Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008071.1 Hibiscus syriacus cultivar Beakdansim tig00110569_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: 1969971
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 8 of 8
Found at i:1817999 original size:25 final size:25
Alignment explanation
Indices: 1817971--1818021 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1817961 AAACGGGTAA
*
1817971 AGTTTTACCAAGTTCAACGAAAAGG
1 AGTTTTACCAAATTCAACGAAAAGG
*
1817996 AGTTTTACCAAATTCAATGAAAAGG
1 AGTTTTACCAAATTCAACGAAAAGG
1818021 A
1 A
1818022 AGGGGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (25 bp):
AGTTTTACCAAATTCAACGAAAAGG
Found at i:1823439 original size:149 final size:148
Alignment explanation
Indices: 1823170--1823472 Score: 480
Period size: 149 Copynumber: 2.0 Consensus size: 148
1823160 GAGTCGAGGG
* * * * * * *
1823170 TCTACGCGGTCCTTCGGGACATATGTGTATTCTTTGGAACATTTATGAGGTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
* *
1823235 CTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
*
1823300 ATGGCACTACGGTGCAAT
131 AGGGCACTACGGTGCAAT
* * *
1823318 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAGCATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTT-TAAGACACAT
1823383 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
1823448 TAGGGCACTACGGTGCAAT
130 TAGGGCACTACGGTGCAAT
1823467 TCTACG
1 TCTACG
1823473 TGGCACTTCG
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
148 46 0.33
149 95 0.67
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
AGGGCACTACGGTGCAAT
Found at i:1823484 original size:23 final size:23
Alignment explanation
Indices: 1823444--1823495 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1823434 TATGGACATT
1823444 ATTATA-G-GGCACTACGGTGCA
1 ATTATACGTGGCACTACGGTGCA
* *
1823465 ATTCTACGTGGCACTTCGGTGCA
1 ATTATACGTGGCACTACGGTGCA
1823488 ATTATACG
1 ATTATACG
1823496 AGCTGTGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 5 0.19
22 1 0.04
23 20 0.77
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
ATTATACGTGGCACTACGGTGCA
Found at i:1823693 original size:21 final size:21
Alignment explanation
Indices: 1823669--1823729 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
1823659 ATAAATAATT
*
1823669 TGATGATAATGATAGA-GATAA
1 TGATAATAAT-ATAGATGATAA
*
1823690 TGATAATAATATATATGATAA
1 TGATAATAATATAGATGATAA
* * *
1823711 TGCTAAGAAAATAGATGAT
1 TGATAATAATATAGATGAT
1823730 GATATATGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (21 bp):
TGATAATAATATAGATGATAA
Found at i:1823735 original size:33 final size:33
Alignment explanation
Indices: 1823671--1823736 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
1823661 AAATAATTTG
*
1823671 ATGATAATGATAGAGATAATGATAATAATATAT
1 ATGATAATGATAGAGAAAATGATAATAATATAT
* * *
1823704 ATGATAATGCTA-AGAAAATAGATGATGATATAT
1 ATGATAATGATAGAGAAAAT-GATAATAATATAT
1823737 GTACATGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGATAATGATAGAGAAAATGATAATAATATAT
Found at i:1824351 original size:20 final size:21
Alignment explanation
Indices: 1824281--1824359 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 21
1824271 GAATGCAATA
1824281 AGTGTATCGATACAC-AT-GT
1 AGTGTATCGATACACTATAGT
* * *
1824300 AGTGTACCGATACACCAGTGAAT
1 AGTGTATCGATACACTA-T-AGT
*
1824323 GGATGTATCGATACACTATAGT
1 AG-TGTATCGATACACTATAGT
1824345 -GTGTATCGATACACT
1 AGTGTATCGATACACT
1824360 TCAAAGGGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 14 0.29
20 15 0.31
21 2 0.04
22 2 0.04
23 3 0.06
24 13 0.27
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (21 bp):
AGTGTATCGATACACTATAGT
Found at i:1838177 original size:44 final size:44
Alignment explanation
Indices: 1838110--1838193 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
1838100 TTTTCCGGAG
* * * * *
1838110 TAAGGGCTCGACTCGATTCAAAAATTGTTTGACTCGTGTTGGAT
1 TAAGGGCTCAACTCAATTAAAAAATTATTTGACTCATGTTGGAT
*
1838154 TAAGGGTTCAACTCAATTAAAAAATTATTTGACTCATGTT
1 TAAGGGCTCAACTCAATTAAAAAATTATTTGACTCATGTT
1838194 TGATAAAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (44 bp):
TAAGGGCTCAACTCAATTAAAAAATTATTTGACTCATGTTGGAT
Found at i:1840644 original size:23 final size:23
Alignment explanation
Indices: 1840618--1840674 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
1840608 TAATAGAAAT
** * *
1840618 TAATATTATTTTTTAAAACATAA
1 TAATATTATCATTTAAAAAAAAA
1840641 TAATATTATCATTTAAAAAAAAA
1 TAATATTATCATTTAAAAAAAAA
*
1840664 TAAAATTATCA
1 TAATATTATCA
1840675 AAATGTGACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATATTATCATTTAAAAAAAAA
Found at i:1848126 original size:36 final size:36
Alignment explanation
Indices: 1848086--1848171 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
1848076 AAGGATGCGC
* *
1848086 TCCTTCATCGGGGGAAGGAGAAGGAGTTGCTGATGG
1 TCCTTCATCAGGGGAAGGAGAAGGAGGTGCTGATGG
** * * *
1848122 TCCTTCGGCAGGTGAAGGTGAATGAGGTGCTGATGG
1 TCCTTCATCAGGGGAAGGAGAAGGAGGTGCTGATGG
1848158 TCCTTCATCAGGGG
1 TCCTTCATCAGGGG
1848172 TTGAAAAAGA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (36 bp):
TCCTTCATCAGGGGAAGGAGAAGGAGGTGCTGATGG
Found at i:1849436 original size:60 final size:59
Alignment explanation
Indices: 1849350--1849502 Score: 173
Period size: 60 Copynumber: 2.5 Consensus size: 59
1849340 ATAAATTTGG
* * * **
1849350 AATATTCAAAAAGATTTTGGATTAATTTAGAATGAAACTCATAGTTTGGGGAT-AGAATTAA
1 AATATTC-AAAAG-TTTAGGACTAATTTAAAATGAAACTCATAGTTTAAGGATGA-AATTAA
*
1849411 AATATTCAAAAGTTTGAGGACTAATTTAAAATGAAAGTCATAGTTTAAGGATGAAATTAA
1 AATATTCAAAAGTTT-AGGACTAATTTAAAATGAAACTCATAGTTTAAGGATGAAATTAA
* * *
1849471 AATATTTAAAAGTTTATAGATTAATTTAAAAT
1 AATATTCAAAAGTTTA-GGACTAATTTAAAAT
1849503 AAAAAAATCA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
59 4 0.05
60 68 0.85
61 8 0.10
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (59 bp):
AATATTCAAAAGTTTAGGACTAATTTAAAATGAAACTCATAGTTTAAGGATGAAATTAA
Found at i:1849609 original size:158 final size:157
Alignment explanation
Indices: 1849412--1849730 Score: 559
Period size: 157 Copynumber: 2.0 Consensus size: 157
1849402 TAGAATTAAA
*
1849412 ATATTCAAAAGTTTGAGGACTAATTTAAAATGAAAGTCATAGTTTAAGGATGAAATTAAAATATT
1 ATATTCAAAAGTTCGAGGACTAATTTAAAATGAAAGTCATAGTTTAAGGATGAAATTAAAATATT
*
1849477 T-AAAAGTTTATAGATTAATTTAAAATAAAAAAATCATAATTTGAAGACATATGACACAATTAAC
66 TAAAAAATTTATAGATTAATTTAAAAT--AAAAATCATAATTTGAAGACATATGACACAATTAAC
*
1849541 TCTTTCGCAAATCAAATTCTCTTTGTATG
129 TCTTTCCCAAATCAAATTCTCTTTGTATG
* *
1849570 ATATTCAAAAGTTCGAGGACTAATTTAGAATGAAAGTCATAGTTTAAGTATGAAATTAAAATATT
1 ATATTCAAAAGTTCGAGGACTAATTTAAAATGAAAGTCATAGTTTAAGGATGAAATTAAAATATT
*
1849635 TAAAAAATTTATAGATTAATTTAAAATAAAAATCATAATTTGAATACATATGACACAATTAACTC
66 TAAAAAATTTATAGATTAATTTAAAATAAAAATCATAATTTGAAGACATATGACACAATTAACTC
1849700 TTTCCCAAATCAAATTCTCTTTGTATG
131 TTTCCCAAATCAAATTCTCTTTGTATG
1849727 ATAT
1 ATAT
1849731 CTATATTGAT
Statistics
Matches: 154, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
