05
47 7 0.02
48 6 0.02
49 5 0.02
50 1 0.00
51 10 0.03
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
TCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAA
Found at i:1184352 original size:122 final size:127
Alignment explanation
Indices: 1184135--1184484 Score: 458
Period size: 122 Copynumber: 2.7 Consensus size: 127
1184125 CCTTCGGGCC
* * *
1184135 ATCAGTATGTCTTTCGAGCATGATGATGAAATCCTTCGGGACATTAGTAAGTCTTTCGAGCATGA
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGACATCAATAAGTCTTTCGAGCATGA
* *
1184200 TGATGAAATCCTTCGGGTAATTTATAAGCCTTCACCGAAGAGTAGTGAAG-C-A-AA-T-CT
66 TGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGACTAGAAGTGCT
* * * * *
1184257 ATCAGTAAGTCTTTCGAGCATGATGAGGAAGTCCTTCGGGCCATCAATAAGTCTTTCAAGCATAA
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGACATCAATAAGTCTTTCGAGCATGA
*
1184322 TGATTAAATCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATTAGTAA
66 TGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAG---A--C--TAG-AA
1184387 GTGCT
123 GTGCT
* * *
1184392 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCTTTCGGGATATCAATAAGTCTTTCGATCATGA
1 ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGACATCAATAAGTCTTTCGAGCATGA
*
1184457 TGATTAAATCCTTCGGGTCATTTGTAAG
66 TGATTAAATCCTTCGGGTAATTTGTAAG
1184485 TCTTTCGAGC
Statistics
Matches: 194, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
122 104 0.54
128 1 0.01
131 1 0.01
133 2 0.01
134 1 0.01
135 85 0.44
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (127 bp):
ATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGACATCAATAAGTCTTTCGAGCATGA
TGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGACTAGAAGTGCT
Found at i:1184429 original size:22 final size:21
Alignment explanation
Indices: 1184401--1184508 Score: 62
Period size: 22 Copynumber: 5.1 Consensus size: 21
1184391 TATCAGTAAG
1184401 TCTTTCGAGCATGATGATGAAA
1 TCTTTCGAGCATGATGAT-AAA
* * *
1184423 TCTTTCG-GGAT-ATCAATAAG
1 TCTTTCGAGCATGAT-GATAAA
*
1184443 TCTTTCGATCATGATGATTAAA
1 TCTTTCGAGCATGATGA-TAAA
* * * *
1184465 TCCTTCGGGTCAT-TTG-TAAG
1 TCTTTCGAG-CATGATGATAAA
*
1184485 TCTTTCGAGCAAGATGATTAAA
1 TCTTTCGAGCATGATGA-TAAA
1184507 TC
1 TC
1184509 CTTCTGGTTA
Statistics
Matches: 61, Mismatches: 17, Indels: 16
0.65 0.18 0.17
Matches are distributed among these distances:
19 2 0.03
20 23 0.38
21 8 0.13
22 25 0.41
23 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (21 bp):
TCTTTCGAGCATGATGATAAA
Found at i:1184608 original size:37 final size:37
Alignment explanation
Indices: 1184558--1184637 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
1184548 GTCCTTCGGG
1184558 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT
1184595 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT
1 CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT
*
1184632 CAATCT
1 CCATCT
1184638 CGATTCTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (37 bp):
CCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT
Found at i:1184842 original size:3 final size:3
Alignment explanation
Indices: 1184823--1184862 Score: 62
Period size: 3 Copynumber: 12.7 Consensus size: 3
1184813 ATATTATAAA
1184823 TAT TAAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1184863 ATACAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1194468 original size:16 final size:15
