Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 396 of 427
Found at i:114742592 original size:18 final size:18
Alignment explanation
Indices: 114742569--114742603 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
114742559 AATCAGTAAT
* *
114742569 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
114742587 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
114742604 TTCAACACAC
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:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:114744089 original size:20 final size:20
Alignment explanation
Indices: 114744066--114744120 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
114744056 TTATTTTTAA
114744066 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
114744086 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
114744106 TAATAGAATAATAAT
1 TAAT--AATAATAAT
114744121 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:114750190 original size:6 final size:6
Alignment explanation
Indices: 114750168--114750209 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
114750158 AATATCTAAT
* *
114750168 CAGTAA TCAGTAA CAGTAG CAGTAG CAGTAA CAGTAA CAGTA
1 CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
114750210 TTCAACACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:114750257 original size:45 final size:45
Alignment explanation
Indices: 114750193--114750299 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
114750183 GTAGCAGTAG
*
114750193 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAA
* *
114750238 CAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
*
114750283 CAATAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
114750300 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:114750718 original size:26 final size:26
Alignment explanation
Indices: 114750682--114750817 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
114750672 TGATACAAAT
114750682 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
114750708 TGATAATAGGTTAGGTAAATGTTTTA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
114750734 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
114750760 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
114750786 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
114750812 TGATAA
1 TGATAA
114750818 GAATTTCATG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:114752830 original size:136 final size:137
Alignment explanation
Indices: 114752585--114752870 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
114752575 GAGTAGTCTC
114752585 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
114752650 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
114752715 ACTGTTA
131 ACTGTTA
*
114752722 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
114752786 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
114752851 ACTGTTA
131 ACTGTTA
**
114752858 CCTGAATGGGCTT
1 CCCAAATGGGCTT
114752871 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 126 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:114756652 original size:26 final size:26
Alignment explanation
Indices: 114756593--114756727 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
114756583 TGATACAAAT
114756593 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
114756618 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
114756644 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
114756670 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
114756696 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
114756722 TGATAA
1 TGATAA
114756728 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:114758231 original size:26 final size:26
Alignment explanation
Indices: 114758202--114758254 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
114758192 TTTACAGTTT
114758202 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
114758228 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
114758254 T
1 T
114758255 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:114758746 original size:136 final size:137
Alignment explanation
Indices: 114758501--114758786 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
114758491 GAGTAGTCTC
114758501 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
114758566 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
114758631 ACTGTTA
131 ACTGTTA
*
114758638 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
114758702 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
114758767 ACTGTTA
131 ACTGTTA
**
114758774 CCTGAATGGGCTT
1 CCCAAATGGGCTT
114758787 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 126 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:114760503 original size:3 final size:3
Alignment explanation
Indices: 114760495--114760538 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
114760485 TATTAACTTC
114760495 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
114760539 TATTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:114760543 original size:3 final size:3
Alignment explanation
Indices: 114760537--114760562 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
114760527 AATAATAATA
114760537 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
114760563 AAATATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:114760835 original size:20 final size:20
Alignment explanation
Indices: 114760812--114760866 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
114760802 TTATTTTTAA
114760812 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
114760832 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
114760852 TAATAGAATAATAAT
1 TAAT--AATAATAAT
114760867 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:114763055 original size:4 final size:4
Alignment explanation
Indices: 114763041--114763095 Score: 51
Period size: 4 Copynumber: 14.0 Consensus size: 4
114763031 TTAAAAAGTT
* * * *
114763041 TAAA CAAA TAAA TAAA -AAA TGAAA TAAG CAAA TAAA TAAG TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA
114763089 -AAA TAAA
1 TAAA TAAA
114763096 ATATAACAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
3 6 0.15
4 30 0.75
5 4 0.10
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (4 bp):
TAAA
Found at i:114763131 original size:9 final size:9
Alignment explanation
Indices: 114763117--114763216 Score: 137
Period size: 9 Copynumber: 11.1 Consensus size: 9
114763107 TACAAATGAC
114763117 AACAATAAT
1 AACAATAAT
114763126 AACAATAAT
1 AACAATAAT
114763135 AACAATAAT
1 AACAATAAT
114763144 AACAATAAT
1 AACAATAAT
114763153 AACAATAAT
1 AACAATAAT
*
114763162 AATAATAAT
1 AACAATAAT
*
114763171 AATAATAAT
1 AACAATAAT
*
114763180 AATAATAAT
1 AACAATAAT
*
114763189 AATAATAAT
1 AACAATAAT
* **
114763198 AATAGCAAT
1 AACAATAAT
114763207 AACAATAAT
1 AACAATAAT
114763216 A
1 A
114763217 TATTAAATTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 85 1.00
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.26
Consensus pattern (9 bp):
AACAATAAT
Found at i:114763132 original size:6 final size:6
Alignment explanation
Indices: 114763120--114763216 Score: 131
Period size: 6 Copynumber: 16.2 Consensus size: 6
114763110 AAATGACAAC
* * * *
114763120 AATAAT AACAAT AATAAC AATAAT AACAAT AATAAC AATAAT AATAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
** *
114763168 AATAAT AATAAT AATAAT AATAAT AATAAT AATAGC AATAAC AATAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
114763216 A
1 A
114763217 TATTAAATTA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (6 bp):
AATAAT
Found at i:114764839 original size:183 final size:183
Alignment explanation
Indices: 114764576--114764922 Score: 478
Period size: 183 Copynumber: 1.9 Consensus size: 183
114764566 TTTAGGTTTA
* * *
114764576 ATCCGACCCACTGTAACTTCAGAGGTATAGGACTTATCGCCTTAATCCGATCCACTGTAACTTCA
1 ATCCGACCCACTGCAACTTCAGAGGTATAGGACTCATCGCCTTAATCCGATCCACTGCAACTTCA
* * * * ** **
114764641 GGGTGATAGGATTAGCTGTATTCAGTCTGCTTTGCTGCAACTTCAAGGAGATAAGACTTGTGGCT
66 GAGAGATAAGATTAGCTATATTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTAACT
*
114764706 TCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTACCATGGTAGATTTG
131 TCAATCTACTCCACTACAACTTCAACGAGATAAGATTTACCATGGTAGATTTG
* * * ** * * **
114764759 ATCCGACCTACTGCAACTTCAGAGGTATAGGACTCGTTGTTTTAATCTGCTCTGCTGCAACTTCA
1 ATCCGACCCACTGCAACTTCAGAGGTATAGGACTCATCGCCTTAATCCGATCCACTGCAACTTCA
* *
114764824 GAGAGATAAGATTAGCTATCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTAATT
66 GAGAGATAAGATTAGCTATATTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTAACT
*
114764889 TCAATCTACTCCACTGCAACTTCAACGAGATAAG
131 TCAATCTACTCCACTACAACTTCAACGAGATAAG
114764923 GTTTGTTTTG
Statistics
Matches: 140, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
183 140 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (183 bp):
ATCCGACCCACTGCAACTTCAGAGGTATAGGACTCATCGCCTTAATCCGATCCACTGCAACTTCA
GAGAGATAAGATTAGCTATATTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTAACT
TCAATCTACTCCACTACAACTTCAACGAGATAAGATTTACCATGGTAGATTTG
Found at i:114764913 original size:44 final size:44
Alignment explanation
Indices: 114764675--114765471 Score: 362
Period size: 44 Copynumber: 17.7 Consensus size: 44
114764665 GTCTGCTTTG
*** *
114764675 CTGCAACTTCAAGGAGATAAGACTTGTGGCTTCAATCTACTCCA
1 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
* * * * *
114764719 CTACAACTTCAAGGAGATAAGATTTACCATGGTAGATTT-GATCCGAC-CTA
1 CTGCAACTTCAAGGAGATAAG----A-C-TTGTA-ATTTCAATCTG-CTCCA
* * * ** * **
114764769 CTGCAACTTCAGAGG-TATAGGACTCGTTGTTTTAATCTGCTCTG
1 CTGCAACTTCA-AGGAGATAAGACTTGTAATTTCAATCTGCTCCA
* *
114764813 CTGCAACTTC-AGAGAGATAAGA-TTAGCT-ATCTTCAGTCTGCTCCG
1 CTGCAACTTCAAG-GAGATAAGACTT-G-TAAT-TTCAATCTGCTCCA
*
114764858 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTACTCCA
1 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
* ** * *
114764902 CTGCAACTTCAACGAGATAAGGTTTGT--TTT-GATCTGCTCTA
1 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
** *
114764943 CTGCAACTTC-AGAGAGATAAGA-TCTGTAATTTATAGCTTCAATCTATTTCA
1 CTGCAACTTCAAG-GAGATAAGACT-TGT-A---AT---TTCAATCTGCTCCA
* * * * * *
114764994 CTGGAACTTCAGGGAAATAAGATTTGCT-ATCTTCAGTCTGCTCTA
1 CTGCAACTTCAAGGAGATAAGACTTG-TAAT-TTCAATCTGCTCCA
* * *
114765039 CTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTACTCCA
1 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
* * ** * *
114765083 C-ACAACTTTAAGGAGATAAGGTTTGTAATTTTAACCTGCTCCA
1 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
* ** * *
114765126 CTGCAACTTC-AGAGAGATAAG-GTT-T-ATTTTGATCTGTTCTA
1 CTGCAACTTCAAG-GAGATAAGACTTGTAATTTCAATCTGCTCCA
* * *
114765167 CTGCAACTTCAGAGG-GATAAGATTTGTAATTATAGCTTCAATCCGTTCCA
1 CTGCAACTTCA-AGGAGATAAGACTTGT-A--AT---TTCAATCTGCTCCA
* * * * *
114765217 CAGCAACTTTAGGGAAATAAGA-TTCGCT-ATCTTCAGTCTGCTCCA
1 CTGCAACTTCAAGGAGATAAGACTT-G-TAAT-TTCAATCTGCTCCA
* * *
114765262 CTGCAACTGCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCA
1 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
* * * * *
114765306 CTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCTA
1 CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
** *** *
114765350 CTGCAACTTC-AGAGAGATAAGGTTTGCGGTTTTAATCTGCTCCA
1 CTGCAACTTCAAG-GAGATAAGACTTGTAATTTCAATCTGCTCCA
* * * ** * * *
114765394 CTGTAATTTC-AGAGAGACAAGA-TTCGCCATCTTTAGTCTGCTCCG
1 CTGCAACTTCAAG-GAGATAAGACTT-GTAAT-TTCAATCTGCTCCA
*
114765439 CTGCAACTTCAGGGAGATAAGACTTGTGAATTT
1 CTGCAACTTCAAGGAGATAAGACTTGT-AATTT
114765472 ACCAATCTTC
Statistics
Matches: 577, Mismatches: 117, Indels: 117
0.71 0.14 0.14
Matches are distributed among these distances:
40 2 0.00
41 57 0.10
42 9 0.02
43 52 0.09
44 213 0.37
45 134 0.23
46 12 0.02
47 7 0.01
48 1 0.00
49 5 0.01
50 50 0.09
51 32 0.06
52 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAAGGAGATAAGACTTGTAATTTCAATCTGCTCCA
Found at i:114765056 original size:96 final size:93
Alignment explanation
Indices: 114764813--114765070 Score: 293
Period size: 96 Copynumber: 2.8 Consensus size: 93
114764803 ATCTGCTCTG
* ** *
114764813 CTGCAACTTCAGAGAGATAAGATTAGCTATCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAA
1 CTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAA
114764878 GACTTGT-A---ATTTCAATCTACTCCA
66 GACTTGTAATTTATTTCAATCTACTCCA
* * *
114764902 CTGCAACTTCA-ACGAGATAAGGTTTG-T-T-TTGA-TCTGCTCTACTGCAACTTCAGAGAGATA
1 CTGCAACTTCAGA-GAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATA
* *
114764962 AGA-TCTGTAATTTATAGCTTCAATCTATTTCA
65 AGACT-TGTAATTTAT---TTCAATCTACTCCA
* * *
114764994 CTGGAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAA
1 CTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAA
114765059 GACTTGTAATTT
66 GACTTGTAATTT
114765071 CAACCTACTC
Statistics
Matches: 139, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
84 1 0.01
85 30 0.22
86 4 0.03
87 1 0.01
88 2 0.01
89 24 0.17
92 33 0.24
93 1 0.01
94 1 0.01
95 3 0.02
96 38 0.27
97 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (93 bp):
CTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAA
GACTTGTAATTTATTTCAATCTACTCCA
Found at i:114765066 original size:181 final size:181
Alignment explanation
Indices: 114764817--114765146 Score: 509
Period size: 181 Copynumber: 1.8 Consensus size: 181
114764807 GCTCTGCTGC
* *
114764817 AACTTCAGAGAGATAAGATTAGCTATCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACT
1 AACTTCAGAGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
* * * * *
114764882 TGTAATTTCAATCTACTCCACTGCAACTTCAACGAGATAAGGTTTG-TTTTGATCTGCTCTACTG
66 TGTAATTTCAACCTACTCCAC-ACAACTTCAACGAGATAAGGTTTGATTTTAACCTGCTCCACTG
114764946 CAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTATTTCACTGG
130 CAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTATTTCACTGG
* * * *
114764998 AACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACT
1 AACTTCAGAGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
* *
114765063 TGTAATTTCAACCTACTCCACACAACTTTAAGGAGATAAGGTTTGTAATTTTAACCTGCTCCACT
66 TGTAATTTCAACCTACTCCACACAACTTCAACGAGATAAGGTTTG--ATTTTAACCTGCTCCACT
114765128 GCAACTTCAGAGAGATAAG
129 GCAACTTCAGAGAGATAAG
114765147 GTTTATTTTG
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
180 21 0.16
181 79 0.59
183 33 0.25
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (181 bp):
AACTTCAGAGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
TGTAATTTCAACCTACTCCACACAACTTCAACGAGATAAGGTTTGATTTTAACCTGCTCCACTGC
AACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTATTTCACTGG
Found at i:114765098 original size:43 final size:43
Alignment explanation
Indices: 114765042--114765146 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
114765032 TGCTCTACTG
*
114765042 CAACTTCAGGGAGATAAGACTTGTAATTTCAACCTACTCCACA
1 CAACTTCAAGGAGATAAGACTTGTAATTTCAACCTACTCCACA
* ** * * *
114765085 CAACTTTAAGGAGATAAGGTTTGTAATTTTAACCTGCTCCACTG
1 CAACTTCAAGGAGATAAGACTTGTAATTTCAACCTACTCCAC-A
114765129 CAACTTC-AGAGAGATAAG
1 CAACTTCAAG-GAGATAAG
114765147 GTTTATTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
43 38 0.73
44 14 0.27
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (43 bp):
CAACTTCAAGGAGATAAGACTTGTAATTTCAACCTACTCCACA
Found at i:114765102 original size:224 final size:224
Alignment explanation
Indices: 114764804--114765416 Score: 811
Period size: 224 Copynumber: 2.7 Consensus size: 224
114764794 GTTGTTTTAA
* * ** *
114764804 TCTGCTCTGCTGCAACTTCAGAGAGATAAGA-TTAGCT-ATCTTCAGTCTGCTCCGCTGCAACTT
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-G-TAAT-TTCAACCTGCTCCACTGCAACTT
* *
114764867 CAAGGAGATAAGACTTGTAATTTCAATCTACTCCACTGCAACTTCA-ACGAGATAAGGTTTGTTT
63 CAAGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAGA-GAGATAAGGTTTGTTT
* * *
114764931 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTATTTCACT
127 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAA-TTATAGCTTCAATCCATTCCACA
* *
114764996 GGAACTTCAGGGAAATAAGATTTGCTATCTTCAG
191 GCAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * *
114765030 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTACTCCAC-ACAACTTTAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAA
** * *
114765094 GGAGATAAGGTTTGTAATTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTATTTTGAT
66 GGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTTTTGAT
* * * *
114765159 CTGTTCTACTGCAACTTCAGAGGGATAAGATTTGTAATTATAGCTTCAATCCGTTCCACAGCAAC
131 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATCCATTCCACAGCAAC
*
114765224 TTTAGGGAAATAAGATTCGCTATCTTCAG
196 TTCAGGGAAATAAGATTCGCTATCTTCAG
* * * *
114765253 TCTGCTCCACTGCAACTGCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGTAACTTCAG
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAA
* *
114765318 GGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGCGGTTTT
66 GGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTT---GTTTT
* * * * *
114765383 AATCTGCTCCACTGTAATTTCAGAGAGACAAGAT
128 GATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
114765417 TCGCCATCTT
Statistics
Matches: 336, Mismatches: 44, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
223 101 0.30
224 157 0.47
225 13 0.04
226 32 0.10
227 33 0.10
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (224 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAA
GGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTTTTGAT
CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATCCATTCCACAGCAAC
TTCAGGGAAATAAGATTCGCTATCTTCAG
Found at i:114766314 original size:9 final size:9
Alignment explanation
Indices: 114766296--114766365 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
114766286 CTCTCCATTT
114766296 TCTT-CTCC
1 TCTTCCTCC
114766304 TCTTCCTCC
1 TCTTCCTCC
*
114766313 TCCTCCTCC
1 TCTTCCTCC
*
114766322 TCCTCCTCC
1 TCTTCCTCC
*
114766331 TCCTCC-CC
1 TCTTCCTCC
114766339 -C-TCCTCC
1 TCTTCCTCC
114766346 TTCTT-CT--
1 -TCTTCCTCC
114766353 TCTTCCTCC
1 TCTTCCTCC
114766362 TCTT
1 TCTT
114766366 TTTAAAAAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
6 7 0.13