157 67 0.44
158 63 0.41
159 24 0.16
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (157 bp):
ATATTCAAAAGTTCGAGGACTAATTTAAAATGAAAGTCATAGTTTAAGGATGAAATTAAAATATT
TAAAAAATTTATAGATTAATTTAAAATAAAAATCATAATTTGAAGACATATGACACAATTAACTC
TTTCCCAAATCAAATTCTCTTTGTATG
Found at i:1850044 original size:2 final size:2
Alignment explanation
Indices: 1850037--1850061 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1850027 AAATTTTAAG
1850037 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1850062 CTTCGTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1854225 original size:31 final size:31
Alignment explanation
Indices: 1854187--1854245 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1854177 AGTTGTTATC
1854187 TAATTCATATAATTTTGATACTTAAAATATA
1 TAATTCATATAATTTTGATACTTAAAATATA
*
1854218 TAATTCATATAATTTTGATATTTAAAAT
1 TAATTCATATAATTTTGATACTTAAAAT
1854246 TTAAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (31 bp):
TAATTCATATAATTTTGATACTTAAAATATA
Found at i:1856356 original size:31 final size:31
Alignment explanation
Indices: 1856286--1856356 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
1856276 TTAACGAAAC
*
1856286 TAATA-TAGAGACTTAAATTAAACAAATCAA
1 TAATATTAGAGACTTAAATCAAACAAATCAA
** *
1856316 TAACGTTAGAGACTTAAATCGAACAAAAT-AA
1 TAATATTAGAGACTTAAATCAAAC-AAATCAA
1856347 TAATATTAGA
1 TAATATTAGA
1856357 TATCATTTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 3 0.09
31 26 0.79
32 4 0.12
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (31 bp):
TAATATTAGAGACTTAAATCAAACAAATCAA
Found at i:1864274 original size:15 final size:15
Alignment explanation
Indices: 1864254--1864284 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1864244 GTAAACTGCC
1864254 ATTGAAAAGTTAACA
1 ATTGAAAAGTTAACA
1864269 ATTGAAAAGTTAACA
1 ATTGAAAAGTTAACA
1864284 A
1 A
1864285 CTATTAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
ATTGAAAAGTTAACA
Found at i:1870186 original size:19 final size:20
Alignment explanation
Indices: 1870152--1870198 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1870142 TTCATGTCTC
1870152 TATTTTATTGAATAAAAATAA
1 TATTTT-TTGAATAAAAATAA
* *
1870173 TATTTTTT-AATAAATATAT
1 TATTTTTTGAATAAAAATAA
1870192 TATTTTT
1 TATTTTT
1870199 GGCCGGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 2 0.08
21 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTTTTTGAATAAAAATAA
Found at i:1875008 original size:17 final size:17
Alignment explanation
Indices: 1874986--1875019 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1874976 TGTACCAATG
1874986 CCCATCACATGTTAGGT
1 CCCATCACATGTTAGGT
1875003 CCCATCACATGTTAGGT
1 CCCATCACATGTTAGGT
1875020 GGATATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (17 bp):
CCCATCACATGTTAGGT
Found at i:1876125 original size:31 final size:31
Alignment explanation
Indices: 1876055--1876125 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
1876045 TTAACGAAAC
*
1876055 TAATA-TAGAGACTTAAATTAAACAAATCAA
1 TAATATTAGAGACTTAAATCAAACAAATCAA
** *
1876085 TAACGTTAGAGACTTAAATCGAACAAAAT-AA
1 TAATATTAGAGACTTAAATCAAAC-AAATCAA
1876116 TAATATTAGA
1 TAATATTAGA
1876126 TATCATTTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 3 0.09
31 26 0.79
32 4 0.12
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (31 bp):
TAATATTAGAGACTTAAATCAAACAAATCAA
Found at i:1883068 original size:7 final size:7
Alignment explanation
Indices: 1883056--1883114 Score: 111
Period size: 7 Copynumber: 8.6 Consensus size: 7
1883046 TTGGTGAAAT
1883056 TGAGGCA
1 TGAGGCA
1883063 TGAGGCA
1 TGAGGCA
1883070 TGAGGCA
1 TGAGGCA
1883077 TGAGGCA
1 TGAGGCA
1883084 TGAGGCA
1 TGAGGCA
1883091 TGAGGCA
1 TGAGGCA
1883098 TGAGGCA
1 TGAGGCA
1883105 TGAGGC-
1 TGAGGCA
1883111 TGAG
1 TGAG
1883115 TCTTTGTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 4 0.08
7 48 0.92
ACGTcount: A:0.27, C:0.14, G:0.44, T:0.15
Consensus pattern (7 bp):
TGAGGCA
Found at i:1890123 original size:17 final size:17
Alignment explanation
Indices: 1890101--1890134 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1890091 TATTTTATTG
1890101 AATAAAAATAATATTTT
1 AATAAAAATAATATTTT
* *
1890118 AATAAATATATTATTTT
1 AATAAAAATAATATTTT
1890135 TGGCCGATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAAAAATAATATTTT
Found at i:1896995 original size:21 final size:20
Alignment explanation
Indices: 1896909--1897063 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
1896899 AAATGACCAA
**
1896909 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1896928 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1896948 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1896968 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1896989 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1897010 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
1897030 CCAAAATCGCAACGCGA---T
1 -CAAAATCGCAACGCGATTTT
*
1897048 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1897064 ACACATAAAT
Statistics
Matches: 103, Mismatches: 27, Indels: 14
0.72 0.19 0.10
Matches are distributed among these distances:
17 15 0.15
18 1 0.01
19 16 0.16
20 26 0.25
21 45 0.44
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1897075 original size:20 final size:20
Alignment explanation
Indices: 1897033--1897279 Score: 254
Period size: 20 Copynumber: 12.5 Consensus size: 20
1897023 CGATTTTCCA
*
1897033 AAATCGCAACGCG-AT--GA
1 AAATCGCAACGCGTATCCGT
* *
1897050 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1897070 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
1897090 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1897110 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1897130 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1897150 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1897170 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1897190 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1897210 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1897230 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1897250 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1897270 AAATCACAAC
1 AAATCGCAAC
1897280 ACTGAAATTT
Statistics
Matches: 193, Mismatches: 29, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
17 14 0.07
20 177 0.92
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1897996 original size:22 final size:23
Alignment explanation
Indices: 1897954--1897998 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1897944 AAATTTGGTC
1897954 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATA-CCGGACTTTGATA
*
1897978 TTGGTCAATA-CGGATTTTGAT
1 TTGGTCAATACCGGACTTTGAT
1897999 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (23 bp):
TTGGTCAATACCGGACTTTGATA
Found at i:1898190 original size:12 final size:12
Alignment explanation
