Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 412 of 438
Found at i:128038676 original size:16 final size:17
Alignment explanation
Indices: 128038655--128038698 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 17
128038645 TTTTTGCATT
128038655 CATTACATTGCATC-TG
1 CATTACATTGCATCATG
128038671 CATTACATTGCATCATATG
1 CATTACATTGCATC--ATG
128038690 CATTACATT
1 CATTACATT
128038699 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.56
19 11 0.44
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (17 bp):
CATTACATTGCATCATG
Found at i:128041561 original size:44 final size:45
Alignment explanation
Indices: 128041491--128041944 Score: 233
Period size: 44 Copynumber: 9.9 Consensus size: 45
128041481 CATCATGGCG
* * *
128041491 AATCTTATCTCTCTGAAATTGTAGTGGAGCAGATTGAAGCCA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* ** *
128041535 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* * * * *
128041580 AATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTA--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* * * * ** * *
128041623 AAATCTTATAC-CTCTGAAGTTTCAATAGG-TCAGATCAAATCTACCATGTT
1 -AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAA---GCCA-GCT
* *
128041673 GAATCTTATCTCCCTGAAGTTGCTA-TTGAGCAGATTGAAGCCA-CC
1 -AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGCCAGCT
** ** * * * * *
128041718 AGCCTTATCTTTCTGAAGTTGCAGCGG-GCAGACTGAAGACATCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* * ** *
128041762 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTGAAGCTACAAATCAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--AGC-T
* *
128041812 GAAGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CC
1 ----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
** * ** * * * *
128041860 AGCCTTATCTCCCTGAAGTTACAGCAGAGTAGACTGAAGACAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* * *
128041905 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
128041945 TACAAATTAT
Statistics
Matches: 306, Mismatches: 78, Indels: 51
0.70 0.18 0.12
Matches are distributed among these distances:
43 13 0.04
44 139 0.45
45 77 0.25
47 6 0.02
49 6 0.02
50 28 0.09
51 1 0.00
52 1 0.00
54 35 0.11
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
Found at i:128042316 original size:143 final size:143
Alignment explanation
Indices: 128041673--128042317 Score: 773
Period size: 143 Copynumber: 4.5 Consensus size: 143
128041663 CTACCATGTT
* * * **
128041673 GAATCTTATCTCCCTGAAGTTGCTATTG-AGCAGATTGAAGCCACCAGCCTTATCTTTCTGAAGT
1 GAATCTTATCTTCCTAAAGTTGC-AGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGT
* * * * * *
128041737 TGCAGCG-GGCAGACTGAAGACATCGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTGAAG
65 TGCAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAG
* *
128041801 CTACAAATCATGAA
130 CTACAAATTATGAC
* *
128041815 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
1 GAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * * *
128041880 ACAGC-AGAGTAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAG
66 GCAGCGA-AGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAG
*
128041944 CTACAAATTATAAC
130 CTACAAATTATGAC
* * * * * *
128041958 GAATCTTATCTTCTTGAAGTTACGGT-AGAGCAGATTGAAACCACCAGCCTTATCTCCCTGAAGC
1 GAATCTTATCTTCCTAAAGTTGCAGTGA-AGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGT
* * * * * * * *
128042022 TACAGCGGAGTAGACTAAAGACTGCGAATCTTATTTCCCTGATATTACAATGGAACAGATTAAAG
65 TGCAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAG
128042087 CTACAAATTATGAC
130 CTACAAATTATGAC
* * * * * *
128042101 AAATCTTATCTTCCTAAAGTTTCAGTGGAGTAGATTGAAGCCATCAGCCTTATCTCCCTAAAGTT
1 GAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* *
128042166 GCAGCGAAACATACTGAAGACAGCGAATCTTATTTCCCT-AACATTGCAGTGGAACAGGA-TAAA
66 GCAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAA-ATTGCAGTGGAACA-GATTAAA
128042229 GCTACAAATTAT-AGC
129 GCTACAAATTATGA-C
* **
128042244 GAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATTAAAGCCACCATTCTTATCTCCCTGAAGTT
1 GAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
128042309 GCAGCGAAG
66 GCAGCGAAG
128042318 TATATTGAAA
Statistics
Matches: 433, Mismatches: 61, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
141 3 0.01
142 63 0.15
143 365 0.84
144 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (143 bp):
GAATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
GCAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAGC
TACAAATTATGAC
Found at i:128042339 original size:44 final size:44
Alignment explanation
Indices: 128042247--128042353 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
128042237 TTATAGCGAA
* * * *
128042247 TCTTATCTTCCTAAAGTTGCAGTGAAGCAGATTAAAGCCACCAT
1 TCTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAAGCCACAAG
* * * *
128042291 TCTTATCTCCCTGAAGTTGCAGCGAAGTATATTGAAA-CTACAAG
1 TCTTATCTCCCTAAAGTTGCAGCGAAGCAGATT-AAAGCCACAAG
* *
128042335 TCTTATTTCTCTAAAGTTG
1 TCTTATCTCCCTAAAGTTG
128042354 TGGTGGAGGG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 48 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAAGCCACAAG
Found at i:128052506 original size:19 final size:18
Alignment explanation
Indices: 128052467--128052507 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
128052457 CTTTGTAATT
128052467 AAAAAAAATTGAATACAA
1 AAAAAAAATTGAATACAA
128052485 AAAAGAAAAGTTGAATACAA
1 AAAA-AAAA-TTGAATACAA
128052505 AAA
1 AAA
128052508 TTACAGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 4 0.19
20 13 0.62
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (18 bp):
AAAAAAAATTGAATACAA
Found at i:128053461 original size:3 final size:3
Alignment explanation
Indices: 128053455--128053552 Score: 187
Period size: 3 Copynumber: 32.3 Consensus size: 3
128053445 TTTTTCTTAC
128053455 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
128053503 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
128053552 T
1 T
128053553 CAAGCATTTT
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 91 0.97
4 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:128054217 original size:25 final size:25
Alignment explanation
Indices: 128054189--128054238 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
128054179 TTTCAAAGTA
128054189 AGGCAATATTCTGTGTTTAGAGACT
1 AGGCAATATTCTGTGTTTAGAGACT
128054214 AGGCAATATTCTGTGTTTAGAGACT
1 AGGCAATATTCTGTGTTTAGAGACT
128054239 CAAGAAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (25 bp):
AGGCAATATTCTGTGTTTAGAGACT
Found at i:128059095 original size:13 final size:13
Alignment explanation
Indices: 128059077--128059110 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
128059067 TGATCTGCTG
128059077 TAATGTGTGTGGA
1 TAATGTGTGTGGA
*
128059090 TAATGTATGTGGA
1 TAATGTGTGTGGA
*
128059103 TAAGGTGT
1 TAATGTGT
128059111 TGAAATTGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (13 bp):
TAATGTGTGTGGA
Found at i:128067368 original size:44 final size:44
Alignment explanation
Indices: 128067318--128067529 Score: 244
Period size: 44 Copynumber: 4.5 Consensus size: 44
128067308 TTTGAGTATT
128067318 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
128067362 TCTGATCAATGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
128067406 TCTAATCAGTGACAAGTGATAAATGATAAGTGGTAGCTTTAGCTACATTTA
1 TCTGATCAGTGACAA--G-----TGATAAGTGGTAGCTTTAGCTACACTTA
* *
128067457 TCTGATCAATGACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTG----AT--C-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
128067508 TCTGATCAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
128067530 ATGTGATCAG
Statistics
Matches: 143, Mismatches: 11, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
44 69 0.48
45 1 0.01
46 1 0.01
47 2 0.01
51 59 0.41
55 2 0.01
56 1 0.01
57 1 0.01
58 7 0.05
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:128067433 original size:51 final size:51
Alignment explanation
Indices: 128067378--128067532 Score: 265
Period size: 51 Copynumber: 3.0 Consensus size: 51
128067368 CAATGACAAG
*
128067378 TGATAAGTGGTAGTTTTAGCTACACTTATCTAATCAGTGACAAGTGATAAA
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
* * * *
128067429 TGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAATGACAAGTGATAAG
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
128067480 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
1 TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
128067531 TG
1 TG
128067533 TGATCAGTGT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 95 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (51 bp):
TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAA
Found at i:128067446 original size:95 final size:96
Alignment explanation
Indices: 128067325--128067532 Score: 319
Period size: 102 Copynumber: 2.1 Consensus size: 96
128067315 ATTTCTGATC
* *
128067325 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGAC-AAGTGATAAGTGGT
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAAGTGATAAGTGGT
128067389 AGTTTTAGCTACACTTATCTAATCAGTGACA
66 AGTTTTAGCTACACTTATCTAATCAGTGACA
*
128067420 AGTGATAAATGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGAC-----A-AAGTGATA
*
128067485 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
60 AGTGGTAGTTTTAGCTACACTTATCTAATCAGTGACA
128067522 AGTGATAAATG
1 AGTGATAAATG
128067533 TGATCAGTGT
Statistics
Matches: 102, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
95 47 0.46
102 55 0.54
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (96 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAAGTGATAAGTGGT
AGTTTTAGCTACACTTATCTAATCAGTGACA
Found at i:128068168 original size:35 final size:35
Alignment explanation
Indices: 128068122--128068227 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
128068112 CACTTGCCTC
128068122 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
128068157 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
128068192 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
128068227 T
1 T
128068228 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:128068685 original size:33 final size:32
Alignment explanation
Indices: 128068637--128068709 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
128068627 GAGGGGAAGT
*
128068637 AAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 AAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
128068668 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 --AAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
128068702 AAAAAAAA
1 AAAAAAAA
128068710 CCAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.22
33 20 0.56
34 8 0.22
