Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_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: 2941097
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 16
Found at i:2027935 original size:150 final size:150
Alignment explanation
Indices: 2027664--2027968 Score: 565
Period size: 150 Copynumber: 2.0 Consensus size: 150
2027654 ATGAAGTTGG
2027664 GGTTGATCTGTACATCAGAGGTTCCTTCAAGAAGACCTAGCATGGCTGAAGTTGTTCAAGTTCTC
1 GGTTGATCTGTACATCAGAGGTTCCTTCAAGAAGACCTAGCATGGCTGAAGTTGTTCAAGTTCTC
* *
2027729 GAGTCCATCCGATCTGTAATCGAACCATAGTTAAAGTTCAAAGAAATGTTAGATGTCATTAATAC
66 GAGTCCATCCGATCTGGAATCGAACCATAGATAAAGTTCAAAGAAATGTTAGATGTCATTAATAC
2027794 CGCAAAGAGGACACAGATAA
131 CGCAAAGAGGACACAGATAA
2027814 GGTTGATCTGTACATCAGAGGTTCCTTCAAGAAGACCTAGCATGGCTGAAGTTGTTCAAGTTCTC
1 GGTTGATCTGTACATCAGAGGTTCCTTCAAGAAGACCTAGCATGGCTGAAGTTGTTCAAGTTCTC
* *
2027879 GAGTCCGTTCGATCTGGAATCGAACCATAGATAAAGTTCAAAGAAATGTTAGATGTCATTAATAC
66 GAGTCCATCCGATCTGGAATCGAACCATAGATAAAGTTCAAAGAAATGTTAGATGTCATTAATAC
2027944 CGCAAAGAGGACACAGATAA
131 CGCAAAGAGGACACAGATAA
*
2027964 AGTTG
1 GGTTG
2027969 CTGCTAGTTA
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (150 bp):
GGTTGATCTGTACATCAGAGGTTCCTTCAAGAAGACCTAGCATGGCTGAAGTTGTTCAAGTTCTC
GAGTCCATCCGATCTGGAATCGAACCATAGATAAAGTTCAAAGAAATGTTAGATGTCATTAATAC
CGCAAAGAGGACACAGATAA
Found at i:2029522 original size:23 final size:23
Alignment explanation
Indices: 2029496--2029541 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2029486 TCTTTTGTAT
2029496 TTTTTTTTCTTTCTCCAAATGCA
1 TTTTTTTTCTTTCTCCAAATGCA
2029519 TTTTTTTTCTTTCTCCAAATGCA
1 TTTTTTTTCTTTCTCCAAATGCA
2029542 AAGAGGCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTTTTTCTTTCTCCAAATGCA
Found at i:2032261 original size:832 final size:835
Alignment explanation
Indices: 2030655--2032327 Score: 3282
Period size: 832 Copynumber: 2.0 Consensus size: 835
2030645 TATATAAAAG
2030655 TAAAAAAAACCTACCTTGTTTTCTGCTAAACCCAGCTGAATGACCCCATTTGGATTTCTGAGTTC
1 TAAAAAAAACCTACCTTGTTTTCTGCTAAACCCAGCTGAATGACCCCATTTGGATTTCTGAGTTC
2030720 ATCATACGAATCCTCCTTAGCCCTCATCATTCCCAAAAAATACGGAGAATCCGCACCCTTCACGA
66 ATCATACGAATCCTCCTTAGCCCTCATCATTCCCAAAAAATACGGAGAATCCGCACCCTTCACGA
2030785 TCCCATTAACCCGACCCGAAACAGAGACGGGCCCAGTCTGACTCCGCGGAGATGACAAACCCCAA
131 TCCCATTAACCCGACCCGAAACAGAGACGGGCCCAGTCTGACTCCGCGGAGATGACAAACCCCAA
2030850 GAGTAATTACGTGTCAACCCAGGAAGCTCCGATAACTTCCCGAACGACGGGGAACGGGAGGTTGG
196 GAGTAATTACGTGTCAACCCAGGAAGCTCCGATAACTTCCCGAACGACGGGGAACGGGAGG-TGG
2030915 GTTTTGAGGCGAGGAATTCGAATTGTTCTGGTCATCCGCGTCTTTACGGTGCCGCTTCAAATAGA
260 GTTTTGAGGCGAGGAATTCGAATTGTTCTGGTCATCCGCGTCTTTACGGTGCCGCTTCAAATAGA
2030980 ACTGGAGGAAGTAAAAGAGCGCGCAAGGGATTATGGAGCCTAAAACTAGGCCTCCTCGTCCTTGA
325 ACTGGAGGAAGTAAAAGAGCGCGCAAGGGATTATGGAGCCTAAAACTAGGCCTCCTCGTCCTTGA
2031045 ACAACACCTTGCAGAGGAACTATCACTCTCATGGCTGTTTCCTTCTGGGTTTCCGGGCTCCGAGT
390 ACAACACCTTGCAGAGGAACTATCACTCTCATGGCTGTTTCCTTCTGGGTTTCCGGGCTCCGAGT
2031110 CCGGGATTAAAGGGTTTGTGTGTCATAGTAGTGAAGTCATGGCCACATAAGGAGAAGAGAAGAAT
455 CCGGGATTAAAGGGTTTGTGTGTCATAGTAGTGAAGTCATGGCCACATAAGGAGAAGAGAAGAAT
2031175 CGAAAATATCGGTATTACGATGAATCATGAATGGATGGATGGATAAAATAACAGCTTTGTGAGGG
520 CGAAAATATCGGTATTACGATGAATCATGAATGGATGGATGGATAAAATAACAGCTTTGTGAGGG
2031240 TTTTTAGGGAATTATGGGATGCACAGCCGGTCCTCGTCCTCGCCATAAGTGGGGGATTTAGCAGT
585 TTTTTAGGGAATTATGGGATGCACAGCCGGTCCTCGTCCTCGCCATAAGTGGGGGATTTAGCAGT
2031305 TGCGATTTTTAGGAGGGAAAAGCTGTGAGTTTACTGAAAGGCGAATTTTACCAAATTATCTACCC
650 TGCGATTTTTAGGAGGGAAAAGCTGTGAGTTTACTGAAAGGCGAATTTTACCAAATTATCTACCC
2031370 ACCATCGCTTGCAAATACATCAAACGTATTGTGTTTGATCATAGTTGTAGGATGAAGACCAGCGA
715 ACCATCGCTTGCAAATACATCAAACGTATTGTGTTTGATCATAGTTGTAGGATGAAGACCAGCGA
2031435 ATCTAAAAATATTTTTTCAGAAATAATTTTTTTTTATGGTTATGGATGAACTT-AA
780 ATCTAAAAATATTTTTTCAGAAATAATTTTTTTTTATGGTTATGGATGAACTTAAA
2031490 TAAAAAAAACCTACCTTGTTTTCTGCTAAACCCAGCTGAATGACCCCATTTGGATTTCTGAGTTC
1 TAAAAAAAACCTACCTTGTTTTCTGCTAAACCCAGCTGAATGACCCCATTTGGATTTCTGAGTTC
2031555 ATCATACGAATCCTCCTTAGCCCTCATCATTCCCAAAAAATACGGAGAATCCGCACCCTTCACGA
66 ATCATACGAATCCTCCTTAGCCCTCATCATTCCCAAAAAATACGGAGAATCCGCACCCTTCACGA
2031620 TCCCATTAACCCGACCCGAAACAGAGACGGGCCCAGTCTGACTCCGCGGAGATGACAAACCCCAA
131 TCCCATTAACCCGACCCGAAACAGAGACGGGCCCAGTCTGACTCCGCGGAGATGACAAACCCCAA
2031685 GAGTAATTACGTGTCAACCCAGGAAGCTCCGATAACTTCCCGAACGACGGGGAACGGGA-G-GGG
196 GAGTAATTACGTGTCAACCCAGGAAGCTCCGATAACTTCCCGAACGACGGGGAACGGGAGGTGGG
2031748 TTTTGAGGCGAGGAATTCGAATTGTTCTGGTCATCCGCGTCTTTACGGTGCCGCTTCAAATAGAA
261 TTTTGAGGCGAGGAATTCGAATTGTTCTGGTCATCCGCGTCTTTACGGTGCCGCTTCAAATAGAA
2031813 CTGGAGGAAGTAAAAGAGCGCGCAAGGGATTATGGAGCCTAAAACTAGGCCTCCTCGTCCTTGAA
326 CTGGAGGAAGTAAAAGAGCGCGCAAGGGATTATGGAGCCTAAAACTAGGCCTCCTCGTCCTTGAA
*
2031878 CAACACCTTGCAGAGGAACTATCACTCTCATGGCTGTTTCCTTCTGGGTTTCGGGGCTCCGAGTC
391 CAACACCTTGCAGAGGAACTATCACTCTCATGGCTGTTTCCTTCTGGGTTTCCGGGCTCCGAGTC
2031943 CGGGATTAAAGGGTTTGTGTGTCATAGTAGTGAAGTCATGGCCACATAAGGAGAAGAGAAGAATC
456 CGGGATTAAAGGGTTTGTGTGTCATAGTAGTGAAGTCATGGCCACATAAGGAGAAGAGAAGAATC
2032008 GAAAATATCGGTATTACGATGAATCATGAATGGATGGATGGATAAAATAACAGCTTTGTGAGGGT
521 GAAAATATCGGTATTACGATGAATCATGAATGGATGGATGGATAAAATAACAGCTTTGTGAGGGT
2032073 TTTTAGGGAATTATGGGATGCACAGCCGGTCCTCGTCCTCGCCATAAGTGGGGGATTTAGCAGTT
586 TTTTAGGGAATTATGGGATGCACAGCCGGTCCTCGTCCTCGCCATAAGTGGGGGATTTAGCAGTT
*
2032138 GTGATTTTTAGGAGGGAAAAGCTGTGAGTTTACTGAAATGGCGAATTTTACCAAATTATCTA-CC
651 GCGATTTTTAGGAGGGAAAAGCTGTGAGTTTACTGAAA-GGCGAATTTTACCAAATTATCTACCC
2032202 ACCATCGCTTGCAAATACATCAAACGTATTGTGTTTGATCATAGTTGTAGGATGAAGACCAGCGA
715 ACCATCGCTTGCAAATACATCAAACGTATTGTGTTTGATCATAGTTGTAGGATGAAGACCAGCGA
2032267 ATCTAAAAATATTTTTTCAGAAATAATTTTTTTTTATGGTTATGGATGAACTTAAA
780 ATCTAAAAATATTTTTTCAGAAATAATTTTTTTTTATGGTTATGGATGAACTTAAA
2032323 TAAAA
1 TAAAA
2032328 TTTTAAAATG
Statistics
Matches: 834, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
832 549 0.66
833 30 0.04
834 1 0.00
835 254 0.30
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (835 bp):
TAAAAAAAACCTACCTTGTTTTCTGCTAAACCCAGCTGAATGACCCCATTTGGATTTCTGAGTTC
ATCATACGAATCCTCCTTAGCCCTCATCATTCCCAAAAAATACGGAGAATCCGCACCCTTCACGA
TCCCATTAACCCGACCCGAAACAGAGACGGGCCCAGTCTGACTCCGCGGAGATGACAAACCCCAA
GAGTAATTACGTGTCAACCCAGGAAGCTCCGATAACTTCCCGAACGACGGGGAACGGGAGGTGGG
TTTTGAGGCGAGGAATTCGAATTGTTCTGGTCATCCGCGTCTTTACGGTGCCGCTTCAAATAGAA
CTGGAGGAAGTAAAAGAGCGCGCAAGGGATTATGGAGCCTAAAACTAGGCCTCCTCGTCCTTGAA
CAACACCTTGCAGAGGAACTATCACTCTCATGGCTGTTTCCTTCTGGGTTTCCGGGCTCCGAGTC
CGGGATTAAAGGGTTTGTGTGTCATAGTAGTGAAGTCATGGCCACATAAGGAGAAGAGAAGAATC
GAAAATATCGGTATTACGATGAATCATGAATGGATGGATGGATAAAATAACAGCTTTGTGAGGGT
TTTTAGGGAATTATGGGATGCACAGCCGGTCCTCGTCCTCGCCATAAGTGGGGGATTTAGCAGTT
GCGATTTTTAGGAGGGAAAAGCTGTGAGTTTACTGAAAGGCGAATTTTACCAAATTATCTACCCA
CCATCGCTTGCAAATACATCAAACGTATTGTGTTTGATCATAGTTGTAGGATGAAGACCAGCGAA
TCTAAAAATATTTTTTCAGAAATAATTTTTTTTTATGGTTATGGATGAACTTAAA
Found at i:2036753 original size:17 final size:17
Alignment explanation
Indices: 2036731--2036784 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
2036721 AATGTTAATA
2036731 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
2036748 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
2036765 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
2036782 TTT
1 TTT
2036785 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:2038340 original size:21 final size:21
Alignment explanation
Indices: 2038310--2038357 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2038300 GCAGGGGTAC
* *
2038310 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
2038331 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
2038352 ATGCCA
1 ATGCCA
2038358 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:2038387 original size:21 final size:21
Alignment explanation
Indices: 2038361--2038454 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
2038351 TATGCCATCT
* *
2038361 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
2038382 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
2038403 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
2038424 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
2038445 CCGCAGGGTT
1 CCGCAGGGTT
2038455 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:2039021 original size:40 final size:39
Alignment explanation
Indices: 2038977--2039060 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 39
2038967 AAATGTTTTT
* *
2038977 AAAATACAAATTATATTATTCGAAATTTAAATTTAAAATA
1 AAAATAAAAATAATATTATTC-AAATTTAAATTTAAAATA
2039017 AAAATAAAAATAATATTATTCAAATTTAAATTTAAAATA
1 AAAATAAAAATAATATTATTCAAATTTAAATTTAAAATA
*
2039056 TAAAT
1 AAAAT
2039061 TATAGTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 22 0.54
40 19 0.46
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (39 bp):
AAAATAAAAATAATATTATTCAAATTTAAATTTAAAATA
Found at i:2039046 original size:33 final size:34
Alignment explanation
Indices: 2039005--2039079 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
2038995 TTCGAAATTT
*
2039005 AAATTTAAAATAAAAATAAAAATAATATTATTC-
1 AAATTTAAAATAAAAATAAAAATAATAGTATTCG
* * * *
2039038 AAATTTAAATTTAAAATATAAATTATAGTATTCG
1 AAATTTAAAATAAAAATAAAAATAATAGTATTCG
2039072 AAATTTAA
1 AAATTTAA
2039080 CATTAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 28 0.78
34 8 0.22
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (34 bp):
AAATTTAAAATAAAAATAAAAATAATAGTATTCG
Found at i:2039699 original size:128 final size:128
Alignment explanation
Indices: 2039471--2039705 Score: 434
Period size: 128 Copynumber: 1.8 Consensus size: 128
2039461 TTATTCAAAC
* *
2039471 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATATGACAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGACAATGATAACATATTCTCTGA
*
2039536 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTAA
66 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTAA
*
2039599 TGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGACAATGATAACATATTCTCTGA
2039664 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT
66 CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT
2039706 GAATAGTGAA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 103 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (128 bp):
TGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGACAATGATAACATATTCTCTGA
CAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTAA
Found at i:2039791 original size:8 final size:8
Alignment explanation
Indices: 2039778--2039818 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2039768 TCACAATCTT
2039778 TCAAATTC
1 TCAAATTC
2039786 TCAAATTC
1 TCAAATTC
* *
2039794 CCAAACTC
1 TCAAATTC
2039802 T-AAATTC
1 TCAAATTC
2039809 TCAAATTC
1 TCAAATTC
2039817 TC
1 TC
2039819 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:2044867 original size:28 final size:28
Alignment explanation
Indices: 2044827--2044883 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2044817 TCGTCTAACC
2044827 GTCCTCAATTCAGCGGTGAAGGAATGCT
1 GTCCTCAATTCAGCGGTGAAGGAATGCT
2044855 GTCCTCAATTCAGCGGTGAAGGAATGCT
1 GTCCTCAATTCAGCGGTGAAGGAATGCT
2044883 G
1 G
2044884 ACTACGACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (28 bp):
GTCCTCAATTCAGCGGTGAAGGAATGCT
Found at i:2057740 original size:11 final size:11
Alignment explanation