Indices: 1898173--1898197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1898163 ATATAATCCT
1898173 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1898185 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1898197 G
1 G
1898198 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1900548 original size:19 final size:19
Alignment explanation
Indices: 1900508--1900605 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1900498 GATTCTCTCG
1900508 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1900528 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1900547 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1900561 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1900580 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1900599 TTGCGAT
1 TTGCGAT
1900606 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1900602 original size:52 final size:53
Alignment explanation
Indices: 1900489--1900605 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1900479 GAAATGAAAA
1900489 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1900542 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1900594 TCGCATTGCGAT
1 TCGCATTGCGAT
1900606 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:1900715 original size:32 final size:33
Alignment explanation
Indices: 1900664--1900754 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
1900654 CCATTACATT
1900664 TCGCAATGCGGAAATGAAAATCGCAACGAGAG-A
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
1900697 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1900730 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
1900755 TGCGAAATGA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 22 0.39
33 35 0.61
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:1900720 original size:19 final size:19
Alignment explanation
Indices: 1900664--1900809 Score: 112
Period size: 19 Copynumber: 8.6 Consensus size: 19
1900654 CCATTACATT
1900664 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
1900684 TCGCAA--CG--A-G-AGA
1 TCGCAATGCGAAATGAAAA
1900697 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
1900716 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
1900730 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
1900749 TCGCAATGCGAAATG-AAA
1 TCGCAATGCGAAATGAAAA
*
1900767 TCGCAA--CG--A-GATAA
1 TCGCAATGCGAAATGAAAA
*
1900781 TCGCAATGCG-AATTAAAA
1 TCGCAATGCGAAATGAAAA
*
1900799 TCGCATTGCGA
1 TCGCAATGCGA
1900810 TTCTCCCATT
Statistics
Matches: 101, Mismatches: 8, Indels: 35
0.70 0.06 0.24
Matches are distributed among these distances:
13 9 0.09
14 20 0.20
15 4 0.04
16 6 0.06
17 5 0.05
18 24 0.24
19 27 0.27
20 6 0.06
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.16
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:1900783 original size:51 final size:51
Alignment explanation
Indices: 1900696--1900809 Score: 185
Period size: 51 Copynumber: 2.2 Consensus size: 51
1900686 GCAACGAGAG
1900696 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG-AATGAAA
* *
1900748 ATCGCAATGCGAAATG-AAATCGCAACGAGATAATCGCAATGCGAATTAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAATGAAA
*
1900798 ATCGCATTGCGA
1 ATCGCAATGCGA
1900810 TTCTCCCATT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 17 0.29
51 26 0.44
52 16 0.27
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (51 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAATGAAA
Found at i:1900840 original size:19 final size:19
Alignment explanation
Indices: 1900816--1900913 Score: 129
Period size: 19 Copynumber: 5.5 Consensus size: 19
1900806 GCGATTCTCC
1900816 CATTGCGA-TTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
1900835 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
1900854 CATTGCGA--TTC---TC-
1 CATTGCGATTTTCATTTCG
*
1900867 CGTTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
1900886 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
1900905 CATTGCGAT
1 CATTGCGAT
1900914 AGTCAATTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
13 7 0.10
14 2 0.03
15 3 0.04
17 3 0.04
18 2 0.03
19 45 0.64
20 8 0.11
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:1900842 original size:51 final size:51
Alignment explanation
Indices: 1900781--1900913 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 51
1900771 AACGAGATAA
*
1900781 TCGCAATGCGA-ATTAAAATCGCATTGCGATTCTCCCATTGCGA-TTTCATT
1 TCGCATTGCGATATTAAAATCGCATTGCGATTCT-CCATTGCGATTTTCATT
* * ** *
1900831 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCCGTTGCGATTTTCATT
1 T-CGCATTGCGATATTAAAATCGCATTGCGATTCTCCATTGCGATTTTCATT
* * **
1900883 TCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATATTAAAATCGCATTGCGAT
1900914 AGTCAATTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
50 1 0.01
51 47 0.64
52 26 0.35
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (51 bp):
TCGCATTGCGATATTAAAATCGCATTGCGATTCTCCATTGCGATTTTCATT
Found at i:1901037 original size:14 final size:14
Alignment explanation
Indices: 1901018--1901054 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1901008 CATCAATTAC
1901018 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1901032 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1901046 ACAAATCAA
1 ACAAATCAA
1901055 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1902994 original size:20 final size:19
Alignment explanation
Indices: 1902969--1903033 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
1902959 TAGTTTACTT
*
1902969 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
1902989 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
1903007 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
1903026 TCGCAACG
1 TCGCAACG
1903034 ACATAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:1903028 original size:19 final size:19
Alignment explanation
Indices: 1902969--1903102 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
1902959 TAGTTTACTT
* *
1902969 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1902989 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
1903007 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1903026 TCGCAA--CGACAT---AA
1 TCGCAACGCGAAATGAAAA
*
1903040 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1903059 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1903073 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1903092 TCGCAATGCGA
1 TCGCAACGCGA
1903103 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
18 16 0.17
19 29 0.31
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1903051 original size:33 final size:33
Alignment explanation
Indices: 1902969--1903097 Score: 159
Period size: 33 Copynumber: 3.8 Consensus size: 33
1902959 TAGTTTACTT
* * *
1902969 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
* *
1903007 TCGCAACGCGAAATGAAAATCGCAACGACATAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