ACGTcount: A:0.64, C:0.18, G:0.05, T:0.12
Consensus pattern (32 bp):
AAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:128068999 original size:9 final size:11
Alignment explanation
Indices: 128068967--128069016 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
128068957 CGACCGGATT
* *
128068967 TCCCTTCCCCC
1 TCCCTTCTCTC
128068978 TCCCTTCTCTC
1 TCCCTTCTCTC
128068989 TCCCTTCTCTC
1 TCCCTTCTCTC
128069000 TCCCTTCTCTC
1 TCCCTTCTCTC
128069011 TTCCCT
1 -TCCCT
128069017 CTTTCTTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
11 31 0.86
12 5 0.14
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:128069801 original size:46 final size:45
Alignment explanation
Indices: 128069741--128070006 Score: 321
Period size: 46 Copynumber: 6.0 Consensus size: 45
128069731 TTTGACATGA
* * * * * *
128069741 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** **
128069787 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
128069833 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
128069879 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
128069925 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
128069963 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
128070007 AGAGCACACT
Statistics
Matches: 195, Mismatches: 15, Indels: 20
0.85 0.07 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 147 0.75
47 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:128069970 original size:38 final size:38
Alignment explanation
Indices: 128069919--128069994 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
128069909 ACATTTTATA
128069919 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
128069957 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
128069995 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:128070422 original size:11 final size:11
Alignment explanation
Indices: 128070406--128070457 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
128070396 TATACTAAAT
128070406 AAATAATAATA
1 AAATAATAATA
*
128070417 AAATAAT-ATT
1 AAATAATAATA
* *
128070427 AAATATCTCATA
1 AAATA-ATAATA
*
128070439 AAATATTAATA
1 AAATAATAATA
128070450 AAATAATA
1 AAATAATA
128070458 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:128071339 original size:22 final size:23
Alignment explanation
Indices: 128071303--128071533 Score: 112
Period size: 22 Copynumber: 10.0 Consensus size: 23
128071293 TCATTTCTAA
128071303 TATGTATATATATATATATATAT
1 TATGTATATATATATATATATAT
128071326 TATGTAT-TATATATATATATAT
1 TATGTATATATATATATATATAT
* * *
128071348 TATATATATGCCATAGTTATATATTTCT
1 TATGTATAT---ATA--TATATATATAT
* * *
128071376 TATGTATATAT-TCT-TAAATAC
1 TATGTATATATATATATATATAT
*
128071397 TAT-TATATACATATATATATA-
1 TATGTATATATATATATATATAT
* *
128071418 TATGTATAT-TTTAAAT-TCCATAT
1 TATGTATATATATATATAT--ATAT
* * *
128071441 TGTGTATATAT-TACAAAT-TAT
1 TATGTATATATATATATATATAT
128071462 TACTAGTAT-TATTATAACTATTATTATAT
1 TA-T-GTATATA-TAT-A-TA-TA-TATAT
*
128071491 TAGTGTATAT-T-T-TATATACA-
1 TA-TGTATATATATATATATATAT
128071511 TATGTATATATATATATATATAT
1 TATGTATATATATATATATATAT
128071534 ATTTTTGCAC
Statistics
Matches: 156, Mismatches: 24, Indels: 56
0.66 0.10 0.24
Matches are distributed among these distances:
19 7 0.04
20 10 0.06
21 23 0.15
22 48 0.31
23 26 0.17
24 3 0.02
25 3 0.02
26 5 0.03
27 2 0.01
28 22 0.14
29 7 0.04
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
TATGTATATATATATATATATAT
Found at i:128071371 original size:2 final size:2
Alignment explanation
Indices: 128071302--128071356 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
128071292 ATCATTTCTA
* *
128071302 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128071342 AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT
128071357 GCCATAGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (2 bp):
AT
Found at i:128071728 original size:49 final size:48
Alignment explanation
Indices: 128071634--128071729 Score: 108
Period size: 49 Copynumber: 2.0 Consensus size: 48
128071624 TAGATATTAT
*
128071634 TATTATTATTACATACTTTTATTATATATATATATATACATATATATG
1 TATTATTATTACATACTTTTATTATATATATATATATACAAATATATG
* *
128071682 TATTTTTATGTACATA-TTATTATTTTATAT-TAT-TATTACCAAATATAT
1 TATTATTAT-TACATACTT-TTATTATATATATATATA-TA-CAAATATAT
128071730 CATTTTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
47 2 0.05
48 15 0.37
49 24 0.59
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (48 bp):
TATTATTATTACATACTTTTATTATATATATATATATACAAATATATG
Found at i:128083627 original size:70 final size:70
Alignment explanation
Indices: 128083540--128084128 Score: 980
Period size: 70 Copynumber: 8.2 Consensus size: 70
128083530 CAAGTGACAG
*
128083540 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
128083605 GTTTC
66 GTTTC
128083610 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
128083675 GTTTC
66 GTTTC
*
128083680 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
128083745 GTTTC
66 GTTTC
*
128083750 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
128083815 AATTTATGTTTC
59 AATTTATGTTTC
*
128083827 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
128083892 GTTTC
66 GTTTC
*
128083897 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
128083962 GTTTC
66 GTTTC
*
128083967 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
128084032 AATTTATGTTTC
59 AATTTATGTTTC
*
128084044 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
128084109 GTTTC
66 GTTTC
128084114 AAAAATCAACTCATA
1 -AAAATCAACTCATA
128084129 GGTGAGTTGA
Statistics
Matches: 492, Mismatches: 12, Indels: 29
0.92 0.02 0.05
Matches are distributed among these distances:
70 336 0.68
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 130 0.26
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:128083826 original size:77 final size:77
Alignment explanation
Indices: 128083734--128084106 Score: 603
Period size: 77 Copynumber: 5.0 Consensus size: 77
128083724 GTTGAGGTAA
*
128083734 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
128083799 GGTAATTTCAAT
66 GGTAATTTCAAT
*
128083811 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
128083876 GG-----T-AA-
66 GGTAATTTCAAT
*
128083881 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
128083946 GG-----T-AA-
66 GGTAATTTCAAT
*
128083951 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
128084016 GGTAATTTCAAT
66 GGTAATTTCAAT
*
128084028 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
128084093 GGTAATTTCAAT
66 GGTAATTTCAAT
128084105 TT
1 TT
128084107 ATGTTTCAAA
Statistics
Matches: 281, Mismatches: 8, Indels: 14
0.93 0.03 0.05
Matches are distributed among these distances:
70 133 0.47
71 2 0.01
72 1 0.00
75 1 0.00
76 2 0.01
77 142 0.51
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAAT
Found at i:128083908 original size:217 final size:217
Alignment explanation
Indices: 128083540--128084128 Score: 1093
Period size: 217 Copynumber: 2.7 Consensus size: 217
128083530 CAAGTGACAG
* *
128083540 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
128083598 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
128083663 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
128083728 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
128083750 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
128083815 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
128083880 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
128083945 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
128083967 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
128084032 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
128084097 ATTTCAATTTATGTTTCAAAAATCAACTCATA
131 ATTTCAATTTATGTTTC-AAAATCAACTCATA
128084129 GGTGAGTTGA
Statistics
Matches: 368, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 49 0.13
215 1 0.00
216 2 0.01
217 302 0.82
218 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:128083913 original size:147 final size:140
Alignment explanation
Indices: 128083540--128084128 Score: 980
Period size: 147 Copynumber: 4.1 Consensus size: 140
128083530 CAAGTGACAG
*
128083540 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
128083605 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
128083670 TTTATGTTTC
131 TTTATGTTTC
*
128083680 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
128083745 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
128083810 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
128083827 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
128083892 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
128083957 TTTATGTTTC
131 TTTATGTTTC
*
128083967 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
128084032 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
128084097 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
128084114 AAAAATCAACTCATA
1 -AAAATCAACTCATA
128084129 GGTGAGTTGA
Statistics
Matches: 423, Mismatches: 11, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
140 183 0.43
141 2 0.00
142 1 0.00
145 2 0.00
146 4 0.01
147 217 0.51
148 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:128084182 original size:147 final size:142
Alignment explanation
Indices: 128083560--128084229 Score: 686
Period size: 147 Copynumber: 4.7 Consensus size: 142
128083550 CACATTGCGA
* *
128083560 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
128083618 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
128083683 ATCAACTCATATT
131 ATCAACTCA-ATT
* * *
128083696 GCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
128083754 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTCAATT
*
128083819 TATGTTTCAAAATCAACTCATATGGCGA
120 TATGTTTCAAAATCAACTCA-AT----T
* *
128083847 GAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTT-CAATTTATGTTTCAAAATCAA
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
*
128083905 CTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
128083970 ATCAACTCATATT
131 ATCAACTCA-ATT
* *
128083983 GCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTCAATTTATGTTTCAAAA
1 ----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAA
*
128084048 TCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
62 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTT
128084113 CAAAAATCAACTC-A-T
127 C-AAAATCAACTCAATT
**** * * *
128084128 -AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTCTACTTTCCAATTCCTGTTTTT
1 GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA------A-TTTCCAATT--TATGTTT
*
128084192 CAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
57 C-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