Indices: 2057699--2057766 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 11
2057689 GTTTTTATTT
*
2057699 TAATATTTAAA
1 TAATATTTTAA
*
2057710 TAAAATCTTTAA
1 TAATAT-TTTAA
2057722 TTTAATATTTTAA
1 --TAATATTTTAA
2057735 TAATA-TTTAA
1 TAATATTTTAA
2057745 TAATGATTTGATAA
1 TAAT-ATTT--TAA
2057759 TAATATTT
1 TAATATTT
2057767 GATAATAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.19
11 11 0.23
12 6 0.13
13 9 0.19
14 12 0.26
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:2057748 original size:13 final size:13
Alignment explanation
Indices: 2057699--2057786 Score: 62
Period size: 13 Copynumber: 7.1 Consensus size: 13
2057689 GTTTTTATTT
2057699 TAATATTTAAATAA
1 TAATATTT-AATAA
* *
2057713 -AATCTTTAAT-T
1 TAATATTTAATAA
2057724 TAATATTT--TAA
1 TAATATTTAATAA
2057735 TAATATTTAATAA
1 TAATATTTAATAA
* *
2057748 T--GATTTGATAA
1 TAATATTTAATAA
*
2057759 TAATATTTGATAA
1 TAATATTTAATAA
*
2057772 TAATGAATTAATAA
1 TAAT-ATTTAATAA
2057786 T
1 T
2057787 TATTTGATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
10 1 0.02
11 17 0.29
12 9 0.16
13 23 0.40
14 8 0.14
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (13 bp):
TAATATTTAATAA
Found at i:2057783 original size:24 final size:25
Alignment explanation
Indices: 2057731--2057796 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
2057721 ATTTAATATT
* *
2057731 TTAATAATATTTAATAATGATTTGA
1 TTAATAATATTTGATAATGATATGA
2057756 -TAATAATATTTGATAAT-A-ATGAA
1 TTAATAATATTTGATAATGATATG-A
2057779 TTAATAATTATTTGATAA
1 TTAATAA-TATTTGATAA
2057797 CATTTTACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 22 0.61
25 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
TTAATAATATTTGATAATGATATGA
Found at i:2057987 original size:11 final size:11
Alignment explanation
Indices: 2057957--2058009 Score: 61
Period size: 11 Copynumber: 4.4 Consensus size: 11
2057947 TAAAAATATT
2057957 TAATGATTTGATA
1 TAATGATTT-A-A
2057970 CTAATGATTTAA
1 -TAATGATTTAA
2057982 TAATGATTACTAA
1 TAATGATT--TAA
2057995 TAATGATTTAA
1 TAATGATTTAA
2058006 TAAT
1 TAAT
2058010 TATTATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 15 0.41
12 1 0.03
13 12 0.32
14 9 0.24
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:2058075 original size:24 final size:24
Alignment explanation
Indices: 2057971--2058077 Score: 85
Period size: 24 Copynumber: 4.4 Consensus size: 24
2057961 GATTTGATAC
*
2057971 TAATGATTTAATAATGATTACTAA
1 TAATGATTTAATAATGATTATTAA
*
2057995 TAATGATTTAATAATTATTATTAA
1 TAATGATTTAATAATGATTATTAA
** * *
2058019 TTTAA--AAATAAGAAATGATT-TGATAC
1 --TAATGATTTAA-TAATGATTAT--TAA
*
2058045 TAATGATTTAGTAATGATTATTAA
1 TAATGATTTAATAATGATTATTAA
2058069 TAATGATTT
1 TAATGATTT
2058078 CGTTATGGTC
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
24 41 0.65
25 13 0.21
26 9 0.14
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (24 bp):
TAATGATTTAATAATGATTATTAA
Found at i:2059183 original size:13 final size:14
Alignment explanation
Indices: 2059160--2059189 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2059150 TTTAATAAAT
2059160 TTAAGATAAAAAAA
1 TTAAGATAAAAAAA
2059174 TTAA-ATAAAAAAA
1 TTAAGATAAAAAAA
2059187 TTA
1 TTA
2059190 CCTTCTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
TTAAGATAAAAAAA
Found at i:2059611 original size:50 final size:50
Alignment explanation
Indices: 2059521--2059620 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
2059511 TCATTATTGG
* * ***
2059521 TAATCATTATTAAATCATTAGTATCAAATTATTTCTTATTTTTAAATTAA
1 TAATAATTATTAAATCATTAGTATCAAATCATTAAATATTTTTAAATTAA
2059571 TAATAATTATTAAATCATTAGTATCAAATCATTAAATATTTTTAAATTAA
1 TAATAATTATTAAATCATTAGTATCAAATCATTAAATATTTTTAAATTAA
2059621 AAAATTCAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (50 bp):
TAATAATTATTAAATCATTAGTATCAAATCATTAAATATTTTTAAATTAA
Found at i:2059937 original size:19 final size:19
Alignment explanation
Indices: 2059913--2059949 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2059903 ATGACCAACA
*
2059913 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
2059932 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
2059950 CAGTATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:2060079 original size:20 final size:20
Alignment explanation
Indices: 2060056--2060186 Score: 138
Period size: 20 Copynumber: 6.5 Consensus size: 20
2060046 GAATATGTAA
2060056 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
2060076 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
***
2060096 AATCGCAATTTGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
* **
2060117 ATCACAACGTAATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2060137 ATCGCAACGCAATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2060157 ATCGCAACACGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2060177 TTCGCAACGC
1 ATCGCAACGC
2060187 TGAATTTCAA
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 75 0.82
21 12 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:2060739 original size:21 final size:21
Alignment explanation
Indices: 2060713--2060829 Score: 116
Period size: 21 Copynumber: 5.7 Consensus size: 21
2060703 CGAATATATA
*
2060713 AATCGCAACGTGATAATACAT
1 AATCGCAACGCGATAATACAT
**
2060734 AATCGCAACGCGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
* **
2060755 -ATCGCAATGCGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
2060775 -ATCGCAACGCGATAATACAT
1 AATCGCAACGCGATAATACAT
2060795 AATCGCAACGCGATAATACAT
1 AATCGCAACGCGATAATACAT
* *
2060816 AATCACAACTCGAT
1 AATCGCAACGCGAT
2060830 TCTGACTATT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 33 0.39
21 47 0.56
22 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (21 bp):
AATCGCAACGCGATAATACAT
Found at i:2060760 original size:20 final size:20
Alignment explanation
Indices: 2060735--2060866 Score: 133
Period size: 20 Copynumber: 6.5 Consensus size: 20
2060725 ATAATACATA
2060735 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2060755 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
2060775 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
**
2060795 AATCGCAACGCGATAAT-ACAT
1 -ATCGCAACGCGATTCTGAC-T
* *
2060816 AATCACAACTCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
2060837 ATTGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
2060857 GTCGCAACGC
1 ATCGCAACGC
2060867 TGAATTTCAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 58 0.60
21 34 0.35
22 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:2060804 original size:82 final size:82
Alignment explanation
Indices: 2060713--2060866 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
2060703 CGAATATATA
* * *
2060713 AATCGCAACGTGATAATACATAATCGCAACGCGATTCTGACTATCGCAATGCGATTCTGACTATC
1 AATCGCAACGCGATAATACATAATCACAACGCGATTCTGACTATCGCAACGCGATTCTGACTATC
2060778 GCAACGCGATAATACAT
66 GCAACGCGATAATACAT
* * *
2060795 AATCGCAACGCGATAATACATAATCACAACTCGATTCTGACTATTGCAACGCGATTCTGACTGTC
1 AATCGCAACGCGATAATACATAATCACAACGCGATTCTGACTATCGCAACGCGATTCTGACTATC
2060860 GCAACGC
66 GCAACGC
2060867 TGAATTTCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (82 bp):
AATCGCAACGCGATAATACATAATCACAACGCGATTCTGACTATCGCAACGCGATTCTGACTATC
GCAACGCGATAATACAT
Found at i:2063968 original size:18 final size:18
Alignment explanation
Indices: 2063945--2063979 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2063935 AGCAAAAGCC
2063945 AATCAAAATCGCAATCAA
1 AATCAAAATCGCAATCAA
*
2063963 AATCAAAATCTCAATCA
1 AATCAAAATCGCAATCA
2063980 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCGCAATCAA
Found at i:2064289 original size:140 final size:140
Alignment explanation
Indices: 2064037--2064319 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
2064027 GCAAACGTTG
*
2064037 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGTCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
2064102 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCCGTTCAGTTGTTATCACCTATTACACATTCATTTGAATATCGCAACG
*
2064167 TGAATTTGAC
131 CGAATTTGAC
2064177 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
2064242 TTGAACATTGCTATGATCCGTTCAGTTGTTATCACCTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCCGTTCAGTTGTTATCACCTATTACACATTCATTTGAATATCGCAACG
2064307 CGAATTTGAC
131 CGAATTTGAC
2064317 TAT
1 TAT
2064320 CGCAACGCAA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCCGTTCAGTTGTTATCACCTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:2064315 original size:20 final size:20
Alignment explanation
Indices: 2064290--2064509 Score: 205
Period size: 20 Copynumber: 11.7 Consensus size: 20
2064280 TTACACATTC
*
2064290 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2064310 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
2064329 A----A-AATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2064344 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
2064364 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2064384 ATTTGACTATCGTAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
2064404 ATTTGATTATTGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
2064424 ATTTGACTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
* *
2064444 ATTTGACTATCACAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
2064464 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
2064478 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2064498 A-TTGACTTTCGC
1 ATTTGACTATCGC
2064510 GTTGCAATTT
Statistics
Matches: 163, Mismatches: 25, Indels: 25
0.77 0.12 0.12
Matches are distributed among these distances:
14 18 0.11
15 3 0.02
16 1 0.01
18 1 0.01
19 12 0.07
20 128 0.79
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:2064562 original size:20 final size:20
Alignment explanation
Indices: 2064499--2064576 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
2064489 GCAACGCGAA
* *
2064499 TTGACTTTCGCGTTGCAATT
1 TTGACTTTCGCATTGCGATT
*
2064519 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
2064539 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
2064559 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
2064577 AAGTATACCT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.44
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:2064715 original size:14 final size:14
Alignment explanation
Indices: 2064696--2064752 Score: 80
Period size: 14 Copynumber: 4.1 Consensus size: 14
2064686 CATCAATTAA
2064696 ACAAATCAACTTTT
1 ACAAATCAACTTTT
2064710 ACAAATCAACTTTT
1 ACAAATCAACTTTT
**
2064724 ACAAATCAA-TTAA
1 ACAAATCAACTTTT
2064737 ACAAATCAGACTTTT
1 ACAAATCA-ACTTTT
2064752 A
1 A
2064753 AGAATCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
13 10 0.27
14 24 0.65
15 3 0.08
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2064732 original size:28 final size:28
Alignment explanation
Indices: 2064696--2064768 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
2064686 CATCAATTAA
**
2064696 ACAAATCAACTTTTACAAATCA-ACTTTT
1 ACAAATCAA-TTAAACAAATCAGACTTTT
2064724 ACAAATCAATTAAACAAATCAGACTTTT
1 ACAAATCAATTAAACAAATCAGACTTTT
2064752 A-AGAATCAATTAAACAA
1 ACA-AATCAATTAAACAA
2064769 TCAAAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 11 0.27
28 30 0.73
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.29
Consensus pattern (28 bp):
