Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 35 of 214
Found at i:9680274 original size:97 final size:97
Alignment explanation
Indices: 9680163--9680495 Score: 648
Period size: 97 Copynumber: 3.4 Consensus size: 97
9680153 TTTAATAACA
9680163 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
9680228 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
9680260 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
9680325 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
*
9680357 ATTATATAAGCATCAAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
9680422 TAAAATATGCAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
9680454 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
9680496 CATAATTTAA
Statistics
Matches: 233, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 233 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.41
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGAAGATTTAATCTTAAATTTGGAT
Found at i:9684970 original size:21 final size:21
Alignment explanation
Indices: 9684945--9684984 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9684935 GATGTCAGGG
*
9684945 GACGTGTCAGCAAATCGCGCT
1 GACGTGGCAGCAAATCGCGCT
9684966 GACGTGGCAGCAAATCGCG
1 GACGTGGCAGCAAATCGCG
9684985 TCCACGTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (21 bp):
GACGTGGCAGCAAATCGCGCT
Found at i:9685484 original size:125 final size:125
Alignment explanation
Indices: 9685245--9685803 Score: 692
Period size: 125 Copynumber: 4.5 Consensus size: 125
9685235 GATAAAATCA
* * * * * * * *
9685245 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCACACCCACGTATACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGT
*
9685310 AGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
9685370 AAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGT
* * *
9685435 TGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATA-TTTAAAAAATGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
9685495 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGT
* * *
9685560 AGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGT-
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAA-AACGCT-TC
* * *
9685621 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCG-TC-C----A--CGCTGTTGCTATAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTAGACGCGCTTTTGCTACAG
* * * *
9685677 TAGGTCCTGGAAAAATAATTTCGACTTGATGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * * ** *
9685737 TAGCAGGATGCTATATGAGAAGAATTTGTGAAATTGTACCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGT
9685802 AG
66 AG
9685804 CATGTTTGGG
Statistics
Matches: 379, Mismatches: 40, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
115 2 0.01
116 36 0.09
117 4 0.01
118 57 0.15
120 1 0.00
122 1 0.00
124 47 0.12
125 156 0.41
126 72 0.19
127 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:9685700 original size:118 final size:116
Alignment explanation
Indices: 9685550--9685770 Score: 336
Period size: 118 Copynumber: 1.9 Consensus size: 116
9685540 GGACGTGCTT
*
9685550 TTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAACAA
1 TTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTAT-AAA-AA
*
9685615 CGCTGT-AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGTCCACGCTG
64 CGCT-TCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCACGCTG
* * ** *
9685668 TTGCTATAGTAGGTCCTGGAAAAATAATTTCGACTTGATGTTTCTGAGCAAATAGTATAAAATCG
1 TTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTATAAAAACG
*
9685733 CTTCTAGCAGGATGCTATATGAGAAGAATTTGTGAAAT
66 CTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAAT
9685771 TGTACCCACG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
115 1 0.01
116 37 0.39
117 3 0.03
118 53 0.56
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (116 bp):
TTGCTACAGTAGGTCCTGAAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTATAAAAACG
CTTCAAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGTCCACGCTG
Found at i:9689017 original size:21 final size:22
Alignment explanation
Indices: 9688977--9689302 Score: 317
Period size: 21 Copynumber: 15.0 Consensus size: 22
9688967 TCAAATTATA
9688977 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9688999 TTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9689020 TTTTATTTAAGGG-TTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9689041 TTAAAGTTAAGAGTTTAGGGTA
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9689063 TTTAATTTAAGGG-TTACGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9689084 TTTAAGTTAAGGG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9689105 TTTAAGTTAAGGGGTTTTGGATT
1 TTTAAGTTAA-GGGTTTAGGGTT
*
9689128 TTTAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * **
9689149 TTTCATTTAAGGG-TTACAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9689170 TTTAAGTTAAAGGTTTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9689192 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
9689213 TTAAAGTTAAAGGTTTAGAG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
9689234 TTTAAGGTTTTAGGGTTTATGGTT
1 TTTAA-G-TTAAGGGTTTAGGGTT
*
9689258 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
9689280 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
9689302 T
1 T
9689303 AGGGCTTTAG
Statistics
Matches: 245, Mismatches: 51, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
21 122 0.50
22 92 0.38
23 25 0.10
24 6 0.02
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.46
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:9689059 original size:43 final size:43
Alignment explanation
Indices: 9688977--9689399 Score: 304
Period size: 43 Copynumber: 9.6 Consensus size: 43
9688967 TCAAATTATA
* * *
9688977 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGTG-TTAGGGTT
1 TTTAATTTAAGGG-TTACGGTTTTTAAGTTAAGAGTTTAGGGTT
* * *
9689020 TTTTATTTAAGGGTTACGGTTTTAAAGTTAAGAGTTTAGGGTA
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGAGTTTAGGGTT
* * *
9689063 TTTAATTTAAGGGTTACGATTTTTAAGTTAAG-GGTTAGAGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGAGTTTAGGGTT
* **
9689105 TTTAAGTTAAGGGGTTTTGGATTTTTAAGTTAATG-G-TTAGGGTT
1 TTTAATTTAA-GGGTTACGG-TTTTTAAGTTAA-GAGTTTAGGGTT
* * *
9689149 TTTCATTTAAGGGTTACAGTTTTTAAGTTAA-AGGTTTACGGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGA-GTTTAGGGTT
* * * * *
9689192 TTAAAGTTAAGGGTTAGGGTTTTAAAGTTAA-AGGTTTAGAG-T
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGA-GTTTAGGGTT
* * * *
9689234 TTTAAGGTTTTAGGGTTTATGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAA--TTTAAGGG-TTACGGTTTTTAAGTTAAGAGTTTAGGGTT
* * * * * **
9689280 TTTAAGTTAAGGGTTTAAGGTTTAGGGCTTTAGGGCTTTAGGGTTTAAAGTT
1 TTTAATTTAAGGG-TTACGG-TT-----TTTA-AG-TTAAGAGTTTAGGGTT
*
9689332 TTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGAGTTTAGGG-T
1 TTTAATTTAAGGG-TTACGGTTTTTAAGTTAAGAGTTTAGGGTT
* *
9689375 TTTAATTTAAAGGTTTAGGGTTTTT
1 TTTAATTT-AAGGGTTACGGTTTTT
9689400 CAGTAATAAC
Statistics
Matches: 304, Mismatches: 55, Indels: 42
0.76 0.14 0.10
Matches are distributed among these distances:
42 52 0.17
43 119 0.39
44 59 0.19
45 27 0.09
46 10 0.03
50 4 0.01
51 2 0.01
52 31 0.10
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (43 bp):
TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGAGTTTAGGGTT
Found at i:9689086 original size:64 final size:64
Alignment explanation
Indices: 9688977--9689294 Score: 311
Period size: 64 Copynumber: 4.9 Consensus size: 64
9688967 TCAAATTATA
* * *
9688977 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGTGTTAGGGTTTTTTATTTAAGGGTTACGGTT
1 TTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTACGGTT
* * * * * *
9689041 TTAAAGTTAAGAGTTTAGGGTATTTAATTTAAGGGTTACGATTTTTAAGTTAAGGGTTA-GAGTT
1 TTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTACG-GTT
* * * * * *
9689105 TTTAAGTTAAGGGGTTTTGGATTTTTAAGTTAATGGTTAGGGTTTTTCATTTAAGGGTTACAGTT
1 TTTAAGTTAA-GAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTACGGTT
* * * * *
9689170 TTTAAGTTAA-AGGTTTACGGTTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAAGGTTTA-GAG
1 TTTAAGTTAAGA-GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA-TTTAAGGGTTACG-G
9689233 -T
63 TT
* * * * *
9689234 TTTAAGGTTTTAGGGTTTATGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTT
1 TTTAA-G-TTAAGAGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATTTAAGGGTT
9689295 TAAGGTTTAG
Statistics
Matches: 203, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
63 1 0.00
64 97 0.48
65 63 0.31
66 30 0.15
67 12 0.06
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.46
Consensus pattern (64 bp):
TTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTACGGTT
Found at i:9689295 original size:37 final size:37
Alignment explanation
Indices: 9689255--9689369 Score: 123
Period size: 37 Copynumber: 3.1 Consensus size: 37
9689245 AGGGTTTATG
9689255 GTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAG-
1 GTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGA
* * *
9689291 G-GTTTAAGGTTT-AGGGCTTTAGGG-CTTTAGGGTTTAA-A
1 GTTTTTAA--TTTAAGGG-TTTAGGGTTTTTA-AG-TTAAGA
9689329 GTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGA
1 GTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGA
9689366 GTTT
1 GTTT
9689370 AGGGTTTTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
35 5 0.08
36 13 0.21
37 27 0.43
38 13 0.21
39 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (37 bp):
GTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGA
Found at i:9689299 original size:8 final size:7
Alignment explanation
Indices: 9689267--9689326 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
9689257 TTTTAATTTA
9689267 AGGGTTT
1 AGGGTTT
9689274 AGGGTTTTT
1 AGGG--TTT
* *
9689283 A-AGTTA
1 AGGGTTT
9689289 AGGGTTT
1 AGGGTTT
*
9689296 AAGGTTT
1 AGGGTTT
9689303 AGGGCTTT
1 AGGG-TTT
9689311 AGGGCTTT
1 AGGG-TTT
9689319 AGGGTTT
1 AGGGTTT
9689326 A
1 A
9689327 AAGTTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 3 0.07
7 20 0.47
8 16 0.37
9 4 0.09
ACGTcount: A:0.20, C:0.03, G:0.35, T:0.42
Consensus pattern (7 bp):
AGGGTTT
Found at i:9689320 original size:74 final size:74
Alignment explanation
Indices: 9689213--9689376 Score: 240
Period size: 74 Copynumber: 2.2 Consensus size: 74
9689203 GGTTAGGGTT
* * * **
9689213 TTAA-AGTTAAAGGTTTAGAGTTTTAAGGTTTTAGGGTTTATGGTTTTTAATTTAAGGGTTTAGG
1 TTAAGAGTTTAAGGTTTAGAGCTTTAAGGCTTTAGGGTTTAAAGTTTTTAATTTAAGGGTTTAGG
9689277 GTTTTTAAG
66 GTTTTTAAG
* * *
9689286 TTAAGGGTTTAAGGTTTAGGGCTTTAGGGCTTTAGGGTTTAAAGTTTTTAATTTAAGGGTTTAGG
1 TTAAGAGTTTAAGGTTTAGAGCTTTAAGGCTTTAGGGTTTAAAGTTTTTAATTTAAGGGTTTAGG
9689351 GTTTTTAAG
66 GTTTTTAAG
*
9689360 TTAAGAGTTTAGGGTTT
1 TTAAGAGTTTAAGGTTT
9689377 TAATTTAAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 4 0.05
74 76 0.95
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.46
Consensus pattern (74 bp):
TTAAGAGTTTAAGGTTTAGAGCTTTAAGGCTTTAGGGTTTAAAGTTTTTAATTTAAGGGTTTAGG
GTTTTTAAG
Found at i:9689346 original size:22 final size:22
Alignment explanation
Indices: 9689319--9689399 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
9689309 TTAGGGCTTT
*
9689319 AGGGTTTAAAGTTTTTAATTTA
1 AGGGTTTAAGGTTTTTAATTTA
* *
9689341 AGGGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAAGGTTTTTAATTTA
* *
9689363 AGAGTTT-AGGGTTTTAATTTA
1 AGGGTTTAAGGTTTTTAATTTA
* *
9689384 AAGGTTTAGGGTTTTT
1 AGGGTTTAAGGTTTTT
9689400 CAGTAATAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
21 16 0.34
22 31 0.66
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (22 bp):
AGGGTTTAAGGTTTTTAATTTA
Found at i:9689355 original size:21 final size:21
Alignment explanation
Indices: 9689331--9689398 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
9689321 GGTTTAAAGT
9689331 TTTTAATTTAAGGGTTTAGGG
1 TTTTAATTTAAGGGTTTAGGG
* *
9689352 TTTTTAAGTTAAGAGTTTAGGG
1 -TTTTAATTTAAGGGTTTAGGG
*
9689374 TTTTAATTTAAAGGTTTAGGG
1 TTTTAATTTAAGGGTTTAGGG
9689395 TTTT
1 TTTT
9689399 TCAGTAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 22 0.54
22 19 0.46
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTTAATTTAAGGGTTTAGGG
Found at i:9690906 original size:20 final size:20
Alignment explanation
Indices: 9690869--9690906 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9690859 TTTATTTTTA
*
9690869 AAAATCTACATAATAATTAT
1 AAAATCTACATAAAAATTAT
9690889 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
9690907 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTAT
Found at i:9692237 original size:21 final size:20
Alignment explanation
Indices: 9692198--9692246 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
9692188 TACATGTAAT
* **
9692198 TATTTTTTTAATAGGAGCTA
1 TATTTTTTAAATAAAAGCTA
9692218 CTATTTTTTAAATAAAAGCTA
1 -TATTTTTTAAATAAAAGCTA
9692239 T-TTTTTTA
1 TATTTTTTA
9692247 TTTTTAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.28
20 1 0.04
21 17 0.68
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
TATTTTTTAAATAAAAGCTA
Found at i:9701331 original size:16 final size:16
Alignment explanation
Indices: 9701310--9701341 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9701300 ATTCTGGTTT
*
9701310 ACTAATGTTTGGGCTG
1 ACTAATATTTGGGCTG
9701326 ACTAATATTTGGGCTG
1 ACTAATATTTGGGCTG
9701342 TTGAGCAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (16 bp):
ACTAATATTTGGGCTG
Found at i:9705731 original size:28 final size:27
Alignment explanation
Indices: 9705695--9705886 Score: 154
Period size: 28 Copynumber: 6.8 Consensus size: 27
9705685 ATGTCCTTTG
*
9705695 TTTTTTAGATTTTGTAGTTTTCCCCTTA
1 TTTTTTAGATTTTATAGTTTT-CCCTTA
*
9705723 TTTTTTAGATTTTATTGTTTTACCCTTA
1 TTTTTTAGATTTTATAGTTTT-CCCTTA
* *
9705751 TTTTTAAAAAATTTTATAGTTTTGCCCTTA
1 TTTTT--TAGATTTTATAGTTTT-CCCTTA
* * *
9705781 TTTTTTTAGATTTTACAATTTTTCCTCTA
1 -TTTTTTAGATTTTATAGTTTTCCCT-TA
* **
9705810 TTTTTTAAATTTTATTTTTTTGTCCC-TA
1 TTTTTTAGATTTTA-TAGTTT-TCCCTTA
9705838 TTTTTTAGATTTTATAGTTTTTCTCC-TA
1 TTTTTTAGATTTTATAG-TTTTC-CCTTA
* * *
9705866 TTTTTCAAATTTTATAATTTT
1 TTTTTTAGATTTTATAGTTTT
9705887 TTCCAAAAAT
Statistics
Matches: 133, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
27 7 0.05
28 82 0.62
29 17 0.13
30 22 0.17
31 5 0.04
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (27 bp):
TTTTTTAGATTTTATAGTTTTCCCTTA
Found at i:9705840 original size:87 final size:85
Alignment explanation
Indices: 9705695--9705858 Score: 197
Period size: 87 Copynumber: 1.9 Consensus size: 85
9705685 ATGTCCTTTG
** *
9705695 TTTTTTAGATTTTGTAGTTTTCCCCTTATTTTTTAGATTTTATTGTTTTACCCTTATTTTTAAAA
1 TTTTTTAGATTTTCAAGTTTTCCCCTTATTTTTTAAATTTTATTGTTTTACCCTTATTTTT--AA
9705760 AATTTTATAGTTTTGCCCTTAT
64 AATTTTATAGTTTTGCCCTTAT
* * * * *
9705782 TTTTTTAGATTTTACAATTTTTCCTC-TATTTTTTAAATTTTATTTTTTTGTCCC-TATTTTTTA
1 TTTTTTAGATTTT-CAAGTTTTCCCCTTATTTTTTAAATTTTATTGTTTT-ACCCTTATTTTTAA
*
9705845 GATTTTATAGTTTT
64 AATTTTATAGTTTT
9705859 TCTCCTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
85 14 0.21
87 41 0.62
88 11 0.17
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (85 bp):
TTTTTTAGATTTTCAAGTTTTCCCCTTATTTTTTAAATTTTATTGTTTTACCCTTATTTTTAAAA
TTTTATAGTTTTGCCCTTAT
Found at i:9705867 original size:56 final size:55
Alignment explanation
Indices: 9705703--9705886 Score: 199
Period size: 56 Copynumber: 3.2 Consensus size: 55
9705693 TGTTTTTTAG
* * * *
9705703 ATTTTGTAGTTTTCCCCTTATTTTTTAGATTTTATTGTTTTACCCTTATTTTTAAAAA
1 ATTTTATAGTTTTGCCCTTATTTTTTAGATTTTATAGTTTTTCCC-TATTTTT--AAA
* * *
9705761 ATTTTATAGTTTTGCCCTTATTTTTTTAGATTTTACAATTTTTCCTCTATTTTTTAA
1 ATTTTATAGTTTTGCCCTTA-TTTTTTAGATTTTATAGTTTTTCC-CTATTTTTAAA
** *
9705818 ATTTTATTTTTTTGTCCC-TATTTTTTAGATTTTATAGTTTTTCTCCTATTTTTCAA
1 ATTTTATAGTTTTG-CCCTTATTTTTTAGATTTTATAGTTTTTC-CCTATTTTTAAA
*
9705874 ATTTTATAATTTT
1 ATTTTATAGTTTT
9705887 TTCCAAAAAT
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
56 42 0.39
57 17 0.16
58 21 0.19
59 27 0.25
60 1 0.01
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.62
Consensus pattern (55 bp):
ATTTTATAGTTTTGCCCTTATTTTTTAGATTTTATAGTTTTTCCCTATTTTTAAA
Found at i:9713616 original size:27 final size:27
Alignment explanation
Indices: 9713586--9713638 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9713576 TACAATTTTT
* *
9713586 AATTA-TTCTCCATGTGATTGATTAAAA
1 AATTATTTATCCAAGTG-TTGATTAAAA
9713613 AATTATTTATCCAAGTGTTGATTAAA
1 AATTATTTATCCAAGTGTTGATTAAA
9713639 CAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (27 bp):
AATTATTTATCCAAGTGTTGATTAAAA
Found at i:9715611 original size:25 final size:25
Alignment explanation
Indices: 9715569--9715617 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9715559 GATTGAAAAA
*
9715569 ATTAAAATAATATAAATTTTTAATT
1 ATTAAAATAATATAAATTTGTAATT
*
9715594 ATTAAAATTATGAT-AATTTGTAAT
1 ATTAAAATAAT-ATAAATTTGTAAT
9715618 ATGGTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTAAAATAATATAAATTTGTAATT
Found at i:9717334 original size:43 final size:43
Alignment explanation
Indices: 9717263--9717441 Score: 234
Period size: 43 Copynumber: 4.2 Consensus size: 43
9717253 TAAAAGTACT
* * **
9717263 CCGCT-AAGAACAAGACCTTTAGCGGCGCTTCTCCCACAAACG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCACAAACG
** *
9717305 CAACTAAAGACCAAGACCTTTAACGGCGCTTTTATCACAAACG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCACAAACG
* * *
9717348 CCGCTATAGACTATGACCTTTAGCGGCGCTTTTATCACAAACG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCACAAACG
* * *
9717391 CCGCTATAGACTATGACCTTTAGCGGCGCTTTTATCACAAACG
1 CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCACAAACG
9717434 CCGCTAAA
1 CCGCTAAA
9717442 AACATAATCT
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 3 0.02
43 119 0.98
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCACAAACG
Found at i:9721349 original size:24 final size:24
Alignment explanation
Indices: 9721322--9721369 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
9721312 AATGATGCCG
*
9721322 TTTTGTTATGCTAAATATT-TTTTA
1 TTTTG-TATGCTAAAAATTATTTTA
*
9721346 TTTTGTCTGCTAAAAATTATTTTA
1 TTTTGTATGCTAAAAATTATTTTA
9721370 AAGTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (24 bp):
TTTTGTATGCTAAAAATTATTTTA
Found at i:9721942 original size:7 final size:7
Alignment explanation
Indices: 9721927--9722004 Score: 66
Period size: 7 Copynumber: 11.0 Consensus size: 7
9721917 AACCTTAAAC
9721927 CCCCATAA
1 CCCC-TAA
9721935 CCCCTAA
1 CCCCTAA
*
9721942 CCTCTAA
1 CCCCTAA
9721949 CCCCTAA
1 CCCCTAA
9721956 CCCCTAA
1 CCCCTAA
* *
9721963 ACCTTAA
1 CCCCTAA
*
9721970 ACCCTAA
1 CCCCTAA
*
9721977 CCCTTAA
1 CCCCTAA
* *
9721984 ACCATAA
1 CCCCTAA
*
9721991 TCCCTAA
1 CCCCTAA
*
9721998 TCCCTAA
1 CCCCTAA
9722005 ACACATAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
7 55 0.93
8 4 0.07
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCCTAA
Found at i:9721958 original size:21 final size:21
Alignment explanation
Indices: 9721916--9722006 Score: 94
Period size: 21 Copynumber: 4.2 Consensus size: 21
9721906 CTAGCTTTAC