128084230 GTTAATTTCT
Statistics
Matches: 476, Mismatches: 21, Indels: 56
0.86 0.04 0.10
Matches are distributed among these distances:
140 192 0.40
141 2 0.00
142 1 0.00
145 3 0.01
146 9 0.02
147 218 0.46
148 11 0.02
149 6 0.01
150 34 0.07
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (142 bp):
GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCCAATTTATGTTTCAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
ATCAACTCAATT
Found at i:128084271 original size:54 final size:52
Alignment explanation
Indices: 128084179--128084333 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
128084169 TCTACTTTCC
* *
128084179 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
128084233 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
128084284 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
128084333 A
1 A
128084334 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:128085086 original size:35 final size:35
Alignment explanation
Indices: 128085040--128085144 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
128085030 CACTTGCCTC
128085040 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
128085075 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
128085110 CT-CCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
128085144 T
1 T
128085145 CACACACCCC
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
34 31 0.46
35 36 0.54
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:128085601 original size:33 final size:33
Alignment explanation
Indices: 128085559--128085632 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
128085549 AGAGGGGAAG
*
128085559 CAAAAAAAAAAATCCAG-CAAAAATTTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
128085591 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
128085625 -AAAAAAAA
1 CAAAAAAAA
128085633 CCAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.22
33 15 0.41
34 14 0.38
ACGTcount: A:0.62, C:0.19, G:0.05, T:0.14
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:128085614 original size:14 final size:15
Alignment explanation
Indices: 128085595--128085630 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
128085585 CCAGCACCAA
128085595 AAAAAAATTTCCAG-
1 AAAAAAATTTCCAGC
128085609 AAAAAAATTTCCAGC
1 AAAAAAATTTCCAGC
128085624 AAAAAAA
1 AAAAAAA
128085631 AACCAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAAATTTCCAGC
Found at i:128085913 original size:11 final size:11
Alignment explanation
Indices: 128085888--128085936 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
128085878 CGACCGGATT
*
128085888 TCCCTTC-CCC
1 TCCCTTCTCTC
128085898 TCCCTTCTCTC
1 TCCCTTCTCTC
128085909 TCCCTTCTCTC
1 TCCCTTCTCTC
128085920 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
128085931 TTCCTT
1 TCCCTT
128085937 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 10 0.29
11 20 0.59
12 4 0.12
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:128086465 original size:2 final size:2
Alignment explanation
Indices: 128086453--128086588 Score: 65
Period size: 2 Copynumber: 71.0 Consensus size: 2
128086443 ATCATTTCTA
* * *
128086453 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * *
128086493 AT AT AT AT -T AT GT AT AT AT GCC AT -T AGT -T AT AT AT TT CT -T
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT A-T AT AT AT AT AT AT AT
* * * *
128086533 AT GT AT AT AT -T CT -T AA AT ACT AT -T AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
128086573 AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT
128086589 TTTAAATTCC
Statistics
Matches: 102, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
1 9 0.09
2 90 0.88
3 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (2 bp):
AT
Found at i:128086490 original size:24 final size:25
Alignment explanation
Indices: 128086456--128086511 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
128086446 ATTTCTAATA
128086456 TGTATATATATATATATATATTATG
1 TGTATATATATATATATATATTATG
128086481 TGTAT-TATATATATATATATTATG
1 TGTATATATATATATATATATTATG
*
128086505 TATATAT
1 TGTATAT
128086512 GCCATTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (25 bp):
TGTATATATATATATATATATTATG
Found at i:128086757 original size:13 final size:13
Alignment explanation
Indices: 128086736--128086765 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
128086726 ATATTATTGT
128086736 TGTAAATTTTTTA
1 TGTAAATTTTTTA
*
128086749 TGTATATTTTTTA
1 TGTAAATTTTTTA
128086762 TGTA
1 TGTA
128086766 CGTTTCCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (13 bp):
TGTAAATTTTTTA
Found at i:128089144 original size:23 final size:23
Alignment explanation
Indices: 128089118--128089185 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 23
128089108 GATGAATTAT
128089118 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
128089141 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
*
128089169 ATTATACTGTGTGTGTT
1 ATTATTCTG-GTGTGTT
128089186 ACTTGTGTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
23 4 0.11
24 8 0.22
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.46
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:128089144 original size:28 final size:28
Alignment explanation
Indices: 128089091--128089174 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
128089081 CACTTTGTGC
*
128089091 TATTCTGGTGTGTTTTGGATGAATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
128089120 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
128089148 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
128089175 CTGTGTGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:128089454 original size:21 final size:21
Alignment explanation
Indices: 128089397--128089457 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
128089387 ATGCACTTTA
* *
128089397 TGTGTCGTATTTCAAGCACCTTG
1 TGTGTCG--TTTCAGGCACCTCG
***
128089420 TGTGTCGCAGCAGGCACCTCG
1 TGTGTCGTTTCAGGCACCTCG
128089441 TGTGTCGTTTCAGGCAC
1 TGTGTCGTTTCAGGCAC
128089458 TTATATGTCG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 23 0.77
23 7 0.23
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.31
Consensus pattern (21 bp):
TGTGTCGTTTCAGGCACCTCG
Found at i:128091819 original size:2 final size:2
Alignment explanation
Indices: 128091812--128091837 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
128091802 AAATCTACAA
128091812 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
128091838 TAAAATAATT
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):
AT
Found at i:128093978 original size:23 final size:25
Alignment explanation
Indices: 128093951--128094002 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
128093941 CTTTAAGAAT
**
128093951 AAATAGATAT-TTTTCAAA-TTAGA
1 AAATAGATATATTTAAAAAGTTAGA
*
128093974 AAATATATATATTTAAAAAGTTAGA
1 AAATAGATATATTTAAAAAGTTAGA
128093999 AAAT
1 AAAT
128094003 TTGTAACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.38
24 6 0.25
25 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
AAATAGATATATTTAAAAAGTTAGA
Found at i:128094619 original size:11 final size:11
Alignment explanation
Indices: 128094605--128094651 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
128094595 AAATGGTAGG
*
128094605 AAAATAGTAAA
1 AAAATAATAAA
* *
128094616 AAAATAACAAG
1 AAAATAATAAA
128094627 AAAATAATAAA
1 AAAATAATAAA
*
128094638 AAAACAATAAA
1 AAAATAATAAA
128094649 AAA
1 AAA
128094652 GGGAAAAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:128097497 original size:13 final size:13
Alignment explanation
Indices: 128097479--128097507 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
128097469 AACAAAAAAG
128097479 TATATTATTTTGA
1 TATATTATTTTGA
128097492 TATATTATTTTGA
1 TATATTATTTTGA
128097505 TAT
1 TAT
128097508 TGTGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (13 bp):
TATATTATTTTGA
Found at i:128099069 original size:23 final size:23
Alignment explanation
Indices: 128099043--128099133 Score: 57
Period size: 23 Copynumber: 4.0 Consensus size: 23
128099033 AAATAATAAT
128099043 AATAAAACATTTTAAAATAAATA
1 AATAAAACATTTTAAAATAAATA
* * * *
128099066 AAT---AGAGTTCAAAATAAGGTA
1 AATAAAACATTTTAAAATAA-ATA
* * *
128099087 TATAAAACAATTTAAAATAAGT-
1 AATAAAACATTTTAAAATAAATA
128099109 AATCAAAACAATTTT-AAATAAATA
1 AAT-AAAAC-ATTTTAAAATAAATA
128099133 A
1 A
128099134 TATATAATAA
Statistics
Matches: 50, Mismatches: 11, Indels: 13
0.68 0.15 0.18
Matches are distributed among these distances:
20 11 0.22
21 4 0.08
22 2 0.04
23 17 0.34
24 16 0.32
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (23 bp):
AATAAAACATTTTAAAATAAATA
Found at i:128099104 original size:24 final size:23
Alignment explanation
Indices: 128099076--128099134 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
128099066 AATAGAGTTC
128099076 AAAATAAGGTATAT-AAAACAATTT
1 AAAATAA-GTA-ATCAAAACAATTT
128099100 AAAATAAGTAATCAAAACAATTT
1 AAAATAAGTAATCAAAACAATTT
* *
128099123 TAAATAAATAAT
1 AAAATAAGTAAT
128099135 ATATAATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 2 0.06
23 23 0.72
24 7 0.22
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (23 bp):
AAAATAAGTAATCAAAACAATTT
Found at i:128100288 original size:15 final size:14
Alignment explanation
Indices: 128100268--128100301 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
128100258 GATTCGTAAT
128100268 AAAATAAAAAGATAA
1 AAAATAAAAAGA-AA
*
128100283 AAAATAAAAATAAA
1 AAAATAAAAAGAAA
128100297 AAAAT
1 AAAAT
128100302 GAAATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAATAAAAAGAAA
Found at i:128100316 original size:18 final size:19
Alignment explanation
Indices: 128100284--128100333 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
128100274 AAAAGATAAA
*
128100284 AAATAAAAATAAAAA-AATG
1 AAATAGAAATAAAAACAA-G
*
128100303 AAAT-GAAATGAAAACAAG
1 AAATAGAAATAAAAACAAG
128100321 AAATAGAAATAAA
1 AAATAGAAATAAA
128100334 TAGTCAACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (19 bp):
AAATAGAAATAAAAACAAG
Found at i:128100495 original size:24 final size:24
Alignment explanation
Indices: 128100461--128100524 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 24
128100451 TGCTTTTGCT
128100461 TGTTTTCTTGCTTTGTTTCTACTC
1 TGTTTTCTTGCTTTGTTTCTACTC
* * *
128100485 TGTTTTTTTGC-CT-TTT-TGCTC
1 TGTTTTCTTGCTTTGTTTCTACTC
*
128100506 TGTTGTCTTGCTTTGTTTC
1 TGTTTTCTTGCTTTGTTTC
128100525 CTTTTTTTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 13 0.42
22 4 0.13
23 4 0.13
24 10 0.32
ACGTcount: A:0.02, C:0.19, G:0.16, T:0.64
Consensus pattern (24 bp):
TGTTTTCTTGCTTTGTTTCTACTC
Found at i:128101123 original size:13 final size:13
Alignment explanation