7 5 0.09
8 6 0.11
9 34 0.64
10 1 0.02
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (9 bp):
TCTTCCTCC
Found at i:114766363 original size:3 final size:3
Alignment explanation
Indices: 114766300--114766346 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
114766290 CCATTTTCTT
* *
114766300 CTC CTC TTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CCC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
114766347 TCTTCTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:114774349 original size:3 final size:3
Alignment explanation
Indices: 114774341--114774571 Score: 266
Period size: 3 Copynumber: 76.3 Consensus size: 3
114774331 TACAAATGAC
114774341 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
114774389 AAT AAT AAT AAT AAT AAT AAT AAAG AAT AGT AAT AGT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * *
114774435 AAT ATT AAT AGT AAT AAT AAT GGT AAT AAT AAAT AAT AGT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * *
114774481 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AGT AAT AAT AAT GAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
114774529 AAAT AAT AAT AGT AA- AAT AAT AAT AAT GGT AAT AAC AAT AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
114774572 TATTAAATTA
Statistics
Matches: 188, Mismatches: 36, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
2 2 0.01
3 179 0.95
4 7 0.04
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:114775228 original size:9 final size:9
Alignment explanation
Indices: 114775214--114775271 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
114775204 ATAAGTATAA
114775214 AATTAACCG
1 AATTAACCG
*
114775223 AATTAACTG
1 AATTAACCG
*
114775232 AATT-GCCTG
1 AATTAACC-G
* *
114775241 AATTACCCA
1 AATTAACCG
114775250 AATTAACCG
1 AATTAACCG
114775259 AATTAACCG
1 AATTAACCG
114775268 AATT
1 AATT
114775272 GTTTATATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 1 0.03
9 37 0.93
10 2 0.05
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:114775306 original size:5 final size:6
Alignment explanation
Indices: 114775291--114775331 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
114775281 AAATTATGTT
*
114775291 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
114775332 AATAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:114783677 original size:46 final size:44
Alignment explanation
Indices: 114783618--114783732 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
114783608 ACAGGACAGA
* *
114783618 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
114783664 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
114783708 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
114783733 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:114783713 original size:44 final size:45
Alignment explanation
Indices: 114783618--114783751 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
114783608 ACAGGACAGA
* *
114783618 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
114783664 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
114783708 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
114783752 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:114789813 original size:46 final size:44
Alignment explanation
Indices: 114789754--114789868 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
114789744 ACAGGACAGA
* *
114789754 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
114789800 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
114789844 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
114789869 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:114789849 original size:44 final size:45
Alignment explanation
Indices: 114789754--114789887 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
114789744 ACAGGACAGA
* *
114789754 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
114789800 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
114789844 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
114789888 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:114802842 original size:44 final size:45
Alignment explanation
Indices: 114802747--114802861 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
114802737 ACAGGACAGA
* *
114802747 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTAGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTAGAG
* * *
114802793 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
* **
114802837 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
114802862 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
Found at i:114806630 original size:22 final size:22
Alignment explanation
Indices: 114806604--114806647 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
114806594 TGGAAATAAG
114806604 ACTGCACATAAAATCCTCAAAT
1 ACTGCACATAAAATCCTCAAAT
114806626 ACTGCACATAAAATCCTCAAAT
1 ACTGCACATAAAATCCTCAAAT
114806648 CAGGTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (22 bp):
ACTGCACATAAAATCCTCAAAT
Found at i:114809562 original size:5 final size:6
Alignment explanation
Indices: 114809544--114809584 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
114809534 TGTTTTACTA
* * *
114809544 TTATTT TTATTT TTATTT TTATCT TTGTTT CTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
114809585 CCATTCTCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:114814544 original size:19 final size:19
Alignment explanation
Indices: 114814520--114814561 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
114814510 ATATATATTT
114814520 TTTTTTTTTACATTTGAAA
1 TTTTTTTTTACATTTGAAA
114814539 TTTTTTTTTACATTTGAAA
1 TTTTTTTTTACATTTGAAA
114814558 TTTT
1 TTTT
114814562 ACCATTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTTTTACATTTGAAA
Found at i:114830843 original size:229 final size:233
Alignment explanation
Indices: 114830418--114830874 Score: 564
Period size: 229 Copynumber: 2.0 Consensus size: 233
114830408 CGATATAGAT
** * * *
114830418 TGATTATCAAGATCCAACATTTGTTGTGGACTCGAAGATACATGTGACACAGGTTTAGCTCAGAT
1 TGATTATCAAGATCCAACATTTGTTGCAGACTCAAAGATACATGTGACACAAGTTTAGCTCAGAC
*
114830483 GAGTAACCTGATGTCGTTTTAAAGGTTTAGCCCAGACGGGTAACCTGACATATATATTTACAACT
66 GAGTAACCTGA-GTCG--TTAAAGGTTTAGCCCAGACAGGTAACCTGACATATATATTTACAACT
* * ** * *
114830548 TTAGCCAAGCTATTTGATGTGTCAATATAAATATTTAGCCCGGTTGGGTAACCCAACGCGAATAT
128 TTAGCCAAGCTATTTGATGTGCCAATATAAATATTTAGCCCAGACGGGTAACCCAACACAAATAT
*
114830613 ATGTTCAGTTCGAACGAGTAACAAATGTGGTTAATTATTGA
193 ATGTTCAGTTCGAACGAGCAACAAATGTGGTTAATTATTGA
* * * *
114830654 TGATTATCGAGATCCAACATTTGTTGCAGACTTAAAGATACATGTGACATAAGTTTAGTTCAGAC
1 TGATTATCAAGATCCAACATTTGTTGCAGACTCAAAGATACATGTGACACAAGTTTAGCTCAGAC
** * * *
114830719 GAGTAACCTGA-T-G-T-AAGGTTTAGCCTGGATAGGTAACCTGATATGTATATTTACAACTTTA
66 GAGTAACCTGAGTCGTTAAAGGTTTAGCCCAGACAGGTAACCTGACATATATATTTACAACTTTA
* * * * * *
114830780 GCCAAGGTATTTGTTGTGCCGATATATAA-GTTTATCCCAGACGGGTAACCTAACACAAATATAT
131 GCCAAGCTATTTGATGTGCCAATATA-AATATTTAGCCCAGACGGGTAACCCAACACAAATATAT
* * *
114830844 GTTCATTTCGGACGAGCATCAAATGTGGTTA
195 GTTCAGTTCGAACGAGCAACAAATGTGGTTA
114830875 GTACCAGTGT
Statistics
Matches: 189, Mismatches: 31, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
229 117 0.62
230 3 0.02
233 1 0.01
234 1 0.01
236 67 0.35
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (233 bp):
TGATTATCAAGATCCAACATTTGTTGCAGACTCAAAGATACATGTGACACAAGTTTAGCTCAGAC
GAGTAACCTGAGTCGTTAAAGGTTTAGCCCAGACAGGTAACCTGACATATATATTTACAACTTTA
GCCAAGCTATTTGATGTGCCAATATAAATATTTAGCCCAGACGGGTAACCCAACACAAATATATG
TTCAGTTCGAACGAGCAACAAATGTGGTTAATTATTGA
Found at i:114833353 original size:22 final size:22
Alignment explanation
Indices: 114833328--114833387 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
114833318 TTAATCAGAT
*
114833328 AGCACTAAAGTGCTATACAAAG
1 AGCACTAAAGTGCTAAACAAAG
*
114833350 AGCAC-AAATGTGCTAAACGAAG
1 AGCACTAAA-GTGCTAAACAAAG
*
114833372 AGCACTAATGTGCTAA
1 AGCACTAAAGTGCTAA
114833388 TAATAGGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (22 bp):
AGCACTAAAGTGCTAAACAAAG
Found at i:114835208 original size:25 final size:25
Alignment explanation
Indices: 114835180--114835234 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
114835170 GGACACACCA
114835180 CAGCTCGCATGAGCTTCCCCTAATT
1 CAGCTCGCATGAGCTTCCCCTAATT
* * *
114835205 CAGCTCGCATGAGCTTTCCGTTATT
1 CAGCTCGCATGAGCTTCCCCTAATT
114835230 CAGCT
1 CAGCT
114835235 AGAAGGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.31
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCCTAATT
Found at i:114837790 original size:18 final size:20
Alignment explanation
Indices: 114837755--114837798 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
114837745 TCAATTTAGT
114837755 CATTATTTCCATAAAATTTCA
1 CATTATTTCCAT-AAATTTCA
114837776 CATT-TTTCCAT-AATTTCA
1 CATTATTTCCATAAATTTCA
114837794 C-TTAT
1 CATTAT
114837799 CTAATACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 9 0.41
20 7 0.32
21 4 0.18
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (20 bp):