9721916 AAACCTTAAACCCCCATAACCCCT
1 AAACCTT-AA-CCCC-TAACCCCT
9721940 -AACCTCTAACCCCTAACCCCT
1 AAACCT-TAACCCCTAACCCCT
* *
9721961 AAACCTTAAACCCTAACCCTT
1 AAACCTTAACCCCTAACCCCT
* * *
9721982 AAACCATAATCCCTAATCCCT
1 AAACCTTAACCCCTAACCCCT
9722003 AAAC
1 AAAC
9722007 ACATAATCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
21 42 0.71
22 9 0.15
23 7 0.12
24 1 0.02
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (21 bp):
AAACCTTAACCCCTAACCCCT
Found at i:9722027 original size:22 final size:21
Alignment explanation
Indices: 9721950--9722027 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
9721940 AACCTCTAAC
* * * *
9721950 CCCTAACCCCTAAACCTTAAA
1 CCCTAAACCTTAAACCATAAT
*
9721971 CCCTAACCCTTAAACCATAAT
1 CCCTAAACCTTAAACCATAAT
* *
9721992 CCCTAATCCCTAAACACATAAT
1 CCCTAAACCTTAAAC-CATAAT
9722014 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
9722028 ATCATTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 31 0.63
22 18 0.37
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAAACCTTAAACCATAAT
Found at i:9722709 original size:7 final size:7
Alignment explanation
Indices: 9722697--9722733 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
9722687 CCTTAAACCA
9722697 CATAATC
1 CATAATC
9722704 CATAATC
1 CATAATC
9722711 CATAATC
1 CATAATC
*
9722718 CATAAAC
1 CATAATC
9722725 ACATAATC
1 -CATAATC
9722733 C
1 C
9722734 CTAAATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAATC
Found at i:9722731 original size:15 final size:15
Alignment explanation
Indices: 9722690--9722738 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
9722680 CCACAACCCT
9722690 TAAACCACATAATCCA
1 TAAA-CACATAATCCA
*
9722706 TAATC-CATAATCCA
1 TAAACACATAATCCA
*
9722720 TAAACACATAATCCC
1 TAAACACATAATCCA
9722735 TAAA
1 TAAA
9722739 TTATCTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.45
15 13 0.45
16 3 0.10
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACACATAATCCA
Found at i:9723241 original size:21 final size:21
Alignment explanation
Indices: 9723215--9723254 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9723205 CTTAAAATAG
* *
9723215 TAACCCCTATACCTTAAACTC
1 TAACCCATATACCCTAAACTC
9723236 TAACCCATATACCCTAAAC
1 TAACCCATATACCCTAAAC
9723255 CAAAAACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACCCATATACCCTAAACTC
Found at i:9723441 original size:41 final size:41
Alignment explanation
Indices: 9723391--9723546 Score: 222
Period size: 41 Copynumber: 3.8 Consensus size: 41
9723381 TATGATAAAT
*
9723391 CTGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAATCC
1 CTGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGCC
* * * *
9723432 CTGAGCATTAGTGGCGCTTCTTCAGAAACACCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGCC
* *
9723473 CTGAGCATTAGCGGTGCTTCTTTAAAAATGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGCC
* * *
9723514 CTGAGCATTAGCGGTGCTTTTTTGAAAACGCCG
1 CTGAGCATTAGCGGCGCTTCTTTAAAAACGCCG
9723547 TTATGCTCAT
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGCC
Found at i:9723573 original size:38 final size:39
Alignment explanation
Indices: 9723531--9723653 Score: 135
Period size: 40 Copynumber: 3.2 Consensus size: 39
9723521 TTAGCGGTGC
* *
9723531 TTTTTTGAAAA-CGCCG-TTATGCTCATTTTTAGCGGC-
1 TTTTTTTAAAAGCGCCGCTAATGCTCATTTTTAGCGGCA
* * * *
9723567 GTTTTTTAAAAGGCGCCGCTAATACTCGATCTTTAGTGGCA
1 TTTTTTTAAAA-GCGCCGCTAATGCTC-ATTTTTAGCGGCA
*
9723608 TTTTTTTAAAAGCGCCGCTAATGCTTGATTTTTAGCGGCA
1 TTTTTTTAAAAGCGCCGCTAATGC-TCATTTTTAGCGGCA
9723648 TTTTTT
1 TTTTTT
9723654 ATCCAAACGC
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
36 9 0.13
38 5 0.07
39 6 0.09
40 39 0.56
41 11 0.16
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (39 bp):
TTTTTTTAAAAGCGCCGCTAATGCTCATTTTTAGCGGCA
Found at i:9726761 original size:13 final size:13
Alignment explanation
Indices: 9726743--9726769 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9726733 GAAATATAAA
9726743 AATTGATATTTTT
1 AATTGATATTTTT
9726756 AATTGATATTTTT
1 AATTGATATTTTT
9726769 A
1 A
9726770 TAATTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
AATTGATATTTTT
Found at i:9732542 original size:35 final size:35
Alignment explanation
Indices: 9732496--9732697 Score: 138
Period size: 35 Copynumber: 5.5 Consensus size: 35
9732486 ATATCTGTCG
*
9732496 GTTTATCTGACTAGTGCTGGGCGCAACCTTCGTCA
1 GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
**
9732531 GTTTATCTGACTAGTGCAT-GGCACACTATTATATCTGTCA
1 GTTTATCTGACTAGTGC-TGGGCACA--A-CCT-TC-GTCA
** * *
9732571 GTTTATCCAACTAGCGCTGGGTACAACCTTCGTCA
1 GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
* * * * *
9732606 GTTTATTTGACTAGTGCAGGGCAC-ACTGTTTTATATGTCG
1 GTTTATCTGACTAGTGCTGGGCACAAC----CT-T-CGTCA
* * * *
9732646 GTTTATCCGACTAGCGTTGGGCACAACCTTCGTTA
1 GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
9732681 GTTTATCTGACTAGTGC
1 GTTTATCTGACTAGTGC
9732698 AAGGCACACT
Statistics
Matches: 123, Mismatches: 30, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
34 2 0.02
35 60 0.49
36 4 0.03
37 3 0.02
38 3 0.02
39 4 0.03
40 45 0.37
41 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (35 bp):
GTTTATCTGACTAGTGCTGGGCACAACCTTCGTCA
Found at i:9732575 original size:75 final size:75
Alignment explanation
Indices: 9732485--9732756 Score: 364
Period size: 75 Copynumber: 3.6 Consensus size: 75
9732475 TGTAATTATG
* * * *
9732485 TATATCTGTCGGTTTATCTGACTAGTGCTGGGCGCAACCTTCGTCAGTTTATCTGACTAGTGCAT
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
9732550 GGCACACTAT
66 GGCACACTAT
* * * * *
9732560 TATATCTGTCAGTTTATCCAACTAGCGCTGGGTACAACCTTCGTCAGTTTATTTGACTAGTGCAG
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
*
9732625 GGCACACTGT
66 GGCACACTAT
* * * *
9732635 TTTATATGTCGGTTTATCCGACTAGCGTTGGGCACAACCTTCGTTAGTTTATCTGACTAGTGCAA
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
9732700 GGCACACTAT
66 GGCACACTAT
* * * * **
9732710 TATATCTGCCGATTTATCCGGCTAGCACTGGGTGCAACCTTCGTCAG
1 TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAG
9732757 ACACATCATT
Statistics
Matches: 168, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 168 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (75 bp):
TATATCTGTCGGTTTATCCGACTAGCGCTGGGCACAACCTTCGTCAGTTTATCTGACTAGTGCAA
GGCACACTAT
Found at i:9735098 original size:25 final size:25
Alignment explanation
Indices: 9735057--9735116 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
9735047 TCAAAGTTTA
* *
9735057 TATTTTTTTTGTCAATTTGA-CATT
1 TATTTTTTTAGTAAATTTGACCATT
*
9735081 TATTTTTTTAGTTAAATTTGACCCTT
1 TATTTTTTTAG-TAAATTTGACCATT
*
9735107 AATTTTTTTA
1 TATTTTTTTA
9735117 AATAAAGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 8 0.27
26 12 0.40
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTTTTAGTAAATTTGACCATT
Found at i:9735473 original size:2 final size:2
Alignment explanation
Indices: 9735462--9735498 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9735452 AAAATAAATA
9735462 AT AT AT -T AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9735499 AATAATTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9736908 original size:48 final size:48
Alignment explanation
Indices: 9736826--9736919 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
9736816 TTTCTTGGCT
* *
9736826 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
9736874 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
9736920 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:9739420 original size:48 final size:48
Alignment explanation
Indices: 9739338--9739431 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
9739328 TTTCTTGGCT
* *
9739338 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
9739386 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
9739432 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:9742118 original size:6 final size:7
Alignment explanation
Indices: 9742101--9742125 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9742091 ATTTACATTC
9742101 TTTTTTA
1 TTTTTTA
9742108 TTTTTTA
1 TTTTTTA
9742115 TTTTTTA
1 TTTTTTA
9742122 TTTT
1 TTTT
9742126 GCTTAAGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:9742222 original size:16 final size:16
Alignment explanation
Indices: 9742181--9742222 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9742171 TCAGATTTGA
9742181 TTTTTTAAAATTATTTT
1 TTTTTTAAAA-TATTTT
*
9742198 TTATTTAAAA-ATTTAT
1 TTTTTTAAAATATTT-T
9742214 TTTTTTAAA
1 TTTTTTAAA
9742223 TAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTTAAAATATTTT
Found at i:9744930 original size:24 final size:24
Alignment explanation
Indices: 9744903--9744948 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9744893 TTATTAACAT
*
9744903 TGTTTGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
*
9744927 TGTTCGTGAACATGTTCGATTA
1 TGTTCGTGAACATGTTCAATTA
9744949 AGTTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:9748673 original size:10 final size:10
Alignment explanation
Indices: 9748658--9748725 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
9748648 ATAATTTTTT
9748658 TAAAAAATTA
1 TAAAAAATTA
* *
9748668 TAAAAATTTG
1 TAAAAAATTA
*
9748678 TAAACAATTA
1 TAAAAAATTA
**
9748688 TTCAAAATTA
1 TAAAAAATTA
9748698 TAAAAATATTA
1 TAAAAA-ATTA
9748709 -AATAAAATT-
1 TAA-AAAATTA
9748718 TAAAAAAT
1 TAAAAAAT
9748726 AAAATATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
9 5 0.11
10 33 0.73
11 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:9748715 original size:21 final size:19