Indices: 128101084--128101123 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
128101074 TTTAAACCAA
*
128101084 ACTTTTCAAAAGA
1 ACTTTTCAAAAGC
* *
128101097 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
128101110 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
128101123 A
1 A
128101124 TTGCCAAACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:128102853 original size:71 final size:71
Alignment explanation
Indices: 128102767--128102930 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
128102757 CGATTTGTCT
128102767 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
128102832 CTTTCA
66 CTTTCA
128102838 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
128102903 CTTTCA
66 CTTTCA
128102909 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
128102931 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:128102968 original size:71 final size:70
Alignment explanation
Indices: 128102767--128102964 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
128102757 CGATTTGTCT
* * * *
128102767 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
128102832 CTTTCA
65 CTTTCA
* * * *
128102838 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
128102903 CTTTCA
65 CTTTCA
* *
128102909 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
128102965 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:128111079 original size:3 final size:3
Alignment explanation
Indices: 128111071--128111100 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
128111061 ATTAAGACAG
*
128111071 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
128111101 TTTTATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:128112862 original size:31 final size:31
Alignment explanation
Indices: 128112805--128112866 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
128112795 TAATTAACTA
*
128112805 GACATTTTTTTCTTAATTCGGCACTTATATTT
1 GACAATTTTTTCTTAATTCGGCACTTA-ATTT
*
128112837 GACAATTTTTT-TTAAGTT-GGTACTTAATTT
1 GACAATTTTTTCTTAA-TTCGGCACTTAATTT
128112867 TTTTGGGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.15
31 11 0.41
32 12 0.44
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.53
Consensus pattern (31 bp):
GACAATTTTTTCTTAATTCGGCACTTAATTT
Found at i:128116892 original size:2 final size:2
Alignment explanation
Indices: 128116869--128116913 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
128116859 AATCTGTTCC
128116869 AT AT A- AT A- AT AT A- AT A- 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 AT AT AT AT AT AT
128116907 AT AT AT A
1 AT AT AT A
128116914 ATAGAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:128119029 original size:22 final size:21
Alignment explanation
Indices: 128119003--128119047 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
128118993 TCTTTCTTAT
128119003 TTAATACAATT-TAATTTTATTA
1 TTAAT-CAATTCTAATTTT-TTA
*
128119025 TTAATTAATTCTAATTTTTTA
1 TTAATCAATTCTAATTTTTTA
128119046 TT
1 TT
128119048 TAGAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATCAATTCTAATTTTTTA
Found at i:128129223 original size:50 final size:50
Alignment explanation
Indices: 128129147--128129286 Score: 244
Period size: 50 Copynumber: 2.8 Consensus size: 50
128129137 CCATGGCAAC
*
128129147 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
**
128129197 AAGTGATAAGTGATAACTTCATCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
*
128129247 AAGTGATAAGTGATAACTTCGGCTACATTTATCTGATCAA
1 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAA
128129287 TAATGACAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (50 bp):
AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
Found at i:128129333 original size:31 final size:31
Alignment explanation
Indices: 128129295--128129474 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
128129285 AATAATGACA
*
128129295 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
128129326 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
128129357 AGTGAAAAGTGGTAG-TTCCGGCTAACTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* * *
128129388 AGTAAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
128129419 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
128129450 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
128129475 AAGTGACAAG
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 2 0.02
31 130 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:128129485 original size:7 final size:7
Alignment explanation
Indices: 128129473--128129515 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
128129463 AGCTTCGGCT
128129473 ACAAGTG
1 ACAAGTG
128129480 ACAAGTG
1 ACAAGTG
128129487 ACAAGTG
1 ACAAGTG
128129494 ACAAGTG
1 ACAAGTG
128129501 ACAAGTG
1 ACAAGTG
128129508 ACAAGTG
1 ACAAGTG
128129515 A
1 A
128129516 TTTCCGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:128129590 original size:47 final size:46
Alignment explanation
Indices: 128129520--128129727 Score: 166
Period size: 42 Copynumber: 4.7 Consensus size: 46
128129510 AAGTGATTTC
* * *
128129520 CGTATAAGACCATATTTGGGATATGGCATCAGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
128129566 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
** * *
128129613 CGCGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
128129655 TGTGTAAGACCATAGCTGGGCTATGGCATC----A-ATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
128129697 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
128129728 TTATGTGAAG
Statistics
Matches: 145, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
41 7 0.05
42 71 0.49
46 26 0.18
47 41 0.28
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:128129672 original size:42 final size:42
Alignment explanation
Indices: 128129616--128129770 Score: 240
Period size: 42 Copynumber: 3.7 Consensus size: 42
128129606 TGTGATTCGC
128129616 GTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
*
128129658 GTAAGACCATAGCTGGGCTATGGCATCAATATATGAATATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
* *
128129700 GTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGT
* **
128129742 GTAAGACCATAGTTGAACTATGGCATCGA
1 GTAAGACCATAGCTGGGCTATGGCATCGA
128129771 GAAAACGGAG
Statistics
Matches: 105, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.01
42 103 0.98
43 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
Found at i:128131528 original size:6 final size:7
Alignment explanation
Indices: 128131508--128131535 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
128131498 TCTCATGCCG
128131508 CAGCCCC
1 CAGCCCC
128131515 CAGCCCC
1 CAGCCCC
128131522 CAGCCCC
1 CAGCCCC
128131529 CAGCCCC
1 CAGCCCC
128131536 TGTGCACCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.71, G:0.14, T:0.00
Consensus pattern (7 bp):
CAGCCCC
Found at i:128132633 original size:16 final size:16
Alignment explanation
Indices: 128132608--128132647 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
128132598 GCTTATCTAA
*
128132608 TATTTCATTTATTCATT
1 TATTT-ATTTATACATT
*
128132625 TATTTATTTCTACATT
1 TATTTATTTATACATT
128132641 TATTTAT
1 TATTTAT
128132648 CTCCTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTATTTATACATT
Found at i:128132678 original size:3 final size:3
Alignment explanation
Indices: 128132666--128133134 Score: 247
Period size: 3 Copynumber: 156.7 Consensus size: 3
128132656 TACTTATATA
* *
128132666 TAT TATT TAT TAT TAC TAT TAT T-T TTT TCA- TAT TAT TAT T-T ATAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT -TAT
* * * * * *
128132711 TGT TGT TGT TAT TAT TAT TAT TAT TCCT AAT T-T TTT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT T-AT
* * *
128132757 GTAT TAT TAT TAT TAT TCT TCAT T-T TTT TATT TAT TAT TTT CTAT TAT
1 -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT -TAT TAT
* * * *
128132805 TAT TGT TAT T-T T-T TAC TAT TAT TATT TAT TAT CAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* ** * *
128132849 TAT CAT TGC TAT T-T T-T TAT TTT TAT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
128132895 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT CCT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
128132943 CA- TAT TAT TAT TAT TAT TTT CTAC T-T TAT TAT TA- TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
128132986 TAC TAT TAT TGT CAT CA- TAT TAT TA- AACT AAT TAAT T-T TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT TAT TAT TAT
* * * * * **
128133029 TGT TAT TAT GA- CAT TAAA TAT T-T TCT T-T TCG TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* *
128133073 TAT TAT TAT TAT CAT TAT CAT TAT TAT TAT TAT TAT TATT TAT TACCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA--T
*
128133121 TTT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
128133135 CCCTTTTATT
Statistics
Matches: 360, Mismatches: 71, Indels: 70
0.72 0.14 0.14
Matches are distributed among these distances:
2 31 0.09
3 294 0.82
4 32 0.09
5 3 0.01
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:128133139 original size:18 final size:16
Alignment explanation
Indices: 128133072--128133149 Score: 63
Period size: 18 Copynumber: 4.7 Consensus size: 16
128133062 TTTATTATTA
*
128133072 TTATTATTATTATCATT
1 TTATTATTATTA-CCTT
*
128133089 ATCATTATTATTA--TT
1 -TTATTATTATTACCTT
128133104 ATTATTATTTATTACCTTT
1 -TTATTA-TTATTACC-TT
128133123 TTATTATTATTACCCTT
1 TTATTATTATTA-CCTT
128133140 TTATT-TTATT
1 TTATTATTATT
128133150 TAATTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
15 8 0.15
16 11 0.21
17 13 0.25
18 19 0.36
19 2 0.04
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATTATTACCTT
Found at i:128133201 original size:31 final size:31
Alignment explanation
Indices: 128133155--128133213 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
128133145 TTATTTAATT
*
128133155 TTATTTTATATTTTTCTCTTAT-TTATTTGC
1 TTATTTTAAATTTTTCTCTTATCTTATTTGC
128133185 TTATTTTCAAATTTTTCTCTTATCTTATT
1 TTATTTT-AAATTTTTCTCTTATCTTATT
128133214 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.27
31 14 0.54
32 5 0.19
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.68
Consensus pattern (31 bp):
TTATTTTAAATTTTTCTCTTATCTTATTTGC
Found at i:128135392 original size:12 final size:12
Alignment explanation
Indices: 128135377--128135410 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
128135367 ATGCAGAAGG
128135377 AGATGCAAGAAC
1 AGATGCAAGAAC
*
128135389 AGATGCAAGCAC
1 AGATGCAAGAAC
*
128135401 AAATGCAAGA
1 AGATGCAAGA
128135411 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:128138255 original size:51 final size:51
Alignment explanation
Indices: 128138173--128138292 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
128138163 CTCAAACTTA
* * * *
128138173 CTTCATACTTCATCTGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGATCTAACTTCAACAAGAG
* * * *
128138224 CTTCATATTTCATCCGGAATAATTTCTTTGTTGATCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGATCTAACTTCAACAAGAG
*
128138275 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
128138293 TAACTTAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGATCTAACTTCAACAAGAG
Found at i:128142675 original size:19 final size:21
Alignment explanation
Indices: 128142651--128142693 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
128142641 TTATACATAA
*
128142651 TGTAATTTGA-TCT-TTTTTT
1 TGTAATTTCACTCTCTTTTTT
128142670 TGTAATTTCACTCTCTTTTTT
1 TGTAATTTCACTCTCTTTTTT
128142691 TGT
1 TGT
128142694 CACATTGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 9 0.43
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.65
Consensus pattern (21 bp):
TGTAATTTCACTCTCTTTTTT
Found at i:128143232 original size:13 final size:13
Alignment explanation
Indices: 128143214--128143239 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128143204 GTCATTCCAT
128143214 AAAAAAAGAAGAA
1 AAAAAAAGAAGAA
128143227 AAAAAAAGAAGAA
1 AAAAAAAGAAGAA
128143240 GCAGGTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:128144447 original size:2 final size:2
Alignment explanation
Indices: 128144440--128144465 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
128144430 TTAAGTTTGA
128144440 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
128144466 GTATTTTTTA
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):
AT
Found at i:128145462 original size:4 final size:4
Alignment explanation
Indices: 128145417--128145451 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
128145407 ACTTTTAAAT
128145417 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTATA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT
128145452 GAATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:128149907 original size:31 final size:31
Alignment explanation
Indices: 128149869--128149972 Score: 122
Period size: 31 Copynumber: 3.4 Consensus size: 31
128149859 AATCACATTC
*
128149869 ATATTAAATTAATAAAATATTATCTAGATAA
1 ATATTAAATTAATAAAATATTATCTAAATAA
** * * *
128149900 ATATTAAATT-A-AATTTAATATCTCATATTA
1 ATATTAAATTAATAAAATATTATCT-AAATAA
*
128149930 ATATTAAATTAATAAAATGTTATCTAAATAA
1 ATATTAAATTAATAAAATATTATCTAAATAA
128149961 ATATTAAATTAA
1 ATATTAAATTAA
128149973 ATTAAATTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 9 0.15
30 15 0.25
31 27 0.46
32 8 0.14
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (31 bp):
ATATTAAATTAATAAAATATTATCTAAATAA
Found at i:128149940 original size:61 final size:65
Alignment explanation
Indices: 128149869--128149999 Score: 207
Period size: 66 Copynumber: 2.1 Consensus size: 65
128149859 AATCACATTC
*
128149869 ATATTAAATTAATAAAATATTATCTAGAT-AA-A-T-ATTAAATTAAATTTAATATCTCATATTA
1 ATATTAAATTAATAAAATATTATCTAAATAAATATTAATTAAATTAAATTTAATATCTCATATTA
*
128149930 ATATTAAATTAATAAAATGTTATCTAAATAAATATTAAATTAAATTAAATTTAATATCTCATATT
1 ATATTAAATTAATAAAATATTATCTAAATAAATATT-AATTAAATTAAATTTAATATCTCATATT
128149995 A
65 A
128149996 ATAT
1 ATAT
128150000 ATAGAAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
61 27 0.43
62 2 0.03
63 1 0.02
64 1 0.02
66 32 0.51
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (65 bp):
ATATTAAATTAATAAAATATTATCTAAATAAATATTAATTAAATTAAATTTAATATCTCATATTA
Found at i:128153153 original size:9 final size:9
Alignment explanation
Indices: 128153139--128153166 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
128153129 TCTTTATTTC
128153139 TTTATTTTA
1 TTTATTTTA
128153148 TTTATTTTA
1 TTTATTTTA
128153157 TTTATTTTA
1 TTTATTTTA
128153166 T
1 T
128153167 GTTTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:128154917 original size:25 final size:25
Alignment explanation
Indices: 128154889--128154958 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
128154879 CTAAGCATCA
* *
128154889 GTGGTGAATATTTTGTAAAGCATTT
1 GTGGCGAATATTCTGTAAAGCATTT
* *
128154914 GTGGCGAACT-TTCTATAAAGCTTTT
1 GTGGCGAA-TATTCTGTAAAGCATTT
*
128154939 ATGGCGAATATTCTGTAAAG
1 GTGGCGAATATTCTGTAAAG
128154959 TCCTTATGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (25 bp):
GTGGCGAATATTCTGTAAAGCATTT
Found at i:128154978 original size:25 final size:25
Alignment explanation
Indices: 128154902--128154982 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
128154892 GTGAATATTT
*
128154902 TGTAAAGCAT-TTGTGGCGAACTTTC
1 TGTAAAGC-TCTTATGGCGAACTTTC
* *
128154927 TATAAAGCTTTTATGGCGAA-TATTC
1 TGTAAAGCTCTTATGGCGAACT-TTC
*
128154952 TGTAAAG-TCCTTATGGCGAACTCTC
1 TGTAAAGCT-CTTATGGCGAACTTTC
128154977 TGTAAA
1 TGTAAA
128154983 ACCTTCTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
24 3 0.06
25 43 0.91
26 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TGTAAAGCTCTTATGGCGAACTTTC
Found at i:128155746 original size:16 final size:15
Alignment explanation
Indices: 128155719--128155752 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
128155709 ATAATTGCGA
128155719 ACATGGAATAATAAT
1 ACATGGAATAATAAT
*
128155734 ACATGGCAATAATACT
1 ACATGG-AATAATAAT
128155750 ACA
1 ACA
128155753 CAAATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (15 bp):
ACATGGAATAATAAT
Found at i:128156269 original size:16 final size:16
Alignment explanation
Indices: 128156220--128156270 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
128156210 TAAATTATAT
128156220 ATAGATTTAAAAGAAA
1 ATAGATTTAAAAGAAA
* * * *
128156236 ACATATATAAACA-TAA
1 ATAGATTTAAA-AGAAA
128156252 ATAGATTTAAAAGAAA
1 ATAGATTTAAAAGAAA
128156268 ATA
1 ATA
128156271 TATACATAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (16 bp):
ATAGATTTAAAAGAAA
Found at i:128156277 original size:28 final size:31
Alignment explanation
Indices: 128156220--128156280 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
128156210 TAAATTATAT
128156220 ATAGATTTAAAAGAAAACATATATAAACATAA
1 ATAGATTTAAAAGAAAACATATAT-AACATAA
128156252 ATAGATTTAAAAG-AAA-ATATAT-ACATAA
1 ATAGATTTAAAAGAAAACATATATAACATAA
128156280 A
1 A
128156281 ATAATACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 7 0.24
30 6 0.21
31 3 0.10
32 13 0.45
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (31 bp):
ATAGATTTAAAAGAAAACATATATAACATAA
Found at i:128157918 original size:20 final size:20
Alignment explanation
Indices: 128157870--128157918 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
128157860 CTGTAAACAA
*
128157870 TTTTAATTTTTATTTCTGGT
1 TTTTAATTTATATTTCTGGT
*
128157890 TTATAATTTATATTT-TGGT
1 TTTTAATTTATATTTCTGGT
128157909 TTTTATATTT
1 TTTTA-ATTT
128157919 GGTTTATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTAATTTATATTTCTGGT
Found at i:128158503 original size:133 final size:135
Alignment explanation
Indices: 128158306--128158552 Score: 338
Period size: 133 Copynumber: 1.8 Consensus size: 135
128158296 TTCAATCTAC
* * * * * * * *
128158306 TCCCTTGCTACCTCGGGAAGATAAGACTCTCCGTTTTTGATCTGCCCCGCTGCTAACTCGAGGAG
1 TCCCTTGCTACCTCAGGAAGATAAGACTCGCCGCTTTCGATCTACCCCACTACTAACTCAAGGAG
128158371 ACAAAATC-AGC-ATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTAGTGGCTAAAA
66 ACAAAATCTA-CAATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTAGTGGCTAAAA
128158434 TCTGCT
130 TCTGCT
* * *
128158440 TCCC-TGCTACCTCAGGAAGATAAGATTCGCCGCTTTCGATCTACCTCACTACTATCTCAAGGAG
1 TCCCTTGCTACCTCAGGAAGATAAGACTCGCCGCTTTCGATCTACCCCACTACTAACTCAAGGAG
* * *
128158504 ACAAGATCTACAATCTTCAGTCTGTTCCCTTGCTACCTCAGGAAGATAA
66 ACAAAATCTACAATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAA
128158553 GATTACAATC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
133 57 0.59
134 40 0.41
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (135 bp):
TCCCTTGCTACCTCAGGAAGATAAGACTCGCCGCTTTCGATCTACCCCACTACTAACTCAAGGAG
ACAAAATCTACAATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTAGTGGCTAAAAT
CTGCT
Found at i:128158565 original size:44 final size:44
Alignment explanation
Indices: 128158506--128158933 Score: 196
Period size: 44 Copynumber: 9.6 Consensus size: 44
128158496 TCAAGGAGAC
*
128158506 AAGATCTACAATCTTCAGTCTGTTCCCTTGCTACCTCAGGAAGAT
1 AAGAT-TACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGAT
**
128158551 AAGATTACAATCTTCAACCTGCTCCCTTGCTACCTCAAGG-AGAT
1 AAGATTACAATCTTCAGTCTGCTCCCTTGCTACCTC-AGGAAGAT
** **** ** * * *
128158595 AAGGCTAGTGGCTAAAATCTACTCCCCTGCTACCTC-GAGAAGAT
1 AAGATTACAATCTTCAGTCTGCTCCCTTGCTACCTCAG-GAAGAT
* ** * * * *
128158639 AAGATTTGCCGTCTTC-GATCTGCTCCAC-TACTATCTTGAGG-AGAC
1 AAGA-TTACAATCTTCAG-TCTGCTCC-CTTGCTA-CCTCAGGAAGAT
*
128158684 AA-ATTCTACAATCTTTAGTCTGCTCCCTTGCTACCTCAGGAAGAT
1 AAGA-T-TACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGAT
* *
128158729 AAGACTACAATCTTCAG-CTTGCTCCCTTGCTACCTCAGAAAGAT
1 AAGATTACAATCTTCAGTC-TGCTCCCTTGCTACCTCAGGAAGAT
** ***** ** *
128158773 AAGGCTGGTGGCTAAAAATCTGCTCCC-TGCTACCTCTA-GAAGAT
1 AAGATTACAATCT-TCAGTCTGCTCCCTTGCTACCTC-AGGAAGAT
* * * * * * *
128158817 AATATTCGCTATCCTC-GATCTGC-CCCACTGCTATCTCGAGG-AGAC
1 AAGATT-ACAATCTTCAG-TCTGCTCCC-TTGCTACCTC-AGGAAGAT
* **
128158862 AAAATCTACAATCTTCAGTCTGCTCTATTGCTACCTCAGGAAGAT
1 AAGAT-TACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGAT
* * *
128158907 AAAACTACAATCTTCAGCCTGCTCCCT
1 AAGATTACAATCTTCAGTCTGCTCCCT
128158934 CAGAGAGATA
Statistics
Matches: 282, Mismatches: 75, Indels: 53
0.69 0.18 0.13
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 159 0.56
45 105 0.37
46 11 0.04
47 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (44 bp):
AAGATTACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGAT
Found at i:128158573 original size:134 final size:133
Alignment explanation
Indices: 128158305--128158597 Score: 315
Period size: 133 Copynumber: 2.2 Consensus size: 133
128158295 CTTCAATCTA
* * * * * * * *
128158305 CTCCCTTGCTACCTCGGGAAGATAAGACTCTCCGTTTTTGATCTGCCCCGCTGCTAACTCGAGGA
1 CTCCCTTGCTACCTCAGGAAGATAAGACTCGCCGCTTTCGATCTACCCCACTACTAACTCAAGGA
*** *
128158370 GACAAAATCAGCATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTAGTGGCTAAAAT
66 GACAAAATCAGCATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTACAAGCTAAAAC
128158435 CTG
131 CTG
* * *
128158438 CTTCCC-TGCTACCTCAGGAAGATAAGATTCGCCGCTTTCGATCTACCTCACTACTATCTCAAGG
1 C-TCCCTTGCTACCTCAGGAAGATAAGACTCGCCGCTTTCGATCTACCCCACTACTAACTCAAGG
* * * * * *
128158502 AGACAAGATCTA-CAATCTTCAGTCTGTTCCCTTGCTACCTCAGGAAGAT-AAGATTACAATCTT
65 AGACAAAATC-AGC-ATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAG-CTACAAGCTA
*
128158565 CAACCTG
127 AAACCTG
128158572 CTCCCTTGCTACCTCAAGG-AGATAAG
1 CTCCCTTGCTACCTC-AGGAAGATAAG
128158598 GCTAGTGGCT
Statistics