CATTATTTCCATAAATTTCA
Found at i:114837895 original size:2 final size:2
Alignment explanation
Indices: 114837888--114837916 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
114837878 TGTTTCACAC
114837888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114837917 TACTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114838425 original size:12 final size:12
Alignment explanation
Indices: 114838408--114838433 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
114838398 AGTAGCATGG
114838408 AAAGATGAAGAA
1 AAAGATGAAGAA
114838420 AAAGATGAAGAA
1 AAAGATGAAGAA
114838432 AA
1 AA
114838434 TTCTTCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (12 bp):
AAAGATGAAGAA
Found at i:114840578 original size:14 final size:14
Alignment explanation
Indices: 114840559--114840596 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
114840549 ACTTGAAAGG
114840559 GAGAAGAGAGAA-AA
1 GAGAAGA-AGAAGAA
114840573 GAGAAGAAGAAGAA
1 GAGAAGAAGAAGAA
*
114840587 GAGGAGAAGA
1 GAGAAGAAGA
114840597 CAATAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
GAGAAGAAGAAGAA
Found at i:114845935 original size:36 final size:35
Alignment explanation
Indices: 114845895--114845965 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
114845885 GTAAAAAAAA
* *
114845895 ACTTGGGAATTTAAAGAACCCGGTAAATTGAGTCTT
1 ACTTGGGAAGTTAAAGAACCCAGT-AATTGAGTCTT
*
114845931 ACTTGGGAAGTTAAAGAATCCAGTAATTGAGTCTT
1 ACTTGGGAAGTTAAAGAACCCAGTAATTGAGTCTT
114845966 TGTGGGATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (35 bp):
ACTTGGGAAGTTAAAGAACCCAGTAATTGAGTCTT
Found at i:114846841 original size:5 final size:5
Alignment explanation
Indices: 114846837--114846882 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
114846827 AAAAAAGAGG
114846837 GGAG- GGAGT GGAGT GGAGT GGAGT GGAGT GGAGT GGAGT GGAGT GG
1 GGAGT GGAGT GGAGT GGAGT GGAGT GGAGT GGAGT GGAGT GGAGT GG
114846883 GGCAGGCAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.20, C:0.00, G:0.63, T:0.17
Consensus pattern (5 bp):
GGAGT
Found at i:114854794 original size:23 final size:23
Alignment explanation
Indices: 114854749--114854796 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
114854739 CTGTTAAGTC
*
114854749 AAATTAAATAAATAATTAAAATA
1 AAATTAAATAAATAACTAAAATA
* * *
114854772 AAATTAACTAACTAACTAGAATA
1 AAATTAAATAAATAACTAAAATA
114854795 AA
1 AA
114854797 TTTATAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATTAAATAAATAACTAAAATA
Found at i:114860458 original size:16 final size:16
Alignment explanation
Indices: 114860437--114860468 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
114860427 TGCAACCTTC
114860437 TTTTTTTTT-CTTTTT
1 TTTTTTTTTCCTTTTT
114860452 TTTTTTTTTCCTTTTT
1 TTTTTTTTTCCTTTTT
114860468 T
1 T
114860469 GAACTCACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTCCTTTTT
Found at i:114879713 original size:26 final size:26
Alignment explanation
Indices: 114879683--114879744 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
114879673 AGATCCATAT
* *
114879683 TCAGGAAGTTCACAAAAAACTTTTAA
1 TCAGGAAGCTCACAAAAAACCTTTAA
* * *
114879709 TCAGGAGGCTCACGAAAAGCCTTTAA
1 TCAGGAAGCTCACAAAAAACCTTTAA
114879735 TCAGG-AGCTC
1 TCAGGAAGCTC
114879745 CGAATAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (26 bp):
TCAGGAAGCTCACAAAAAACCTTTAA
Found at i:114879968 original size:63 final size:63
Alignment explanation
Indices: 114879783--114879970 Score: 200
Period size: 65 Copynumber: 2.9 Consensus size: 63
114879773 TGAGCCATAT
* * * *
114879783 CAGGATACTCACAAAGAGTTGCGTTTGTGTCCGCAATATATACAGGATCACAACCAATCATAAAA
1 CAGGATGCTCACAAAGAGTT--GTTTGTGTCCGCAATACATGCAGGATCACAACCGATCATAAAA
* * * * *
114879848 TAGGACGCTCACAAAGAGCTACGTTTGTGTCCACAATACATGC-GAGATCACAACCGATCATATA
1 CAGGATGCTCACAAAGAG-T-TGTTTGTGTCCGCAATACATGCAG-GATCACAACCGATCATAAA
114879912 A
63 A
* * *
114879913 CAGGATGCTCACAAAGAGTTG-TGGTAGTCCGCAACACATGCAGGATCACTACCGATCA
1 CAGGATGCTCACAAAGAGTTGTTTGT-GTCCGCAATACATGCAGGATCACAACCGATCA
114879971 GGATGTTCGC
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
62 3 0.03
63 28 0.27
64 3 0.03
65 67 0.66
66 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (63 bp):
CAGGATGCTCACAAAGAGTTGTTTGTGTCCGCAATACATGCAGGATCACAACCGATCATAAAA
Found at i:114881797 original size:13 final size:13
Alignment explanation
Indices: 114881779--114881818 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
114881769 TACATATAGA
114881779 ATATTATAATTTT
1 ATATTATAATTTT
*
114881792 ATATTATATTTTT
1 ATATTATAATTTT
114881805 ATAAGTTATAATTT
1 AT-A-TTATAATTT
114881819 CTTTTTGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 14 0.61
14 1 0.04
15 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (13 bp):
ATATTATAATTTT
Found at i:114884307 original size:43 final size:43
Alignment explanation
Indices: 114884247--114884562 Score: 413
Period size: 43 Copynumber: 7.3 Consensus size: 43
114884237 TTATTTGAAA
114884247 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGTG
1 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGTG
* * *
114884290 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGACGTTTGTGGG
1 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGTG
* ** * *
114884333 AAAAACGCCGCTAAAGGTCATGGCTTTTAGCGATGTTTGGGAG
1 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGTG
* * *
114884376 AAAAACGCCGCTAAAGGTGATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGTG
* *
114884419 AAAAACGTCGCTAAAGGTCAGGGCTTTTAGCGGTGTTTGT-TGG
1 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGT-G
*
114884462 AAAAGCGCCGCTAAAGGTCAGGGCTTTTTAGCGGCGTTTGT-TGG
1 AAAAACGCCGCTAAAGGTCAGGGC-TTTTAGCGGCGTTTGTGT-G
* * *
114884506 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGCTTTTTCT-
1 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCG-TTTGTGTG
*
114884549 ACAAACGCCGCTAA
1 AAAAACGCCGCTAA
114884563 TTTTGGCAGA
Statistics
Matches: 245, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
43 198 0.81
44 46 0.19
45 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGTG
Found at i:114886863 original size:9 final size:9
Alignment explanation
Indices: 114886849--114886965 Score: 117
Period size: 9 Copynumber: 12.3 Consensus size: 9
114886839 ATGTATTAGT
114886849 TAAGTTATG
1 TAAGTTATG
114886858 TAAGTTGTTATG
1 TAA---GTTATG
*
114886870 TACGTTATG
1 TAAGTTATG
* *
114886879 TGAGATATG
1 TAAGTTATG
*
114886888 TAAATTATG
1 TAAGTTATG
114886897 TAAGTTATG
1 TAAGTTATG
*
114886906 TGAGTTATG
1 TAAGTTATG
114886915 TAAGTTGTTATG
1 TAA---GTTATG
*
114886927 TAAATTATG
1 TAAGTTATG
*
114886936 TAAGTTATA
1 TAAGTTATG
114886945 TAAGTTATG
1 TAAGTTATG
114886954 TAAGTTATG
1 TAAGTTATG
114886963 TAA
1 TAA
114886966 TTTCTTTAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 71 0.81
12 17 0.19
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:114886925 original size:48 final size:48
Alignment explanation
Indices: 114886849--114886965 Score: 139
Period size: 48 Copynumber: 2.4 Consensus size: 48
114886839 ATGTATTAGT
* * * * *
114886849 TAAGTTATGTAAGTTGT-TATGTACGTTATGTGAGA-TATGTAAATTATG
1 TAAGTTATGTAAGTTATGTAAGT-TGTTATGT-AAATTATGTAAATTATA
* *
114886897 TAAGTTATGTGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATA
1 TAAGTTATGTAAGTTATGTAAGTTGTTATGTAAATTATGTAAATTATA
114886945 TAAGTTATGTAAGTTATGTAA
1 TAAGTTATGTAAGTTATGTAA
114886966 TTTCTTTAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.03
48 53 0.90
49 4 0.07
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.44
Consensus pattern (48 bp):
TAAGTTATGTAAGTTATGTAAGTTGTTATGTAAATTATGTAAATTATA
Found at i:114886927 original size:39 final size:39
Alignment explanation
Indices: 114886884--114886959 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
114886874 TTATGTGAGA
* *
114886884 TATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGT
1 TATGTAAATTATGTAAGTTATATAAGTTATGTAAGTTGT
114886923 TATGTAAATTATGTAAGTTATATAAGTTATGTAAGTT
1 TATGTAAATTATGTAAGTTATATAAGTTATGTAAGTT
114886960 ATGTAATTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (39 bp):
TATGTAAATTATGTAAGTTATATAAGTTATGTAAGTTGT
Found at i:114886953 original size:57 final size:57
Alignment explanation
Indices: 114886851--114886963 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
114886841 GTATTAGTTA
** * *
114886851 AGTTATGTAAGTTGTTATGTACGTTATGTGAGATATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGATATATAAATTATGTAAGTTATGTG
* *
114886908 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGATATATAAATTATGTAAGTTATGT
114886964 AATTTCTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGATATATAAATTATGTAAGTTATGTG
Found at i:114887415 original size:242 final size:242
Alignment explanation
Indices: 114886990--114888096 Score: 2133
Period size: 242 Copynumber: 4.6 Consensus size: 242
114886980 GATCAATATC
114886990 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
114887055 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
114887120 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
*