Alignment explanation
Indices: 1194449--1194521 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
1194439 CTTGAAGAAG
1194449 AAAAGAGAAAAAAGA
1 AAAAGAGAAAAAAGA
* *
1194464 GAAAA-A-ATGAAATGA
1 -AAAAGAGA-AAAAAGA
1194479 AAAAGAGAAAAAATGA
1 AAAAGAGAAAAAA-GA
*
1194495 AAAAGAGAAAAAATGT
1 AAAAGAGAAAAAA-GA
*
1194511 AAAAGATAAAA
1 AAAAGAGAAAA
1194522 TTATAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.11
15 10 0.21
16 32 0.68
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (15 bp):
AAAAGAGAAAAAAGA
Found at i:1194481 original size:21 final size:21
Alignment explanation
Indices: 1194457--1194496 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1194447 AGAAAAGAGA
1194457 AAAAAGAGAAAAAATGAAATG
1 AAAAAGAGAAAAAATGAAATG
1194478 AAAAAGAGAAAAAATGAAA
1 AAAAAGAGAAAAAATGAAA
1194497 AAGAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (21 bp):
AAAAAGAGAAAAAATGAAATG
Found at i:1194574 original size:10 final size:10
Alignment explanation
Indices: 1194547--1194631 Score: 51
Period size: 10 Copynumber: 9.1 Consensus size: 10
1194537 AAAGGGAAAA
1194547 ATGAAAAA--
1 ATGAAAAATG
*
1194555 ATGGAAAATG
1 ATGAAAAATG
1194565 ATGAAAAATG
1 ATGAAAAATG
1194575 A--AAAGAA-G
1 ATGAAA-AATG
* *
1194583 AAGAAAAAAAG
1 ATG-AAAAATG
*
1194594 AAGAAAAATG
1 ATGAAAAATG
*
1194604 A-AAAAAATG
1 ATGAAAAATG
1194613 A--AAAAATG
1 ATGAAAAATG
1194621 ATGAAAAATG
1 ATGAAAAATG
1194631 A
1 A
1194632 AAAGAAAAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
8 20 0.31
9 10 0.16
10 27 0.42
11 7 0.11
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (10 bp):
ATGAAAAATG
Found at i:1194608 original size:8 final size:8
Alignment explanation
Indices: 1194473--1194634 Score: 85
Period size: 8 Copynumber: 20.1 Consensus size: 8
1194463 AGAAAAAATG
1194473 AAATGAAA
1 AAATGAAA
1194481 AAGA-GAAA
1 AA-ATGAAA
1194489 AAATGAAA
1 AAATGAAA
1194497 AAGA-GAAA
1 AA-ATGAAA
1194505 AAATGTAAA
1 AAATG-AAA
*
1194514 AGAT-AAA
1 AAATGAAA
*
1194521 ATTAT-AAA
1 A-AATGAAA
1194529 AATAT-AAA
1 AA-ATGAAA
* *
1194537 AAAGGGAA
1 AAATGAAA
1194545 AAATGAAA
1 AAATGAAA
*
1194553 AAATG-GA
1 AAATGAAA
1194560 AAATGATGAA
1 AAATGA--AA
1194570 AAATGAAA
1 AAATGAAA
1194578 AGAA-GAAGA
1 A-AATGAA-A
1194587 AAA--AAA
1 AAATGAAA
*
1194593 GAA-G-AA
1 AAATGAAA
1194599 AAATGAAAA
1 AAATG-AAA
1194608 AAATGAAA
1 AAATGAAA
1194616 AAATGATGAA
1 AAATGA--AA
1194626 AAATGAAA
1 AAATGAAA
1194634 A
1 A
1194635 GAAAAAGAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 38
0.72 0.06 0.22
Matches are distributed among these distances:
6 7 0.06
7 16 0.13
8 67 0.54
9 19 0.15
10 15 0.12
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:1194629 original size:18 final size:17
Alignment explanation
Indices: 1194543--1194634 Score: 73
Period size: 18 Copynumber: 5.2 Consensus size: 17
1194533 TAAAAAAGGG
1194543 AAAAATGA-AAAAATG-
1 AAAAATGAGAAAAATGA
*
1194558 GAAAATGATGAAAAATGA
1 AAAAATGA-GAAAAATGA
*
1194576 AAAGAA-GAAGAAAAAAAGAA
1 AAA-AATG-AG-AAAAATG-A
*
1194596 GAAAAATGAAAAAAATGA
1 -AAAAATGAGAAAAATGA
1194614 AAAAATGATGAAAAATGA
1 AAAAATGA-GAAAAATGA
1194632 AAA
1 AAA
1194635 GAAAAAGAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
15 7 0.11
17 15 0.25
18 16 0.26
19 15 0.25
20 4 0.07
21 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (17 bp):
AAAAATGAGAAAAATGA