Alignment explanation
Indices: 9748691--9748731 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9748681 ACAATTATTC
*
9748691 AAAATTATAAAAATATTAAAT
1 AAAATT-TAAAAA-ATAAAAT
9748712 AAAATTTAAAAAATAAAAT
1 AAAATTTAAAAAATAAAAT
9748731 A
1 A
9748732 TTAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 6 0.32
21 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTTAAAAAATAAAAT
Found at i:9748725 original size:30 final size:29
Alignment explanation
Indices: 9748656--9748725 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 29
9748646 AAATAATTTT
* *
9748656 TTTAAAAAATTATAAAAATTTGTAAACAA
1 TTTAAAAAATTATAAAAATTTGAAAAAAA
**
9748685 TTATTCAAAATTATAAAAATATT-AAATAAAA
1 TT-TAAAAAATTATAAAAAT-TTGAAA-AAAA
9748716 TTTAAAAAAT
1 TTTAAAAAAT
9748726 AAAATATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
29 2 0.06
30 23 0.72
31 7 0.22
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (29 bp):
TTTAAAAAATTATAAAAATTTGAAAAAAA
Found at i:9748727 original size:14 final size:15
Alignment explanation
Indices: 9748708--9748737 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9748698 TAAAAATATT
9748708 AAATAAAAT-TTAAA
1 AAATAAAATATTAAA
9748722 AAATAAAATATTAAA
1 AAATAAAATATTAAA
9748737 A
1 A
9748738 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAAATATTAAA
Found at i:9752122 original size:20 final size:19
Alignment explanation
Indices: 9752050--9752124 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
9752040 GAACACAATA
* *
9752050 AAAAAAGGAGAAATCAAAGG
1 AAAAAAGAAGAAA-AAAAGG
9752070 AGTAAAAAGAAGAAAAAAAGG
1 A--AAAAAGAAGAAAAAAAGG
*
9752091 AAAAATAAAAGAAAAAAATGG
1 AAAAA-AGAAGAAAAAAA-GG
*
9752112 AAAGAAGAAGAAA
1 AAAAAAGAAGAAA
9752125 GAGTACAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.09
20 19 0.41
21 12 0.26
22 11 0.24
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAAAGAAGAAAAAAAGG
Found at i:9759354 original size:24 final size:24
Alignment explanation
Indices: 9759309--9759355 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9759299 TATATATACC
9759309 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
9759333 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
9759356 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:9760126 original size:23 final size:24
Alignment explanation
Indices: 9760095--9760164 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 24
9760085 TTTGTTTTAT
9760095 TATTATATAATATAATATATATAA
1 TATTATATAATATAATATATATAA
* *
9760119 TA-TATATACT-TAAACATATATAA
1 TATTATATAATAT-AATATATATAA
*
9760142 TATTATAATATTATAATATATAT
1 TATTAT-ATAATATAATATATAT
9760165 TTTAACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 1 0.03
23 19 0.50
24 5 0.13
25 12 0.32
26 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTATATAATATAATATATATAA
Found at i:9760137 original size:25 final size:22
Alignment explanation
Indices: 9760108--9760164 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
9760098 TATATAATAT
9760108 AATATATATAATATATATACTTAA
1 AATATATATAATATA-ATA-TTAA
* *
9760132 ACATATATAATATTATAATATTAT
1 A-ATATAT-ATAATATAATATTAA
9760156 AATATATAT
1 AATATATAT
9760165 TTTAACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 2 0.07
23 6 0.21
24 5 0.17
25 9 0.31
26 7 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATATATAATATAATATTAA
Found at i:9761446 original size:16 final size:17
Alignment explanation
Indices: 9761422--9761454 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9761412 ATGGAAAGAA
9761422 AATTATTTTT-TCTTTT
1 AATTATTTTTATCTTTT
*
9761438 AATTTTTTTTATCTTTT
1 AATTATTTTTATCTTTT
9761455 CTACCAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
AATTATTTTTATCTTTT
Found at i:9761515 original size:15 final size:17
Alignment explanation
Indices: 9761487--9761523 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9761477 GAAAATTTAT
9761487 ATTTTTCATCCTTT-CA
1 ATTTTTCATCCTTTCCA
*
9761503 ATTTTTC-TTCTTTCCA
1 ATTTTTCATCCTTTCCA
9761519 ATTTT
1 ATTTT
9761524 CTTTTTACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTCATCCTTTCCA
Found at i:9768695 original size:21 final size:22
Alignment explanation
Indices: 9768640--9768696 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
9768630 TGCGGGGTCA
*
9768640 ACACG-CCCGTGTAGGAGGAGGC
1 ACACGACCAGTGT-GGAGGAGGC
* *
9768662 ACACGGCCA-TGTGGATGAGGC
1 ACACGACCAGTGTGGAGGAGGC
9768683 ACA-GACCAGTGTGG
1 ACACGACCAGTGTGG
9768697 GCCAGGGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 16 0.53
22 8 0.27
23 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.39, T:0.12
Consensus pattern (22 bp):
ACACGACCAGTGTGGAGGAGGC
Found at i:9770707 original size:106 final size:106
Alignment explanation
Indices: 9770522--9770735 Score: 356
Period size: 106 Copynumber: 2.0 Consensus size: 106
9770512 TGAATTAAAA
* * * *
9770522 TTTAAGAGGATATTTGGCTATTTGTTCGAACGAGAAATCGAAACCTAGCACGTTAGGACACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGACACGTTT
* *
9770587 TCTCGATTTTCCAAACTCAAAATATTGCCTTACTTTGAAAT
66 CCTCGATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
*
9770628 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGACACGTTT
*
9770693 CCTCGATTTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
66 CCTCGATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
9770734 TT
1 TT
9770736 GTTACGAATT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGACACGTTT
CCTCGATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
Found at i:9771422 original size:23 final size:24
Alignment explanation
Indices: 9771375--9771423 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
9771365 GTGTTCTTGA
* *
9771375 TTTTGATCTTTTCTATTTACTTTT
1 TTTTCATCTTTTCTATTTACATTT
*
9771399 TTTTCATCTTTT-TATTTCCATTT
1 TTTTCATCTTTTCTATTTACATTT
9771422 TT
1 TT
9771424 GTATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTCATCTTTTCTATTTACATTT
Found at i:9772296 original size:14 final size:13
Alignment explanation
Indices: 9772277--9772324 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
9772267 GTTACTACTA
*
9772277 TTATATCATTAGTT
1 TTATATTATTA-TT
9772291 TTATATTATTATT
1 TTATATTATTATT
*
9772304 GTTATATTTTTATT
1 -TTATATTATTATT
9772318 TTATATT
1 TTATATT
9772325 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:9772406 original size:20 final size:20
Alignment explanation
Indices: 9772381--9772437 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
9772371 TAACTATTTA
*
9772381 TATATATCTTTATATCTTAT
1 TATATATCTATATATCTTAT
* *
9772401 TATATATCTATATGTCTTGT
1 TATATATCTATATATCTTAT
* *
9772421 TATATATATATGTATCT
1 TATATATCTATATATCT
9772438 CTTTATAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:9776081 original size:8 final size:8
Alignment explanation
Indices: 9776068--9776142 Score: 82
Period size: 8 Copynumber: 9.2 Consensus size: 8
9776058 AGACTCAAAA
9776068 AAAAAATC
1 AAAAAATC
9776076 AAAAAATC
1 AAAAAATC
9776084 AAAAAATC
1 AAAAAATC
9776092 AAAAAAAAATC
1 ---AAAAAATC
*
9776103 AAAAAATA
1 AAAAAATC
9776111 AAAAAAT-
1 AAAAAATC
*
9776118 AAAAAAAC
1 AAAAAATC
*
9776126 -AAAAATA
1 AAAAAATC
9776133 AAAAAATC
1 AAAAAATC
9776141 AA
1 AA
9776143 GGTCAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
7 11 0.19
8 38 0.67
11 8 0.14
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:9776089 original size:19 final size:18
Alignment explanation
Indices: 9776062--9776116 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
9776052 GAGTTCAGAC
*
9776062 TCAAAAAAAAAATCAAAAAA
1 TCAAAAAATAAA--AAAAAA
9776082 TCAAAAAATCAAAAAAAAA
1 TCAAAAAAT-AAAAAAAAA
9776101 TCAAAAAATAAAAAAA
1 TCAAAAAATAAAAAAA
9776117 TAAAAAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 7 0.21
19 15 0.45
20 8 0.24
21 3 0.09
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (18 bp):
TCAAAAAATAAAAAAAAA
Found at i:9776102 original size:27 final size:26
Alignment explanation
Indices: 9776065--9776139 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 26
9776055 TTCAGACTCA
*
9776065 AAAAAAAAATCAAAAAATCAAAAAAT
1 AAAAAAAAATCAAAAAATAAAAAAAT
9776091 CAAAAAAAAATCAAAAAATAAAAAAAT
1 -AAAAAAAAATCAAAAAATAAAAAAAT
9776118 --AAAAAAA-C-AAAAATAAAAAAAT
1 AAAAAAAAATCAAAAAATAAAAAAAT
9776140 CAAGGTCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
22 14 0.30
23 1 0.02
24 7 0.15
27 25 0.53
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.11
Consensus pattern (26 bp):
AAAAAAAAATCAAAAAATAAAAAAAT
Found at i:9776115 original size:35 final size:35
Alignment explanation
Indices: 9776068--9776135 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
9776058 AGACTCAAAA
* *
9776068 AAAAAATCAAAAAATCAAAAAATCAAAAA-AAAATC
1 AAAAAATAAAAAAAT-AAAAAAACAAAAATAAAATC
9776103 AAAAAATAAAAAAATAAAAAAACAAAAATAAAA
1 AAAAAATAAAAAAATAAAAAAACAAAAATAAAA
9776136 AAATCAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (35 bp):
AAAAAATAAAAAAATAAAAAAACAAAAATAAAATC
Found at i:9776135 original size:19 final size:18
Alignment explanation
Indices: 9776076--9776135 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
9776066 AAAAAAAATC
*
9776076 AAAAAATCAAAAAATCAAA
1 AAAAAAT-AAAAAAACAAA
* *
9776095 AAAAAAT-CAAAAA-ATA
1 AAAAAATAAAAAAACAAA
9776111 AAAAAATAAAAAAACAAA
1 AAAAAATAAAAAAACAAA
9776129 AATAAAA
1 AA-AAAA
9776136 AAATCAAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 9 0.27
17 9 0.27
18 4 0.12
19 11 0.33
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAATAAAAAAACAAA
Found at i:9776186 original size:15 final size:16
Alignment explanation