114887185 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTGTTTTCA
196 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
114887232 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
114887297 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
114887362 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACGT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
114887427 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
196 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
*
114887474 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
*
114887539 ATCTTACAACTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
114887604 TTTTAAAATAAGGTTAGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
114887669 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
196 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
114887716 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
*
114887781 ATCTTACAGCTCGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
114887846 TTTTAAAATAAGGTTGGAGAGAAAGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
131 TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
*
114887911 GGTAATAAATATTCAATAGTAAATAAGCTCGATAGAAATTTTTTTCA
196 GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
114887958 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
1 AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
114888023 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
66 ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
*
114888088 ATTTAAAAT
131 TTTTAAAAT
114888097 CTGATGGAGC
Statistics
Matches: 851, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
242 851 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (242 bp):
AGTATTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTAT
ATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT
TTTTAAAATAAGGTTGGAGAGAAGGTCAGATATTGTTGTAATTTTAATGGACAAGCAAGCTACAT
GGTAATAAATATTCAATAGTAAATGAGCTCGATAGAAATTTTTTTCA
Found at i:114888518 original size:26 final size:25
Alignment explanation
Indices: 114888476--114888577 Score: 159
Period size: 26 Copynumber: 4.0 Consensus size: 25
114888466 ATTGAGAATA
114888476 GGTTAGGTAAATGTTCCATGATAAT
1 GGTTAGGTAAATGTTCCATGATAAT
*
114888501 GGATTAGGTAAATATTCCATGATAAT
1 GG-TTAGGTAAATGTTCCATGATAAT
114888527 AGGTTAGGTAAATGTTCCATGATAAT
1 -GGTTAGGTAAATGTTCCATGATAAT
*
114888553 GGGTTAGGTAAATGTTTCATGATAA
1 -GGTTAGGTAAATGTTCCATGATAA
114888578 GAATTTCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 2 0.03
26 67 0.94
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (25 bp):
GGTTAGGTAAATGTTCCATGATAAT
Found at i:114888529 original size:52 final size:52
Alignment explanation
Indices: 114888472--114888577 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
114888462 ACAAATTGAG
114888472 AATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
1 AATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
* * *
114888524 AATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGAT
1 AATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
114888576 AA
1 AA
114888578 GAATTTCATG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.35
Consensus pattern (52 bp):
AATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
Found at i:114890636 original size:137 final size:137
Alignment explanation
Indices: 114890354--114890640 Score: 504
Period size: 138 Copynumber: 2.1 Consensus size: 137
114890344 GAGTAGTCTC
* *
114890354 CCCAAATGGGTTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
114890419 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC
114890484 ACTGTTA
131 ACTGTTA
*
114890491 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATTTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
114890556 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG-AAAAGGGCTCTGGCCCAGTAC
65 TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTAC
114890620 CACTGTTA
130 CACTGTTA
**
114890628 CCTGAATGGGCTT
1 CCCAAATGGGCTT
114890641 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
137 59 0.41
138 84 0.59
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:114894469 original size:13 final size:13
Alignment explanation
Indices: 114894451--114894484 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
114894441 TTAGGGTTAG
114894451 GGGGAAAATTTTA
1 GGGGAAAATTTTA
*
114894464 GGGGAAAGTTTTA
1 GGGGAAAATTTTA
114894477 GGGGAAAA
1 GGGGAAAA
114894485 ACACTTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (13 bp):
GGGGAAAATTTTA
Found at i:114895096 original size:26 final size:27
Alignment explanation
Indices: 114895067--114895141 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
114895057 AAGAATTAGA
*
114895067 TAAAATTTGAAATATTGAAAATTATT-
1 TAAAATTTGAAATCTTGAAAATTATTC
*
114895093 TAAAATTTGAAATCTTGAAATTTATTC
1 TAAAATTTGAAATCTTGAAAATTATTC
*
114895120 T-AAATTTGAAATCTTTAAAATT
1 TAAAATTTGAAATCTTGAAAATT
114895142 TTAAATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (27 bp):
TAAAATTTGAAATCTTGAAAATTATTC
Found at i:114895597 original size:29 final size:27
Alignment explanation
Indices: 114895531--114895620 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 27
114895521 TAATTAAATC
*
114895531 CCTT-AACCCCTAACCCATATCCCTTTAA
1 CCTTAAACCCATAACCCATA-CCC-TTAA
114895559 CCATTAAACCCATAACCCATGACCCTTAA
1 CC-TTAAACCCATAACCCAT-ACCCTTAA
* *
114895588 TCCTTAAACCCATAATCAATAACCCTTAA
1 -CCTTAAACCCATAACCCAT-ACCCTTAA
114895617 CCTT
1 CCTT
114895621 TACCCACTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
28 6 0.11
29 29 0.54
30 18 0.33
31 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.01, T:0.27
Consensus pattern (27 bp):
CCTTAAACCCATAACCCATACCCTTAA
Found at i:114896030 original size:28 final size:29
Alignment explanation
Indices: 114895990--114896044 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
114895980 AATAAATTGT
*
114895990 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
114896019 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
114896045 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:114896379 original size:40 final size:39
Alignment explanation
Indices: 114896331--114896452 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 39
114896321 TTGCGGCGTT
*
114896331 TTTTATAAAAGCGCCGCTAATGCTCGATCTATAGCGGCG
1 TTTTATAAAAACGCCGCTAATGCTCGATCTATAGCGGCG
* *
114896370 CTTTTATAAAAACGCCGCTAATG-TCCTATCTATAGTGGCG
1 -TTTTATAAAAACGCCGCTAATGCT-CGATCTATAGCGGCG
* *
114896410 TTTGT-TAAGAAACGCCGCTAATGCT-GAACTATATCGGCG
1 TTT-TATAA-AAACGCCGCTAATGCTCGATCTATAGCGGCG
114896449 TTTT
1 TTTT
114896453 TTGTTTAAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
38 1 0.01
39 20 0.28
40 49 0.69
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (39 bp):
TTTTATAAAAACGCCGCTAATGCTCGATCTATAGCGGCG
Found at i:114898736 original size:35 final size:37
Alignment explanation
Indices: 114898688--114898757 Score: 108
Period size: 35 Copynumber: 1.9 Consensus size: 37
114898678 AAGATTACTA
* *
114898688 AAAATAAATATTATAGTAATAGCTTTTATTTTAAAGC
1 AAAATAAATATTATAGTAATAGCTTTGAATTTAAAGC
114898725 AAAA-AAA-ATTATAGTAATAGCTTTGAATTTAAA
1 AAAATAAATATTATAGTAATAGCTTTGAATTTAAA
114898758 ATAGTGGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 24 0.77
36 3 0.10
37 4 0.13
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (37 bp):
AAAATAAATATTATAGTAATAGCTTTGAATTTAAAGC
Found at i:114899812 original size:12 final size:12
Alignment explanation
Indices: 114899795--114899823 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
114899785 GGTGGAATCC
114899795 AATTATGGTTAT
1 AATTATGGTTAT
114899807 AATTATGGTTAT
1 AATTATGGTTAT
114899819 AATTA
1 AATTA
114899824 AACAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (12 bp):
AATTATGGTTAT
Found at i:114909450 original size:21 final size:21
Alignment explanation
Indices: 114909426--114909470 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
114909416 CCAAAATATA
114909426 GAATCCTAAAATCGTAAACTT
1 GAATCCTAAAATCGTAAACTT
* *
114909447 GAATCCTAAACTCGTAATCTT
1 GAATCCTAAAATCGTAAACTT
114909468 GAA
1 GAA
114909471 CCCTTGAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (21 bp):
GAATCCTAAAATCGTAAACTT
Found at i:114909528 original size:13 final size:13
Alignment explanation
Indices: 114909510--114909544 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
114909500 TTTGAATACT
114909510 TAAACCCTAAATC
1 TAAACCCTAAATC
*
114909523 TAAACCTTAAATC
1 TAAACCCTAAATC
114909536 TCAAACCCT
1 T-AAACCCT
114909545 TAACCATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAACCCTAAATC
Found at i:114909554 original size:21 final size:21
Alignment explanation
Indices: 114909522--114909570 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
114909512 AACCCTAAAT
*
114909522 CTAAACCTTAAATCTCAAACC
1 CTAAACCATAAATCTCAAACC
*
114909543 CTTAACCATAAATCTCAAACC
1 CTAAACCATAAATCTCAAACC
114909564 CTAAACC
1 CTAAACC
114909571 TTGGGGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCATAAATCTCAAACC
Found at i:114909585 original size:7 final size:7
