Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 415 of 433
Found at i:127646566 original size:11 final size:11
Alignment explanation
Indices: 127646550--127646575 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
127646540 AATTTTTAAA
127646550 ATTTGAAAAAT
1 ATTTGAAAAAT
127646561 ATTTGAAAAAT
1 ATTTGAAAAAT
127646572 ATTT
1 ATTT
127646576 TATACATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (11 bp):
ATTTGAAAAAT
Found at i:127647357 original size:58 final size:59
Alignment explanation
Indices: 127647249--127647379 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 59
127647239 TTGTTATTAA
* **
127647249 ATTTTAATA-AGATTATTATTAAAAATAAATTTAAAATAAATAATAAATAATTTAATTGT
1 ATTTTAATATA-ATTATTACTAAAAATAAATTTAAAATAAATAATAAATAATTTAATAAT
* *
127647308 ATTTTAATATAATTATTACTAAATAT-AATTTAATAA-AAATAATATATAATTTAATAAT
1 ATTTTAATATAATTATTACTAAAAATAAATTTAA-AATAAATAATAAATAATTTAATAAT
127647366 ATTTTTAATATAAT
1 A-TTTTAATATAAT
127647380 CATTTTTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 27 0.42
59 36 0.56
60 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (59 bp):
ATTTTAATATAATTATTACTAAAAATAAATTTAAAATAAATAATAAATAATTTAATAAT
Found at i:127647408 original size:32 final size:31
Alignment explanation
Indices: 127647383--127647475 Score: 125
Period size: 32 Copynumber: 2.9 Consensus size: 31
127647373 ATATAATCAT
*
127647383 TTTTATATTAAATTATATTAAAATATTTAGAATA
1 TTTTATTTTAAATTATATTAAAATA--TA-AATA
127647417 TTTTATTTTAAATTATATTTTAAAAT-TAAATA
1 TTTTATTTTAAATTATA--TTAAAATATAAATA
127647449 TTTTATTTTAAATTATATTAAAATATA
1 TTTTATTTTAAATTATATTAAAATATA
127647476 TTAAAATATT
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
30 7 0.13
31 2 0.04
32 21 0.38
33 2 0.04
34 16 0.29
36 7 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (31 bp):
TTTTATTTTAAATTATATTAAAATATAAATA
Found at i:127647484 original size:8 final size:10
Alignment explanation
Indices: 127647456--127647493 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
127647446 ATATTTTATT
*
127647456 TTAAATTATA
1 TTAAAATATA
127647466 TTAAAATATA
1 TTAAAATATA
127647476 TTAAAATAT-
1 TTAAAATATA
*
127647485 TTCAAATAT
1 TTAAAATAT
127647494 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (10 bp):
TTAAAATATA
Found at i:127657834 original size:29 final size:29
Alignment explanation
Indices: 127657802--127657882 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
127657792 AAGTCCTTTT
127657802 AAATTTTAAAAATTTATTTAAAAA-TAAAA
1 AAATTTTAAAAATTTA-TTAAAAATTAAAA
* * * *
127657831 AAATTATAAAAATATATAAAAACATTATAA
1 AAATTTTAAAAATTTATTAAAA-ATTAAAA
*
127657861 AAATATTAAAAA-TTATTAAAAA
1 AAATTTTAAAAATTTATTAAAAA
127657883 CACAATATTG
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
28 6 0.14
29 22 0.52
30 14 0.33
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATTTTAAAAATTTATTAAAAATTAAAA
Found at i:127657839 original size:11 final size:11
Alignment explanation
Indices: 127657825--127657882 Score: 68
Period size: 10 Copynumber: 5.5 Consensus size: 11
127657815 TTATTTAAAA
*
127657825 ATAAAAAAATT
1 ATAAAAATATT
127657836 ATAAAAATA-T
1 ATAAAAATATT
*
127657846 ATAAAAACATT
1 ATAAAAATATT
127657857 ATAAAAATATT
1 ATAAAAATATT
*
127657868 A-AAAATTATT
1 ATAAAAATATT
127657878 A-AAAA
1 ATAAAA
127657883 CACAATATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
10 22 0.52
11 20 0.48
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAAAAATATT
Found at i:127657849 original size:21 final size:21
Alignment explanation
Indices: 127657825--127657872 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
127657815 TTATTTAAAA
127657825 ATAAAAAAATTATAAAAATAT
1 ATAAAAAAATTATAAAAATAT
*
127657846 ATAAAAACATTATAAAAATAT