Matches: 132, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
133 65 0.49
134 64 0.48
135 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (133 bp):
CTCCCTTGCTACCTCAGGAAGATAAGACTCGCCGCTTTCGATCTACCCCACTACTAACTCAAGGA
GACAAAATCAGCATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTACAAGCTAAAAC
CTG
Found at i:128158694 original size:178 final size:176
Alignment explanation
Indices: 128158386--128159013 Score: 810
Period size: 178 Copynumber: 3.6 Consensus size: 176
128158376 ATCAGCATCA
* * *
128158386 TCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAAGCTAGTGGCTAAAATCTGCTTCCCTGCTACC
1 TCAGCCTGCTCCCTTGCTACCTCAGG-AGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACC
* *
128158451 TC-AGGAAGATAAGATTCGCCG-CTTTCGATCTAC-CTCACTACTATCTCAAGGAGACAAGATCT
65 TCGA-GAAGATAAGATTCGCCGTC-TTCGATCTGCTC-CACTACTATCTCGAGGAGACAA-ATCT
* *
128158513 ACAATCTTCAGTCTGTTCCCTTGCTACCTCAGGAAGATAAGATTACAATCT
126 ACAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
* *
128158564 TCAACCTGCTCCCTTGCTACCTCAAGGAGATAAGGCTAGTGGCTAAAATCTACTCCCCTGCTACC
1 TCAGCCTGCTCCCTTGCTACCTC-AGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACC
* *
128158629 TCGAGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTATCTTGAGGAGACAAATTCTACA
65 TCGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTATCTCGAGGAGACAAA-TCTACA
*
128158694 ATCTTTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
129 ATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
* * *
128158742 TCAGCTTGCTCCCTTGCTACCTCAGAAAGATAAGGCTGGTGGCTAAAAATCTGCT-CCCTGCTAC
1 TCAGCCTGCTCCCTTGCTACCTCAG-GAGATAAGGCTAGTGGCT-AAAATCTGCTCCCCTGCTAC
* * ** * * *
128158806 CTCTAGAAGATAATATTCGCTATCCTCGATCTGCCCCACTGCTATCTCGAGGAGACAAAATCTAC
64 CTCGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTATCTCGAGGAGAC-AAATCTAC
** *
128158871 AATCTTCAGTCTGCTCTATTGCTACCTCAGGAAGATAAAACTACAATCT
128 AATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
* * **
128158920 TCAGCCTGCTCCC-T-C-A---GA-GAGATAAGGCTGGTGGCTAAAATCTGCTCCTTTGCTACCT
1 TCAGCCTGCTCCCTTGCTACCTCAGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCT
* *
128158978 CGAGAAGATAAGATTTGTCGTCTTCGATCTGCTCCA
66 CGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
128159014 TCGCTATTTC
Statistics
Matches: 398, Mismatches: 43, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
169 10 0.03
170 54 0.14
172 1 0.00
175 1 0.00
176 1 0.00
177 4 0.01
178 309 0.78
179 18 0.05
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (176 bp):
TCAGCCTGCTCCCTTGCTACCTCAGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCT
CGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTATCTCGAGGAGACAAATCTACAAT
CTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCT
Found at i:128159956 original size:16 final size:16
Alignment explanation
Indices: 128159935--128159968 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
128159925 AATTGATTGG
128159935 GAAAAAATATTTCAAA
1 GAAAAAATATTTCAAA
128159951 GAAAAAATATTTCAAA
1 GAAAAAATATTTCAAA
128159967 GA
1 GA
128159969 TAGCCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.24
Consensus pattern (16 bp):
GAAAAAATATTTCAAA
Found at i:128175147 original size:49 final size:50
Alignment explanation
Indices: 128175077--128175300 Score: 274
Period size: 49 Copynumber: 4.5 Consensus size: 50
128175067 TGAGGTCATG
* *
128175077 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* * * * * *
128175126 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGGTCACA
* * * ** *
128175177 TATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* *
128175227 TGTGCAGTACTAAGTGCAGGCTA-TACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
128175275 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
128175301 TGCGTACCAG
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
48 27 0.18
49 52 0.35
50 31 0.21
51 37 0.25
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
Found at i:128175259 original size:100 final size:98
Alignment explanation
Indices: 128175079--128175312 Score: 290
Period size: 100 Copynumber: 2.4 Consensus size: 98
128175069 AGGTCATGTG
* * * *
128175079 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTGCA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGCAGTACTAAGTGCA
* *
128175144 GGCTACTATGCGTACCCGATAACTTCGATCACGTA
66 GGCTACTACGCGTACCCGATAA-TT-GATCACATA
* * *
128175179 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGCAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGCAGTACTAAGTGC
* * * * *
128175244 AGGCTA-TACGTGTACCGGATAATTGGTCGCATG
65 AGGCTACTACGCGTACCCGATAATTGATCACATA
* *
128175277 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
128175313 AGCTTTGGCT
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 38 0.33
99 2 0.02
100 49 0.42
101 27 0.23
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGCAGTACTAAGTGCA
GGCTACTACGCGTACCCGATAATTGATCACATA
Found at i:128180341 original size:49 final size:50
Alignment explanation
Indices: 128180272--128180504 Score: 281
Period size: 49 Copynumber: 4.7 Consensus size: 50
128180262 ATCTATTGTG
* * *
128180272 AGGTCACATGTGTAGTACTAAATGCAAGCTACTACGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
128180322 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
128180372 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
128180422 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
128180472 -GGTCGCATGTGTAGTACTAACTACAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
128180505 TGCGTACCAG
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 69 0.45
50 48 0.31
51 38 0.25
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:128180409 original size:28 final size:28
Alignment explanation
Indices: 128180377--128180460 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
128180367 AACTTCGATC
128180377 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
128180405 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
128180427 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
128180455 ACGTGT
1 ACGTGT
128180461 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:128180455 original size:101 final size:98
Alignment explanation
Indices: 128180275--128180516 Score: 295
Period size: 100 Copynumber: 2.4 Consensus size: 98
128180265 TATTGTGAGG
* * * *
128180275 TCACATGTGTAGTACTAAATGCAAGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
*
128180340 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * * * *
128180375 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTAC
* * *
128180440 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * * * *
128180474 TCGCATGTGTAGTACTAACTACAGGCTACTATGCGTACCAGAT
1 TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGAT
128180517 AGCTTTGGCT
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 37 0.31
100 42 0.35
101 42 0.35
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:128183128 original size:25 final size:24
Alignment explanation
Indices: 128183086--128183143 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
128183076 CACAAACACA
*
128183086 GCTCTTTATGACCATCCTGATATAG
1 GCTCTTTATGAACATCCTGATAT-G
* *
128183111 GCTCTTTTTGAACTTCCTGATATG
1 GCTCTTTATGAACATCCTGATATG
128183135 GCTCGTTTA
1 GCTC-TTTA
128183144 AACTTTCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (24 bp):
GCTCTTTATGAACATCCTGATATG
Found at i:128192799 original size:3 final size:3
Alignment explanation
Indices: 128192793--128192847 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
128192783 CGTGTCTTTT
128192793 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
128192841 TTA TTA T
1 TTA TTA T
128192848 GTCATTTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:128195879 original size:13 final size:14
Alignment explanation
Indices: 128195861--128195889 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
128195851 AAATAGATCA
128195861 TAATTTTT-AAATT
1 TAATTTTTAAAATT
128195874 TAATTTTTAAAATT
1 TAATTTTTAAAATT
128195888 TA
1 TA
128195890 CAAATACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTTTAAAATT
Found at i:128200551 original size:25 final size:24
Alignment explanation
Indices: 128200523--128200569 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
128200513 TTTTATATTA
128200523 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAA-ATAATT
*
128200548 ATATTAATATTTAATAAAATAA
1 ATATTAATATTAAATAAAATAA
128200570 AAATCTCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTAATATTAAATAAAATAATT
Found at i:128203022 original size:21 final size:20
Alignment explanation
Indices: 128202970--128203022 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
128202960 CTTGTAGTTA
128202970 TAAAAAAGAAAAAGCTTAAT
1 TAAAAAAGAAAAAGCTTAAT
* *
128202990 TATAATAGAAAATAGCTTAAT
1 TAAAAAAGAAAA-AGCTTAAT
*
128203011 TAAAAAATAAAA
1 TAAAAAAGAAAA
128203023 GAAAAATGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (20 bp):
TAAAAAAGAAAAAGCTTAAT
Found at i:128208167 original size:21 final size:21
Alignment explanation
Indices: 128208141--128208181 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
128208131 ATCTGCTCAA
* *
128208141 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
128208162 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
128208182 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:128217453 original size:15 final size:15
Alignment explanation
Indices: 128217433--128217484 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
128217423 ATTCAATATT
128217433 AATATTTTAATAATA
1 AATATTTTAATAATA
*
128217448 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
128217467 AATATATTAATAATA
1 AATATTTTAATAATA
128217482 AAT
1 AAT
128217485 GTTTGGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:128226372 original size:133 final size:131
Alignment explanation
Indices: 128226063--128226500 Score: 382
Period size: 133 Copynumber: 3.3 Consensus size: 131
128226053 CCGAAGAGAT
* * * * * *
128226063 ATTCGATTATTTTGAACAAAAGGGAGATTGCAACCCAGCACGATAAGGCATTATTCCCTGAATTG
1 ATTCGATTGTTTTGAACAAAAGAGAAATCGCAACCCAGCACGATAAGGCATAATT-CTTGAATTG
** * * **
128226128 CCAAACACTGAACATTTCTTTCGTTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCTGAAAGG
65 CCAAACACTGAACATGCCTTTCGTTTTAAAGAGTTTTTAAAAAACATGAGTGAAAACCTGAAAGG
*
128226193 AT
130 AA
* * * * * * *
128226195 CTTCGATCGTTTCGAACAAATGAAAAAGCGCAACCCAGCACGATAAGGCACAATTCTTGAATTGC
1 ATTCGATTGTTTTGAACAAAAGAGAAATCGCAACCCAGCACGATAAGGCATAATTCTTGAATTGC
*
128226260 CAAACA-TCGAACATCGCCTTT-GTTTTAAAGGGTTTTCTTAAAAAAACATGAGTGAAAACCT-A
66 CAAACACT-GAACAT-GCCTTTCGTTTTAAAGAG-TTT-TT-AAAAAACATGAGTGAAAACCTGA
128226322 AAGGAA
126 AAGGAA
* * * * * *