1903040 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
1903073 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
1903098 TGCGATTTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
33 56 0.67
35 4 0.05
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:1903076 original size:14 final size:14
Alignment explanation
Indices: 1903024--1903080 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1903014 GCGAAATGAA
* *
1903024 AATCGCAACGACAT
1 AATCGCAACGAAAG
1903038 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1903055 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1903071 AATCGCAACG
1 AATCGCAACG
1903081 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1903120 original size:19 final size:18
Alignment explanation
Indices: 1903098--1903207 Score: 74
Period size: 19 Copynumber: 6.3 Consensus size: 18
1903088 AAAATCGCAA
1903098 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1903117 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1903131 TGCGATTATGGTTTCGCGT
1 TGCGATT-TTGTTTCGCGT
*
1903150 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1903164 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1903183 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
1903203 TGCGA
1 TGCGA
1903208 AAGTAAACTA
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
14 20 0.29
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.43
20 12 0.17
ACGTcount: A:0.10, C:0.17, G:0.28, T:0.45
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:1903143 original size:33 final size:33
Alignment explanation
Indices: 1903098--1903189 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
1903088 AAAATCGCAA
1903098 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
*
1903131 TGCGATTATGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1903164 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1903190 TTAAGTTTCG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.28, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1903508 original size:93 final size:93
Alignment explanation
Indices: 1903248--1903629 Score: 737
Period size: 93 Copynumber: 4.1 Consensus size: 93
1903238 TTGAATGGAT
1903248 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1903313 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
1903341 AAATTTACTTTCAACCAAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACA
1 AAATTTACTTTCAACC-AAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACA
1903406 CAGTTTAGCAGAATTGGCAGCAACCGAAC
65 CAGTTTAGCAGAATTGGCAGCAACCGAAC
1903435 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1903500 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1903528 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
1903593 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1903621 AAATTTACT
1 AAATTTACT
1903630 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
93 193 0.68
94 92 0.32
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1903657 original size:18 final size:18
Alignment explanation
Indices: 1903634--1903683 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
1903624 TTTACTAAGC
1903634 AATCTAAGTGAAATGGCT
1 AATCTAAGTGAAATGGCT
1903652 AATCTAAGTGAAATGGCT
1 AATCTAAGTGAAATGGCT
1903670 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
1903684 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (18 bp):
AATCTAAGTGAAATGGCT
Found at i:1905365 original size:14 final size:14
Alignment explanation
Indices: 1905346--1905435 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1905336 TTGAAATGAA
1905346 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1905360 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1905377 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1905393 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1905412 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1905426 AATCGCAACG
1 AATCGCAACG
1905436 CGAAATAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1905383 original size:33 final size:33
Alignment explanation
Indices: 1905338--1905452 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
1905328 TCTTTTGGTT
1905338 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1905371 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1905404 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1905437 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
1905453 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1905384 original size:19 final size:18
Alignment explanation
Indices: 1905345--1905457 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
1905335 GTTGAAATGA
1905345 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1905360 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1905377 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1905393 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1905410 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
* *
1905426 -AATCGCAACGCGAAATAA
1 AAATCGCAACGCGAGAT-G
*
1905444 AAATCGCAATGCGA
1 AAATCGCAACGCGA
1905458 TTTTGGTTTC
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
14 24 0.31
16 15 0.19
17 11 0.14
19 28 0.36
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1905501 original size:33 final size:37
Alignment explanation
Indices: 1905453--1905538 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 37
1905443 AAAATCGCAA
**
1905453 TGCGATTTTGGTTTCGCGTT-G-C-G-ATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTCGACAGCATTCTCTCGT
1905486 TGCGATTTTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT-CGACAG-CATTCTCTCGT
1905525 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1905539 ATCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 18 0.40
35 1 0.02
36 1 0.02
37 1 0.02
39 24 0.53
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (37 bp):
TGCGATTTTCATTTCGCGTTCGACAGCATTCTCTCGT
Found at i:1905527 original size:20 final size:20
Alignment explanation
Indices: 1905476--1905529 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
1905466 TCGCGTTGCG
***
1905476 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
*
1905496 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGACAGTC
1905515 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
1905530 TTTTCATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:1905536 original size:20 final size:20
Alignment explanation
Indices: 1905476--1905550 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1905466 TCGCGTTGCG
1905476 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* ***
1905496 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
1905515 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1905535 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
1905551 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.34
20 16 0.36
21 13 0.30
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:1905672 original size:33 final size:33