ACAAATCAATTAAACAAATCAGACTTTT
Found at i:2064742 original size:13 final size:14
Alignment explanation
Indices: 2064687--2064749 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
2064677 TTATTTATAC
2064687 ATCAA-TTAAACAA
1 ATCAACTTAAACAA
**
2064700 ATCAACTTTTACAA
1 ATCAACTTAAACAA
**
2064714 ATCAACTTTTACAA
1 ATCAACTTAAACAA
2064728 ATCAA-TTAAACAA
1 ATCAACTTAAACAA
2064741 ATCAGACTT
1 ATCA-ACTT
2064750 TTAAGAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 15 0.35
14 26 0.60
15 2 0.05
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (14 bp):
ATCAACTTAAACAA
Found at i:2066052 original size:21 final size:21
Alignment explanation
Indices: 2066028--2066130 Score: 100
Period size: 21 Copynumber: 4.9 Consensus size: 21
2066018 ATGGGAGAGA
*
2066028 CCTCTTCAACGATGACAGGGG
1 CCTCTTGAACGATGACAGGGG
* **
2066049 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGACAGGGG
* ** *
2066070 ACTCTTGAGGGATGATAGGGG
1 CCTCTTGAACGATGACAGGGG
* *
2066091 CCTCTTGAACGAT-AGGAGAGG
1 CCTCTTGAACGATGA-CAGGGG
2066112 CCTCTTGAACGATGACAGG
1 CCTCTTGAACGATGACAGG
2066131 TACTGAGTCT
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
20 1 0.02
21 61 0.97
22 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.20
Consensus pattern (21 bp):
CCTCTTGAACGATGACAGGGG
Found at i:2066075 original size:42 final size:42
Alignment explanation
Indices: 2066008--2066130 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
2065998 GTGAATCGGG
* * *
2066008 CTCTTGAATGATGGGAGA-GACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATAGGAGAGGA-CTCTTGAACGATGACAGGGGC
* * * ** *
2066050 CTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATAGGAGAGGACTCTTGAACGATGACAGGGGC
*
2066092 CTCTTGAACGATAGGAGAGGCCTCTTGAACGATGACAGG
1 CTCTTGAACGATAGGAGAGGACTCTTGAACGATGACAGG
2066131 TACTGAGTCT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 64 0.97
43 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGATAGGAGAGGACTCTTGAACGATGACAGGGGC
Found at i:2066106 original size:18 final size:21
Alignment explanation
Indices: 2066008--2066124 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 21
2065998 GTGAATCGGG
* * *
2066008 CTCTTGAATGATGGGAGAGAC
1 CTCTTGAACGATAGGAGAGGC
* * *
2066029 CTCTTCAACGAT-GACAGGGGC
1 CTCTTGAACGATAG-GAGAGGC
* * * *
2066050 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGATAGGAGAGGC
** * *
2066071 CTCTTGAGGGAT-GATAGGGGC
1 CTCTTGAACGATAG-GAGAGGC
2066092 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATAGGAGAGGC
2066113 CTCTTGAACGAT
1 CTCTTGAACGAT
2066125 GACAGGTACT
Statistics
Matches: 74, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.03
21 70 0.95
22 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATAGGAGAGGC
Found at i:2066626 original size:20 final size:20
Alignment explanation
Indices: 2066603--2066651 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
2066593 GAAACTTAAA
*
2066603 ATCGCAACGCGAAAATGACT
1 ATCGCAACACGAAAATGACT
*
2066623 ATCGCAACACGGAAATGACT
1 ATCGCAACACGAAAATGACT
2066643 ATCGCAACA
1 ATCGCAACA
2066652 AGATAATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:2066778 original size:33 final size:34
Alignment explanation
Indices: 2066717--2066792 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 34
2066707 ACTAAATTCG
* * *
2066717 CGTTGTGATTTTCATTTTTGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
* *
2066751 CGTTGCGATTTTTA-TTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
2066784 CGTTGCGAT
1 CGTTGCGAT
2066793 AGTCAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATCA
Found at i:2066809 original size:20 final size:20
Alignment explanation
Indices: 2066784--2066832 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2066774 GCGATTATCT
2066784 CGTTGCGATAGTCAAATTT-G
1 CGTTGCGATAGTC-AATTTCG
*
2066804 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
2066824 CGTTGCGAT
1 CGTTGCGAT
2066833 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:2068734 original size:20 final size:20
Alignment explanation
Indices: 2068711--2068800 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
2068701 TCTGAAACTT
2068711 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
2068731 AAAACCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** ** **
2068751 ACTATCGCAACGTGAATTTG
1 AAAATCGCAACACGAAAATG
** *
2068771 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
2068790 AAAATCGCAAC
1 AAAATCGCAAC
2068801 GAGAAAATCG
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
19 12 0.21
20 45 0.79
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:2068808 original size:14 final size:14
Alignment explanation
Indices: 2068789--2068820 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2068779 AACGCGAAAT
2068789 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
2068803 GAAAATCGCAACGC
1 GAAAATCGCAACGA
2068817 GAAA
1 GAAA
2068821 CTAAAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:2069186 original size:22 final size:22
Alignment explanation
Indices: 2069159--2069216 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
2069149 GATGGAGATA
2069159 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
2069181 GACGGATTTCGTCGGAGATGTG
1 GACGGATTTCGCCGGAGATGGG
*
2069203 GACGGATGTCGCCG
1 GACGGATTTCGCCG
2069217 TAGAGAGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2069448 original size:21 final size:21
Alignment explanation
Indices: 2069424--2069470 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2069414 TATTCGCATT
*
2069424 GCGATTTTCTAAAATCGCAAC
1 GCGATTTTCGAAAATCGCAAC
* * *
2069445 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCGAAAATCGCAAC
2069466 GCGAT
1 GCGAT
2069471 AGTCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GCGATTTTCGAAAATCGCAAC
Found at i:2069539 original size:19 final size:19
Alignment explanation
Indices: 2069515--2069551 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2069505 TGCAATACTG
*
2069515 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
2069534 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
2069552 TTGTTTGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:2069675 original size:20 final size:20
Alignment explanation
Indices: 2069647--2069686 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2069637 ATCAAAAATG
2069647 TTATAAAATCATTATTATCA
1 TTATAAAATCATTATTATCA
*
2069667 TTATTAAATCATTATTATCA
1 TTATAAAATCATTATTATCA
2069687 AATCATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATAAAATCATTATTATCA
Found at i:2069683 original size:14 final size:13
Alignment explanation
Indices: 2069666--2069729 Score: 64
Period size: 14 Copynumber: 5.1 Consensus size: 13
2069656 CATTATTATC
2069666 ATTATTAAATCATT
1 ATTATTAAAT-ATT
*
2069680 ATTATCAAATCATT
1 ATTATTAAAT-ATT
*
2069694 ATTA-TCAA-ATT
1 ATTATTAAATATT
2069705 ATTATTAAATATT
1 ATTATTAAATATT
2069718 ATTA--AAATATT
1 ATTATTAAATATT
2069729 A
1 A
2069730 AATTAAAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
11 15 0.34
12 3 0.07
13 9 0.20
14 17 0.39
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTATTAAATATT
Found at i:2070714 original size:24 final size:24
Alignment explanation
Indices: 2070658--2070716 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
2070648 TCATTTATTA
*
2070658 TGTTCGTTTATGTTTGTTTACATC
1 TGTTCGTTTATGTTTGTTCACATC
* * * * *
2070682 CGTTTGTTTGTGTTTGTTCATATG
1 TGTTCGTTTATGTTTGTTCACATC
2070706 TGTTCGTTTAT
1 TGTTCGTTTAT
2070717 CATTTAAATG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.59
Consensus pattern (24 bp):
TGTTCGTTTATGTTTGTTCACATC
Found at i:2071042 original size:18 final size:19
Alignment explanation
Indices: 2071007--2071043 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2070997 CACGGAATGT
2071007 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
2071027 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
2071044 GGATTACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:2071762 original size:90 final size:89
Alignment explanation
Indices: 2071601--2071778 Score: 313
Period size: 90 Copynumber: 2.0 Consensus size: 89
2071591 AATGTGGATT
*
2071601 ACATTCTCATGTGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
1 ACATTCTCATGGGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
2071666 AAGGGGGAAGGTCGTAATTTCGTCC
66 AAGGGGG-AGGTCGTAATTTCGTCC
*
2071691 ACATTTTCATGGGAATCTCACATTCCCCCATCCAAACACCC-CTAAGTCTCCATCTTCTCCAAAG
1 ACATTCTCATGGGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
2071755 AAGGGGGGAGGTCGTAATTTCGTC
66 AA-GGGGGAGGTCGTAATTTCGTC
2071779 ACTCTACTTT
Statistics
Matches: 85, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
89 41 0.48
90 44 0.52
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (89 bp):
ACATTCTCATGGGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
AAGGGGGAGGTCGTAATTTCGTCC
Found at i:2071777 original size:89 final size:90
Alignment explanation
Indices: 2071601--2071778 Score: 322
Period size: 89 Copynumber: 2.0 Consensus size: 90
2071591 AATGTGGATT
*
2071601 ACATTCTCATGTGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
1 ACATTCTCATGGGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
2071666 AAGGGGGAAGGTCGTAATTTCGTCC
66 AAGGGGGAAGGTCGTAATTTCGTCC
*
2071691 ACATTTTCATGGGAATCTCACATTCCCCCATCCAAACACCC-CTAAGTCTCCATCTTCTCCAAAG
1 ACATTCTCATGGGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
*
2071755 AAGGGGGGAGGTCGTAATTTCGTC
66 AAGGGGGAAGGTCGTAATTTCGTC
2071779 ACTCTACTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 46 0.54
90 39 0.46
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (90 bp):
ACATTCTCATGGGAATCTCACATTCCCCCATCCAAACACCCTCTAAGTCTCCATCTTCTCCAAAG
AAGGGGGAAGGTCGTAATTTCGTCC
Found at i:2085515 original size:238 final size:238
Alignment explanation
Indices: 2085084--2085572 Score: 762
Period size: 238 Copynumber: 2.1 Consensus size: 238
2085074 GAAGAAGATT
* ** *
2085084 TTCAATTCTGCCAGCCGATTTTCATGAAGAAACAAACTGTTGTTTTGTGAAGAGGTTCTCCACCA
1 TTCAAATCTGCCAGCCGATTTTCATGAAGAAACAAACAATTGTTTTGTAAAGAGGTTCTCCACCA
* *
2085149 CCGACTGACTCATCTTCCACAGCCAATTTCCCACTGACGGCCTCATTTCCCGTTATTTTCTTCCG
66 CCGACTGACACATCTTCCACAGCCAATTTCCCACTGACGGCCTCATTTCCCGTTATTCTCTTCCG
* *
2085214 CCGTTGATCACCGGATCTTCTAGATTTGCTTGCCTCGACGCCAACATCAAGGATATGCTTCGTTT
131 CCGTTGATCACCGGATCTTCCAGATTTGCTTGCCTCGACGCCAACATCAAGGATATACTTCGTTT
*
2085279 CTTGAGGGAGATCCTCATCTTAATGAACCTAAGCCAAGTGTTC
196 CTTGAGGGAGATCCTCATCTCAATGAACCTAAGCCAAGTGTTC
* *
2085322 TTCAAATCTGCCAGTCGATTTTCATGAAGAAACAAGCAATTGTTTTGTAAAGAGGTTCTCCACCA
1 TTCAAATCTGCCAGCCGATTTTCATGAAGAAACAAACAATTGTTTTGTAAAGAGGTTCTCCACCA
* * * * * *
2085387 CCGACTGACACATCTTCCATAGCCGATTTCTCACTGACGGCCTCTTTTCCCGTTCTTCTCTTCTG
66 CCGACTGACACATCTTCCACAGCCAATTTCCCACTGACGGCCTCATTTCCCGTTATTCTCTTCCG
* **
2085452 TCGTTGATCACCGGATCTTCCAGATTTGCTTGCCTCGACGCCAGTATCAAGGATATACTTCGTTT
131 CCGTTGATCACCGGATCTTCCAGATTTGCTTGCCTCGACGCCAACATCAAGGATATACTTCGTTT
* * * *
2085517 CTTGAGGGAGATCCTCATCTCAGTGGATCTAAGCCGAGTGTTC
196 CTTGAGGGAGATCCTCATCTCAATGAACCTAAGCCAAGTGTTC
2085560 TTCAAATCTGCCA
1 TTCAAATCTGCCA
2085573 CCGTCGTCGG
Statistics
Matches: 227, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
238 227 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (238 bp):
TTCAAATCTGCCAGCCGATTTTCATGAAGAAACAAACAATTGTTTTGTAAAGAGGTTCTCCACCA