1 ATAAAAAAATTATAAAAATAT
127657867 -TAAAAA
1 ATAAAAA
127657873 TTATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAAAAAATTATAAAAATAT
Found at i:127657878 original size:21 final size:20
Alignment explanation
Indices: 127657802--127657882 Score: 73
Period size: 21 Copynumber: 4.1 Consensus size: 20
127657792 AAGTCCTTTT
*
127657802 AAATTTTAAAAAT-TTATTTAA
1 AAATATTAAAAATATTA--TAA
127657823 AAATA--AAAAA-ATTATAA
1 AAATATTAAAAATATTATAA
*
127657840 AAATATATAAAAACATTATAA
1 AAATAT-TAAAAATATTATAA
127657861 AAATATTAAAAATTATTA-AA
1 AAATATTAAAAA-TATTATAA
127657881 AA
1 AA
127657883 CACAATATTG
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
17 8 0.15
19 8 0.15
20 15 0.29
21 21 0.40
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATTAAAAATATTATAA
Found at i:127664063 original size:31 final size:31
Alignment explanation
Indices: 127664028--127664088 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
127664018 TAGACATATG
*
127664028 AAACTTTAATTGTGGTTCAAAT-ATATACATA
1 AAACTTTAATTGTGATTC-AATCATATACATA
*
127664059 AAACTTTAATTTTGATTCAATCATATACAT
1 AAACTTTAATTGTGATTCAATCATATACAT
127664089 TTTAAAGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (31 bp):
AAACTTTAATTGTGATTCAATCATATACATA
Found at i:127664447 original size:30 final size:30
Alignment explanation
Indices: 127664384--127664449 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
127664374 TGACATTAAG
* **
127664384 TTTTAGAGGTTTAATTAAAAATTTCAACTA
1 TTTTAGAGGTTTAAATAAAAATTTCAAAAA
*
127664414 TTTTAGAGG-TTAAATAAGAAATTTTAAAAA
1 TTTTAGAGGTTTAAATAA-AAATTTCAAAAA
127664444 TTTTAG
1 TTTTAG
127664450 GGGACATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (30 bp):
TTTTAGAGGTTTAAATAAAAATTTCAAAAA
Found at i:127666065 original size:3 final size:3
Alignment explanation
Indices: 127666057--127666107 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
127666047 AAATAAAATT
127666057 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
127666105 TAA
1 TAA
127666108 ACACGAGAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:127668044 original size:11 final size:11
Alignment explanation
Indices: 127668025--127668088 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
127668015 CTTCAATCTT
*
127668025 TCAATATTCTC
1 TCAAAATTCTC
127668036 TCAAAATTCTC
1 TCAAAATTCTC
127668047 TC-AAA-TCTC
1 TCAAAATTCTC
*
127668056 TCAAATTTCTC
1 TCAAAATTCTC
*
127668067 T-TAAATTCCTC
1 TCAAAATT-CTC
*
127668078 TCAAAACTCTC
1 TCAAAATTCTC
127668089 GTTAATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 6 0.14
10 9 0.21
11 24 0.56
12 4 0.09
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.39
Consensus pattern (11 bp):
TCAAAATTCTC
Found at i:127668057 original size:20 final size:21
Alignment explanation
Indices: 127668025--127668088 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
127668015 CTTCAATCTT
127668025 TCAATATTCTCTCAAAATTCTC
1 TCAA-ATTCTCTCAAAATTCTC
*
127668047 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAAATTCTC
* *
127668067 TTAAATTCCTCTCAAAACTCTC
1 TCAAATT-CTCTCAAAATTCTC
127668089 GTTAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 16 0.44
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.39
Consensus pattern (21 bp):
TCAAATTCTCTCAAAATTCTC
Found at i:127669901 original size:18 final size:18
Alignment explanation
Indices: 127669878--127669920 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
127669868 TGCCAGGTAC
*
127669878 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
127669896 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
127669914 GTTTCCT
1 GTATCCT
127669921 TTTTCTGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:127670509 original size:116 final size:116