Found at i:1194633 original size:56 final size:53
Alignment explanation
Indices: 1194478--1194649 Score: 170
Period size: 56 Copynumber: 3.1 Consensus size: 53
1194468 AAATGAAATG
* * *
1194478 AAAAAGAGAAAAAATGAAAAAGA-GAAAAA--ATGTAAAAGATAAAATTATAAAAATATA
1 AAAAAGAG-AAAAATGAAAAA-ATGAAAAATGATG-AAAA-ATGAAA--AGAAAAAGA-A
* * *
1194535 AAAAAGGGAAAAATGAAAAAATGGAAAATGATGAAAAATGAAAAGAAGAAGAA
1 AAAAAGAGAAAAATGAAAAAATGAAAAATGATGAAAAATGAAAAGAAAAAGAA
1194588 AAAAAGAAGAAAAATGAAAAAAATGAAAAAATGATGAAAAATGAAAAGAAAAAGAA
1 AAAAAG-AGAAAAATG-AAAAAATG-AAAAATGATGAAAAATGAAAAGAAAAAGAA
1194644 ATAAAA
1 A-AAAA
1194650 AGGAGGTCTC
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
53 7 0.07
54 14 0.14
55 9 0.09
56 51 0.52
57 15 0.15
58 3 0.03
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (53 bp):
AAAAAGAGAAAAATGAAAAAATGAAAAATGATGAAAAATGAAAAGAAAAAGAA
Found at i:1195910 original size:37 final size:37
Alignment explanation
Indices: 1195860--1195968 Score: 159
Period size: 37 Copynumber: 2.9 Consensus size: 37
1195850 TCGAAACAAG
* *
1195860 TCAATCTTAAGCCTTCACGAAAGAGCAGTGAAGCAAT
1 TCAATCTTAAGCCTTCACGAAAGAGTAGTGAAGCAAA
1195897 TCAATCTTAAGCCTTCAC-AGAAGAGTAGTGAAGCAAA
1 TCAATCTTAAGCCTTCACGA-AAGAGTAGTGAAGCAAA
*
1195934 TC-ATCTATAAGCCTTCACGGAAGAGTAGTGAAGCA
1 TCAATCT-TAAGCCTTCACGAAAGAGTAGTGAAGCA
1195969 GACTCATTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
36 5 0.08
37 61 0.92
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (37 bp):
TCAATCTTAAGCCTTCACGAAAGAGTAGTGAAGCAAA
Found at i:1196045 original size:55 final size:55
Alignment explanation
Indices: 1195986--1196178 Score: 201
Period size: 55 Copynumber: 3.5 Consensus size: 55
1195976 TTTATGAAGA
* * ** * *
1195986 TCGAGTCCTATACTCTTTGAATGAATAGGGAGTGGACACGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCCTTGAATGAATAGGGAGCAGACACGTTTGTTCAAAATTGT
** *
1196041 TCGAGTCTTATACTCCTTGAACAAAGAGGGAGCAGACACGTTTGTTCAAAATTGT
1 TCGAGTCTTATACTCCTTGAATGAATAGGGAGCAGACACGTTTGTTCAAAATTGT
* * ** * *
1196096 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCTTACAC-ATT-TTCTAAAGATTAT
1 TCGAGTCTTATACTCCTTGAATGAATAGGGAGCAGACACGTTTGTTC-AAA-ATTGT
* *
1196151 TCGAGTCTTATACTCCCTGAAAGAATAG
1 TCGAGTCTTATACTCCTTGAATGAATAG
1196179 AGAGAGGACC
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.03
54 5 0.04
55 108 0.93
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (55 bp):
TCGAGTCTTATACTCCTTGAATGAATAGGGAGCAGACACGTTTGTTCAAAATTGT
Found at i:1197471 original size:27 final size:27
Alignment explanation
Indices: 1197421--1197474 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1197411 TAATTTTTGT
*
1197421 GTATTTTATATTTAGGTCCTTGATTTA
1 GTATTTTATATTTAGATCCTTGATTTA
1197448 GTATTTTATATTTAGATCAC-TGATTTA
1 GTATTTTATATTTAGATC-CTTGATTTA
1197475 TTTCTGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (27 bp):
GTATTTTATATTTAGATCCTTGATTTA
Found at i:1197537 original size:2 final size:2
Alignment explanation
Indices: 1197532--1197566 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1197522 TTTTTAAAAG
1197532 AT AT 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 AT AT A
1197567 GTTTGGCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1198799 original size:21 final size:21
Alignment explanation
Indices: 1198773--1198817 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1198763 GATATAATGT