Indices: 9776158--9776190 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9776148 AAAATAGGAG
9776158 AAAAAGAAAGAAGAAA
1 AAAAAGAAAGAAGAAA
9776174 AAAAAGAAA-AAGAAA
1 AAAAAGAAAGAAGAAA
9776189 AA
1 AA
9776191 GGAGAGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAGAAA
Found at i:9777024 original size:8 final size:8
Alignment explanation
Indices: 9776972--9777052 Score: 80
Period size: 8 Copynumber: 10.2 Consensus size: 8
9776962 CTTTGAGTAA
9776972 AAAAAATG
1 AAAAAATG
*
9776980 ATGAAAATG
1 A-AAAAATG
*
9776989 AAAAAA-A
1 AAAAAATG
9776996 AAAGAAGATG
1 AAA-AA-ATG
9777006 -AAAAATG
1 AAAAAATG
9777013 -AAAAATG
1 AAAAAATG
9777020 AAAAAATG
1 AAAAAATG
9777028 AAAAAATG
1 AAAAAATG
*
9777036 AAAAAGT-
1 AAAAAATG
9777043 AAAAAATG
1 AAAAAATG
9777051 AA
1 AA
9777053 GAGGCTAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
7 19 0.31
8 32 0.52
9 10 0.16
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:9777024 original size:15 final size:15
Alignment explanation
Indices: 9776973--9777052 Score: 74
Period size: 15 Copynumber: 5.1 Consensus size: 15
9776963 TTTGAGTAAA
*
9776973 AAAAATGATGAAAATG
1 AAAAATGA-AAAAATG
**
9776989 AAAAAAAAAAGAAGATG
1 AAAAATGAAA-AA-ATG
9777006 AAAAATG-AAAAATG
1 AAAAATGAAAAAATG
9777020 AAAAAATGAAAAAATG
1 -AAAAATGAAAAAATG
9777036 AAAAA-GTAAAAAATG
1 AAAAATG-AAAAAATG
9777051 AA
1 AA
9777053 GAGGCTAAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 4 0.07
15 25 0.46
16 17 0.31
17 8 0.15
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Found at i:9777046 original size:23 final size:22
Alignment explanation
Indices: 9776972--9777052 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
9776962 CTTTGAGTAA
*
9776972 AAAAAATGATGAAAATGAAAAA-
1 AAAAAATGA-AAAAATGAAAAAT
*
9776994 AAAAAGAAGATGAAAAATGAAAAAT
1 AAAAA-ATGA--AAAAATGAAAAAT
9777019 GAAAAAATGAAAAAATGAAAAAGT
1 -AAAAAATGAAAAAATGAAAAA-T
9777043 AAAAAATGAA
1 AAAAAATGAA
9777053 GAGGCTAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
22 5 0.10
23 25 0.50
24 12 0.24
25 3 0.06
26 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (22 bp):
AAAAAATGAAAAAATGAAAAAT
Found at i:9779163 original size:88 final size:88
Alignment explanation
Indices: 9778307--9779121 Score: 1075
Period size: 88 Copynumber: 9.4 Consensus size: 88
9778297 TTGGTTACAG
* ** * * *
9778307 TGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-ACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
* * * **
9778369 AGCATTGCCT-TCATTGGTT-ACA
66 AACCTTGCCTCTC-TCGGTTGTGA
* ** * * * *
9778391 GTGGAGCTGGTTAAAGA-AGCAGATCTTGCTTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-AC
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
* * * *
9778453 AAGCCTGGCCT-TCATTGGTTG-CA
65 AAACCTTGCCTCTC-TCGGTTGTGA
* * ** * * * * * *
9778476 GTGGAGATGGTTAAAGA-AGCAGATCTTGCCTTTCTGCATTAACAGTGAAGCAGATTGAAAACAC
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
9778540 AAACCTTGCCTCTCTCGGTTGTGA
65 AAACCTTGCCTCTCTCGGTTGTGA
* *
9778564 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAAGTTGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
*
9778629 AACCTTACCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* *
9778652 TGGAACTGGTTGAAGAC--AA-ATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
9778714 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
*
9778737 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
9778802 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
9778825 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
9778890 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * *
9778913 TGGAGTTGGTTGAAGACAAAAGATCTTGACTTCCTGCATTGACAGCGAAGTAGGTCAAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
* *
9778978 AACCTTGCCTCTCTCGTTTTTGA
66 AACCTTGCCTCTCTCGGTTGTGA
*
9779001 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
9779066 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
9779089 TGGAGCTGGTTGAAGACAACAA-ATCTTGCCTTC
1 TGGAGCTGGTTGAAGACAA-AAGATCTTGCCTTC
9779122 TTGTACTGAT
Statistics
Matches: 676, Mismatches: 44, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
85 211 0.31
86 3 0.00
87 33 0.05
88 427 0.63
89 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (88 bp):
TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
AACCTTGCCTCTCTCGGTTGTGA
Found at i:9779325 original size:50 final size:50
Alignment explanation
Indices: 9779260--9779820 Score: 591
Period size: 50 Copynumber: 11.2 Consensus size: 50
9779250 GCAATTTAAA
* * ** * *
9779260 AGATTGAAGCCACAACGGCAAATCTTACTTTTCTAGTATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * *
9779310 AGATTGAAGCTACAACAGCAGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAA-C
*
9779360 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * ** *
9779410 AGATTGAAGCTACAACAGCGGATCTTAC-TTCCTTGACATTGTAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* * *
9779460 AGATTGAAGCTACAACATCGGATCTTACTTTCCTAGCGTTGCAGTGGATC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * * *
9779510 AGATTGAAGCTACAACATCGGATCTTAC-TTCCTTGACATTGCAAT-TAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
*
9779559 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * ** *
9779609 AGATTGAAGCTACAACAGCGGATCTCACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* *
9779659 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
* * * ** *
9779709 AGATTGAAGCTACAACAGTGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAAC
* * *
9779759 AGATTGAAGCTACAACAGCGGATTTTAC-TTCCCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GC-ATTGCAGTGGAAC
9779809 AGATTGAAGCTA
1 AGATTGAAGCTA
9779821 TGACGGTGAA
Statistics
Matches: 421, Mismatches: 75, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
49 55 0.13
50 354 0.84
51 12 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:9779402 original size:100 final size:100
Alignment explanation
Indices: 9779247--9779968 Score: 932
Period size: 100 Copynumber: 7.2 Consensus size: 100
9779237 GAAACCATAG
* * * ** * **
9779247 ATTGCAATTTAAAAGATTGAAGCCACAACGGCAAATCTTACTTTTCTAGTATTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
9779312 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
9779347 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
9779412 ATTGAAGCTACAACAGCGGATCTTACTTCCTTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * *
9779447 ATTGTAATTAAAAAGATTGAAGCTACAACATCGGATCTTACTTTCCTAGCGTTGCAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
* *
9779512 ATTGAAGCTACAACATCGGATCTTACTTCCTTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
9779547 ATTGCAATT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
9779611 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
*
9779646 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
*
9779711 ATTGAAGCTACAACAGTGGATCTTACTTCCCTGAC
66 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * *
9779746 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATTTTAC-TTCCCAGGCGATGCAGCGGAACA
1 ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACA
** * * * ** *
9779810 GATTGAAGCTATGACGGTGAATCTCGCTTCCCCGAC
65 GATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
* * * * * * * * ** *
9779846 ATCGCAACTCAAAAGATTCAAGCCACAA-TGTCGAATCTTAC-TTCCCAGGCAATGCAGCGGAAC
1 ATTGCAATTAAAAAGATTGAAGCTACAACAG-CGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
* * * * *
9779909 AGATTGAAGCTACGACAGTGAATCTCA-TTTCCTCGAC
64 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GAC
* *
9779946 ATTGCAAGTAAATAGATTGAAGC
1 ATTGCAATTAAAAAGATTGAAGC
9779969 CACGACTGTG
Statistics
Matches: 562, Mismatches: 56, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
99 104 0.19
100 458 0.81
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
ATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
ATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
Found at i:9779814 original size:299 final size:300
Alignment explanation
Indices: 9779247--9779968 Score: 979
Period size: 299 Copynumber: 2.4 Consensus size: 300
9779237 GAAACCATAG
* * * * *
9779247 ATTGCAATTTAAAAGATTGAAGCCACAACGGCAAATCTTACTTTTCTAGTATTGCAGTGGAACAG
1 ATTGCAACTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAG
* * *
9779312 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACA
66 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
9779377 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
131 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
* * * * * *
9779442 TTGACATTGTAATTAAAAAGATTGAAGCTACAACATCGGATCTTACTTTCCTAGCGTTGCAGTGG
196 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCCAGCGATGCAGCGG
* * * **
9779507 ATCAGATTGAAGCTACAAC-ATCGGATCTTACTTCCTTGAC
261 AACAGATTGAAGCTACAACGAT-GAATCTCACTTCCCCGAC
* * *
9779547 ATTGCAA-TTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
1 ATTGCAACTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAG
9779611 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
66 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
* *
9779676 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAGCAGATTGAAGCTACAACAGTGGATCTTACTTCC
131 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
*
9779741 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATTTTAC-TTCCCAGGCGATGCAGCG
196 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCCA-GCGATGCAGCG
** * *
9779805 GAACAGATTGAAGCTATGACGGTGAATCTCGCTTCCCCGAC
260 GAACAGATTGAAGCTACAACGATGAATCTCACTTCCCCGAC
* * * * * * *
9779846 ATCGCAACTCAAAAGATTCAAGCCACAA-TGTCGAATCTTAC-TTCCCAGGCAATGCAGCGGAAC