Alignment explanation
Indices: 127670305--127670919 Score: 1077
Period size: 116 Copynumber: 5.3 Consensus size: 116
127670295 TATTTGTACA
*
127670305 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
127670370 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
127670421 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
127670486 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
127670537 AATATTTTGAATATTTTTATATTATTTCATCTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
127670602 TGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
127670653 AACATTTTGAATATTTTTATATTATTTCATGTAATTAAATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
127670718 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
127670769 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAGT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
** *
127670834 TATAATTTACTTTTATATTTTTAATAAAATAAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
127670885 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
127670920 AAAATATAAA
Statistics
Matches: 478, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 478 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:127670732 original size:61 final size:59
Alignment explanation
Indices: 127670319--127670883 Score: 279
Period size: 54 Copynumber: 9.8 Consensus size: 59
127670309 TTTTGAATCT
* *
127670319 TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTAC
1 TTTTATATTATTTCAT-TAATTAAATAAAA-GTTGTTTTAAATAAAGTAATTGTAATTTAC
* * * * * * *
127670380 -TTT-TA-TATTT--TTAATAAAATGGAAA-TTATTTTAAATAAGGCAACATTTTGAA--TAT
1 TTTTATATTATTTCATTAATTAAAT-AAAAGTTGTTTTAAATAAAG-TA-ATTGT-AATTTAC
* *
127670435 TTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAATTATAATTTAC
1 TTTTATATTATTTCAT-TAATTAAATAAAA-GTTGTTTTAAATAAAGTAATTGTAATTTAC
* * * * * * *
127670496 -TTT-TA-TATTT--TTAATAAAATGGAAA-TTATTTTAAATAAGGCAATATTTTGAA--TAT
1 TTTTATATTATTTCATTAATTAAAT-AAAAGTTGTTTTAAATAAAG-TA-ATTGT-AATTTAC
*
127670551 TTTTATATTATTTCATCTAATTAGATAAAATGTTGTTTTAAATAAAGTAATTGTAATTTAC
1 TTTTATATTATTTCAT-TAATTAAATAAAA-GTTGTTTTAAATAAAGTAATTGTAATTTAC
* * * * * *
127670612 -TTT-TA-TATTT--TTAATAAAATAGAAA-TTATTTTAAATAAGGCAACATTTTGAA--TAT
1 TTTTATATTATTTCATTAATTAAATA-AAAGTTGTTTTAAATAAAG-TA-ATTGT-AATTTAC
127670667 TTTTATATTATTTCATGTAATTAAATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTAC
1 TTTTATATTATTTCAT-TAATTAAATAAAA-GTTGTTTTAAATAAAGTAATTGTAATTTAC
* * * * * * *
127670728 -TTT-TA-TATTT--TTAATAAAATGGAAA-TTATTTTAAATAAGGCAACATTTTGAA--TAT
1 TTTTATATTATTTCATTAATTAAAT-AAAAGTTGTTTTAAATAAAG-TA-ATTGT-AATTTAC
* * *
127670783 TTTTATATTATTTCATGTGA-TAATATAAAAGGTTGTTTTAAATAAAGTAGTTATAATTTAC
1 TTTTATATTATTTCAT-TAATTAA-ATAAAA-GTTGTTTTAAATAAAGTAATTGTAATTTAC
* * *
127670844 -TTT-TA-TATTT--TTAATAAAATAAAAATTATTTTAAATAAAG
1 TTTTATATTATTTCATTAATTAAATAAAAGTTGTTTTAAATAAAG
127670884 CAATATTTTG
Statistics
Matches: 381, Mismatches: 65, Indels: 123
0.67 0.11 0.22
Matches are distributed among these distances:
54 66 0.17
55 50 0.13
56 47 0.12
57 16 0.04
58 45 0.12
59 18 0.05
60 48 0.13
61 39 0.10
62 52 0.14
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (59 bp):
TTTTATATTATTTCATTAATTAAATAAAAGTTGTTTTAAATAAAGTAATTGTAATTTAC
Found at i:127674160 original size:126 final size:126
Alignment explanation
Indices: 127673941--127674468 Score: 855
Period size: 126 Copynumber: 4.2 Consensus size: 126
127673931 TTCAAAAACC
*
127673941 ACTGTAGCAAAAGAGCGTCCACGTGGGAGATTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* ** *
127674006 TGAAGCGTTTTTGAAACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACC
66 TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* *