CCGACTGACACATCTTCCACAGCCAATTTCCCACTGACGGCCTCATTTCCCGTTATTCTCTTCCG
CCGTTGATCACCGGATCTTCCAGATTTGCTTGCCTCGACGCCAACATCAAGGATATACTTCGTTT
CTTGAGGGAGATCCTCATCTCAATGAACCTAAGCCAAGTGTTC
Found at i:2097757 original size:32 final size:36
Alignment explanation
Indices: 2097720--2097784 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
2097710 GTATTTGGTT
2097720 AGAAGAAA-G-GAG-TTTGT-TGTGTAAGAGATTGA
1 AGAAGAAATGAGAGTTTTGTGTGTGTAAGAGATTGA
*
2097752 AGAAGAAATGAGTGTTTTGTGTGTGTAAGAGAT
1 AGAAGAAATGAGAGTTTTGTGTGTGTAAGAGAT
2097785 GAAAGAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 8 0.29
33 1 0.04
34 2 0.07
35 5 0.18
36 12 0.43
ACGTcount: A:0.35, C:0.00, G:0.34, T:0.31
Consensus pattern (36 bp):
AGAAGAAATGAGAGTTTTGTGTGTGTAAGAGATTGA
Found at i:2098323 original size:21 final size:21
Alignment explanation
Indices: 2098273--2098324 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2098263 ATTATGACTA
2098273 TCGCAATGC-ATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
2098293 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
2098314 TCGCAATGCGA
1 TCGCAATGCGA
2098325 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:2098339 original size:20 final size:21
Alignment explanation
Indices: 2098314--2098365 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2098304 TTTTCCCAAT
*
2098314 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
2098334 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2098355 TCGCAATGCGA
1 TCGCAATGCGA
2098366 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2098379 original size:20 final size:20
Alignment explanation
Indices: 2098354--2098447 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
2098344 AATTTGGAAA
*
2098354 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
2098374 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2098394 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
2098414 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
2098434 ATCGCAACGAGATA
1 ATCGCAACGCGATA
2098448 ATACAGAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2099071 original size:14 final size:14
Alignment explanation
Indices: 2099052--2099105 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
2099042 GAAAATCGCA
2099052 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
2099066 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
2099083 CATTGCGATTCTCTCG
1 --TTGCGATTTTCTCG
2099099 TTGCGAT
1 TTGCGAT
2099106 AGTCAGTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:2099071 original size:33 final size:33
Alignment explanation
Indices: 2099034--2099104 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
2099024 AAAATCGCAA
*
2099034 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
** ** **
2099067 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
2099100 TGCGA
1 TGCGA
2099105 TAGTCAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
Found at i:2100724 original size:41 final size:42
Alignment explanation
Indices: 2100679--2100770 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
2100669 CCTCTTCAAC
* *
2100679 GATGACAGTGGCCTCTTGAACG-GCGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGCGGAGGGGACTCTTGAGG
* **
2100720 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGCGGAGGGGACTCTTGAGG
2100762 GATGACAGG
1 GATGACAGG
2100771 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.21
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGCGGAGGGGACTCTTGAGG
Found at i:2100735 original size:21 final size:21
Alignment explanation
Indices: 2100706--2100766 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
2100696 GAACGGCGGG
*
2100706 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
2100727 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
2100748 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
2100767 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:2101145 original size:20 final size:20
Alignment explanation
Indices: 2101108--2101168 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
2101098 GAAGAATAGT
** *
2101108 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAATGCGAAAA
2101128 TTACTTTCGCAATGCGAAAA
1 TTACTTTCGCAATGCGAAAA
* * *
2101148 TGACTATCGCAATGCGGAAA
1 TTACTTTCGCAATGCGAAAA
2101168 T
1 T
2101169 GGCTATCGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAATGCGAAAA
Found at i:2101169 original size:20 final size:19
Alignment explanation
Indices: 2101134--2101208 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
2101124 AAACTTACTT
2101134 TCGCAATGCGAAAATGACTA
1 TCGCAATGCG-AAATGACTA
*
2101154 TCGCAATGCGGAAATGGCTA
1 TCGCAATGC-GAAATGACTA
* **
2101174 TCGCAACGCGAAATGAAAA
1 TCGCAATGCGAAATGACTA
*
2101193 TAGCAATGCGAAATGA
1 TCGCAATGCGAAATGA
2101209 AAATCGAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
19 21 0.45
20 25 0.53
21 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (19 bp):
TCGCAATGCGAAATGACTA
Found at i:2101198 original size:19 final size:19
Alignment explanation
Indices: 2101176--2101212 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2101166 AATGGCTATC
2101176 GCAACGCGAAATGAAAATA
1 GCAACGCGAAATGAAAATA
*
2101195 GCAATGCGAAATGAAAAT
1 GCAACGCGAAATGAAAAT
2101213 CGAAACGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATA
Found at i:2101226 original size:33 final size:33
Alignment explanation
Indices: 2101189--2101271 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
2101179 ACGCGAAATG
2101189 AAAATAGCAATGCGAAATGAAAATCGA-AACGAC
1 AAAATAGCAATGCGAAATGAAAATC-ACAACGAC
2101222 AAAATAGCAATGCGAAATGAAAATCACAACGAC
1 AAAATAGCAATGCGAAATGAAAATCACAACGAC
* *
2101255 AAAATCGCAACGCGAAA
1 AAAATAGCAATGCGAAA
2101272 CACAAATCGC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 1 0.02
33 46 0.98
ACGTcount: A:0.54, C:0.18, G:0.17, T:0.11
Consensus pattern (33 bp):
AAAATAGCAATGCGAAATGAAAATCACAACGAC
Found at i:2101300 original size:19 final size:19
Alignment explanation
Indices: 2101278--2101361 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
2101268 GAAACACAAA
2101278 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
2101297 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
2101313 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* **
2101330 TCGCATTGCAATAGTCATT
1 TCGCATTGCGATTTTCATT
*
2101349 TCCGCGTTGCGAT
1 T-CGCATTGCGAT
2101362 AGTCATTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 4 0.08
17 4 0.08
18 3 0.06
19 22 0.43
20 9 0.18
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2101363 original size:20 final size:19
Alignment explanation
Indices: 2101314--2101380 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
2101304 GCGATTTTGT
**
2101314 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
2101333 CATTGCAATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
2101353 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
2101373 TGTTGCGA
1 CGTTGCGA
2101381 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.33
20 23 0.59
21 3 0.08
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:2101938 original size:18 final size:18
Alignment explanation
Indices: 2101915--2101962 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
2101905 CGGGTCGATC
2101915 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
2101933 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
2101951 AGGTGATGGCTC
1 AGGTGATGGCTC
2101963 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:2103304 original size:20 final size:20
Alignment explanation
Indices: 2103279--2103352 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
2103269 AATAGTTTCT
2103279 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
* *
2103299 GAAAATGACAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
* ** *
2103319 GAATATGACTATCGCAACAA
1 GAAAATGAAAATCGCAACAC
*
2103339 GAGAAT-AAAATCGC
1 GAAAATGAAAATCGC
2103353 GTTGCGATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 6 0.14
20 38 0.86
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.14
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2103628 original size:22 final size:22
Alignment explanation
Indices: 2103601--2103644 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2103591 GATGGAGATA
2103601 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2103623 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2103645 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2103944 original size:20 final size:20
Alignment explanation
Indices: 2103830--2103934 Score: 131
Period size: 20 Copynumber: 5.2 Consensus size: 20
2103820 GATTATGTAT
*
2103830 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2103850 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
2103870 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
2103890 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
2103911 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
2103931 TATC
1 TATC
2103935 ACATTGCGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
19 3 0.04
20 55 0.74
21 14 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2103947 original size:41 final size:41
Alignment explanation
Indices: 2103810--2103945 Score: 177
Period size: 41 Copynumber: 3.3 Consensus size: 41
2103800 CGCTTTGAAA
*
2103810 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * *
2103851 ATCGCGTTGCGA--AAGTAAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * *
2103891 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
*
2103932 ATCACATTGCGATT
1 ATCGCATTGCGATT
2103946 TTCCCAATTA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.04
40 33 0.40
41 44 0.54
42 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:2103961 original size:41 final size:40
Alignment explanation
Indices: 2103814--2103965 Score: 110
Period size: 41 Copynumber: 3.7 Consensus size: 40
2103804 TTGAAAATCG
* ** * *
2103814 CATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGTATCG
1 CATTGCGATTTTCAATTATC-CGTTGCGATAGTCAGTATCA
* *** * * *
2103855 CGTTGCGAAAGT-AAGTATCGCGTTGCGAAAGTCAGTATCG
1 CATTGCGATTTTCAATTATC-CGTTGCGATAGTCAGTATCA
* **
2103895 CGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCA
1 CATTGCGATTTTCAATTATC-CGTTGCGATAGTCAGTATCA
2103936 CATTGCGATTTTCCCAATTAT-CGTTGCGAT
1 CATTGCGATTTT--CAATTATCCGTTGCGAT
2103966 TTACTTATTC
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 34 0.37
41 52 0.57
43 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (40 bp):
CATTGCGATTTTCAATTATCCGTTGCGATAGTCAGTATCA
Found at i:2104000 original size:21 final size:21
Alignment explanation
Indices: 2103974--2104047 Score: 114
Period size: 21 Copynumber: 3.5 Consensus size: 21
2103964 ATTTACTTAT
2103974 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATTGGGAAAA
2103995 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATTGGGAAAA
**
2104016 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCG-AATTGGGAAAA
2104037 TCGCATTGCGA
1 TCGCATTGCGA
2104048 TAGTCATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
20 1 0.02
21 43 0.90
22 4 0.08
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.22
Consensus pattern (21 bp):
TCGCATTGCGAATTGGGAAAA
Found at i:2105111 original size:1 final size:1
Alignment explanation