Alignment explanation
Indices: 1905630--1905700 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1905620 AATACTAACT
1905630 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1905663 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1905696 TGAAA
1 TGAAA
1905701 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1905934 original size:22 final size:22
Alignment explanation
Indices: 1905882--1905936 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1905872 TGGTTGTGAG
**
1905882 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1905904 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1905926 GGATTTCTTCG
1 GGATTTCTTCG
1905937 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1906106 original size:20 final size:20
Alignment explanation
Indices: 1906081--1906274 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1906071 CTTTAAATAT
1906081 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1906101 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1906123 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1906142 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1906162 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1906182 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1906202 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1906222 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1906242 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1906262 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1906275 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1906268 original size:60 final size:60
Alignment explanation
Indices: 1906081--1906274 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1906071 CTTTAAATAT
**
1906081 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1906142 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1906202 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1906262 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1906275 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1906291 original size:21 final size:21
Alignment explanation
Indices: 1906261--1906343 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1906251 ATTTTCATAT
*
1906261 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1906282 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1906303 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1906324 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1906344 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1906334 original size:42 final size:43
Alignment explanation
Indices: 1906241--1906339 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1906231 ATTTATGTGT
* *
1906241 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1906282 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1906324 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1906340 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1906907 original size:19 final size:20
Alignment explanation
Indices: 1906883--1906933 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1906873 AATGACCAAT
1906883 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
1906902 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
1906922 AAAATCGCAACG
1 AAAATCGCAACG
1906934 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:1906943 original size:20 final size:20
Alignment explanation
Indices: 1906920--1906973 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1906910 AACGCGATTT
*
1906920 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGGTAAAA
*
1906940 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTAAAA
1906960 AGAAAATCGCAACG
1 AGAAAATCGCAACG
1906974 CGAGCTTCCA
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:0.52, C:0.19, G:0.19, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTAAAA
Found at i:1907033 original size:20 final size:20
Alignment explanation
Indices: 1907008--1907215 Score: 389
Period size: 20 Copynumber: 10.4 Consensus size: 20
1906998 TTTAGAAGAA
1907008 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
1907028 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
1907048 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
1907068 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
1907088 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
1907108 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
1907128 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
1907148 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGATAG
*
1907168 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGATAG
* *
1907188 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGATAG
1907208 AATCGCAA
1 AATCGCAA
1907216 CGTTGAAAAT
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 184 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (20 bp):
AATCGCAATGCGATTGATAG
Found at i:1907331 original size:6 final size:6
Alignment explanation
Indices: 1907320--1907351 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1907310 GACACGTATT
1907320 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1907352 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1908075 original size:6 final size:6
Alignment explanation
Indices: 1908039--1908120 Score: 129
Period size: 6 Copynumber: 14.5 Consensus size: 6
1908029 TCTCGTCTCG
1908039 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1908082 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1908121 AATACGTGTC
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 25 0.33
6 51 0.67
ACGTcount: A:0.00, C:0.17, G:0.54, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:1908223 original size:20 final size:20
Alignment explanation
Indices: 1908198--1908241 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1908188 TTTTTAACTA
*
1908198 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
1908218 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
1908238 TTCT
1 TTCT
1908242 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:1908251 original size:20 final size:20
Alignment explanation
Indices: 1908228--1908524 Score: 195
Period size: 20 Copynumber: 14.6 Consensus size: 20
1908218 TTCTTTTTAA
1908228 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
1908248 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
1908268 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
1908288 CATTGCGATTTTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1908308 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
1908328 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
1908351 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
1908371 CATTGCGATTATATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1908391 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