127674067 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTC-TTCTAGTAATTTTGCTGAAAATGCATCCTGC
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTC-AGTACTTTTGCTGAAAATGCATCCTGC
* *
127674131 TTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTTTTCTCAAAATTATTTTTTCAGAGATT
65 TTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* *
127674193 ACTGTAGCAAAAGAGCGTCTACGTGGAAGCTTCTTTCAGTACTTTTGCT-AACAATGCATCCTGC
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAA-AATGCATCCTGC
* * *
127674257 TTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGATACT
65 TTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
*
127674319 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* *
127674384 TGAAGCGTTTTTGACACTATTTGAGCAGACACGTCTTCTCAAATTTATTTTTTCAGAGACT
66 TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
127674445 ACTGTAGCAAAAGAGCGTCCACGT
1 ACTGTAGCAAAAGAGCGTCCACGT
127674469 AGAAGCTTTT
Statistics
Matches: 371, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
125 6 0.02
126 360 0.97
127 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
Found at i:127674701 original size:96 final size:98
Alignment explanation
Indices: 127674578--127674754 Score: 236
Period size: 96 Copynumber: 1.8 Consensus size: 98
127674568 CCTAAAATTC
* * ** * *
127674578 TAATCTAATTTTTTTGAAATTTATAATTAATTTACTCAAGTAAC-CTTAAACCTTAATTTATTTG
1 TAATCTAATTTTTTTGAAAATTATAATTAATTTAATCAACAAACAC-TAAACCCTAATTTATTTA
127674642 A-TTTTTTCCTTAAAAATCATAAACACTAAACCA
65 ATTTTTTTCCTTAAAAATCATAAACACTAAACCA
*
127674675 TAATCTAA-TTTTTT-AAAATTAGTAATTAATTTAATTAACAAACACTAAACCCTAATTTATTTA
1 TAATCTAATTTTTTTGAAAATTA-TAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTA
127674738 ATTTTTTTTCCTTAAAA
65 A-TTTTTTTCCTTAAAA
127674755 CCCTAAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
95 6 0.09
96 40 0.58
97 9 0.13
98 14 0.20
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (98 bp):
TAATCTAATTTTTTTGAAAATTATAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
TTTTTTTCCTTAAAAATCATAAACACTAAACCA
Found at i:127685605 original size:33 final size:33
Alignment explanation
Indices: 127685563--127685628 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
127685553 GAGCAAGATC
*
127685563 GAAAAGAAAAACAAGTGTGGGTTACGTTTTAGT
1 GAAAAGAAAAACAAATGTGGGTTACGTTTTAGT
*
127685596 GAAAAGAAAAACAAATGTGGGTTGCGTTTTAGT
1 GAAAAGAAAAACAAATGTGGGTTACGTTTTAGT
127685629 TTTTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.27
Consensus pattern (33 bp):
GAAAAGAAAAACAAATGTGGGTTACGTTTTAGT
Found at i:127686340 original size:9 final size:9
Alignment explanation
Indices: 127686326--127686459 Score: 59
Period size: 9 Copynumber: 14.8 Consensus size: 9
127686316 TTAAGTTTAA
127686326 TATTATTAC
1 TATTATTAC
127686335 TATTATTAC
1 TATTATTAC
*
127686344 TATGATTTTAC
1 TAT--TATTAC
127686355 TATTATTAC
1 TATTATTAC
*
127686364 TATGATTTTTAC
1 --T-ATTATTAC
127686376 TATTA-TA-
1 TATTATTAC
**
127686383 TATTATGGC
1 TATTATTAC
*
127686392 TATTGTCGTTAC
1 TA-T-T-ATTAC
127686404 TATTA-TA-
1 TATTATTAC
*
127686411 TATTATTAT
1 TATTATTAC
*
127686420 TATTGTTAC
1 TATTATTAC
127686429 TATT-TT-C
1 TATTATTAC
127686436 -ATTATTA-
1 TATTATTAC
*
127686443 TTTTCATTAC
1 TATT-ATTAC
127686453 TATTATT
1 TATTATT
127686460 TTCGTTATTC
Statistics
Matches: 94, Mismatches: 14, Indels: 34
0.66 0.10 0.24
Matches are distributed among these distances:
6 3 0.03
7 13 0.14
8 10 0.11
9 40 0.43
10 6 0.06
11 11 0.12
12 11 0.12
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.57
Consensus pattern (9 bp):
TATTATTAC
Found at i:127686341 original size:12 final size:12
Alignment explanation
Indices: 127686335--127686459 Score: 64
Period size: 12 Copynumber: 10.3 Consensus size: 12
127686325 ATATTATTAC