Indices: 2105101--2105183 Score: 85
Period size: 1 Copynumber: 83.0 Consensus size: 1
2105091 CTGGTTAAAC
* * * * * * *
2105101 AAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAAAAAAAATAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
2105166 TAAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAA
2105184 TAAATTTATC
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:2105114 original size:8 final size:8
Alignment explanation
Indices: 2105101--2105181 Score: 134
Period size: 8 Copynumber: 10.6 Consensus size: 8
2105091 CTGGTTAAAC
2105101 AAAAATAA
1 AAAAATAA
2105109 AAAAATAA
1 AAAAATAA
2105117 AAAAATAA
1 AAAAATAA
2105125 AAAAATAA
1 AAAAATAA
2105133 AAAAAT--
1 AAAAATAA
2105139 AAAAA-AA
1 AAAAATAA
2105146 AAAAAT-A
1 AAAAATAA
2105153 AAAAATAA
1 AAAAATAA
2105161 AAAAATAA
1 AAAAATAA
2105169 AAAAATAA
1 AAAAATAA
2105177 AAAAA
1 AAAAA
2105182 AATAAATTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
6 5 0.07
7 12 0.17
8 52 0.75
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:2105156 original size:36 final size:37
Alignment explanation
Indices: 2105101--2105188 Score: 151
Period size: 36 Copynumber: 2.4 Consensus size: 37
2105091 CTGGTTAAAC
2105101 AAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAAAT
1 AAAAA-AAAAAAATAAAAAAATAAAAAAATAAAAAAAT
2105139 AAAAAAAAAAAAT-AAAAAATAAAAAAATAAAAAAAT
1 AAAAAAAAAAAATAAAAAAATAAAAAAATAAAAAAAT
2105175 AAAAAAAAATAAAT
1 AAAAAAAAA-AAAT
2105189 TTATCAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 32 0.65
37 12 0.24
38 5 0.10
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (37 bp):
AAAAAAAAAAAATAAAAAAATAAAAAAATAAAAAAAT
Found at i:2106730 original size:18 final size:17
Alignment explanation
Indices: 2106676--2106739 Score: 92
Period size: 17 Copynumber: 3.7 Consensus size: 17
2106666 TATGGAATTG
*
2106676 GATTTCAATTCCTGACA
1 GATTCCAATTCCTGACA
*
2106693 AATTCCAATTCCTGACA
1 GATTCCAATTCCTGACA
*
2106710 GATTCCAATTCCTTCACA
1 GATTCCAATTCC-TGACA
2106728 GATTCCAATTCC
1 GATTCCAATTCC
2106740 CTCATAAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 26 0.62
18 16 0.38
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (17 bp):
GATTCCAATTCCTGACA
Found at i:2109089 original size:23 final size:23
Alignment explanation
Indices: 2109063--2109110 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2109053 ATAAAATACA
* *
2109063 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCACTTAT
**
2109086 ATAATGTAATAGGTAGCACTTAT
1 ATAACATAATAGGTAGCACTTAT
2109109 AT
1 AT
2109111 TTACTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:2109563 original size:23 final size:23
Alignment explanation
Indices: 2109537--2109599 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
2109527 ATATAACCAC
2109537 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
2109560 TACCCATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
2109583 TACATATTACATCATAT
1 TACCTATTACATTATAT
2109600 TTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2110001 original size:25 final size:25
Alignment explanation
Indices: 2109944--2110009 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
2109934 CACTCAAAAG
*
2109944 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
2109969 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
2109994 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
2110010 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:2110473 original size:198 final size:198
Alignment explanation
Indices: 2110115--2113026 Score: 5242
Period size: 198 Copynumber: 14.8 Consensus size: 198
2110105 TAACTATAAC
* ** *
2110115 GTGTCGACACATTATTTAGACATATTATCTCATAAAATTGGTATACTTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2110180 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2110245 TCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTAT
2110309 ATTA
195 ATTA
2110313 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2110378 AAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2110442 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2110507 TTA
196 TTA
* * *
2110510 GTGTCGACACATTATTTATACATATTATCTCATAAAACAGGTATAATTGTA-CGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2110574 AAATTAC--A-T--ATTATACTTTTGGGTTCGATGA-TTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
*
2110633 TCGACACTTTATGGGTGCACCCTGTTTTCTATTCATTCTGGAAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2110698 TTA
196 TTA
*
2110701 GTGTCGACACATTATTTAGACATA-TCTCTC-TAAAACCGGTATAATTGTACCAGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2110764 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2110829 TCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTAT
2110893 ATTA
195 ATTA
* *
2110897 GTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
*
2110962 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTACATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
**
2111027 TCGGTACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2111092 TTA
196 TTA
2111095 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
*
2111160 AAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2111225 TCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTAT
2111289 ATTA
195 ATTA
2111293 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT-ATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2111357 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2111421 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2111486 TTA
196 TTA
* *
2111489 GTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2111554 AAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
*
2111618 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACCATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2111683 TTA
196 TTA
* *
2111686 GTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2111751 AAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2111815 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTAT
2111880 ATTA
195 ATTA
2111884 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2111949 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2112013 TCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC--T
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTAT
2112075 ATTA
195 ATTA
* *
2112079 GTGTCGACACATTA-TTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
*
2112143 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATGTATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
** *
2112208 TCGGTACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAGCTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2112273 TTA
196 TTA
2112276 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2112341 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
* *
2112406 TCAACACTTTATAGGTGCACCCTG-TTTCCATTCATTCTGGGAAAAAAAATATCGACACAAACTA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GG-AAAAAAATATCGACACAAACTA
2112470 TATTA
194 TATTA
2112475 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2112540 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2112605 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2112670 TTA
196 TTA
* * *
2112673 TTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2112738 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
*
2112803 TCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGGAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2112867 TTA
196 TTA
* * *
2112870 GTGTCGACACATTATTTAGACACATTCTCTCATAAAACCGGTAGACTTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
* * *
2112935 AAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTATATATGG
66 AAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTATATATGG
2113000 ATCGACACTTTATGGGTGCACCCTGTT
130 ATCGACACTTTATGGGTGCACCCTGTT
2113027 GGCCATATTG
Statistics
Matches: 2623, Mismatches: 61, Indels: 59
0.96 0.02 0.02
Matches are distributed among these distances:
189 18 0.01
190 24 0.01
191 125 0.05
192 15 0.01
193 2 0.00
194 100 0.04
195 109 0.04
196 272 0.10
197 738 0.28
198 980 0.37
199 226 0.09
200 14 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (198 bp):
GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
TTA
Found at i:2111872 original size:789 final size:791
Alignment explanation
Indices: 2110115--2113026 Score: 5270
Period size: 789 Copynumber: 3.7 Consensus size: 791
2110105 TAACTATAAC
** *
2110115 GTGTCGACACATTATTTAGACATATTATCTCATAAAATTGGTATACTTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2110180 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2110245 TCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTAT
2110309 ATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGAT
195 ATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGAT
*
2110374 TGAAAAATTACATATTACATTAT-ACTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
260 TGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
2110438 TGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAAC
325 TGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAATATCGACACAAAC
* *
2110503 TATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACAGGTATAATTGTA-CGGTTA
389 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
2110567 GATTGAAAAATTAC--A-T--ATTATACTTTTGGGTTCGATGA-TTTGGGATCGACACTTTTTAT
454 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
*
2110626 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCTATTCATTCTGGAAAAAAATATCGACACA
519 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACA
*
2110691 AACTATATTAGTGTCGACACATTATTTAGACATA-TCTCTC-TAAAACCGGTATAATTGTACCAG
584 AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGG
2110754 TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTT
649 TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTT
2110819 TATATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAAAAAATATCGAC
714 TATATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAAAAAATATCGAC
2110884 ACAAACTATATTA
779 ACAAACTATATTA
*
2110897 GTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
*
2110962 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTACATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
**
2111027 TCGGTACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
2111092 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATT
196 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATT
2111157 GAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATAT
261 GAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATAT
2111222 GGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACT
326 GGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACT
*
2111287 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT-ATTGTACCGGTTAG
390 ATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAG
2111351 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATA
455 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
2111415 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAA
520 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAA
* *
2111480 ACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGT
585 ACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGT
2111545 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGATCGACACTTTTT
650 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTT
2111609 ATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGAC
715 ATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAAATATCGAC
*
2111673 ACAAACCATATTA
779 ACAAACTATATTA
*
2111686 GTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2111751 AAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2111815 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAACTAT
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAACTAT
2111880 ATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGAT
195 ATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGAT
*
2111945 TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTATATA
260 TGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
2112009 TGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
325 TGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGG-AAAAAAATATCGACACAAAC
*
2112074 --TATTAGTGTCGACACATTA-TTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
389 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
2112136 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
454 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
* **
2112201 GTATGGATCGGTACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACA
519 ATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACA
*
2112266 AGCTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGG
584 AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGG
2112331 TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTT
649 TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTT
* *
2112396 TATATATGGATCAACACTTTATAGGTGCACCCTGTTTCCATTCATTCTGGGAAAAAAAATATCGA
714 TATATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCT-GGAAAAAAAATATCGA
2112461 CACAAACTATATTA
778 CACAAACTATATTA
*
2112475 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
1 GTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
2112540 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
66 AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
2112605 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
131 TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
* * *
2112670 TTATTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATT
196 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATT
*
2112735 GAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATAT
261 GAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATAT
*
2112800 GGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGGAAAAAATATCGACACAAACTA
326 GGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTA
* * * *
2112865 TATTAGTGTCGACACATTATTTAGACACATTCTCTCATAAAACCGGTAGACTTGTACCGGTTAGA
391 TATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGA
* * *
2112930 TTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTATA
456 TTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTATA
2112995 TATGGATCGACACTTTATGGGTGCACCCTGTT
520 TATGGATCGACACTTTATGGGTGCACCCTGTT
2113027 GGCCATATTG
Statistics
Matches: 2057, Mismatches: 48, Indels: 39
0.96 0.02 0.02
Matches are distributed among these distances:
782 280 0.14
783 172 0.08
785 28 0.01
786 91 0.04
787 190 0.09
788 332 0.16
789 594 0.29
790 221 0.11
791 19 0.01
792 72 0.04
793 58 0.03
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (791 bp):
GTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAA
AAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGA
TCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTATA
TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATT
GAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATAT
GGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAAAAATATCGACACAAACTA
TATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTAGA
TTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATAT
ATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAA
CTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTT
AGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTA
TATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAAAAAATATCGACAC
AAACTATATTA
Found at i:2113191 original size:19 final size:19
Alignment explanation
Indices: 2113145--2113193 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2113135 TTATATTCAC
*
2113145 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
2113164 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2113183 ATACAAAATTA
1 ATACAAAATTA
2113194 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2115098 original size:21 final size:21
Alignment explanation
Indices: 2115073--2115137 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
2115063 CCCCTTATGC
* *
2115073 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
2115094 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
2115115 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2115136 CT
1 CT
2115138 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:2117375 original size:17 final size:18
Alignment explanation
Indices: 2117353--2117395 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2117343 ATATATCCGG
2117353 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
2117370 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
2117390 TATCAT
1 TATCAT
2117396 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2117413 original size:20 final size:19
Alignment explanation
Indices: 2117358--2117404 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2117348 TCCGGTATCA
2117358 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2117377 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2117398 TTTTACC
1 TTTTACC
2117405 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2117569 original size:20 final size:20
Alignment explanation
Indices: 2117539--2117584 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2117529 TCTGGTAACG
2117539 TTTTA-CGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
2117557 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
2117578 TTTTACC
1 TTTTACC
2117585 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 17 0.68
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:2117732 original size:180 final size:180
Alignment explanation
Indices: 2117325--2117796 Score: 671
Period size: 180 Copynumber: 2.6 Consensus size: 180
2117315 CGTACTTACG
* * *
2117325 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
2117390 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTTAAAAGTATCGACACATTAT
* *
2117455 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * *
2117506 AAAGTATCGACACTTTTAATATATCTGGTAACGTTTTA-CGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
*
2117570 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACAC-TTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACATTATA
** *
2117634 GGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
2117685 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCAGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * * *
2117749 TTGTCATAGTTTTACTTGTTATATCGTTTTGGATCGACACATTTTTAA
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAA
2117797 TTTGGATCGA
Statistics
Matches: 260, Mismatches: 28, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
178 49 0.19
179 50 0.19
180 126 0.48
181 35 0.13
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (180 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:2119638 original size:23 final size:24
Alignment explanation
Indices: 2119594--2119645 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
2119584 TGACTAATTG
* * *
2119594 GAATTGTAAAATTTAATCCAACTT
1 GAATTGAAAAAATTAATACAACTT
2119618 GAATTGAAAAAATTAA-ACAACTT
1 GAATTGAAAAAATTAATACAACTT
*
2119641 AAATT
1 GAATT
2119646 AATCAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (24 bp):
GAATTGAAAAAATTAATACAACTT
Found at i:2136643 original size:18 final size:18
Alignment explanation
Indices: 2136620--2136666 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2136610 ATGTAAAGTA
*
2136620 GTATCGATACCACTTTGG
1 GTATCGATACCACTTAGG
2136638 GTATCGATACCACTTAGG
1 GTATCGATACCACTTAGG
*
2136656 ATATCGATACC
1 GTATCGATACC
2136667 TGTAACACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (18 bp):
GTATCGATACCACTTAGG
Found at i:2137001 original size:24 final size:24
Alignment explanation
Indices: 2136974--2137025 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
2136964 TGTTAAGTGA
2136974 TTATTCATTAAATTTTAATTTGGT
1 TTATTCATTAAATTTTAATTTGGT
2136998 TTATTCATTAAATTTTAATTTGGT
1 TTATTCATTAAATTTTAATTTGGT
2137022 TTAT
1 TTAT
2137026 GTTCTTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.60
Consensus pattern (24 bp):
TTATTCATTAAATTTTAATTTGGT
Found at i:2146720 original size:20 final size:20
Alignment explanation
Indices: 2146668--2146721 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2146658 ACAAACTGGT
* *
2146668 AGTATCGGTACTACCTTGAG
1 AGTATCGATACTTCCTTGAG
2146688 AGTATCGATACTTCCTTGAG
1 AGTATCGATACTTCCTTGAG
2146708 AGTATCGATACTTC
1 AGTATCGATACTTC
2146722 TCTTACCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTTCCTTGAG
Found at i:2153823 original size:25 final size:25
Alignment explanation
Indices: 2153789--2153837 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2153779 CCGTTAGGCC
2153789 TGCTAACGTGCACC-CAGAGAGAAAT
1 TGCTAACGTGCACCGC-GAGAGAAAT
* *
2153814 TGCTATCGTGCGCCGCGAGAGAAA
1 TGCTAACGTGCACCGCGAGAGAAA
2153838 ATTCCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.16
Consensus pattern (25 bp):
TGCTAACGTGCACCGCGAGAGAAAT
Found at i:2155183 original size:23 final size:23
Alignment explanation
Indices: 2155157--2155204 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2155147 ATAAAGTACA
*
2155157 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
2155180 ATAATGTAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
2155203 AT
1 AT
2155205 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2155658 original size:23 final size:23
Alignment explanation
Indices: 2155632--2155694 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2155622 ATATAACCAC
2155632 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2155655 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2155678 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2155695 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2156074 original size:431 final size:431
Alignment explanation
Indices: 2155271--2156758 Score: 2782
Period size: 431 Copynumber: 3.5 Consensus size: 431
2155261 TATTACATTA
2155271 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
* * *
2155336 TTATGTTTCAATTTTTTTTAATAGTATTTCATGTTTTCCACCTATAATATTAATTTAATAATTTT
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
2155401 ATTTGCACAAAAAATTATTTGATTGTTTGGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
2155466 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
2155531 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
2155596 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
2155661 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
2155702 TATTATATTGAAAGTGTTCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2155767 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