*
1198773 TTCTCTCTCTGCTTCCGC-TGC
1 TTCTCTCTCTACTTCC-CTTGC
1198794 TTCTCTCTCTACTTCCCTTGC
1 TTCTCTCTCTACTTCCCTTGC
1198815 TTC
1 TTC
1198818 ATTTTCAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.02, C:0.42, G:0.09, T:0.47
Consensus pattern (21 bp):
TTCTCTCTCTACTTCCCTTGC
Found at i:1207010 original size:41 final size:41
Alignment explanation
Indices: 1206954--1207054 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
1206944 CGTTTGTGTT
* * * *
1206954 TAAAAACGCCGCTAAAGTACTAGTCTATAGTGA-CGTTTATA
1 TAAAAACGCCACTAAAGTACGAGTATATAG-CATCGTTTATA
* *
1206995 TAAAAACACCACTAAAGTACGAGTATATAGCATCGTTTGTA
1 TAAAAACGCCACTAAAGTACGAGTATATAGCATCGTTTATA
*
1207036 TAAAAACGCCACAAAAGTA
1 TAAAAACGCCACTAAAGTA
1207055 TGACTCTGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (41 bp):
TAAAAACGCCACTAAAGTACGAGTATATAGCATCGTTTATA
Found at i:1207073 original size:41 final size:41
Alignment explanation
Indices: 1206938--1207081 Score: 121
Period size: 41 Copynumber: 3.5 Consensus size: 41
1206928 CTTTAAACTT
* *
1206938 TAGCGGCGTTTGTGTTTAAAAACGCCGCTAAAGTACT-AGTCTA
1 TAGCGGCG-TT-TGTATAAAAACGCCACTAAAGTA-TGAGTCTA
* * * * * *
1206981 TAGTGACGTTTATATAAAAACACCACTAAAGTACGAGTATA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
** * * *
1207022 TAGCATCGTTTGTATAAAAACGCCACAAAAGTATGACTCTG
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
1207063 TAGCGGCGTTT-TGATAAAA
1 TAGCGGCGTTTGT-ATAAAA
1207082 CTGTCGCTAA
Statistics
Matches: 79, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
40 1 0.01
41 70 0.89
42 2 0.03
43 6 0.08
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTA
Found at i:1207300 original size:83 final size:80
Alignment explanation
Indices: 1207193--1207347 Score: 202
Period size: 82 Copynumber: 1.9 Consensus size: 80
1207183 CTATAGCATC
* * * * * * *
1207193 GTTTGTTGAAAACGCCACTATAGATGAACCATATTGCGGCGTTTTTATATAAACACCGCTAAAGT
1 GTTTGTTGAAAACACCACTATAGATGAACC-TATTACGACGTGTGTATAAAAACACCACTAAAGT
1207258 ACTACTCTGTAACGGT
65 ACTACTCTGTAACGGT
*
1207274 GTTTGTTGGAAAAACACCACTATAGATGAACCTATTACGACGTGTGTATAAAAACGCCACTAAAG
1 GTTTGTT-G-AAAACACCACTATAGATGAACCTATTACGACGTGTGTATAAAAACACCACTAAAG
*
1207339 TCCTACTCT
64 TACTACTCT
1207348 ATCGTGGCGT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 7 0.11
82 35 0.56
83 21 0.33
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (80 bp):
GTTTGTTGAAAACACCACTATAGATGAACCTATTACGACGTGTGTATAAAAACACCACTAAAGTA
CTACTCTGTAACGGT
Found at i:1207649 original size:20 final size:20
Alignment explanation
Indices: 1207620--1207662 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1207610 ATAATTTAAA
*
1207620 AATATAATAA-TATATATTTC
1 AATATAATAAGAATATA-TTC
*
1207640 AATATTATAAGAATATATTC
1 AATATAATAAGAATATATTC
1207660 AAT
1 AAT
1207663 TATATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (20 bp):
AATATAATAAGAATATATTC
Found at i:1207657 original size:21 final size:23
Alignment explanation
Indices: 1207622--1207680 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
1207612 AATTTAAAAA
1207622 TATAATAATATATATTTC-A-ATAT
1 TATAA-AA-ATATATTTCAATATAT
*
1207645 TATAAGAATATA-TTCAATTATAT
1 TATAAAAATATATTTCAA-TATAT
1207668 TATAAAAATATAT
1 TATAAAAATATAT
1207681 GATATTAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.10
21 6 0.20
22 1 0.03
23 20 0.67