127686335 TATTATTACTAT
1 TATTATTACTAT
*
127686347 GATT-TTAC---
1 TATTATTACTAT
127686355 TATTATTACTAT
1 TATTATTACTAT
* *
127686367 GATTTTTACTAT
1 TATTATTACTAT
127686379 TATATATTATGGCTAT
1 TAT-TATTA---CTAT
* **
127686395 TGTCGTTACTAT
1 TATTATTACTAT
*
127686407 TATATATTATTAT
1 TAT-TATTACTAT
*
127686420 TATTGTTACTAT
1 TATTATTACTAT
*
127686432 T-TTCATTATTAT
1 TATT-ATTACTAT
127686444 T-TTCATTACTAT
1 TATT-ATTACTAT
127686456 TATT
1 TATT
127686460 TTCGTTATTC
Statistics
Matches: 84, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
11 6 0.07
12 47 0.56
13 15 0.18
15 3 0.04
16 6 0.07
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:127686356 original size:20 final size:21
Alignment explanation
Indices: 127686331--127686381 Score: 95
Period size: 20 Copynumber: 2.5 Consensus size: 21
127686321 TTTAATATTA
127686331 TTACTATTATTACTATGA-TT
1 TTACTATTATTACTATGATTT
127686351 TTACTATTATTACTATGATTT
1 TTACTATTATTACTATGATTT
127686372 TTACTATTAT
1 TTACTATTAT
127686382 ATATTATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (21 bp):
TTACTATTATTACTATGATTT
Found at i:127686423 original size:28 final size:28
Alignment explanation
Indices: 127686372--127686425 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
127686362 ACTATGATTT
*
127686372 TTACTATTATATATTATGGCTATTGTCG
1 TTACTATTATATATTATGACTATTGTCG
* *
127686400 TTACTATTATATATTATTATTATTGT
1 TTACTATTATATATTATGACTATTGT
127686426 TACTATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (28 bp):
TTACTATTATATATTATGACTATTGTCG
Found at i:127687019 original size:125 final size:123
Alignment explanation
Indices: 127686781--127687087 Score: 391
Period size: 125 Copynumber: 2.5 Consensus size: 123
127686771 AACATAAGGA
* * *
127686781 AATATTTTGTGTTCGGAAGTTTGAGAAATCGTGTCCAACCGTGCTGGGTTTTGACTTTTTTCATT
1 AATATTTTGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTTGA--TTTTTCATT
* * * *
127686846 CAACCGAAATATGAAATATCCTTGTGAAATTTCGTCCATGTTCCTAAATTAAAACGAGGC
64 CAACCAAAATAAGAAATATCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGC
* *
127686906 AATATTTTGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTTGATTTTTCATTCG
1 AATATTTTGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTTGATTTTTCATTCA
* * * * *
127686971 ACTAAAATACAG-AATATCCTTTTGAAATTTCATCCGTGTTTTCTTAAATAAAAATGAGGC
66 ACCAAAATA-AGAAATATCCTTGTGAAATTTCATCCATG--TTCCTAAATAAAAACGAGGC
* * ** *
127687031 AATATTTCGTGTTTGGAAATTTGCTAAATCGTGCCCAATCGTGCTGGATTTTGATTT
1 AATATTTTGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTTGATTT
127687088 ACCGTTTGGC
Statistics
Matches: 159, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
123 40 0.25
124 1 0.01
125 118 0.74
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (123 bp):
AATATTTTGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTTGATTTTTCATTCA
ACCAAAATAAGAAATATCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGC
Found at i:127698331 original size:84 final size:84
Alignment explanation
Indices: 127698224--127698856 Score: 618
Period size: 84 Copynumber: 7.5 Consensus size: 84
127698214 GGTGAATTCA
* * *
127698224 CGAGCTTTAACCCCCAAAACAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
127698289 TGAAGCAGATCGAAGACAG
66 TGAAGCAGATCGAAGACAG
* *
127698308 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACTA-GCTGAAAAATACAGATTTCCCCTAAACAATA
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAAC-AGGCTGAAAAATACAGATCTCCCCTAAACAGTA
* *
127698372 GTGGAGCAGATAGAAGACAG
65 GTGAAGCAGATCGAAGACAG
* * *
127698392 CGAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTGG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
* *
127698457 TAAAGCAGATCGAAGATAG
66 TGAAGCAGATCGAAGACAG