2155832 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
2155897 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* * *
2155962 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATAGACACA
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
2156027 TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
2156092 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2156133 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2156198 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGATTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
2156263 ATTTGTACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
2156328 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* * *
2156393 CTTAAAACCCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
2156458 TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATGATACCTA
326 TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
2156523 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2156564 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
* *
2156629 TTATGTTTCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
2156693 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
2156757 AA
196 AA
2156759 CAACATTAAC
Statistics
Matches: 1030, Mismatches: 27, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
429 10 0.01
430 103 0.10
431 917 0.89
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.42
Consensus pattern (431 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
TTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:2156089 original size:23 final size:23
Alignment explanation
Indices: 2156063--2156125 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2156053 ATATAACCAC
2156063 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2156086 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2156109 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2156126 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2156520 original size:23 final size:23
Alignment explanation
Indices: 2156494--2156556 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2156484 ATATAACCAC
*
2156494 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* *
2156517 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2156540 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2156557 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2157031 original size:39 final size:39
Alignment explanation
Indices: 2156977--2157063 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
2156967 TCAAGTTGTA
*
2156977 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
2157016 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
2157055 GATTTTGAT
1 GATTTTGAT
2157064 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:2157357 original size:18 final size:18
Alignment explanation
Indices: 2157334--2157370 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2157324 CGAAATATAT
2157334 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2157352 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2157370 A
1 A
2157371 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2158116 original size:23 final size:23
Alignment explanation
Indices: 2158090--2158152 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2158080 ATATAACCAC
2158090 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2158113 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2158136 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2158153 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2158555 original size:25 final size:25
Alignment explanation
Indices: 2158498--2158563 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
2158488 CACTCAAAAG
*
2158498 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
2158523 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
2158548 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
2158564 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:2161373 original size:183 final size:183
Alignment explanation
Indices: 2161032--2161374 Score: 546
Period size: 183 Copynumber: 1.9 Consensus size: 183
2161022 TTAAAATTAC
**
2161032 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTGGAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* * * *
2161097 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACCGGAT
* *
2161162 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
2161215 CGACACTTTTGGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTGGA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
2161279 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACC-GA
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACCGGA
* * **
2161343 TAGCATTGCAAATTTACCTATTTTATTATAAT
130 TA-CATTACAAAATTACCTATTACATTATAAT
2161375 ATGTTGAAAG
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
182 3 0.02
183 140 0.96
184 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTGGAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACCGGAT
ACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:2161762 original size:23 final size:23
Alignment explanation
Indices: 2161733--2161794 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
2161723 TATAACCACA
2161733 ACCTATTACATTATATAAACGAT
1 ACCTATTACATTATATAAACGAT
* * *
2161756 ACTTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAACGAT
*
2161779 ACCTATTACATCATAT
1 ACCTATTACATTATAT
2161795 TTTTACCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGAT
Found at i:2162181 original size:431 final size:430
Alignment explanation
Indices: 2161378--2162428 Score: 1917
Period size: 431 Copynumber: 2.4 Consensus size: 430
2161368 TTATAATATG
2161378 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGATATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGATATGTAATTTATGT
2161443 TTCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
2161508 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTAAGAATTTTTAATTTAATAATA
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
2161573 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
195 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
*
2161638 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGATACTTTTATAA
260 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
*
2161703 AAAGGATAGATACTTTACAATATAACCACAACCTATTACATTATATAAACGATACTTATTACATT
325 AAAGGATAGATACTTTACAATATAACCACAACCTATTACATTATATAAACGATACCTATTACATT
2161768 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
390 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* *
2161809 TTGAAAGTGTCCATAGTTTTTATAAAAATGATCGATACTTTTTTTAAAGATATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGATATGTAATTTATGTT
2161874 TCAATTTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
* *
2161939 CAAAAAATTATTTGATTGTTTTAAAATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATA
*
2162004 ATATATATCGTAACGTAAAAAATAAATCGTTAGACGCCTATAATTACTAAATTAATATCTTAAAA
195 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
* *
2162069 CTCACTCAAAAGATAACCTTAAATTAATTTTTTTCACAGTGAAAAAAGTATAGACACTTTTATAA
260 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAA
*
2162134 AAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
325 AAAGGATAGATACTTTACAATATAACCACAACCTATTACATTATATAAACGATACCTATTACATT
2162199 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
390 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
2162240 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTT-AAAGATATGTAATTTATGT
*
2162305 TTCAATTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
* *
2162369 ACAAAAACTTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAA
2162429 CAACATTAAT
Statistics
Matches: 598, Mismatches: 19, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
430 43 0.07
431 532 0.89
432 23 0.04
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (430 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGATATGTAATTTATGTT
TCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAA
TATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAA
AAGGATAGATACTTTACAATATAACCACAACCTATTACATTATATAAACGATACCTATTACATTA
TATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:2162189 original size:23 final size:23
Alignment explanation
Indices: 2162163--2162225 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2162153 ATATAACCAC
2162163 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2162186 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2162209 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2162226 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2162982 original size:198 final size:198
Alignment explanation
Indices: 2162644--2163383 Score: 1399
Period size: 198 Copynumber: 3.7 Consensus size: 198
2162634 TCGAAAACAA
2162644 TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
1 TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
2162709 ACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGAATCGACACTTTAT
66 ACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGAATCGACACTTTAT
*
2162774 GGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACCAACTAAAAAGTGTCGACA
131 GGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAGTGTCGACA
2162839 CAT
196 CAT
2162842 TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
1 TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
*
2162907 ACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT
66 ACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGAATCGACACTTTAT
*
2162972 GGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAATAGTGTCGACA
131 GGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAGTGTCGACA
2163037 CAT
196 CAT
2163040 TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
1 TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
2163105 ACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGAATCGACACTTTAT
66 ACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGAATCGACACTTTAT
*
2163170 GGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAAATAGTGTCGAC
131 GGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAA-AGTGTCGAC
2163235 ACAT
195 ACAT
*
2163239 TATTTAGACATATTCTCTCATAAAACCGATATACTTGTACCGGTTAGATTGAAAAATTACATATT
1 TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
* *
2163304 ACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTA
66 ACATTATACTTTTGG-GTTCGATGTTTTTGGGATCGACACTTTTTATATATGAATCGACACTTTA
2163369 TGGTTGCACCCTGTT
130 TGGTTGCACCCTGTT
2163384 GGCCATATTG
Statistics
Matches: 531, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
198 377 0.71
199 92 0.17
200 62 0.12
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (198 bp):
TATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATT
ACATTATACTTTTGGGTTCGATGTTTTTGGGATCGACACTTTTTATATATGAATCGACACTTTAT
GGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAGTGTCGACA
CAT
Found at i:2163548 original size:19 final size:19
Alignment explanation
Indices: 2163502--2163550 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2163492 TTATATTCAC
*
2163502 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
2163521 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2163540 ATACAAAATTA