Alignment explanation
Indices: 114909575--114909625 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
114909565 TAAACCTTGG
114909575 GGTTTAA
1 GGTTTAA
114909582 GGTTTAA
1 GGTTTAA
* **
114909589 GATTCGA
1 GGTTTAA
114909596 -GTTTAA
1 GGTTTAA
114909602 GGTTTAA
1 GGTTTAA
* *
114909609 GATTTTA
1 GGTTTAA
114909616 GGTTTAA
1 GGTTTAA
114909623 GGT
1 GGT
114909626 GAAATAATTA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
6 3 0.09
7 30 0.91
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:114913016 original size:17 final size:18
Alignment explanation
Indices: 114912980--114913015 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
114912970 TTGTCACTAT
114912980 ATATATTGAAATTAAAAA
1 ATATATTGAAATTAAAAA
114912998 ATATATT-AAATGTAAAAA
1 ATATATTGAAAT-TAAAAA
114913016 TGTGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
ATATATTGAAATTAAAAA
Found at i:114925438 original size:12 final size:12
Alignment explanation
Indices: 114925421--114925445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114925411 TATTATTTAG
114925421 AAAAGAAAAAAA
1 AAAAGAAAAAAA
114925433 AAAAGAAAAAAA
1 AAAAGAAAAAAA
114925445 A
1 A
114925446 TCCTTGCCGA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:114925755 original size:16 final size:16
Alignment explanation
Indices: 114925736--114925766 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
114925726 CTGGGGGATT
114925736 TTTTTTTTGTGTTTTA
1 TTTTTTTTGTGTTTTA
114925752 TTTTTTTTGTGTTTT
1 TTTTTTTTGTGTTTT
114925767 GACAGTGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.84
Consensus pattern (16 bp):
TTTTTTTTGTGTTTTA
Found at i:114937131 original size:107 final size:109
Alignment explanation
Indices: 114936930--114937138 Score: 332
Period size: 111 Copynumber: 1.9 Consensus size: 109
114936920 GACAAATGAA
*
114936930 GATTTATTTATATGCATCTTTATCATTCTACCTAATTTAATTCAATTGTTAATTTTCTTTTATAA
1 GATTTATTTATATGCATCTTTATCATTCTACCTAATTTAATTCAATTGCTAA--TTCTTTTATAA
*
114936995 ATTTTATTTCAATATCAAGTTTACAAAATCTATTATTCATTTGGAG
64 ATTTTATTTCAATATCAAGTTTACAAAATCTAATATTCATTTGGAG
* *
114937041 GATTTATTTATATGTATCTTTATCATTCTACCTATTTTAATTCAATTGCTAA-T-TTTTATAAAT
1 GATTTATTTATATGCATCTTTATCATTCTACCTAATTTAATTCAATTGCTAATTCTTTTATAAAT
* *
114937104 TTTATTTTAATATCAAGTTTTCAAAATCTAATATT
66 TTTATTTCAATATCAAGTTTACAAAATCTAATATT
114937139 ATATATTTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 42 0.46
108 1 0.01
111 49 0.53
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.52
Consensus pattern (109 bp):
GATTTATTTATATGCATCTTTATCATTCTACCTAATTTAATTCAATTGCTAATTCTTTTATAAAT
TTTATTTCAATATCAAGTTTACAAAATCTAATATTCATTTGGAG
Found at i:114938638 original size:15 final size:16
Alignment explanation
Indices: 114938618--114938647 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
114938608 AAAATCTTAT
114938618 TTATAAAT-TTATATA
1 TTATAAATATTATATA
114938633 TTATAAATATTATAT
1 TTATAAATATTATAT
114938648 TATTTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATAAATATTATATA
Found at i:114938648 original size:14 final size:14
Alignment explanation
Indices: 114938604--114938650 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
114938594 ATTAGACAAT
*
114938604 TTATAAAATCTTAT-
1 TTAT-AAATATTATA
*
114938618 TTATAAATTTATATA
1 TTATAAATAT-TATA
114938633 TTATAAATATTATA
1 TTATAAATATTATA
114938647 TTAT
1 TTAT
114938651 TTTTACTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 5 0.17
14 15 0.52
15 9 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAAATATTATA
Found at i:114946546 original size:2 final size:2
Alignment explanation
Indices: 114946539--114946564 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114946529 CATTGTGGTT
114946539 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
114946565 AATTAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:114948728 original size:39 final size:39
Alignment explanation
Indices: 114948684--114948762 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
114948674 AGAAAGCACA
114948684 GAAGAAAAGTTTGGTAGAACTTGAAGGATCCATAGCAAG
1 GAAGAAAAGTTTGGTAGAACTTGAAGGATCCATAGCAAG
114948723 GAAGAAAAGTTTGGTAGAACTTGAAGGATCCATAGCAAG
1 GAAGAAAAGTTTGGTAGAACTTGAAGGATCCATAGCAAG
114948762 G
1 G
114948763 GTGAAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.20
Consensus pattern (39 bp):
GAAGAAAAGTTTGGTAGAACTTGAAGGATCCATAGCAAG
Found at i:114953992 original size:34 final size:34
Alignment explanation
Indices: 114953954--114954020 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
114953944 AGGGGCCTTA
* * *
114953954 CTGGTTGATAGTGAGTTGTTAGGATTATGGGTTG
1 CTGGTTGATAGTGAGCTGTGAGGAGTATGGGTTG
*
114953988 CTGGTTGATGGTGAGCTGTGAGGAGTATGGGTT
1 CTGGTTGATAGTGAGCTGTGAGGAGTATGGGTT
114954021 AAATGGCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.16, C:0.04, G:0.42, T:0.37
Consensus pattern (34 bp):
CTGGTTGATAGTGAGCTGTGAGGAGTATGGGTTG
Found at i:114960896 original size:29 final size:30
Alignment explanation
Indices: 114960831--114960896 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
114960821 GGCGCAAATG
*****
114960831 ATTATTTTATATTAAAAAAATATTTTTTTT
1 ATTATTTTATATTAAAAAAATATTTAAAAA
114960861 ATT-TTTTATATTAAAAAAATA-TTAAAAA
1 ATTATTTTATATTAAAAAAATATTTAAAAA
114960889 ATTATTTT
1 ATTATTTT
114960897 CGGGTCAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.17
29 22 0.73
30 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
ATTATTTTATATTAAAAAAATATTTAAAAA
Found at i:114960977 original size:27 final size:27
Alignment explanation
Indices: 114960971--114961046 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
114960961 TCGAGCCTTT
114960971 CTCAGAGGCGCAAATGATTGTGCCTAC
1 CTCAGAGGCGCAAATGATTGTGCCTAC
114960998 CTCAGAGGCGCAAATGATTGTGCCTAC
1 CTCAGAGGCGCAAATGATTGTGCCTAC
*
114961025 CTCAGAGGCGCAAATGGTTGTG
1 CTCAGAGGCGCAAATGATTGTG
114961047 GTGGGGCCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (27 bp):
CTCAGAGGCGCAAATGATTGTGCCTAC
Found at i:114961277 original size:36 final size:30
Alignment explanation
Indices: 114961204--114961266 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
114961194 GCTCCTATAA
114961204 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
114961234 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
114961264 TTG
1 TTG
114961267 TAGCAGGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (30 bp):
TTGGTGAATACAATATCAATATTCTAAATT
Found at i:114961947 original size:31 final size:33
Alignment explanation
Indices: 114961887--114961947 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
114961877 TATTTTTAAT
* * *
114961887 AAAAATAAAAAAATAATATTTTATTTAAAAAAC
1 AAAAATAAAAAAAGAATATTTAATATAAAAAAC
114961920 AAAAA-AAAAAAAGAA-ATTTAATATAAAA
1 AAAAATAAAAAAAGAATATTTAATATAAAA
114961948 TAATCATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.44
32 9 0.36
33 5 0.20
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (33 bp):
AAAAATAAAAAAAGAATATTTAATATAAAAAAC
Found at i:114966083 original size:24 final size:24
Alignment explanation
Indices: 114966051--114966098 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
114966041 TGATGACACT
114966051 TGTGCAAAAAATCACTTAGCTCCA
1 TGTGCAAAAAATCACTTAGCTCCA
114966075 TGTGCAAAAAATCACTTAGCTCCA
1 TGTGCAAAAAATCACTTAGCTCCA
114966099 CCTTCACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (24 bp):
TGTGCAAAAAATCACTTAGCTCCA
Found at i:114969587 original size:2 final size:2
Alignment explanation
Indices: 114969580--114969609 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
114969570 CATAATCATA
114969580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114969610 GCTTAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114989021 original size:89 final size:89
Alignment explanation
Indices: 114988870--114989049 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 89
114988860 CATGAATATC
114988870 AATTCAAGGGATAAATCCCAACATTTCACAAACTTTAATTGAATTTGCAACATGATATGGAACAC
1 AATTCAAGGGATAAATCCCAACATTTCACAAACTTTAATTGAATTTGCAACATGATATGGAACAC
*
114988935 CGATTTAATGCAATTGTATACATG
66 CGATTTAATGCAATTATATACATG
*
114988959 AATTCAAGGGATAAATCCCAACATTTCACTAACTTTAATTGAATTTGCAACATGATATGGAACAC
1 AATTCAAGGGATAAATCCCAACATTTCACAAACTTTAATTGAATTTGCAACATGATATGGAACAC
114989024 CGATTTAATGCAATTATATACATG
66 CGATTTAATGCAATTATATACATG
114989048 AA
1 AA
114989050 ATTTTTATTT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.31
Consensus pattern (89 bp):
AATTCAAGGGATAAATCCCAACATTTCACAAACTTTAATTGAATTTGCAACATGATATGGAACAC
CGATTTAATGCAATTATATACATG
Found at i:114996383 original size:8 final size:8
Alignment explanation
Indices: 114996370--114996394 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
114996360 AAATAAGAAT
114996370 ATTTCAAA
1 ATTTCAAA
114996378 ATTTCAAA
1 ATTTCAAA
114996386 ATTTCAAA
1 ATTTCAAA
114996394 A
1 A
114996395 ATATGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTTCAAA
Found at i:115002550 original size:35 final size:35
Alignment explanation
Indices: 115002506--115002672 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