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (23 bp):
TATAAAAATATATTTCAATATAT
Found at i:1207817 original size:22 final size:21
Alignment explanation
Indices: 1207767--1207810 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
1207757 AATATTACTG
*
1207767 AATTATTAAATATTTAAAATA
1 AATTATTAAAAATTTAAAATA
1207788 AATTTATTAATAAATTTAAAATA
1 AA-TTATTAA-AAATTTAAAATA
1207811 TAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 7 0.35
23 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTATTAAAAATTTAAAATA
Found at i:1207861 original size:40 final size:40
Alignment explanation
Indices: 1207784--1207908 Score: 120
Period size: 42 Copynumber: 3.1 Consensus size: 40
1207774 AAATATTTAA
* * *
1207784 AATAAATTTATTAATA-AATTTAAAAT-ATAATATTTTTATTT
1 AATAAA-TAATTAATATAATTTATAATAATAAT-TTTAT-TTT
1207825 ATATATAATAATT-AT-TAATATTATAATAATAATTTTATTTT
1 A-ATA-AATAATTAATATAAT-TTATAATAATAATTTTATTTT
1207866 AATAAATAATTAATATAATTTATAAT-AT--TTTTATTTT
1 AATAAATAATTAATATAATTTATAATAATAATTTTATTTT
1207903 AATAAA
1 AATAAA
1207909 ATATAATAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
37 15 0.20
39 9 0.12
40 12 0.16
41 14 0.19
42 17 0.23
43 7 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
AATAAATAATTAATATAATTTATAATAATAATTTTATTTT
Found at i:1207863 original size:17 final size:17
Alignment explanation
Indices: 1207822--1207876 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
1207812 AATATTTTTA
*
1207822 TTTATATATAATAATTAT
1 TTTAT-TATAATAATAAT
*
1207840 TAATATTATAATAATAAT
1 T-TTATTATAATAATAAT
*
1207858 TTTATTTTAATAAATAAT
1 TTTATTATAAT-AATAAT
1207876 T
1 T
1207877 AATATAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 8 0.26
18 20 0.65
19 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTATTATAATAATAAT
Found at i:1207915 original size:40 final size:39
Alignment explanation
Indices: 1207809--1207915 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 39
1207799 AAATTTAAAA
*
1207809 TATAATATTTTTATTTATATATAATAAT-T-ATTAATATTAT
1 TATAATATTTTTATTT-TA-ATAA-AATATAATTAATATAAT
* *
1207849 AATAATAATTTTATTTTAAT--AA-ATAATTAATATAATT
1 TATAATATTTTTATTTTAATAAAATATAATTAATATAA-T
1207886 TATAATATTTTTATTTTAATAAAATATAAT
1 TATAATATTTTTATTTTAATAAAATATAAT
1207916 AATCTTAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
35 3 0.05
36 9 0.16
37 19 0.34
38 2 0.04
39 4 0.07
40 19 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (39 bp):
TATAATATTTTTATTTTAATAAAATATAATTAATATAAT
Found at i:1210699 original size:18 final size:19
Alignment explanation
Indices: 1210676--1210724 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
1210666 GCATTTTTGA
1210676 TATCGATACTCAAGG-GAG
1 TATCGATACTCAAGGAGAG
* *
1210694 TATCGATACCCTAGGTAGAG
1 TATCGATACTCAAGG-AGAG
1210714 TATCGATACTC
1 TATCGATACTC
1210725 CCAGTAGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 13 0.50
20 13 0.50
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (19 bp):
TATCGATACTCAAGGAGAG
Found at i:1210739 original size:21 final size:22
Alignment explanation
Indices: 1210688--1210744 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
1210678 TCGATACTCA
*
1210688 AGGGAGTATCGATAC-CCTAGGT
1 AGGG-GTATCGATACTCCCAGGT
*
1210710 A-GAGTATCGATACTCCCA-GT
1 AGGGGTATCGATACTCCCAGGT
1210730 AGGGGTATCGATACT
1 AGGGGTATCGATACT
1210745 GAGGTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 13 0.43