128226328 ATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCGAATTGT
1 ATTCGATTGTTTTGAACAAAAGAGAAATCGCAACCCAGCACGATAAGGCATAATTCTTGAATTGC
* * * * * * *** *
128226393 CAAACACCGAGTCTTGCC-TTCGTTTTAAAG-GATTTTTAGAAGACCTGAGTGAAATTTTGAAGG
66 CAAACACTGA-ACATGCCTTTCGTTTTAAAGAG-TTTTTAAAAAACATGAGTGAAAACCTGAAAG
*
128226456 GAT
129 GAA
* * * * *
128226459 ATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACG
1 ATTCGATTGTTTTGAACAAAAGAGAAATCGCAACCCAGCACG
128226501 TTAGGGCACG
Statistics
Matches: 247, Mismatches: 50, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
130 16 0.06
131 75 0.30
132 56 0.23
133 81 0.33
134 19 0.08
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
ATTCGATTGTTTTGAACAAAAGAGAAATCGCAACCCAGCACGATAAGGCATAATTCTTGAATTGC
CAAACACTGAACATGCCTTTCGTTTTAAAGAGTTTTTAAAAAACATGAGTGAAAACCTGAAAGGA
A
Found at i:128226506 original size:131 final size:131
Alignment explanation
Indices: 128226032--128226562 Score: 469
Period size: 132 Copynumber: 4.0 Consensus size: 131
128226022 TTGCCTCACC
* * * * * * *
128226032 TTAGAAAATACGAGTGAAATTCCG-AAGAGATATTCGATTATTTTGAACAAAAGGGAGATTGCAA
1 TTAGAAAACATGAGTGAAATTCTGAAAG-GATATTCGATTATTTTGAACAAACGAGAAATCGCAA
** * * ** *
128226096 CCCAGCACGATAAGGCATTATTCCCTGAATTGCCAAACACTGAACATTTCTTTCGTTTTAAA-GA
65 CCCAGCACGATAAGGCACGATTCTC-GAATTGCCAAACACCGAACATCGCCTTCGTTTTAAAGGA
128226160 GTTT
129 -TTT
* * ** * * * *
128226164 TTAGAAAACGTGAGTGAAATTCTGAAAGGATCTTCGATCGTTTCGAACAAATGAAAAAGCGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAAGGATATTCGATTATTTTGAACAAACGAGAAATCGCAAC
* * * * *
128226229 CCAGCACGATAAGGCACAATTCTTGAATTGCCAAACATCGAACATCGCCTTTGTTTTAAAGGGTT
66 CCAGCACGATAAGGCACGATTCTCGAATTGCCAAACACCGAACATCGCCTTCGTTTTAAA-GGAT
128226294 TT
130 TT
* ** * * *
128226296 CTTAAAAAAACATGAGTGAAAACCT-AAAGGAAATTCGATTGTTTTGAACAAACGAGAAATCACA
1 -TT-AGAAAACATGAGTGAAATTCTGAAAGGATATTCGATTATTTTGAACAAACGAGAAATCGCA
* * * * *
128226360 ACCCAGCACGATAGGGCATGATTCTCGAATTGTCAAACACCGAGTC-TTGCCTTCGTTTTAAAGG
64 ACCCAGCACGATAAGGCACGATTCTCGAATTGCCAAACACCGA-ACATCGCCTTCGTTTTAAAGG
128226424 ATTT
128 ATTT
* * * * * * *
128226428 TTAGAAGACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTGAAAGGATATTCGATTATTTTGAACAAACGAGAAATCGCAAC
* * * * * * * *
128226493 CCAGCACGTTAGGGCACGATTCCGCGAATTACCAAATATCAAATC-TCGCCTTCGTTTTAAAGAA
66 CCAGCACGATAAGGCACGATT-CTCGAATTGCCAAACACCGAA-CATCGCCTTCGTTTTAAAGGA
128226557 TTT
129 TTT
128226560 TTA
1 TTA
128226563 AATGAATAAT
Statistics
Matches: 319, Mismatches: 71, Indels: 18
0.78 0.17 0.04
Matches are distributed among these distances:
130 15 0.05
131 85 0.27
132 113 0.35
133 88 0.28
134 18 0.06
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (131 bp):
TTAGAAAACATGAGTGAAATTCTGAAAGGATATTCGATTATTTTGAACAAACGAGAAATCGCAAC
CCAGCACGATAAGGCACGATTCTCGAATTGCCAAACACCGAACATCGCCTTCGTTTTAAAGGATT
T
Found at i:128227549 original size:2 final size:2
Alignment explanation
Indices: 128227542--128227571 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
128227532 CTTTATTTTA
128227542 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
128227572 CTATGTATCT
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:128229696 original size:168 final size:167
Alignment explanation
Indices: 128229366--128229805 Score: 711
Period size: 168 Copynumber: 2.6 Consensus size: 167
128229356 TTGTGACTTC
* * *
128229366 GATCTGCTCCACTGGAGATGAGATCTGTGACCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
** * * * *
128229431 GGGTGGTGGATTAATCTGCTTCACTGCAATTTC-GAAAGATAGGATTTTACAATCTTCAGCCTGT
66 GGACGGTGGCTAAATCTGCTTCACTGCAACTTCAGGAAGATAGGATTTTACAATCTTCAGCCTGT
128229495 TGCCCTACTACTTAGGGGGTTAAGACTTGCCTTCTTT
131 TGCCCTACTACTTAGGGGGTTAAGACTTGCCTTCTTT
*
128229532 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTACAACTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
*
128229597 GGACGGTGGCTGAAATCTGCTTCACTGCAACTTCAGGAAGATAGGATTTTACAATCTTCGGCCTG
66 GGACGGTGGCT-AAATCTGCTTCACTGCAACTTCAGGAAGATAGGATTTTACAATCTTCAGCCTG
*
128229662 TTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
130 TTGCCCTACTACTTAGGGGGTTAAGACTTGCCTTCTTT
* *
128229700 AATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAAATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
* *
128229765 GGACGGTGGCTTAAATCTGCTTTACTGCAACTTCAAGAAGA
66 GGACGGTGGC-TAAATCTGCTTCACTGCAACTTCAGGAAGA
128229806 CATGATTCGC
Statistics
Matches: 254, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
166 69 0.27
167 20 0.08
168 164 0.65
169 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (167 bp):
GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
GGACGGTGGCTAAATCTGCTTCACTGCAACTTCAGGAAGATAGGATTTTACAATCTTCAGCCTGT
TGCCCTACTACTTAGGGGGTTAAGACTTGCCTTCTTT
Found at i:128229966 original size:133 final size:133
Alignment explanation
Indices: 128229720--128229988 Score: 349
Period size: 133 Copynumber: 2.0 Consensus size: 133
128229710 ACTGGAGACG
* * *
128229720 AGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAAATAGGACGGTGGCTTAAATCTGC
1 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAAATAGGACGGTGACTTAAATCTGC
* * * * *
128229785 TTTACTGCAACTTCAAGAAGACATGATTCGCCGTTTTCGATCTGCTCCACTGCAACTTCAGGGAA
66 TTCACTGCAACTTCAAGAAAACAAGATTCGCCGTTTTCGATCTACTCCACTGCAACTTCAAGGAA
128229850 ACA
131 ACA
* ** * * *
128229853 AGATCTACAATCTTCAGCCTACTCTACTACAACTTTAGGGAGCTAGGATGGTGATTTAAATTTGC
1 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAAATAGGACGGTGACTTAAATCTGC
* * * ** * *
128229918 TTCACTGCAACTTCAGGAAAATAAGATTCGTCGTTTTTTATCTACTCCACTGCAGCTTCAAGGAG
66 TTCACTGCAACTTCAAGAAAACAAGATTCGCCGTTTTCGATCTACTCCACTGCAACTTCAAGGAA
128229983 ACA
131 ACA
128229986 AGA
1 AGA
128229989 CCTGTAGAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
133 115 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (133 bp):
AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAAATAGGACGGTGACTTAAATCTGC
TTCACTGCAACTTCAAGAAAACAAGATTCGCCGTTTTCGATCTACTCCACTGCAACTTCAAGGAA
ACA
Found at i:128241704 original size:134 final size:131
Alignment explanation
Indices: 128241535--128241904 Score: 357
Period size: 134 Copynumber: 2.8 Consensus size: 131
128241525 CGAAGGGATC
* * * * * *
128241535 TTCGATCGTTTCGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACAATTCTCGAATTGCC
1 TTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCTCGAATTGCC
* *
128241600 AAACATCGAACATCGCATTTGTTTTAAAGGGTTTTCTTAAAAAAACATGAGTGAAAACCTAAAGA
66 AAACATCGAAC-TCGCATTCGTTTTAAAGGGATTT-TT-AAAAAACATGAGTGAAAACCTAAAGA
128241665 AATA
128 AATA
* * * *
128241669 TTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTTGAATTGTC
1 TTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCTCGAATTGCC
** * * * * * *** * **
128241734 AAACATCGAGTTTTGCCTTCGTTTTAAA-GGATTTTTAGAAGACCTGAGTGAAATTTTGAAGGGA
66 AAACATCGA-ACTCGCATTCGTTTTAAAGGGATTTTTAAAAAACATGAGTGAAAACCTAAAGAAA
128241798 TA
130 TA
* * * * * * *
128241800 TTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTAC
1 TTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATT-CTCGAATTGC
* * *
128241865 CAAATATCAAATCTCGCATTCGTTTTAAA-GAATTTTTAAA
65 CAAACATCGAA-CTCGCATTCGTTTTAAAGGGATTTTTAAA
128241905 TGAATAATTA
Statistics
Matches: 189, Mismatches: 44, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
131 68 0.36
132 39 0.21
133 5 0.03
134 77 0.41
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (131 bp):
TTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCTCGAATTGCC
AAACATCGAACTCGCATTCGTTTTAAAGGGATTTTTAAAAAACATGAGTGAAAACCTAAAGAAAT
A
Found at i:128242867 original size:14 final size:14
Alignment explanation
Indices: 128242848--128242877 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
128242838 TCAACAAACC
128242848 ATTAGATGTATGAA
1 ATTAGATGTATGAA
128242862 ATTAGATGTATGAA
1 ATTAGATGTATGAA
128242876 AT
1 AT
128242878 AATATGAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (14 bp):
ATTAGATGTATGAA
Found at i:128242903 original size:2 final size:2
Alignment explanation
Indices: 128242896--128242925 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
128242886 CTTTATTTTA
128242896 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
128242926 GTATCTAAAA
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:128243709 original size:30 final size:25
Alignment explanation
Indices: 128243673--128243739 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
128243663 AAGAGCCTAT
*
128243673 TCAGCCGAACCCTAGCCTCCATTCTTCTTC
1 TCAGCCGAACCCTA-CC-CC-TT-TT-TGC
*
128243703 TCAGCCGAATCCTACCCCTTTTTGC
1 TCAGCCGAACCCTACCCCTTTTTGC
128243728 TCAGCCGAACCC
1 TCAGCCGAACCC
128243740 CGAAGGCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 13 0.38
26 2 0.06
27 2 0.06
28 2 0.06
29 2 0.06
30 13 0.38
ACGTcount: A:0.18, C:0.43, G:0.12, T:0.27
Consensus pattern (25 bp):
TCAGCCGAACCCTACCCCTTTTTGC
Found at i:128245033 original size:168 final size:168
Alignment explanation
Indices: 128244721--128245168 Score: 736
Period size: 168 Copynumber: 2.7 Consensus size: 168
128244711 TTGTGACTTC
* *
128244721 GATCTGCTCCACTGGAGACGAGATCTGTGACCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
** * * * *
128244786 GGGTGGTGGATT-AATCTGCTTCACTACAATTTCAGGAAGACAGGATTTTTCAATCTTCAGCCTG
66 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTG
*
128244850 TTGCCCTACTACTTAGGGGGTTAGGGCTTGCCTTCTTT
131 TTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
*
128244888 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
*
128244953 GGACAGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTG
66 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTG
**
128245018 TTGCCCTACTACTTAGGGGGTTAAGGCTTGTTTTCTTT
131 TTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
* * *
128245056 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTAAAATTTTAGGGAGATA
1 GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
*
128245121 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATT
66 GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATT
128245169 CGACGTTTTC
Statistics
Matches: 261, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
167 70 0.27
168 191 0.73
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (168 bp):
GATCTGCTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCACTACAACTTTAGGGAGATA
GGACGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTG
TTGCCCTACTACTTAGGGGGTTAAGGCTTGCCTTCTTT
Found at i:128245198 original size:45 final size:44
Alignment explanation
Indices: 128245134--128245344 Score: 158
Period size: 45 Copynumber: 4.8 Consensus size: 44
128245124 CGGTGGCTTA
* *
128245134 AATCTGCTTCACTGCAACTTCAGGAAGACATGATTCGACGTTTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGACAAGA-TCGACGTTTTC