1 ATTGCAACTTAAAAGATTGAAGCCACAACAG-CGAATCTTACTTTCCTA-GCATTGCAGTGGAAC
* * * * * *
9779909 AGATTGAAGCTACGACAGTGAATCTCA-TTTCCTCGACATTGCAAGTAAATAGATTGAAGC
64 AGATTGAAGCTACAACAGCGGATCTCACTTCCCT-GACATTGCAATTAAAAAGATTGAAGC
9779969 CACGACTGTG
Statistics
Matches: 372, Mismatches: 44, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
298 5 0.01
299 273 0.73
300 94 0.25
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (300 bp):
ATTGCAACTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAG
ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCCAGCGATGCAGCGG
AACAGATTGAAGCTACAACGATGAATCTCACTTCCCCGAC
Found at i:9779967 original size:50 final size:50
Alignment explanation
Indices: 9779307--9779991 Score: 451
Period size: 50 Copynumber: 13.7 Consensus size: 50
9779297 ATTGCAGTGG
** *
9779307 AACAGATTGAAGCTACAACAGCAGATCTTACTTCC-CTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GACATTGCAAGTA
* * * *
9779357 AGA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 A-ACAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTCGACATTGCAAGT-A
* * * *
9779407 AACAGATTGAAGCTACAACAGCGGATCTTACTTCCTTGACATTGTAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGTA
* * * *
9779457 AAAAGATTGAAGCTACAACA-TCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 AACAGATTGAAGCTACAACAGT-GGATCTTAC-TTCCTCGACATTGCAAGT-A
* * *
9779507 ATCAGATTGAAGCTACAACA-TCGGATCTTACTTCCTTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGT-GGATCTTACTTCCTCGACATTGCAAGTA
* * * *
9779557 AA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 AACAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTCGACATTGCAAGT-A
* * *
9779606 AACAGATTGAAGCTACAACAGCGGATCTCACTTCC-CTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GACATTGCAAGTA
* * * * *
9779656 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGC-AGTGG
1 AACAGATTGAAGCTACAACAGTGGATCTTAC-TTCCTCGACATTGCAAGT-A
* *
9779706 AGCAGATTGAAGCTACAACAGTGGATCTTACTTCC-CTGACATTGCAATTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GACATTGCAAGTA
* * * * **
9779756 AAAAGATTGAAGCTACAACAGCGGATTTTACTTCC-CAGGCGA-TGC-AGCGG
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTC-GAC-ATTGCAAG-TA
** * * ** * * *
9779806 AACAGATTGAAGCTATGACGGTGAATCTCGCTTCCCCGACATCGCAACTCA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGT-A
* * * * * * **
9779857 AA-AGATTCAAGCCACAA-TGTCGAATCTTACTTCC-CAGGCAATGC-AGCGG
1 AACAGATTGAAGCTACAACAGT-GGATCTTACTTCCTC-GACATTGCAAG-TA
* * * *
9779906 AACAGATTGAAGCTACGACAGTGAATCTCATTTCCTCGACATTGCAAGTA
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGTA
* * * * *
9779956 AATAGATTGAAGCCACGACTGTGAATCTTACTTCCT
1 AACAGATTGAAGCTACAACAGTGGATCTTACTTCCT
9779992 GAAATTGTAG
Statistics
Matches: 499, Mismatches: 98, Indels: 76
0.74 0.15 0.11
Matches are distributed among these distances:
48 2 0.00
49 70 0.14
50 392 0.79
51 35 0.07
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (50 bp):
AACAGATTGAAGCTACAACAGTGGATCTTACTTCCTCGACATTGCAAGTA
Found at i:9780975 original size:23 final size:24
Alignment explanation
Indices: 9780928--9780976 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
9780918 GTGTTCTTGA
* *
9780928 TTTTGATCTTTTCTATTTACTTTT
1 TTTTCATCTTTTCTATTTACATTT
*
9780952 TTTTCATCTTTT-TATTTCCATTT
1 TTTTCATCTTTTCTATTTACATTT
9780975 TT
1 TT
9780977 GTATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTCATCTTTTCTATTTACATTT
Found at i:9781850 original size:14 final size:13
Alignment explanation
Indices: 9781831--9781878 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
9781821 GTTACTACTA
*
9781831 TTATATCATTAGTT
1 TTATATTATTA-TT
9781845 TTATATTATTATT
1 TTATATTATTATT
*
9781858 GTTATATTTTTATT
1 -TTATATTATTATT
9781872 TTATATT
1 TTATATT
9781879 TACTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:9781960 original size:20 final size:20
Alignment explanation
Indices: 9781935--9781991 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
9781925 TAACTATTTA
*
9781935 TATATATCTTTATATCTTAT
1 TATATATCTATATATCTTAT
* *
9781955 TATATATCTATATGTCTTGT
1 TATATATCTATATATCTTAT
* *
9781975 TATATATATATGTATCT
1 TATATATCTATATATCT
9781992 CTTTATAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATCTATATATCTTAT
Found at i:9782988 original size:19 final size:19
Alignment explanation
Indices: 9782964--9783007 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9782954 CAATTTAAAG
9782964 TAATAAATAAAAAAGATAA
1 TAATAAATAAAAAAGATAA
* *
9782983 TAATAAATGAATAAGATAA
1 TAATAAATAAAAAAGATAA
9783002 -AATAAA
1 TAATAAA
9783008 AGCTAATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
TAATAAATAAAAAAGATAA
Found at i:9783083 original size:14 final size:14
Alignment explanation
Indices: 9783064--9783090 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9783054 AGATAAATAA
9783064 AATATTAAATAAAC
1 AATATTAAATAAAC
9783078 AATATTAAATAAA
1 AATATTAAATAAA
9783091 ACTTTCCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATTAAATAAAC
Found at i:9792950 original size:10 final size:11
Alignment explanation
Indices: 9792918--9792947 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
9792908 ATTTATATGT
9792918 GTTTTATTTTC
1 GTTTTATTTTC
9792929 -TTTTATTTTC
1 GTTTTATTTTC
9792939 GTTTTATTT
1 GTTTTATTT
9792948 CGTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (11 bp):
GTTTTATTTTC
Found at i:9797530 original size:20 final size:20
Alignment explanation
Indices: 9797505--9797544 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9797495 TTCACCTCAT
9797505 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
9797525 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
9797545 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:9805746 original size:100 final size:100
Alignment explanation
Indices: 9805616--9806527 Score: 1542
Period size: 100 Copynumber: 9.1 Consensus size: 100
9805606 GGTTGAAAAG
* * * *
9805616 TAAAAAGATTAAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGCGGAATAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
9805681 TACGACAGCAGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* *
9805716 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAATAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
9805781 TACGACAGCGGATCTAGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* * *
9805816 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCTTAGCAGTGCAGCGGAATAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
9805881 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
9805916 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
9805981 TACGACGGTGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
9806016 TAAAAAGATTAAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
9806081 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
9806116 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
9806181 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
9806216 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
9806281 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* *
9806316 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTAGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
9806381 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* * * * *
9806416 T-AAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCT-GACGGTGCGGTAGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAG
* * *
9806479 CTACGACGGCGGATCTGGTTTCCCCGACATTGCAGT
65 CTACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
9806515 TAAACAA-ATTGAA
1 TAAA-AAGATTGAA
9806528 AATTTCAGAT
Statistics
Matches: 785, Mismatches: 24, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
98 1 0.00
99 89 0.11
100 693 0.88
101 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:9807628 original size:10 final size:11
Alignment explanation
Indices: 9807613--9807641 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
9807603 TTTATATGTG
9807613 TTTTATTTTC-
1 TTTTATTTTCA
9807623 TTTTATTTTCA
1 TTTTATTTTCA
9807634 TTTTATTT
1 TTTTATTT
9807642 CGTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:9813285 original size:102 final size:102
Alignment explanation
Indices: 9813102--9813304 Score: 320
Period size: 102 Copynumber: 2.0 Consensus size: 102
9813092 TGCTTGATAC
*
9813102 GGTAACGAGTCAAAGTCTAAGTGTAGGTCCCAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAAT
1 GGTAACGAGTCAAAGTCTAAGTGGAGGTCCCAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAAT
* * *
9813167 ATAATCGGGGGACAATTGACAGTTGTTATGTGATCAA
66 ATAATCAGGGGACAATTGACAGTCGTTATGCGATCAA
9813204 GGTAACGAGTCAAAGTCTAAGTGGAGG-CCCTAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAA
1 GGTAACGAGTCAAAGTCTAAGTGGAGGTCCC-AGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAA
* *
9813268 TATAA-CAAGGGGTCAATTGACGGTCGTTATGCGATCA
65 TATAATC-AGGGGACAATTGACAGTCGTTATGCGATCA
9813305 CGAGTTCAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
101 4 0.04
102 89 0.96
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (102 bp):
GGTAACGAGTCAAAGTCTAAGTGGAGGTCCCAGTCGGCGGCCTTGATGCAGTCAAGGGTTCGAAT
ATAATCAGGGGACAATTGACAGTCGTTATGCGATCAA
Found at i:9814514 original size:13 final size:13
Alignment explanation
Indices: 9814496--9814523 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9814486 ATTTAAAATT
9814496 TAATTATATTAAA
1 TAATTATATTAAA
9814509 TAATTATATTAAA
1 TAATTATATTAAA
9814522 TA
1 TA
9814524 TTCTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTATATTAAA
Found at i:9817433 original size:12 final size:12
Alignment explanation
Indices: 9817416--9817440 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9817406 ACGGGTGTGT
9817416 GCCAAGCCGTGC
1 GCCAAGCCGTGC
9817428 GCCAAGCCGTGC
1 GCCAAGCCGTGC
9817440 G
1 G
9817441 GGTCACACAG
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:0.16, C:0.40, G:0.36, T:0.08
Consensus pattern (12 bp):
GCCAAGCCGTGC
Found at i:9819157 original size:18 final size:18
Alignment explanation
Indices: 9819124--9819158 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9819114 AAAAGAAAAT
**
9819124 AATATTATATCTAATATA
1 AATATTATATAAAATATA
9819142 AATATTATATAAAATAT
1 AATATTATATAAAATAT
9819159 TTTAAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATTATATAAAATATA
Found at i:9826535 original size:19 final size:19
Alignment explanation
Indices: 9826510--9826555 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
9826500 TTTTTTTTTC
9826510 AAATTTTTT-A-TTTTTAT
1 AAATTTTTTCATTTTTTAT
9826527 AAATTTTTTCATTTTTTAT
1 AAATTTTTTCATTTTTTAT
9826546 AAATTATTTT
1 AAATT-TTTT
9826556 AACTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.35
18 1 0.04
19 12 0.46
20 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
AAATTTTTTCATTTTTTAT
Found at i:9826562 original size:19 final size:19
Alignment explanation
Indices: 9826521--9826577 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
9826511 AATTTTTTAT
**
9826521 TTTTATAAATT-TTTTCATT
1 TTTTATAAATTATTTT-AAC
9826540 TTTTATAAATTATTTTAAC
1 TTTTATAAATTATTTTAAC
*
9826559 TTTTAAAAAATTATATTTA
1 TTTT-ATAAATTAT-TTTA
9826578 CATGTTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.50
20 12 0.38
21 4 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATAAATTATTTTAAC
Found at i:9826562 original size:20 final size:20
Alignment explanation
Indices: 9826520--9826577 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
9826510 AAATTTTTTA
* *
9826520 TTTTTATAAATT-TTTTCAT
1 TTTTTATAAATTATTTTAAC
9826539 TTTTTATAAATTATTTTAAC
1 TTTTTATAAATTATTTTAAC
* *
9826559 TTTTAAAAAATTATATTTA
1 TTTTTATAAATTAT-TTTA
9826578 CATGTTTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.36
20 17 0.52
21 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATAAATTATTTTAAC
Found at i:9827258 original size:31 final size:29
Alignment explanation
Indices: 9827183--9827261 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
9827173 TGTTTTCCCC
*
9827183 ATGTTACATTTTAGTCACTTATATTTGAA
1 ATGTAACATTTTAGTCACTTATATTTGAA
* * **
9827212 ATGTTACGTTTTAGTCACTTATATTATTGTC
1 ATGTAACATTTTAGTCACTTATA-T-TTGAA
*
9827243 TTGTAACATTTTAGTCACT
1 ATGTAACATTTTAGTCACT
9827262 GGGTGTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (29 bp):
ATGTAACATTTTAGTCACTTATATTTGAA
Found at i:9827472 original size:25 final size:27
Alignment explanation
Indices: 9827444--9827500 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
9827434 AGGAATGAAA
*
9827444 AAAACAATAATAAAA-AAGAAAA-G-TT
1 AAAACAAT-ATAAAAGAAAAAAATGCTT
*
9827469 AAAAGAATATAAAAGAAAAAAATGCTT
1 AAAACAATATAAAAGAAAAAAATGCTT
9827496 AAAAC
1 AAAAC
9827501 GAAACAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.23
25 13 0.50
26 1 0.04
27 6 0.23
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (27 bp):
AAAACAATATAAAAGAAAAAAATGCTT
Found at i:9831721 original size:22 final size:21
Alignment explanation
Indices: 9831686--9831738 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
9831676 CACCACATTG
9831686 TGGATGAAACCACTCATTGTTA
1 TGGAT-AAACCACTCATTGTTA
* *
9831708 TGGATAAACACACTTATTGTTG
1 TGGATAAAC-CACTCATTGTTA
*
9831730 TAGATAAAC
1 TGGATAAAC
9831739 TGCTCATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
TGGATAAACCACTCATTGTTA
Found at i:9834261 original size:25 final size:25
Alignment explanation
Indices: 9834233--9834293 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
9834223 AGCATGTAAT
**
9834233 TGGGAAGCTCTTTTGAGCCATATAA
1 TGGGAAGCTCTAGTGAGCCATATAA
* *
9834258 TGGGAAGCTCAAGTGAGCCATGTAA
1 TGGGAAGCTCTAGTGAGCCATATAA
*
9834283 CGGGAAGCTCT
1 TGGGAAGCTCT
9834294 GAAGAGCCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (25 bp):
TGGGAAGCTCTAGTGAGCCATATAA
Found at i:9834300 original size:25 final size:24
Alignment explanation
Indices: 9834221--9834314 Score: 66
Period size: 25 Copynumber: 3.8 Consensus size: 24
9834211 TATGTCCATG
* *
9834221 AGAG-CATGTAATTGGGAAGCTCTTT
1 AGAGCCATGTAA-CGGGAAGCTC-TA
* * *
9834246 TGAGCCATATAATGGGAAGCTC-A
1 AGAGCCATGTAACGGGAAGCTCTA
9834269 AGTGAGCCATGTAACGGGAAGCTCTGA
1 A--GAGCCATGTAACGGGAAGCTCT-A
* *
9834296 AGAGCCATTTAACAGGAAG
1 AGAGCCATGTAACGGGAAG
9834315 GTTATACGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
25 48 0.86
26 6 0.11
27 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (24 bp):
AGAGCCATGTAACGGGAAGCTCTA
Found at i:9835434 original size:13 final size:13
Alignment explanation
Indices: 9835418--9835448 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9835408 TTTCTTTGTA
9835418 ATTATTTTATTTT
1 ATTATTTTATTTT
*
9835431 ATTATTTTGTTTT
1 ATTATTTTATTTT
9835444 ATTAT
1 ATTAT
9835449 ATATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
ATTATTTTATTTT
Found at i:9835460 original size:8 final size:8
Alignment explanation
Indices: 9835443--9835488 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
9835433 TATTTTGTTT
9835443 TATT-ATA
1 TATTAATA
9835450 TATTAATA
1 TATTAATA
9835458 TATTAATA
1 TATTAATA
9835466 TA-TAATA
1 TATTAATA
*
9835473 TAATATATA
1 TATTA-ATA
9835482 TACTTAA
1 TA-TTAA
9835489 CACTTAAGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 11 0.32
8 15 0.44
9 6 0.18
10 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
TATTAATA
Found at i:9837432 original size:17 final size:19
Alignment explanation
Indices: 9837396--9837432 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9837386 TTTGATTTAT
9837396 TTAATTTTACTTTATCAAAA
1 TTAATTTTA-TTTATCAAAA
9837416 TTAATTTT-TTT-TCAAAA
1 TTAATTTTATTTATCAAAA
9837433 ATCACTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
20 8 0.47
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTTTATTTATCAAAA
Found at i:9839840 original size:20 final size:20
Alignment explanation
Indices: 9839811--9839850 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9839801 TTGTACGGGA
* *
9839811 TTGCAATTTGGTGTCTCTGT
1 TTGCAATTTGATGCCTCTGT
*
9839831 TTGCACTTTGATGCCTCTGT
1 TTGCAATTTGATGCCTCTGT
9839851 ATTTACACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGCAATTTGATGCCTCTGT
Found at i:9846930 original size:34 final size:35
Alignment explanation
Indices: 9846861--9846934 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 35
9846851 TTGTTGGATA
*
9846861 TATATATGTATGCATTCGGCATATGTGGATTATAAG
1 TATATATG-ATGCATTCGGCATATGTAGATTATAAG
9846897 TATATATG-TGCATTCGGCACT-TGTAG-TTGATAAG
1 TATATATGATGCATTCGGCA-TATGTAGATT-ATAAG
9846931 TATA
1 TATA
9846935 AATATATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
33 2 0.06
34 24 0.69
35 1 0.03
36 8 0.23
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (35 bp):
TATATATGATGCATTCGGCATATGTAGATTATAAG
Found at i:9854446 original size:32 final size:32
Alignment explanation
Indices: 9854410--9854470 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
9854400 CATGAGCTAG
9854410 GTCAAGTTGGGCGTGTGAGCCAGACAGGCGGA
1 GTCAAGTTGGGCGTGTGAGCCAGACAGGCGGA
* * *
9854442 GTCAATTTGGGCGTGTGGGCCATACAGGC
1 GTCAAGTTGGGCGTGTGAGCCAGACAGGC
9854471 TTGTGGGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.41, T:0.20
Consensus pattern (32 bp):
GTCAAGTTGGGCGTGTGAGCCAGACAGGCGGA
Found at i:9855740 original size:24 final size:25
Alignment explanation
Indices: 9855708--9855773 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
9855698 CAGCTCGAAA
* *
9855708 GAGCATCCCGTTAT-TAGGTCTCAT
1 GAGCTTCCCGTTATATAGGTCTCAC
* **
9855732 GAGCTTCCCGTTATATAGTTCTTGC
1 GAGCTTCCCGTTATATAGGTCTCAC
9855757 GAGCTTCCCGTTA-ATAG
1 GAGCTTCCCGTTATATAG
9855774 CTCTTCAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGGTCTCAC
Found at i:9855778 original size:24 final size:25
Alignment explanation
Indices: 9855732--9855778 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9855722 TAGGTCTCAT
*
9855732 GAGCTTCCCGTTATATAGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
9855757 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
9855779 CAGAGCATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:9855784 original size:24 final size:24
Alignment explanation
Indices: 9855707--9855784 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
9855697 ACAGCTCGAA
* * *
9855707 AGAGCATCCCGTTATTAGGTC-TC
1 AGAGCTTCCCGTTAATAGCTCTTC
*
9855730 ATGAGCTTCCCGTTATATAGTTCTTGC
1 A-GAGCTTCCCGTTA-ATAGCTCTT-C
9855757 -GAGCTTCCCGTTAATAGCTCTTC
1 AGAGCTTCCCGTTAATAGCTCTTC
9855780 AGAGC
1 AGAGC
9855785 ATCGCGATCG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.04
24 24 0.52
25 18 0.39
26 1 0.02
27 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (24 bp):
AGAGCTTCCCGTTAATAGCTCTTC
Found at i:9855950 original size:25 final size:24
Alignment explanation
Indices: 9855900--9855957 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
9855890 GCCTCTCCGC
9855900 AGCTTCCCGATATTGGCTAGCTTG
1 AGCTTCCCGATATTGGCTAGCTTG
*
9855924 AGCCTTCCCGATATTGGCTTG-TATG
1 AG-CTTCCCGATATTGGCTAGCT-TG
9855949 AGCTTCCCG
1 AGCTTCCCG
9855958 TTAATAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.33
Consensus pattern (24 bp):
AGCTTCCCGATATTGGCTAGCTTG
Found at i:9856055 original size:26 final size:25