115002496 TCCTCATTGA
** *
115002506 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
115002541 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115002581 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115002616 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115002651 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115002673 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:115002589 original size:75 final size:73
Alignment explanation
Indices: 115002501--115002672 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
115002491 GGTTTTCCTC
** * * **
115002501 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
115002565 TCAGTATGG
65 TCAGTATGG
*
115002574 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
115002639 CTCAGTATGG
64 CTCAGTATGG
115002649 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
115002673 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:115004504 original size:16 final size:17
Alignment explanation
Indices: 115004485--115004523 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
115004475 CTTTATTTAC
115004485 TTAATAT-ATTATAATA
1 TTAATATAATTATAATA
115004501 TTAATATAATTATAATA
1 TTAATATAATTATAATA
115004518 -TAATAT
1 TTAATAT
115004524 TATTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAATTATAATA
Found at i:115005322 original size:18 final size:18
Alignment explanation
Indices: 115005288--115005329 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
115005278 ATTTATTTAT
*
115005288 TATAAAAATATATAAATA
1 TATAAAAATATAAAAATA
*
115005306 TATAAAAA-ACTAAAAATT
1 TATAAAAATA-TAAAAATA
115005324 TATAAA
1 TATAAA
115005330 TTTATAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAATATAAAAATA
Found at i:115006342 original size:21 final size:21
Alignment explanation
Indices: 115006318--115006358 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
115006308 TAACATATTG
* * *
115006318 AGTTTTAAGTTTAGGATTTTA
1 AGTTTAAAATTTAAGATTTTA
115006339 AGTTTAAAATTTAAGATTTT
1 AGTTTAAAATTTAAGATTTT
115006359 TAACATTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (21 bp):
AGTTTAAAATTTAAGATTTTA
Found at i:115007486 original size:46 final size:46
Alignment explanation
Indices: 115007433--115007527 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
115007423 TTTTATTTTG
* *
115007433 ATAATATATCCATTTTAATAAACTTCGATTCAGATTCATGAGAAAA
1 ATAATATATCCATTTTAATAAACTTCGACTCAGATTCATGAAAAAA
115007479 ATAATATATCCATTTTAATAAACTTCGACTCAGATTCATGAAAAAA
1 ATAATATATCCATTTTAATAAACTTCGACTCAGATTCATGAAAAAA
115007525 ATA
1 ATA
115007528 CAGTTTCGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (46 bp):
ATAATATATCCATTTTAATAAACTTCGACTCAGATTCATGAAAAAA
Found at i:115008474 original size:33 final size:30
Alignment explanation
Indices: 115008405--115008466 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
115008395 ACTTATTTTA
115008405 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
115008435 TTGTTAATTTTTTTATTATTTT-GAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
115008464 TTG
1 TTG
115008467 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:115009810 original size:3 final size:3
Alignment explanation
Indices: 115009804--115009832 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
115009794 TGTTTTTGCC
115009804 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
115009833 TGCTCCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:115010690 original size:31 final size:30
Alignment explanation
Indices: 115010624--115010693 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
115010614 ATAATTTGAT
*
115010624 ACAT-AAATTTTGATTTGGTGCAATCATAA
1 ACATAAAATTTTGATTTGATGCAATCATAA
* * * *
115010653 ATATAAAATTTTGATTTTGATTCAGTCATAC
1 ACATAAAATTTTGA-TTTGATGCAATCATAA
115010684 ACATAAAATT
1 ACATAAAATT
115010694 ATTTGTGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 21 0.64
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
ACATAAAATTTTGATTTGATGCAATCATAA
Found at i:115013238 original size:40 final size:40
Alignment explanation
Indices: 115013102--115013237 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
115013092 CTCGAGAATA
** *
115013102 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTCGTTCCTGATTCACTATGGTAACT
* *
115013142 CAAAGTGGATAGGATTCGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTCGTTCCTGATTCACTATGGTAACT
* ** *
115013182 TAAAGTGAATAGGATTTATTCCTGATTCAGTATGGTAACT
1 TAAAGTGGATAGGATTCGTTCCTGATTCACTATGGTAACT
*
115013222 TAAGGTGGATAGGATT
1 TAAAGTGGATAGGATT
115013238 TGACCTGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (40 bp):
TAAAGTGGATAGGATTCGTTCCTGATTCACTATGGTAACT
Found at i:115013294 original size:78 final size:78
Alignment explanation
Indices: 115013204--115013433 Score: 406
Period size: 78 Copynumber: 2.9 Consensus size: 78
115013194 GATTTATTCC
* *
115013204 TGATTCAGTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
115013269 GTTACATGATATA
66 GTTACATGATATA
115013282 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
115013347 GTTACATGATATA
66 GTTACATGATATA
* * * *
115013360 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCTTGAATCACTATA
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
115013425 GTTACATGA
66 GTTACATGA
115013434 GATGTGACTC
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 146 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (78 bp):
TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:115015653 original size:26 final size:25
Alignment explanation
Indices: 115015603--115015653 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
115015593 AAAATAAATT
* *
115015603 TATATTTAATATAAATAATAATAAA
1 TATATTAAATATAAATAAGAATAAA
*
115015628 TATATTAAATTATAAATAAGATTAAA
1 TATATTAAA-TATAAATAAGAATAAA
115015654 AATGTCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
TATATTAAATATAAATAAGAATAAA
Found at i:115015741 original size:12 final size:12
Alignment explanation
Indices: 115015724--115015748 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115015714 ATTTTGTGTT
115015724 TGAGTTCAAAAA
1 TGAGTTCAAAAA
115015736 TGAGTTCAAAAA
1 TGAGTTCAAAAA
115015748 T
1 T
115015749 ACTTTTGACT
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TGAGTTCAAAAA
Found at i:115023393 original size:63 final size:63
Alignment explanation
Indices: 115023294--115023418 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
115023284 TAAGAATGTC
115023294 AGATTTATGCTCCGCTGGCTCAAGAGACATGACCTTTCTCATAGAACTAGAAGTACTTAACAT
1 AGATTTATGCTCCGCTGGCTCAAGAGACATGACCTTTCTCATAGAACTAGAAGTACTTAACAT
* *
115023357 AGATTTATGCTCCGCTGGCTCGAGGGACATGACCTTTCTCATAGAACTAGAAGTACTTAACA
1 AGATTTATGCTCCGCTGGCTCAAGAGACATGACCTTTCTCATAGAACTAGAAGTACTTAACA
115023419 CCTCAGACTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (63 bp):
AGATTTATGCTCCGCTGGCTCAAGAGACATGACCTTTCTCATAGAACTAGAAGTACTTAACAT
Found at i:115028812 original size:3 final size:3
Alignment explanation
Indices: 115028806--115028846 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
115028796 GAAGAAACAA
115028806 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
115028847 AAGGAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:115036152 original size:57 final size:60
Alignment explanation
Indices: 115036091--115036209 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 60
115036081 ATACTACTCT
* *
115036091 AATGTA-AACATTAAA-ATAATATTAAAATGAT-T-ATATAGAA-ATTTTTAATAAA-TAAAA
1 AATGTATAA-ATTAAATA-AATATTAAAATAATATAATATA-AATATTTTTAAAAAATTAAAA
* *
115036148 AATGTATAAATTTATTAAATATTAAAATAATATAATATAAATATTTTTAAAAAATTAAAA
1 AATGTATAAATTAAATAAATATTAAAATAATATAATATAAATATTTTTAAAAAATTAAAA
115036208 AA
1 AA
115036210 ATAATATGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
57 23 0.44
58 6 0.12
59 16 0.31
60 7 0.13
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (60 bp):
AATGTATAAATTAAATAAATATTAAAATAATATAATATAAATATTTTTAAAAAATTAAAA
Found at i:115039800 original size:12 final size:13
Alignment explanation
Indices: 115039785--115039813 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
115039775 AAATAAACAT
115039785 AATAA-TATTTGA
1 AATAATTATTTGA
115039797 AATAATTATTTGA
1 AATAATTATTTGA
115039810 AATA
1 AATA
115039814 TTTTACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
AATAATTATTTGA
Found at i:115039813 original size:45 final size:46
Alignment explanation
Indices: 115039758--115039855 Score: 117
Period size: 45 Copynumber: 2.1 Consensus size: 46
115039748 TTTGTATGTG
* * *
115039758 TATTTAAAATATTTCATAAATAAACATAATAA-TATTTGAAATAAT
1 TATTTAAAATATTTCACAAATAAAAATAATAATTATTTAAAATAAT
* * *
115039803 TATTTGAAATATTTTACATATAAAAATAATAATTGTATTTAAAATAAT
1 TATTTAAAATATTTCACAAATAAAAATAATAA-T-TATTTAAAATAAT
115039851 TATTT
1 TATTT
115039856 TATTTTATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 27 0.61
48 17 0.39
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (46 bp):
TATTTAAAATATTTCACAAATAAAAATAATAATTATTTAAAATAAT
Found at i:115039862 original size:19 final size:18
Alignment explanation