1908411 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* *
1908434 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
1908452 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
*
1908474 CGTTGCGATTTTCTAAACCG
1 CGTTGCGATTTTCTAAATCG
* *
1908494 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
1908513 CGTTGCGATTTT
1 CGTTGCGATTTT
1908525 ATTGGTCATT
Statistics
Matches: 226, Mismatches: 41, Indels: 21
0.78 0.14 0.07
Matches are distributed among these distances:
18 2 0.01
19 16 0.07
20 171 0.76
21 3 0.01
22 6 0.03
23 28 0.12
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:1908274 original size:40 final size:40
Alignment explanation
Indices: 1908230--1908443 Score: 230
Period size: 40 Copynumber: 5.2 Consensus size: 40
1908220 CTTTTTAACG
* * * *
1908230 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
* * * * *
1908270 TTGCGATTCTATAAATCGCATTGCGATTTTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
* *
1908310 TTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCG
1 TTGCGATTCTCTCAATCGCATTGCGA--TTC-TCTAAATCGCA
* * *
1908353 TTGCGACTCTCTCAATCGCATTGCGATTATATAAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
* *
1908393 TTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCG
1 TTGCGATTCTCTCAATCGCATTGCGA--TTC-TCTAAATCGCA
1908436 TTGCGATT
1 TTGCGATT
1908444 TTCTTTTGAC
Statistics
Matches: 146, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
40 91 0.62
41 2 0.01
42 4 0.03
43 49 0.34
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (40 bp):
TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
Found at i:1908386 original size:103 final size:105
Alignment explanation
Indices: 1908238--1908448 Score: 327
Period size: 103 Copynumber: 2.0 Consensus size: 105
1908228 CGTTGCGATT
* * * *
1908238 TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTTTCTC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATC
* * *
1908303 AGTCGCATTGCGA-TTC-TCTCAGTCGCATTGCGATTTTC
66 AATCGCATTGCGATTTCTTCTAAATCGCATTGCGATTTTC
1908341 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATC
*
1908406 AATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGATTTTC
66 AATCGCATTGCGA-TTTCTTCTAAATCGCATTGCGATTTTC
1908447 TT
1 TT
1908449 TTGACCGTTG
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
103 73 0.75
105 3 0.03
106 21 0.22
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (105 bp):
TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATC
AATCGCATTGCGATTTCTTCTAAATCGCATTGCGATTTTC
Found at i:1908392 original size:83 final size:83
Alignment explanation
Indices: 1908230--1908441 Score: 277
Period size: 83 Copynumber: 2.6 Consensus size: 83
1908220 CTTTTTAACG
* * * * * *
1908230 TTGCGATTTTCTAAATCGCGTTGCGA--TTC-TCTCAATCGCATTGCGATTCTATAAATCGCATT
1 TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTATAAATCGCATT
* * * *
1908292 GCGATTTTCTCAGTCGCA
66 GCGATTATATAAATCGCA
* * *
1908310 TTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCATT
1 TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTATAAATCGCATT
1908375 GCGATTATATAAATCGCA
66 GCGATTATATAAATCGCA
*
1908393 TTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGA
1908442 TTTTCTTTTG
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
80 22 0.19
82 3 0.03
83 89 0.78
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (83 bp):
TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTATAAATCGCATT
GCGATTATATAAATCGCA
Found at i:1908480 original size:83 final size:83
Alignment explanation
Indices: 1908210--1908505 Score: 251
Period size: 83 Copynumber: 3.6 Consensus size: 83
1908200 CTTTTGACCG
* * * * * * *
1908210 TTGCGATTTTCTTTTTAACGTTGCGATTTTCTAAATCGCGTTGCGA--TTC-TCTCAATCGCATT
1 TTGCGATTTTCTTATTAACATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
* *
1908272 GCGATTCTATAAATCGCA
66 GCGATTCTTTTAATCGCA
* * ** *
1908290 TTGCGATTTTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCGTT
1 TTGCGATTTTCTTATTAACATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
* * *
1908355 GCGACTCTCTCAATCGCA
66 GCGATTCTTTTAATCGCA
* * * * ** *
1908373 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
1 TTGCGATTTTCTTATTAACATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
* *
1908438 GCGATTTTCTTTTGA-C-CG
66 GCGA--TTCTTTTAATCGCA
* * * * * *
1908456 TTGCGATTTTCTTTTTAACGTTGCGATTTTCTAAACCGCGTTGCGATTTT
1 TTGCGATTTTCTTATTAACATTGCGATTCTCTCAATCGCATTGCGATTTT
1908506 GATATCGCGT
Statistics
Matches: 172, Mismatches: 39, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
80 36 0.21
82 3 0.02
83 127 0.74
84 1 0.01
85 5 0.03
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (83 bp):
TTGCGATTTTCTTATTAACATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
GCGATTCTTTTAATCGCA
Found at i:1925025 original size:20 final size:20
Alignment explanation
Indices: 1924994--1925049 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1924984 TCACGTACGT
* **
1924994 AGTACCGGTACTGTTCTTAC
1 AGTACCGATACTGTTCGAAC
*
1925014 AGTATCGATACTGTAT-GAAC
1 AGTACCGATACTGT-TCGAAC
1925034 AGTACCGATACTGTTC
1 AGTACCGATACTGTTC
1925050 ATATGGTACC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (20 bp):
AGTACCGATACTGTTCGAAC
Found at i:1935698 original size:19 final size:20
Alignment explanation
Indices: 1935611--1935699 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 20
1935601 CGCGATTGTA
1935611 AAAAATGTGTTGCGATAGT-
1 AAAAATGTGTTGCGATAGTG
* *
1935630 TAAAATGTGTTGCGAGAGTTTG
1 AAAAATGTGTTGCGATAG--TG
*
1935652 AAAAATGTGTTATTGCAATAGTG
1 AAAAATGTG---TTGCGATAGTG
1935675 AAAAA-GTGTTGCGATAGTG
1 AAAAATGTGTTGCGATAGTG
1935694 AAAAAT
1 AAAAAT
1935700 CCAAAATAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
19 31 0.54
21 1 0.02
22 11 0.19
23 7 0.12
25 7 0.12
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAAATGTGTTGCGATAGTG
Found at i:1937880 original size:19 final size:19
Alignment explanation
Indices: 1937844--1937882 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1937834 GATTTCGTGG
* *
1937844 ATATATAAAAATATTTAAA
1 ATATATAAAAAAACTTAAA
*
1937863 ATATTTAAAAAAACTTAAA
1 ATATATAAAAAAACTTAAA
1937882 A
1 A
1937883 AATGGAACAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATATAAAAAAACTTAAA
Found at i:1946299 original size:150 final size:150
Alignment explanation
Indices: 1946122--1946398 Score: 423
Period size: 150 Copynumber: 1.8 Consensus size: 150
1946112 TCTTGGAATC
*
1946122 TTTCCCACTGATTCGGATTCCGCCTTACTCGAATCATAATAATGTACACCATGCACAGTTGTTTC
1 TTTCCCACTGATTCGGATTCCGCCTTACTCAAATCATAATAATGTACACCATGCACAGTTGTTTC
* * * *
1946187 ATAATCCGATGAAGCAATGGAACTAGATCTCTTAGGATCATCAATGGGATGTTTGAAGGAAGCTT
66 ATAATCCAATGAAGCAATGGAACTAGAACTCTTACGATCATCAACGGGATGTTTGAAGGAAGCTT
1946252 CACCTGTCATTGTCAAATTT
131 CACCTGTCATTGTCAAATTT
* *
1946272 TTTCCTACTGATTTC-GAGTTCCG-CTTACTCAAATCATGATAATGTACACCATGCACAGTTGTT
1 TTTCCCACTGA-TTCGGA-TTCCGCCTTACTCAAATCATAATAATGTACACCATGCACAGTTGTT
* * * *