* *
128245179 AATCTGCTCCACTGCAACTTCAGGGAA-ACAAGATCTACGATCTTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGACAAGATCGACG-TTTTC
* * * * * * ** * *
128245224 AACCTACTCCACTACAACTTTAGGGAG-CTAGGAT-GGTGGTTTA
1 AATCTGCTCCACTGCAACTTCAGGAAGAC-AAGATCGACGTTTTC
* * * * *
128245267 AATTTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCCATTTTT
1 AATCTGCTCCACTGCAACTTCAGGAAGACAAGA-TCGACGTTTTC
* * *
128245312 GATCTGTTCCACTGCAACTTCAGGGAGACAAGA
1 AATCTGCTCCACTGCAACTTCAGGAAGACAAGA
128245345 CCTGTAGAAT
Statistics
Matches: 125, Mismatches: 34, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
43 25 0.20
44 12 0.10
45 84 0.67
46 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGAAGACAAGATCGACGTTTTC
Found at i:128245236 original size:168 final size:167
Alignment explanation
Indices: 128244727--128245236 Score: 454
Period size: 168 Copynumber: 3.0 Consensus size: 167
128244717 CTTCGATCTG
* * * * ***
128244727 CTCCACTGGAGACGAGATCTGTGACCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGGTGG
1 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAGGACAG
* * * *** * *
128244792 TGGATT-AATCTGCTTCACTACAATTTCAGGAAGACAGGATTTTTCAATCTTCAGCCTGTTGCCC
66 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTCGACAATCTTCAACCTGCTGCCC
* **** * * ** * *
128244856 TACTACTTAGGGGGTTAGGGCTTGCCT-TCTTTGATCTG
131 TACAACTTAGGGAAACAAGGC-T-CGTATCTTCAACCTA
*
128244894 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTACAACTTTAGGGAGATAGGACAG
1 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAGGACAG
** * *
128244959 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTTTACAATCTTCAGCCTGTTGCCC
66 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTCGACAATCTTCAACCTGCTGCCC
* **** * * ** * *
128245024 TACTACTTAGGGGGTTAAGGCTTGTTTTCTTTGATCTG
131 TACAACTTAGGGAAACAAGGCTCG-TATCTTCAACCTA
* * * *
128245062 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTACTCCGCTAAAATTTTAGGGAGATAGGACGG
1 CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAGGACAG
* * * *
128245127 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACATGATTCGAC-GTTTTCAATCTGCT-CCA
66 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTCGACAATCTTCAACCTGCTGCC-
* *
128245190 CTGCAACTTCAGGGAAACAAGATCTACG-ATCTTCAACCTA
130 CTACAACTT-AGGGAAACAAG-GCT-CGTATCTTCAACCTA
128245230 CTCCACT
1 CTCCACT
128245237 ACAACTTTAG
Statistics
Matches: 297, Mismatches: 39, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
166 2 0.01
167 82 0.28
168 210 0.71
169 2 0.01
170 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (167 bp):
CTCCACTGGAGACGAGATCTGCGATCTTCAGCCTAATCCACTAAAACTTTAGGGAGATAGGACAG
TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAGGATTCGACAATCTTCAACCTGCTGCCC
TACAACTTAGGGAAACAAGGCTCGTATCTTCAACCTA
Found at i:128245317 original size:133 final size:133
Alignment explanation
Indices: 128245076--128245344 Score: 394
Period size: 133 Copynumber: 2.0 Consensus size: 133
128245066 ACTGGAGACG
* * * *
128245076 AGATCTGCGATCTTCAGCCTACTCCGCTAAAATTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
1 AGATCTACGATCTTCAACCTACTCCACTAAAACTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
* *
128245141 TTCACTGCAACTTCAGGAAGACATGATTCGACGTTTTCAATCTGCTCCACTGCAACTTCAGGGAA
66 TTCACTGCAACTTCAGGAAGACAAGATTCGACATTTTCAATCTGCTCCACTGCAACTTCAGGGAA
128245206 ACA
131 ACA
* * * * *
128245209 AGATCTACGATCTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGTTTAAATTTGC
1 AGATCTACGATCTTCAACCTACTCCACTAAAACTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
* ** * *
128245274 TTCACTGCAACTTCAGGAAGACAAGATTCGCCATTTTTGATCTGTTCCACTGCAACTTCAGGGAG
66 TTCACTGCAACTTCAGGAAGACAAGATTCGACATTTTCAATCTGCTCCACTGCAACTTCAGGGAA
128245339 ACA
131 ACA
128245342 AGA
1 AGA
128245345 CCTGTAGAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 120 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (133 bp):
AGATCTACGATCTTCAACCTACTCCACTAAAACTTTAGGGAGATAGGACGGTGGCTTAAATCTGC
TTCACTGCAACTTCAGGAAGACAAGATTCGACATTTTCAATCTGCTCCACTGCAACTTCAGGGAA
ACA
Found at i:128246500 original size:27 final size:25
Alignment explanation
Indices: 128246443--128246492 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
128246433 GTTTGGAAAG
*
128246443 AAAATAAAAGATGTGATCATTTTTT
1 AAAATAAAAAATGTGATCATTTTTT
128246468 AAAATAAAAAATGTGAT-ATTTTTT
1 AAAATAAAAAATGTGATCATTTTTT
128246492 A
1 A
128246493 TTATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (25 bp):
AAAATAAAAAATGTGATCATTTTTT
Found at i:128246927 original size:50 final size:50
Alignment explanation
Indices: 128246868--128246967 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
128246858 AAAAATTGAT
*
128246868 AAAATTCAAAACTAATGTGAATTAATAAAACTTTAATTATCAAAATAAAA
1 AAAATTCAAAACTAATGTGAATTAATAAAACTTTAAATATCAAAATAAAA
128246918 AAAATTCAAAACTAATGTGAATTAATAAAACTTTAAATATCAAAATAAAA
1 AAAATTCAAAACTAATGTGAATTAATAAAACTTTAAATATCAAAATAAAA
128246968 CTAACTGCGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (50 bp):
AAAATTCAAAACTAATGTGAATTAATAAAACTTTAAATATCAAAATAAAA
Found at i:128253071 original size:12 final size:12
Alignment explanation
Indices: 128253056--128253080 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128253046 CCCAATGATT
128253056 CAACTCTCGGCC
1 CAACTCTCGGCC
128253068 CAACTCTCGGCC
1 CAACTCTCGGCC
128253080 C
1 C
128253081 TACCTCCTTT
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:0.52, G:0.16, T:0.16
Consensus pattern (12 bp):
CAACTCTCGGCC
Found at i:128254297 original size:10 final size:10
Alignment explanation
Indices: 128254281--128254324 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
128254271 TGATAAATAC
128254281 AAATAAAGAT
1 AAATAAAGAT
*
128254291 AATTAAAGAT
1 AAATAAAGAT
128254301 AAATAAAGAT
1 AAATAAAGAT
128254311 AAATGAAA-AT
1 AAAT-AAAGAT
128254321 AAAT
1 AAAT
128254325 CTTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 28 0.90
11 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (10 bp):
AAATAAAGAT
Found at i:128254322 original size:20 final size:20
Alignment explanation
Indices: 128254267--128254324 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
128254257 AATTAAATAC
128254267 TAAATGATAAATACAAATAAAGA
1 TAAATGA-AAAT--AAATAAAGA
*
128254290 T-AATTAAAGATAAATAAAGA
1 TAAATGAAA-ATAAATAAAGA
128254310 TAAATGAAAATAAAT
1 TAAATGAAAATAAAT
128254325 CTTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 16 0.52
21 8 0.26
22 6 0.19
23 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.24
Consensus pattern (20 bp):
TAAATGAAAATAAATAAAGA
Found at i:128255935 original size:9 final size:10
Alignment explanation
Indices: 128255917--128255967 Score: 56
Period size: 9 Copynumber: 5.3 Consensus size: 10
128255907 TTTTTATTAT
128255917 TAATAAATAAA
1 TAAT-AATAAA
128255928 TAA-AAT-AA
1 TAATAATAAA
128255936 TAAATAATAAA
1 T-AATAATAAA
128255947 TAATAA-AAA
1 TAATAATAAA
128255956 TAATAA-AAA
1 TAATAATAAA
128255965 TAA
1 TAA
128255968 AACAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 3 0.08
9 20 0.54
10 8 0.22
11 6 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
TAATAATAAA
Found at i:128255938 original size:16 final size:16
Alignment explanation
Indices: 128255917--128255963 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
128255907 TTTTTATTAT
128255917 TAATAAATAAATAAAA
1 TAATAAATAAATAAAA
128255933 TAATAAAT-AAT-AAA
1 TAATAAATAAATAAAA
*
128255947 TAATAAAAATAATAAAA
1 TAATAAATA-AATAAAA
128255964 ATAAAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 11 0.41
17 3 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAATAAATAAATAAAA
Found at i:128255944 original size:23 final size:23
Alignment explanation
Indices: 128255917--128255977 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
128255907 TTTTTATTAT
128255917 TAATAAATAAATAAAATAATAAA
1 TAATAAATAAATAAAATAATAAA
128255940 TAATAAAT-AATAAAAATAATAAA
1 TAATAAATAAAT-AAAATAATAAA
128255963 -AATAAA-ACAATAAAA
1 TAATAAATA-AATAAAA
128255978 ATTGGGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
TAATAAATAAATAAAATAATAAA
Found at i:128255969 original size:14 final size:13
Alignment explanation
Indices: 128255921--128255979 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
128255911 TATTATTAAT
128255921 AAATAAATAA-AA
1 AAATAAATAATAA
*
128255933 TAATAAATAATAA
1 AAATAAATAATAA
128255946 ATAATAAAAATAATAA
1 A-AAT--AAATAATAA
*
128255962 AAATAAAACAATAA
1 AAAT-AAATAATAA
128255976 AAAT
1 AAAT
128255980 TGGGTTGCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 9 0.22
13 2 0.05
14 16 0.40
15 3 0.08
16 10 0.25
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAATAATAA
Found at i:128255978 original size:23 final size:25
Alignment explanation
Indices: 128255917--128255979 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
128255907 TTTTTATTAT
128255917 TAATAAATAAATAA-AATAATAAATAA
1 TAATAAATAAA-AATAATAA-AAATAA
128255943 TAA-ATAATAAAAATAATAAAAATAA
1 TAATA-AATAAAAATAATAAAAATAA
*
128255968 -AA-CAATAAAAAT
1 TAATAAATAAAAAT
128255980 TGGGTTGCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 9 0.26
24 2 0.06
25 9 0.26
26 14 0.41
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (25 bp):
TAATAAATAAAAATAATAAAAATAA
Found at i:128267248 original size:21 final size:23
Alignment explanation
Indices: 128267222--128267267 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
128267212 TTATTAATTT
* *
128267222 TTTTAAATTAT-TAG-TATAATA
1 TTTTAAAATATCTAGATAAAATA
128267243 TTTTAAAATATCTAGATAAAATA
1 TTTTAAAATATCTAGATAAAATA
128267266 TT
1 TT
128267268 ATAATATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 3 0.14
23 8 0.38
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTTAAAATATCTAGATAAAATA
Found at i:128267739 original size:22 final size:21
Alignment explanation
Indices: 128267694--128267735 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
128267684 TATTGTATTT
*
128267694 TTTTTATTTTTAAAATCTTAA
1 TTTTTATTTTCAAAATCTTAA
128267715 TTTTTATATTTCAAAAT-TTAA
1 TTTTTAT-TTTCAAAATCTTAA
128267736 ATTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATTTTCAAAATCTTAA
Found at i:128273293 original size:9 final size:9
Alignment explanation
Indices: 128273279--128273337 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
128273269 GATGGAGCCC
128273279 CCTCCTCCA
1 CCTCCTCCA
*
128273288 CCTCCTCCT
1 CCTCCTCCA
* *
128273297 CCGCCTCCG
1 CCTCCTCCA
*
128273306 CCTCCCCCA
1 CCTCCTCCA
*
128273315 CCTCC-GC-
1 CCTCCTCCA
128273322 CC-CCTCCA
1 CCTCCTCCA
128273330 CCTCCTCC
1 CCTCCTCC
128273338 GGCACTTGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
8 3 0.08
9 31 0.79
ACGTcount: A:0.05, C:0.71, G:0.05, T:0.19
Consensus pattern (9 bp):
CCTCCTCCA
Done.