Indices: 115039825--115039860 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
115039815 TTTACATATA
115039825 AAAATAATAATTGTATTT
1 AAAATAATAATTGTATTT
* *
115039843 AAAATAATTATTTTATTT
1 AAAATAATAATTGTATTT
115039861 TATAATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AAAATAATAATTGTATTT
Found at i:115042942 original size:11 final size:11
Alignment explanation
Indices: 115042926--115042977 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
115042916 TATACTAAAT
115042926 AAATAATAATA
1 AAATAATAATA
*
115042937 AAATAAT-ATT
1 AAATAATAATA
* *
115042947 AAATATCTCATA
1 AAATA-ATAATA
*
115042959 AAATATTAATA
1 AAATAATAATA
115042970 AAATAATA
1 AAATAATA
115042978 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:115043475 original size:22 final size:20
Alignment explanation
Indices: 115043450--115043507 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
115043440 TTACAAAAAT
115043450 TTTAAAAATTAAAAACAATATA
1 TTTAAAAATTAAAAAC-AT-TA
**
115043472 TTTATTAATTAAAAACATTA
1 TTTAAAAATTAAAAACATTA
*
115043492 ATTAAAAATATAAAAA
1 TTTAAAAAT-TAAAAA
115043508 AATTGAAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.27
21 8 0.27
22 14 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTAAAAATTAAAAACATTA
Found at i:115043493 original size:13 final size:13
Alignment explanation
Indices: 115043475--115043499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115043465 CAATATATTT
115043475 ATTAATTAAAAAC
1 ATTAATTAAAAAC
115043488 ATTAATTAAAAA
1 ATTAATTAAAAA
115043500 TATAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:115046836 original size:13 final size:13
Alignment explanation
Indices: 115046815--115046846 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
115046805 AGAAACATTG
*
115046815 AACATAGCGCAAA
1 AACAGAGCGCAAA
115046828 AACAGAGCGCAAA
1 AACAGAGCGCAAA
115046841 AACAGA
1 AACAGA
115046847 AAGTGGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.19, T:0.03
Consensus pattern (13 bp):
AACAGAGCGCAAA
Found at i:115048974 original size:4 final size:4
Alignment explanation
Indices: 115048967--115049011 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
115048957 TTAATTATAA
* *
115048967 ATTT ATTT ATTAA ATTG ATATT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATT-T ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATT
115049012 AAATTTTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 30 0.83
5 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (4 bp):
ATTT
Found at i:115050039 original size:13 final size:13
Alignment explanation
Indices: 115050021--115050045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115050011 GAGTAAAGTT
115050021 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
115050034 AAAAAAGAAAAA
1 AAAAAAGAAAAA
115050046 ACCTTGCAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:115052279 original size:17 final size:18
Alignment explanation
Indices: 115052246--115052279 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
115052236 TTTGACATTG
115052246 TCTCAAAAAATTTAAATA
1 TCTCAAAAAATTTAAATA
*
115052264 TCTCATAAAA-TTAAAT
1 TCTCAAAAAATTTAAAT
115052280 TATTTTGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
TCTCAAAAAATTTAAATA
Found at i:115053588 original size:25 final size:25
Alignment explanation
Indices: 115053560--115053611 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
115053550 TTTGGCTTGA
*
115053560 CATTTACTAAGAAATATCAGATATT
1 CATTTACTAAGAAATATCAAATATT
* * *
115053585 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGAAATATCAAATATT
115053610 CA
1 CA
115053612 AATTATTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGAAATATCAAATATT
Found at i:115054853 original size:11 final size:11
Alignment explanation
Indices: 115054837--115054861 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
115054827 TTCAACTGAT
115054837 GAAAATGAAGA
1 GAAAATGAAGA
115054848 GAAAATGAAGA
1 GAAAATGAAGA
115054859 GAA
1 GAA
115054862 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:115056705 original size:18 final size:18
Alignment explanation
Indices: 115056682--115056726 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
115056672 AGAAAGTGAT
*
115056682 AGGAAATATTATAGAGAC
1 AGGAAATATCATAGAGAC
115056700 AGGAAATATCATAGAGAC
1 AGGAAATATCATAGAGAC
*
115056718 AGAAAATAT
1 AGGAAATAT
115056727 GGGAGTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (18 bp):
AGGAAATATCATAGAGAC
Found at i:115061066 original size:42 final size:42
Alignment explanation
Indices: 115061004--115061164 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 42
115060994 TCGTTTTCTC
** * *
115061004 GATGCCATAGTTCAACTATGGTCTTACAGATCTTCAGATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACAGATCTTCACATAAT
* * * *
115061046 GATGCCATAGCCCAGTTATGGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACAGATCTTCACATAAT
* *
115061087 CGATGCCATATCCCAGCTATGGTCTTACACGTAATCACATATCACATATT
1 -GATGCCATAGCCCAGCTATGGTCTTACA-G--AT--C-T-TCACATAAT
115061137 GATGCCATAGCCCAGCTATGGTCTTACA
1 GATGCCATAGCCCAGCTATGGTCTTACA
115061165 CGAATCACAT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 58 0.60
45 2 0.02
48 1 0.01
49 32 0.33
50 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACAGATCTTCACATAAT
Found at i:115061258 original size:47 final size:46
Alignment explanation
Indices: 115061087--115061255 Score: 194
Period size: 47 Copynumber: 3.6 Consensus size: 46
115061077 ATTCATATAT
* *
115061087 CGATGCCATATCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * * * *
115061136 TGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
115061182 TGATGCGATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACAC-GTATCACATATCACAC
115061229 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
115061256 TACGGAAATC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.26
47 37 0.36
48 11 0.11
49 29 0.28
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:115061267 original size:95 final size:94
Alignment explanation
Indices: 115061046--115061255 Score: 236
Period size: 95 Copynumber: 2.3 Consensus size: 94
115061036 TTCAGATAAT
* * * *
115061046 GATGCCATAGCCCAGTTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATATCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATATCCCAGATA
* **
115061106 TGGTCTTACACGTAATCACATATCACATATT
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* *
115061137 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCGATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
* *
115061202 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
*
115061230 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
115061256 TACGGAAATC
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 30 0.30
92 7 0.07
93 25 0.25
94 1 0.01
95 36 0.36
96 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:115061320 original size:31 final size:31
Alignment explanation
Indices: 115061278--115061362 Score: 127
Period size: 31 Copynumber: 2.7 Consensus size: 31
115061268 TTGTCACTTA
* *
115061278 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTGATCAGG
*
115061309 TAG-TCGGAGCTACCACTTTTCACTGATCAGG
1 TAGCT-GAAGCTACCACTTTTCACTGATCAGG
115061340 TAGCTGAAGCTACCACTTTTCAC
1 TAGCTGAAGCTACCACTTTTCAC
115061363 GTATTATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
31 47 0.98
32 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
TAGCTGAAGCTACCACTTTTCACTGATCAGG
Found at i:115061442 original size:50 final size:50
Alignment explanation
Indices: 115061376--115061515 Score: 262
Period size: 50 Copynumber: 2.8 Consensus size: 50
115061366 TTATTTATCA
115061376 TTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCC
1 TTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCC
* *
115061426 TTGATCAGATAAGTGTAGCCGAAGCTATTACTTATCACTTTCATTTGTCC
1 TTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCC
115061476 TTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 TTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
115061516 GTTGCCATGG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 87 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Consensus pattern (50 bp):
TTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCC
Found at i:115064884 original size:52 final size:52
Alignment explanation
Indices: 115064728--115064887 Score: 196
Period size: 52 Copynumber: 3.1 Consensus size: 52
115064718 CGGACCACAT
* * *
115064728 ATCATACCGATGCCATATCCCGGATATGGTCTTATACGGAATCACATAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGT-ATCAC
* * * *
115064781 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGGAT-ACGAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATAC-GGAATCACGTATCAC
** * *
115064833 ATGGTACCGATGCCATAGCTCGGCTATGGTCTTATACGGAATCATGTATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCAC
115064885 ATC
1 ATC
115064888 TTTTCCGTCA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
51 4 0.04
52 46 0.52
53 35 0.39
54 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCAC
Done.