1 ATACAAAATTA
2163551 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2165379 original size:33 final size:33
Alignment explanation
Indices: 2165342--2165407 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2165332 CATCTTAATA
*
2165342 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2165375 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2165408 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2165466 original size:21 final size:21
Alignment explanation
Indices: 2165441--2165484 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2165431 CCCCTTATGC
2165441 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
2165462 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
2165483 CT
1 CT
2165485 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:2167751 original size:20 final size:19
Alignment explanation
Indices: 2167705--2167751 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2167695 TCCGGTATCA
*
2167705 TTTTACCGGTTTTATCATT
1 TTTTACCGGGTTTATCATT
*
2167724 TTGATACCGGGTTTATCATAT
1 TT-TTACCGGGTTTATCAT-T
2167745 TTTTACC
1 TTTTACC
2167752 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (19 bp):
TTTTACCGGGTTTATCATT
Found at i:2168114 original size:20 final size:19
Alignment explanation
Indices: 2168067--2168114 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
2168057 ATCCGGTAGC
2168067 GTTTTACCGGTTTTATCAT
1 GTTTTACCGGTTTTATCAT
*
2168086 -TTCTATACCGGTTTTGTCAT
1 GTT-T-TACCGGTTTTATCAT
2168106 AGTTTTACC
1 -GTTTTACC
2168115 TGTTATATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.08
19 1 0.04
20 18 0.75
21 1 0.04
22 2 0.08
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.50
Consensus pattern (19 bp):
GTTTTACCGGTTTTATCAT
Found at i:2168143 original size:182 final size:180
Alignment explanation
Indices: 2167672--2168146 Score: 716
Period size: 181 Copynumber: 2.6 Consensus size: 180
2167662 CGTACTTATG
* * *
2167672 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTT-ATACCGGTTT
* * *
2167737 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
2167802 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * *
2167853 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCTTTTTGTAACCAGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTAT-ACCGGTTT
* *
2167918 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
2167983 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * *
2168035 AAAGTACCGACACTTTAAATGTATCCGGTAGCGTTTTACCGGTTTTATCATTTCTATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TATACCGGTTT
* * *
2168100 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTA
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTA
2168147 TTTGGATCGA
Statistics
Matches: 265, Mismatches: 26, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
180 1 0.00
181 163 0.62
182 99 0.37
183 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTATACCGGTTTT
ATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:2168665 original size:229 final size:228
Alignment explanation
Indices: 2168220--2168705 Score: 875
Period size: 229 Copynumber: 2.1 Consensus size: 228
2168210 TATACGGATG
*
2168220 GACACTTTTATAAAAATGATATATACTTTTTTTTAAGTTATGTAATTTATGTTTTAATTTTTTTA
1 GACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTTAATTTTTTTA
2168285 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTT
66 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTT
*
2168350 GATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATATAAT
131 GATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAT
* *
2168415 AATAAATATGTTTTCCACAGTGAAATAAGTATA
196 AATAAATATGATTTACACAGTGAAATAAGTATA
2168448 GACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTTAATTTTTTTT
1 GACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTTAA-TTTTTTT
*
2168513 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATT
65 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATT
2168578 TGATTATTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATA
130 TGATTA-TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATA
*
2168643 ATAATAAATAT-ATTTACACAGTGAAATAAGTATG
194 ATAATAAATATGATTTACACAGTGAAATAAGTATA
* *
2168677 GACACTTTTATAAAAAGGATAGATACTTT
1 GACACTTTTATAAAAATGATATATACTTT
2168706 ACAATATAAC
Statistics
Matches: 248, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
228 56 0.23
229 124 0.50
230 68 0.27
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (228 bp):
GACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTTAATTTTTTTA
ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTT
GATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAT
AATAAATATGATTTACACAGTGAAATAAGTATA
Found at i:2168968 original size:11 final size:11
Alignment explanation
Indices: 2168952--2168976 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2168942 ATCCGGTACT
2168952 ACCGTATATTA
1 ACCGTATATTA
2168963 ACCGTATATTA
1 ACCGTATATTA
2168974 ACC
1 ACC
2168977 CACCTTTCCT
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:2171367 original size:28 final size:29
Alignment explanation
Indices: 2171311--2171372 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
2171301 ATGTCTCTTG
*
2171311 ACTATTAAAAGTTATAAAATGATCTCCCT
1 ACTATTAAAAGTTATAAAATGATCCCCCT
2171340 ACTATTAAAAGTTAT-AAATGATCCCCCT
1 ACTATTAAAAGTTATAAAATGATCCCCCT
2171368 ACTAT
1 ACTAT
2171373 AAAGCATTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.34
Consensus pattern (29 bp):
ACTATTAAAAGTTATAAAATGATCCCCCT
Found at i:2176713 original size:265 final size:265
Alignment explanation
Indices: 2176206--2176742 Score: 887
Period size: 265 Copynumber: 2.0 Consensus size: 265
2176196 TTTTACATAC
* * *
2176206 AATCTTAATAATTTACATAAATATAAAAAATGTAGGAGTTTACAAAATAGATCAGAGCATTTGCA
1 AATCTTAATAATTTACATAAATAGAAAAAATATAGGAGTTTACAAAATAGATCAAAGCATTTGCA
*
2176271 AATTAAACACTTAATACATGCCAACAGTTACAGATTTTACAAAACACCTACATTTAATTTGTTAT
66 AATTAAACACTTAATACATGCCAACAGTTACAAATTTTACAAAACACCTACATTTAATTTGTTAT
* ** * *
2176336 GATCTGATCGTCAAAGGTGTACGCTATACACACTAACTTTACTCTTCTTCTTTCTTCAAACCTAA
131 GATATGATCGTCAAAGGTGTACGCTATACACACTAACTCCACTCTTATGCTTTCTTCAAACCTAA
* * * *
2176401 GCGTGAGAAAAATCACATGCTAAGTCGATGACTTAGTGAATCAATACTAAAAGTGCTAACTTAGT
196 GCGTGAAAAAAAGCACACGCTAAGTCGATGACTTAGTGAAGCAATACTAAAAGTGCTAACTTAG-
2176466 AAACAA
260 AAACAA
** *
2176472 AATCTTAATAATTTACATAAAT-GCCAAAATATAGGAGTTTACAAAATAGATCAAAGCATTTGTA
1 AATCTTAATAATTTACATAAATAGAAAAAATATAGGAGTTTACAAAATAGATCAAAGCATTTGCA
* *
2176536 AATTAAACACTTAATACATGCCAACAGTTGCAAATTTTACAAAACACCTACATTTAATTTGTTCT
66 AATTAAACACTTAATACATGCCAACAGTTACAAATTTTACAAAACACCTACATTTAATTTGTTAT
2176601 GATATGATCGTCAAAGGTGTACGCTATACACACTAACTCCACTCTTATGCTTTCTTCAAACCTAA
131 GATATGATCGTCAAAGGTGTACGCTATACACACTAACTCCACTCTTATGCTTTCTTCAAACCTAA
*
2176666 GCGTGAAAAAAAGCACACGCTAAGTCGATGACTTAGTGAGGCAATACTAAAAGTGCTAACTTAGA
196 GCGTGAAAAAAAGCACACGCTAAGTCGATGACTTAGTGAAGCAATACTAAAAGTGCTAACTTAGA
2176731 AACAA
261 AACAA
2176736 AATCTTA
1 AATCTTA
2176743 TTTGTTTTTT
Statistics
Matches: 252, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
264 13 0.05
265 217 0.86
266 22 0.09
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (265 bp):
AATCTTAATAATTTACATAAATAGAAAAAATATAGGAGTTTACAAAATAGATCAAAGCATTTGCA
AATTAAACACTTAATACATGCCAACAGTTACAAATTTTACAAAACACCTACATTTAATTTGTTAT
GATATGATCGTCAAAGGTGTACGCTATACACACTAACTCCACTCTTATGCTTTCTTCAAACCTAA
GCGTGAAAAAAAGCACACGCTAAGTCGATGACTTAGTGAAGCAATACTAAAAGTGCTAACTTAGA
AACAA
Found at i:2176974 original size:23 final size:23
Alignment explanation
Indices: 2176947--2177074 Score: 163
Period size: 23 Copynumber: 5.7 Consensus size: 23
2176937 CATAATTGTC
2176947 CCGAAGGACCACATAGGTTTGGA
1 CCGAAGGACCACATAGGTTTGGA
*
2176970 CCGAAGTACCACATAGGTTTGGA
1 CCGAAGGACCACATAGGTTTGGA
*
2176993 CCGAAGTACCACATAGGTTTGGA
1 CCGAAGGACCACATAGGTTTGGA
* *
2177016 CCGAAGTACCACATAGGTTTGCA
1 CCGAAGGACCACATAGGTTTGGA
**
2177039 CCGAAGTG-CCACATA--TTTGTC
1 CCGAAG-GACCACATAGGTTTGGA
*
2177060 CCAAAGGACCACATA
1 CCGAAGGACCACATA
2177075 ATTATCCTGA
Statistics
Matches: 97, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
20 1 0.01
21 16 0.16
23 80 0.82
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
CCGAAGGACCACATAGGTTTGGA
Found at i:2176998 original size:46 final size:46
Alignment explanation
Indices: 2176947--2177053 Score: 180
Period size: 46 Copynumber: 2.3 Consensus size: 46
2176937 CATAATTGTC
*
2176947 CCGAAGGACCACATAGGTTTGGACCGAAGTACCACATAGGTTTGGA
1 CCGAAGGACCACATAGGTTTGGACCGAAGTACCACATAGGTTTGCA
*
2176993 CCGAAGTACCACATAGGTTTGGACCGAAGTACCACATAGGTTTGCA
1 CCGAAGGACCACATAGGTTTGGACCGAAGTACCACATAGGTTTGCA
2177039 CCGAAGTG-CCACATA
1 CCGAAG-GACCACATA
2177054 TTTGTCCCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (46 bp):
CCGAAGGACCACATAGGTTTGGACCGAAGTACCACATAGGTTTGCA
Found at i:2187135 original size:20 final size:20
Alignment explanation
Indices: 2187106--2187143 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2187096 TTTCAAAGGG
2187106 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
2187126 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
2187144 GAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:2187199 original size:19 final size:19
Alignment explanation
Indices: 2187175--2187243 Score: 120
Period size: 19 Copynumber: 3.6 Consensus size: 19
2187165 CAGTTTATGT
2187175 ATCGATGAACTCTCCATGC
1 ATCGATGAACTCTCCATGC
*
2187194 ATCGATGCACTCTCCATGC
1 ATCGATGAACTCTCCATGC
2187213 ATCGATGAACTCTCCATGC
1 ATCGATGAACTCTCCATGC
*
2187232 ATCGATGCACTC
1 ATCGATGAACTC
2187244 AGGGTTTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (19 bp):
ATCGATGAACTCTCCATGC
Found at i:2187323 original size:45 final size:46
Alignment explanation
Indices: 2187227--2187334 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 46
2187217 ATGAACTCTC
* *
2187227 CATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTT
* *
2187273 TATGCATCAATGCACTCAGGATATTT-TG-AAACATCGAATGCACTT
1 CATGCATCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTT
2187318 CATGCATCGATGCACTC
1 CATGCATCGATGCACTC
2187335 TTAGTGCACC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 31 0.56
46 21 0.38
47 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTT
Found at i:2187332 original size:17 final size:19
Alignment explanation
Indices: 2187304--2187352 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2187294 TATTTTGAAA
2187304 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
2187322 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
2187341 CACCGATGCACT
1 CATCGATGCACT
2187353 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:2193717 original size:23 final size:23
Alignment explanation
Indices: 2193656--2193742 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
2193646 AGCTCGTAAT
*
2193656 TTGCACCGAAGTGCCACATA--A
1 TTGCACCGAAGTGCCACATAGGC
* *
2193677 TTATC-CCGAAG-GACCACATAGGT
1 TT-GCACCGAAGTG-CCACATAGGC
*
2193700 TTGCACCGAAGTGTCACATAGGC
1 TTGCACCGAAGTGCCACATAGGC
2193723 TTGCACCGAAGTGCCACATA
1 TTGCACCGAAGTGCCACATA
2193743 AAACCCTCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.02
21 15 0.28
22 2 0.04
23 35 0.65
24 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACATAGGC
Done.