1946335 TCATATTCCAATGGATCAATGGAACTGGAACTCTTACGATCATCAACGGGATGTTTGAAGGAAG
64 TCATAATCCAATGAAGCAATGGAACTAGAACTCTTACGATCATCAACGGGATGTTTGAAGGAAG
1946399 ATTTGTTAGC
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
150 106 0.93
151 8 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (150 bp):
TTTCCCACTGATTCGGATTCCGCCTTACTCAAATCATAATAATGTACACCATGCACAGTTGTTTC
ATAATCCAATGAAGCAATGGAACTAGAACTCTTACGATCATCAACGGGATGTTTGAAGGAAGCTT
CACCTGTCATTGTCAAATTT
Found at i:1946426 original size:150 final size:149
Alignment explanation
Indices: 1946118--1946440 Score: 391
Period size: 150 Copynumber: 2.2 Consensus size: 149
1946108 TTATTCTTGG
*
1946118 AATCTTTCCCACTGATTCGGATTCCGCCTTACTCGAATCATAATAATGTACACCATGCACAGTTG
1 AATCTTTCCCACTGATTCGGATTCCGCCTTACTCAAATCATAATAATGTACACCATGCACAGTTG
* * * *
1946183 TTTCATAATCCGATGAAGCAATGGAACTAGATCTCTTAGGATCATCAATGGGATGTTTGAAGGAA
66 TTTCATAATCCAATGAAGCAATGGAACTAGAACTCTTACGATCATCAACGGGATGTTTGAAGGAA
* * ** *
1946248 GCTTCACCTGTCATTGTCA
131 GATTCACCTGCCACCGCCA
* * *
1946267 AATTTTTTCCTACTGATTTC-GAGTTCCG-CTTACTCAAATCATGATAATGTACACCATGCACAG
1 AA-TCTTTCCCACTGA-TTCGGA-TTCCGCCTTACTCAAATCATAATAATGTACACCATGCACAG
* * * *
1946330 TTGTTTCATATTCCAATGGATCAATGGAACTGGAACTCTTACGATCATCAACGGGATGTTTGAAG
63 TTGTTTCATAATCCAATGAAGCAATGGAACTAGAACTCTTACGATCATCAACGGGATGTTTGAAG
***
1946395 GAAGATT-TGTTAGCCACCGCCGA
128 GAAGATTCACCT-GCCACCGCC-A
*
1946418 AATCTTTCCCACCGATTCGGATT
1 AATCTTTCCCACTGATTCGGATT
1946441 TCGTCTTGCT
Statistics
Matches: 145, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
149 8 0.06
150 126 0.87
151 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (149 bp):
AATCTTTCCCACTGATTCGGATTCCGCCTTACTCAAATCATAATAATGTACACCATGCACAGTTG
TTTCATAATCCAATGAAGCAATGGAACTAGAACTCTTACGATCATCAACGGGATGTTTGAAGGAA
GATTCACCTGCCACCGCCA
Found at i:1950090 original size:20 final size:20
Alignment explanation
Indices: 1950065--1950174 Score: 84
Period size: 20 Copynumber: 5.4 Consensus size: 20
1950055 TCGAAGTTCG
1950065 CGTTGCGATTCATTCCAATT
1 CGTTGCGATTCATTCCAATT
** *
1950085 CGTTGCGA--CAGGCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
1950104 CGCGTTGCGATTCATTCCAATT
1 --CGTTGCGATTCATTCCAATT
** *
1950126 CGTTGCGA--CAGGCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
1950145 CGCGTTGCGATTCATTCCAATT
1 --CGTTGCGATTCATTCCAATT
1950167 CGTTGCGA
1 CGTTGCGA
1950175 CAGGCGAAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
18 10 0.15
19 4 0.06
20 24 0.35
21 16 0.24
22 4 0.06
23 10 0.15
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAATT
Found at i:1950101 original size:41 final size:41
Alignment explanation
Indices: 1950056--1950216 Score: 304
Period size: 41 Copynumber: 3.9 Consensus size: 41
1950046 ACGCGATAGT
1950056 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1950097 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1950138 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
*
1950179 CGAAGTTCGCGTTGCGATTCATTCCAAATTTGTTGCGA
1 CGAAGTTCGCGTTGCGATTCATTCC-AATTCGTTGCGA
1950217 TAGTCCAAAT
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 107 0.91
42 11 0.09
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (41 bp):
CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
Found at i:1951044 original size:21 final size:21
Alignment explanation
Indices: 1951017--1951376 Score: 134
Period size: 21 Copynumber: 17.4 Consensus size: 21
1951007 TATTTGGACT
1951017 ATCGCAACGAATTTGGAATGA
1 ATCGCAACGAATTTGGAATGA
* * * **
1951038 CTCGCAACGCGAACTTCGCCT--
1 ATCGCAA--CGAATTTGGAATGA
1951059 ATCGCAACGAATTTGGAATGA
1 ATCGCAACGAATTTGGAATGA
* * **
1951080 ATCGCAACGCGAACTTCGCCTG-
1 ATCGCAA--CGAATTTGGAATGA
1951102 -TCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAATGA
1951121 ATCGCAACGAATTTGGAATGA
1 ATCGCAACGAATTTGGAATGA
* * **
1951142 ATCGCAACGCGAACTTCGCCTG-
1 ATCGCAA--CGAATTTGGAATGA
1951164 -TCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAATGA
* * **
1951183 ATCGCAACGCGAACTTCGCCTG-
1 ATCGCAA--CGAATTTGGAATGA
1951205 -TCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAATGA
* * **
1951224 ATCGCAACGCGAACTTCGCCTG-
1 ATCGCAA--CGAATTTGGAATGA
* * **
1951246 -TCGCAATGCGAACTTCGCCTG-
1 ATCGCAA--CGAATTTGGAATGA
1951267 -TCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAATGA
* * **
1951286 ATCGCAATGCGAACTTCGCCTG-
1 ATCGCAA--CGAATTTGGAATGA
1951308 -TCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAATGA
* **
1951327 ATCGCAATGCGAATTTCGCCTG-
1 ATCGCAA--CGAATTTGGAATGA
1951349 -TCGCAACGAA-TTGGAATGA
1 ATCGCAACGAATTTGGAATGA
1951368 ATCGCAACG
1 ATCGCAACG
1951377 CGAACTTCGA
Statistics
Matches: 257, Mismatches: 49, Indels: 67
0.69 0.13 0.18
Matches are distributed among these distances:
18 30 0.12
19 32 0.12
20 42 0.16
21 91 0.35
22 16 0.06
23 46 0.18
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATGA
Found at i:1951128 original size:41 final size:41
Alignment explanation
Indices: 1951018--1951394 Score: 253
Period size: 41 Copynumber: 9.1 Consensus size: 41
1951008 ATTTGGACTA
* * *
1951018 TCGCAACGAATTTGGAATGACTCGCAACGCGAACTTCGCCTA
1 TCGCAACGAACTTGGAATGAATCGCAA-GCGAACTTCGCCTG
*
1951060 TCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTG
1 TCGCAACGAACTTGGAATGAATCGCAA-GCGAACTTCGCCTG
* * **
1951102 TCGCAACGAA-TTGGAATGAATCGCAA-CGAATTTGGAATG
1 TCGCAACGAACTTGGAATGAATCGCAAGCGAACTTCGCCTG
* ** * **
1951141 AATCGCAACGCGAACTTCGCCTG--TCGCAA-CGAA-TTGGAATG
1 --TCGCAA--CGAACTTGGAATGAATCGCAAGCGAACTTCGCCTG
* ** * **
1951182 AATCGCAACGCGAACTTCGCCTG--TCGCAA-CGAA-TTGGAATG
1 --TCGCAA--CGAACTTGGAATGAATCGCAAGCGAACTTCGCCTG
* **
1951223 AATCGCAACGCGAACTTCGCCTG--TCGCAATGCGAACTTCGCCTG
1 --TCGCAA--CGAACTTGGAATGAATCGCAA-GCGAACTTCGCCTG
1951267 TCGCAACGAA-TTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAACTTGGAATGAATCGCAA-GCGAACTTCGCCTG
*
1951308 TCGCAACGAA-TTGGAATGAATCGCAATGCGAATTTCGCCTG
1 TCGCAACGAACTTGGAATGAATCGCAA-GCGAACTTCGCCTG
* *
1951349 TCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGACTA
1 TCGCAACGAACTTGGAATGAATCGCAA-GCGAACTTCGCCTG
1951390 TCGCA
1 TCGCA
1951395 TTGCGAATCT
Statistics
Matches: 305, Mismatches: 20, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
39 14 0.05
40 4 0.01
41 203 0.67
42 66 0.22
43 8 0.03
44 10 0.03
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (41 bp):
TCGCAACGAACTTGGAATGAATCGCAAGCGAACTTCGCCTG
Found at i:1951137 original size:62 final size:62
Alignment explanation
Indices: 1951059--1951191 Score: 266
Period size: 62 Copynumber: 2.1 Consensus size: 62
1951049 AACTTCGCCT
1951059 ATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
1 ATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
1951121 ATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
1 ATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
1951183 ATCGCAACG
1 ATCGCAACG
1951192 CGAACTTCGC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (62 bp):
ATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
Found at i:1951226 original size:103 final size:103
Alignment explanation
Indices: 1951017--1951342 Score: 523
Period size: 103 Copynumber: 3.1 Consensus size: 103
1951007 TATTTGGACT
*
1951017 ATCGCAA-CGAATTTGGAATGACTCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATGAA
1 ATCGCAAGCGAATTTGGAATGA-TCGCAACGCGAACTTCGCCTGTCGCAACGAA-TTGGAATGAA
1951081 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
64 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
1951121 ATCGCAA-CGAATTTGGAATGAATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAAT
1 ATCGCAAGCGAATTTGGAATG-ATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAAT
1951185 CGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
65 CGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
* * ** *
1951224 ATCGCAACGCGAACTTCGCCTG-TCGCAATGCGAACTTCGCCTGTCGCAACGAATTGGAATGAAT
1 ATCGCAA-GCGAATTTGGAATGATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAAT
*
1951288 CGCAATGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
65 CGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
1951327 ATCGCAATGCGAATTT
1 ATCGCAA-GCGAATTT
1951343 CGCCTGTCGC
Statistics
Matches: 210, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
103 150 0.71
104 50 0.24
105 10 0.05
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (103 bp):
ATCGCAAGCGAATTTGGAATGATCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAATC
GCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGA
Found at i:1951250 original size:62 final size:62
Alignment explanation
Indices: 1951184--1951315 Score: 246
Period size: 62 Copynumber: 2.1 Consensus size: 62
1951174 TTGGAATGAA
1951184 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
* *
1951246 TCGCAATGCGAACTTCGCCTGTCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
1951308 TCGCAACG
1 TCGCAACG
1951316 AATTGGAATG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (62 bp):
TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGCCTG
Found at i:1951353 original size:62 final size:60
Alignment explanation
Indices: 1951039--1951358 Score: 178
Period size: 62 Copynumber: 5.2 Consensus size: 60
1951029 TTGGAATGAC
* *
1951039 TCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTG
1 TCGCAA-GCGAACTTCGCCTGTCGCAACGAACTTGGAATGAATCGCAA-GCGAA-TTCGCCTG
* ** *
1951102 TCGCAA-CGAA-TTGGAATGAATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTG
1 TCGCAAGCGAACTTCGCCTG--TCGCAACGAACTTGGAATGAATCGCAA-GCGAA-TTCGCCTG
* ** * ** * **
1951164 TCGCAA-CGAA-TTGGAATGAATCGCAACGCGAACTTCGCCTG--TCGCAA-CGAATTGGAATG
1 TCGCAAGCGAACTTCGCCTG--TCGCAA--CGAACTTGGAATGAATCGCAAGCGAATTCGCCTG
* ** * **
1951223 AATCGCAACGCGAACTTCGCCTGTCGCAATGCGAACTTCGCCTG--TCGCAA-CGAATTGGAATG
1 --TCGCAA-GCGAACTTCGCCTGTCGCAA--CGAACTTGGAATGAATCGCAAGCGAATTCGCCTG
1951285 AATCGCAATGCGAACTTCGCCTGTCGCAACGAA-TTGGAATGAATCGCAATGCGAATTTCGCCTG
1 --TCGCAA-GCGAACTTCGCCTGTCGCAACGAACTTGGAATGAATCGCAA-GCGAA-TTCGCCTG
1951349 TCGCAA-CGAA
1 TCGCAAGCGAA
1951359 TTGGAATGAA
Statistics
Matches: 221, Mismatches: 22, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
59 10 0.05
60 16 0.07
61 16 0.07
62 146 0.66
63 14 0.06
64 19 0.09
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (60 bp):
TCGCAAGCGAACTTCGCCTGTCGCAACGAACTTGGAATGAATCGCAAGCGAATTCGCCTG
Found at i:1956784 original size:4 final size:4
Alignment explanation
Indices: 1956775--1956799 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1956765 TTCACATGAA
1956775 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
1956800 TCTGGCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:1963115 original size:49 final size:48
Alignment explanation
Indices: 1963043--1963137 Score: 172
Period size: 49 Copynumber: 2.0 Consensus size: 48
1963033 CCACTAGACT
*
1963043 GCAAAATGGTTGAAATAGACAAACGTTAAACCTAACTTAACATGGGACA
1 GCAAAAAGGTTGAAATAGACAAACGTTAAACCTAACTT-ACATGGGACA
1963092 GCAAAAAGGTTGAAATAGACAAACGTTAAACCTAACTTACATGGGA
1 GCAAAAAGGTTGAAATAGACAAACGTTAAACCTAACTTACATGGGA
1963138 TACTATCACG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 8 0.18
49 37 0.82
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (48 bp):
GCAAAAAGGTTGAAATAGACAAACGTTAAACCTAACTTACATGGGACA
Found at i:1965572 original size:20 final size:20
Alignment explanation
Indices: 1965544--1965680 Score: 101
Period size: 20 Copynumber: 7.2 Consensus size: 20
1965534 ATTAGCAACA
* *
1965544 TAATAAAAACTGATTCTATC
1 TAATTAAAACTGATCCTATC
* *
1965564 TAATTAAAAATGATCCTATA
1 TAATTAAAACTGATCCTATC
* * *
1965584 GAATAAAAAACTGATTCTATC
1 TAAT-TAAAACTGATCCTATC
*
1965605 TAATTAAAAATGATCCTATC
1 TAATTAAAACTGATCCTATC
*
1965625 TAA-T--AACT-A----ATA
1 TAATTAAAACTGATCCTATC
* * *
1965637 GAATAAAAACTGATTCTATC
1 TAATTAAAACTGATCCTATC
1965657 TAATTAAAACTGATCCTATC
1 TAATTAAAACTGATCCTATC
1965677 TAAT
1 TAAT
1965681 ATTTAATTTA
Statistics
Matches: 87, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
12 4 0.05
15 4 0.05
16 2 0.02
17 3 0.03
19 1 0.01
20 58 0.67
21 15 0.17
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.34
Consensus pattern (20 bp):
TAATTAAAACTGATCCTATC
Found at i:1965630 original size:41 final size:41
Alignment explanation
Indices: 1965543--1965630 Score: 151
Period size: 41 Copynumber: 2.2 Consensus size: 41
1965533 AATTAGCAAC
1965543 ATAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTAT
1 ATAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTAT
*
1965583 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTAT
1 ATAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTAT
*
1965624 CTAATAA
1 ATAATAA
1965631 CTAATAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 4 0.09
41 40 0.91
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (41 bp):
ATAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTAT
Found at i:1965660 original size:52 final size:53
Alignment explanation
Indices: 1965581--1965681 Score: 186
Period size: 52 Copynumber: 1.9 Consensus size: 53
1965571 AAATGATCCT
1965581 ATAGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTA
1 ATAGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTA
*
1965634 ATAGAAT-AAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 ATAGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
1965682 TTTAATTTAG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 40 0.85
53 7 0.15
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.33
Consensus pattern (53 bp):
ATAGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTA
Found at i:1968025 original size:14 final size:14
Alignment explanation
Indices: 1968006--1968034 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1967996 TGTTAGAGTG
1968006 CTTCATTCCAAAAA
1 CTTCATTCCAAAAA
1968020 CTTCATTCCAAAAA
1 CTTCATTCCAAAAA
1968034 C
1 C
1968035 GATTAGGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (14 bp):
CTTCATTCCAAAAA
Done.