Alignment explanation
Indices: 9855946--9856057 Score: 97
Period size: 25 Copynumber: 4.5 Consensus size: 25
9855936 ATTGGCTTGT
* *
9855946 ATGAGCTTCCCGTTA-ATAGCT-AT
1 ATGAGCTTCCCGTTATATGGCTCAC
* * *
9855969 TTAGAGCTTCTCGTTACATGGCTCAC
1 AT-GAGCTTCCCGTTATATGGCTCAC
*
9855995 ATGAGCTTTCCGTTATATGGCTCGA-
1 ATGAGCTTCCCGTTATATGGCTC-AC
*
9856020 AAGAGCTTCCCGTT-TATGTGCTCAC
1 ATGAGCTTCCCGTTATATG-GCTCAC
9856045 ATGAGCATTCCCG
1 ATGAGC-TTCCCG
9856058 AATATGAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.01
24 17 0.24
25 44 0.62
26 9 0.13
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCAC
Found at i:9857989 original size:24 final size:24
Alignment explanation
Indices: 9857898--9857989 Score: 62
Period size: 24 Copynumber: 3.8 Consensus size: 24
9857888 GCTCTTTGTG
* * *
9857898 AGCTTCCCGTTAATGGCTC-TCCGC
1 AGCTTCCCGATAATGGCTCGT-TGA
* *
9857922 AGCTTCCTGATATTGGCTCGCTTGA
1 AGCTTCCCGATAATGGCTCG-TTGA
* * *
9857947 ACCTTCCCGATATTAGCTCGTATG-
1 AGCTTCCCGATAATGGCTCGT-TGA
*
9857971 AGCTTCCCGTTAATGGCTC
1 AGCTTCCCGATAATGGCTC
9857990 TCCGGAGCTT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
24 32 0.60
25 20 0.38
26 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (24 bp):
AGCTTCCCGATAATGGCTCGTTGA
Found at i:9859415 original size:8 final size:8
Alignment explanation
Indices: 9859404--9859433 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9859394 AAGAAAATAA
*
9859404 ATATATGG
1 ATATATGT
9859412 ATATATGT
1 ATATATGT
9859420 ATATATGT
1 ATATATGT
9859428 ATATAT
1 ATATAT
9859434 TTAATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (8 bp):
ATATATGT
Found at i:9860357 original size:20 final size:19
Alignment explanation
Indices: 9860332--9860436 Score: 79
Period size: 20 Copynumber: 5.4 Consensus size: 19
9860322 CTTGTTTACA
9860332 TTGATTTGATTCTCAATCTT
1 TTGATTTGATTCTCAATC-T
** * *
9860352 TTGATTTCTTTC-CATTACA
1 TTGATTTGATTCTCAAT-CT
9860371 TTGATTTGATTCTCAATCTT
1 TTGATTTGATTCTCAATC-T
** * *
9860391 TTGATTTCTTTC-CATTACA
1 TTGATTTGATTCTCAAT-CT
9860410 TTGATTTGATTCTCAATCCT
1 TTGATTTGATTCTCAAT-CT
9860430 TTGATTT
1 TTGATTT
9860437 CTTTCCATTA
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
19 27 0.43
20 36 0.57
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (19 bp):
TTGATTTGATTCTCAATCT
Found at i:9860381 original size:39 final size:39
Alignment explanation
Indices: 9860327--9860447 Score: 233
Period size: 39 Copynumber: 3.1 Consensus size: 39
9860317 AAAATCTTGT
9860327 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
9860366 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
*
9860405 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
9860444 TTAC
1 TTAC
9860448 TGTTTTGCTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.53
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCTTTTGATTTCTTTCCA
Found at i:9864179 original size:6 final size:6
Alignment explanation
Indices: 9864168--9864201 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
9864158 TTCTTCCTCC
*
9864168 CCCAAA CCCAAA CCCAAA CCCCAAC CCCAAA CCC
1 CCCAAA CCCAAA CCCAAA -CCCAAA CCCAAA CCC
9864202 CTCCTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCAAA
Found at i:9864196 original size:13 final size:13
Alignment explanation
Indices: 9864167--9864202 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9864157 ATTCTTCCTC
9864167 CCCCAAA-CCCAA
1 CCCCAAACCCCAA
*
9864179 ACCCAAACCCCAA
1 CCCCAAACCCCAA
9864192 CCCCAAACCCC
1 CCCCAAACCCC
9864203 TCCTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.39, C:0.61, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCCAAACCCCAA
Found at i:9869813 original size:17 final size:17
Alignment explanation
Indices: 9869761--9869814 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
9869751 ATATATTATC
*
9869761 AAAATTATAAAAAATAG
1 AAAATTATAAAAAATAT
9869778 AAAATTATAAAAACCATAT
1 AAAATTATAAAAA--ATAT
9869797 AAAATT-TAAAAATATAT
1 AAAATTATAAAAA-ATAT
9869814 A
1 A
9869815 TACAATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 18 0.55
18 6 0.18
19 9 0.27
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:9871101 original size:26 final size:26
Alignment explanation
Indices: 9871065--9871115 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
9871055 CTTTGTTGTC
9871065 AATTACCTCATATGTTTTCAAATATA
1 AATTACCTCATATGTTTTCAAATATA
9871091 AATTACCTCATATGTTTTCAAATAT
1 AATTACCTCATATGTTTTCAAATAT
9871116 CAAAGAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (26 bp):
AATTACCTCATATGTTTTCAAATATA
Found at i:9880629 original size:20 final size:20
Alignment explanation
Indices: 9880606--9880660 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
9880596 GATAAACCCA
9880606 TAGAAATTTTGGTATA-ACCT
1 TAGAAATTTTGGTA-AGACCT
* * *
9880626 TAGAAGTTTTGGCAAGACTT
1 TAGAAATTTTGGTAAGACCT
*
9880646 TAGCAATTTTGGTAA
1 TAGAAATTTTGGTAA
9880661 ATCTAAGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (20 bp):
TAGAAATTTTGGTAAGACCT
Found at i:9886228 original size:18 final size:18
Alignment explanation
Indices: 9886205--9886256 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
9886195 GAAACTCTAT
*
9886205 ATCCTTTTGGGATTTTAA
1 ATCCTTTAGGGATTTTAA
9886223 ATCCTTTAGGGATTTTAA
1 ATCCTTTAGGGATTTTAA
*
9886241 ATCCTTTAGGAATTTT
1 ATCCTTTAGGGATTTT
9886257 CATATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (18 bp):
ATCCTTTAGGGATTTTAA
Found at i:9889911 original size:43 final size:42
Alignment explanation
Indices: 9889826--9889970 Score: 157
Period size: 43 Copynumber: 3.4 Consensus size: 42
9889816 CGAGACTACA
* * *
9889826 TGTAAGACCATATCTGG-GATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATGTCTGGACAT-TGGCATCGATATGAGATTTCG
* *
9889868 TGTAAGACCATGTCTCGGACATTGGCATGGATATGTGATTTCG
1 TGTAAGACCATGTCT-GGACATTGGCATCGATATGAGATTTCG
* * * * *
9889911 TGTAAGACCATGGCTGGGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATGTCTGGAC-ATTGGCATCGATATGAGATTTCG
*
9889954 TGTAAGACCATATCTGG
1 TGTAAGACCATGTCTGG
9889971 GATATGACAT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 17 0.20
43 67 0.78
44 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGACATTGGCATCGATATGAGATTTCG
Found at i:9901643 original size:9 final size:10
Alignment explanation
Indices: 9901628--9901655 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9901618 AACTTTTCCG
9901628 TATTTTTTAT
1 TATTTTTTAT
9901638 TATTTTTTAT
1 TATTTTTTAT
9901648 TATTTTTT
1 TATTTTTT
9901656 CCTTAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:9903354 original size:20 final size:21
Alignment explanation
Indices: 9903311--9903359 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
9903301 AATAGAAATC
*
9903311 AATAGAATTGTTATTTTGGAA
1 AATAGAATTGTTATTTTAGAA
9903332 AATAGAA-T-TTATATTTAGAA
1 AATAGAATTGTTAT-TTTAGAA
9903352 AATA-AATT
1 AATAGAATT
9903360 CTCACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (21 bp):
AATAGAATTGTTATTTTAGAA
Found at i:9925409 original size:28 final size:28
Alignment explanation
Indices: 9925369--9925452 Score: 159
Period size: 28 Copynumber: 3.0 Consensus size: 28
9925359 TCTACTCAAA
9925369 AAGAGGAGAAAAAAGGGTGAATTTTGGT
1 AAGAGGAGAAAAAAGGGTGAATTTTGGT
*
9925397 AGGAGGAGAAAAAAGGGTGAATTTTGGT
1 AAGAGGAGAAAAAAGGGTGAATTTTGGT
9925425 AAGAGGAGAAAAAAGGGTGAATTTTGGT
1 AAGAGGAGAAAAAAGGGTGAATTTTGGT
9925453 TTTCTCCGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (28 bp):
AAGAGGAGAAAAAAGGGTGAATTTTGGT
Found at i:9926150 original size:3 final size:3
Alignment explanation
Indices: 9926062--9926135 Score: 94
Period size: 3 Copynumber: 24.3 Consensus size: 3
9926052 GAATTTGATG
* *
9926062 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
9926110 TCA TTA GCA TTA TTA TTA TTTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA T
9926136 ATACCTATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9926163 original size:17 final size:15
Alignment explanation
Indices: 9926125--9926163 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9926115 AGCATTATTA
9926125 TTATTTATTATATAC
1 TTATTTATTATATAC
*
9926140 CTATTTATTATATTTAC
1 TTATTTATTATA--TAC
9926157 TTATTTA
1 TTATTTA
9926164 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTTATTATATAC
Found at i:9927514 original size:10 final size:10
Alignment explanation
Indices: 9927499--9927523 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9927489 CAAACAAATG
9927499 ATTTTATGAA
1 ATTTTATGAA
9927509 ATTTTATGAA
1 ATTTTATGAA
9927519 ATTTT
1 ATTTT
9927524 TTTAAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (10 bp):
ATTTTATGAA
Found at i:9927610 original size:21 final size:19
Alignment explanation
Indices: 9927554--9927602 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 19
9927544 TTTTGCATAC
9927554 TTTTAATTTTAAAAATATA
1 TTTTAATTTTAAAAATATA
9927573 TTTTAATTTTAAAAATATA
1 TTTTAATTTTAAAAATATA
9927592 TTTATAATTTT
1 TTT-TAATTTT
9927603 CTAAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAATTTTAAAAATATA
Found at i:9927616 original size:20 final size:19
Alignment explanation
Indices: 9927557--9927622 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
9927547 TGCATACTTT
*
9927557 TAATTTTAAAAATATATTT
1 TAATTTTAAAAATATATTA
9927576 TAATTTTAAAAATATATTTA
1 TAATTTTAAAAATATA-TTA
* *
9927596 TAATTTTCTAAAATAGATTA
1 TAATTTT-AAAAATATATTA
*
9927616 TGATTTT
1 TAATTTT
9927623 TTTTAATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
19 16 0.39
20 18 0.44
21 7 0.17
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
TAATTTTAAAAATATATTA
Done.