21 16 0.53
22 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (22 bp):
AGGGGTATCGATACTCCCAGGT
Found at i:1211851 original size:54 final size:55
Alignment explanation
Indices: 1211735--1211861 Score: 143
Period size: 54 Copynumber: 2.3 Consensus size: 55
1211725 ATTTTCCTCA
* ** * *
1211735 TATGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACATATTGCTCC
1 TATGG-GTACTGATACCCCTATGAAAATTTTGGCTCCGAGAAAAACAGAATGCTCC
* * *
1211791 -AAGGGTACTGATACCTCTATGAAAATTTTGGCTCCGAGAAAAATAGAATGC-CC
1 TATGGGTACTGATACCCCTATGAAAATTTTGGCTCCGAGAAAAACAGAATGCTCC
1211844 TATGGGTA-TCGATACCCC
1 TATGGGTACT-GATACCCC
1211862 CTTAGAGGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 3 0.05
54 53 0.90
55 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (55 bp):
TATGGGTACTGATACCCCTATGAAAATTTTGGCTCCGAGAAAAACAGAATGCTCC
Found at i:1220392 original size:54 final size:54
Alignment explanation
Indices: 1220312--1220433 Score: 181
Period size: 54 Copynumber: 2.3 Consensus size: 54
1220302 TAAATAGGGT
* * *
1220312 GGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACATATTGCCCAAAG
1 GGTACCGATACCCCTATGCAAATTTTGGCTCCGAGAAAAACAGAATGCCCAAAG
* * *
1220366 GGTACCGATACCCCTATGCAAATTTTGGCTCCGAGAAAAATAGAATGCCCTATG
1 GGTACCGATACCCCTATGCAAATTTTGGCTCCGAGAAAAACAGAATGCCCAAAG
*
1220420 GGTACTGATACCCC
1 GGTACCGATACCCC
1220434 CTTAGAGGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (54 bp):
GGTACCGATACCCCTATGCAAATTTTGGCTCCGAGAAAAACAGAATGCCCAAAG
Found at i:1222805 original size:34 final size:34
Alignment explanation
Indices: 1222763--1222861 Score: 98
Period size: 34 Copynumber: 2.9 Consensus size: 34
1222753 AAGGTATTTG
1222763 TTATCTTTTTAACTTTGAATATT-AAAGATAATTA
1 TTATCTTTTTAA-TTTGAATATTAAAAGATAATTA
*
1222797 -TATACTTTTGTATATTTCAA-ATTAAAAGAT-ATTA
1 TTAT-CTTTT-TA-ATTTGAATATTAAAAGATAATTA
* *
1222831 TTATCTGTTTAAAGTTGAATATTAAAAGATA
1 TTATCT-TTTTAATTTGAATATTAAAAGATA
1222862 TCTGGTTGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
33 8 0.15
34 25 0.47
35 19 0.36
36 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (34 bp):
TTATCTTTTTAATTTGAATATTAAAAGATAATTA
Found at i:1225617 original size:69 final size:69
Alignment explanation
Indices: 1225536--1225673 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
1225526 GTCTATTGTT
1225536 TAGTTAGTAAAGTAAATATATTGTCATAAGAAAATGTTCAAAGGAGAATACCTTATGCAACTATC
1 TAGTTAGTAAAGTAAATATATTGTCATAAGAAAATGTTCAAAGGAGAATACCTTATGCAACTATC
1225601 GATC
66 GATC
1225605 TAGTTAGTAAAGTAAATATATTGTCATAAGAAAATGTTCAAAGGAGAATACCTTATGCAACTATC
1 TAGTTAGTAAAGTAAATATATTGTCATAAGAAAATGTTCAAAGGAGAATACCTTATGCAACTATC
1225670 GATC
66 GATC
1225674 GTAGAGGCTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (69 bp):
TAGTTAGTAAAGTAAATATATTGTCATAAGAAAATGTTCAAAGGAGAATACCTTATGCAACTATC
GATC
Found at i:1225844 original size:32 final size:31
Alignment explanation
Indices: 1225785--1225844 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
1225775 TAATATTTAT
* *
1225785 ATTAAATTAATATTCATTTTGACTATTACAA
1 ATTAAATTAATATTCAATTTGAATATTACAA
* *
1225816 ATTAAATATATTATTTAATTTGAATATTA
1 ATTAAAT-TAATATTCAATTTGAATATTA
1225845 ATAGGATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 7 0.29
32 17 0.71
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (31 bp):
ATTAAATTAATATTCAATTTGAATATTACAA
Done.