** * *
127698476 TAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAATAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
* *
127698541 TGGAA-CAAATCGAAGATAG
66 T-GAAGCAGATCGAAGACAG
* *
127698560 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCCTAAACAGTAG
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
*
127698625 TGGAA-CAGATCGAAGTCAG
66 T-GAAGCAGATCGAAGACAG
** * * * * * *
127698644 C-AGGCCCCAACCCCCTAAGCAGTAAGGT---TGTGCTGGAAAATATAGACCCTATCTCCTTAAA
1 CGA-GCCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAAAATACAGA---TCTC-CCCTAAA
* * * ** *
127698705 CAGTAGTGGAGTAGGTTAAAGA-TG
60 CAGTAGTGAAGCAGATCGAAGACAG
* ** * * * *
127698729 ATGAGCCTTAACTACCTATGCAGTAGGGTGACAGGCTAAAAAATTACAGATCCTATCTCCCTAAG
1 -CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAA-TACAGAT-C--TC-CCCTAAA
* * * * *
127698794 CAGTGGGGGAGTAGATCAAAGACAG
60 CAGTAGTGAAGCAGATCGAAGACAG
* * *
127698819 TGAGCCTTAA-CCCCTAAACAATAGGGTAACAGGCTGAA
1 CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA
127698857 TATTACAAAT
Statistics
Matches: 461, Mismatches: 68, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
81 1 0.00
82 14 0.03
83 2 0.00
84 324 0.70
85 9 0.02
86 39 0.08
87 1 0.00
88 28 0.06
89 42 0.09
90 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (84 bp):
CGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAATACAGATCTCCCCTAAACAGTAG
TGAAGCAGATCGAAGACAG
Found at i:127698533 original size:40 final size:40
Alignment explanation
Indices: 127698402--127698632 Score: 129
Period size: 40 Copynumber: 5.5 Consensus size: 40
127698392 CGAGCCTTAA
*
127698402 CCCCTTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCT
1 CCCC-TAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
* * *
127698443 CCCCTAAACAGT--GGTAA-AGCAGATCGAAGATAGTA-AG-CCTT
1 CCCCTAAACAGTAGGGTAACAG--GCTGGAA-A-A-TACAGATC-T
*
127698484 AACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCT
1 ---CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
* ** * * *
127698527 CCCCTAAATAGTAGTGG-AACA-AATCGAAGATAGCA-AGCCTT
1 CCCCTAAACAGTAG-GGTAACAGGCTGGAAAATA-CAGA-TC-T
*
127698568 AACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCT
1 ---CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
127698611 CCCCTAAACAGTAGTGG-AACAG
1 CCCCTAAACAGTAG-GGTAACAG
127698633 ATCGAAGTCA
Statistics
Matches: 142, Mismatches: 23, Indels: 51
0.66 0.11 0.24
Matches are distributed among these distances:
37 2 0.01
38 5 0.04
39 13 0.09
40 46 0.32
41 13 0.09
42 4 0.03
43 7 0.05
44 32 0.23
45 13 0.09
46 5 0.04
47 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (40 bp):
CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATCT
Found at i:127698815 original size:89 final size:87
Alignment explanation
Indices: 127698691--127698885 Score: 203
Period size: 89 Copynumber: 2.2 Consensus size: 87
127698681 AAATATAGAC
* * * * * * ** *
127698691 CCTATCTCCTTAAACAGTAGTGGAGTAGGTTAAAGA-TGATGAGCCTTAACTACCTATGCAGTAG
1 CCTATCTCCCTAAGCAGTAGGGGAGTAGATCAAAGACAG-TGAGCCTTAAC-ACCTAAACAATAG
* *
127698755 GGTGACAGGCTAAAAAATTACAGAT
64 GGTAACAGGCT-AAAAATTACAAAT
* *
127698780 CCTATCTCCCTAAGCAGTGGGGGAGTAGATCAAAGACAGTGAGCCTTAACCCCTAAACAATAGGG
1 CCTATCTCCCTAAGCAGTAGGGGAGTAGATCAAAGACAGTGAGCCTTAACACCTAAACAATAGGG
* *
127698845 TAACAGGCTGAATATTACAAAT
66 TAACAGGCTAAAAATTACAAAT
* *
127698867 CGTATCTCCCTAAGTAGTA
1 CCTATCTCCCTAAGCAGTA
127698886 ACGAAGCAGA
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
87 26 0.30
88 19 0.22
89 41 0.47
90 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (87 bp):
CCTATCTCCCTAAGCAGTAGGGGAGTAGATCAAAGACAGTGAGCCTTAACACCTAAACAATAGGG
TAACAGGCTAAAAATTACAAAT
Found at i:127700271 original size:3 final size:3
Alignment explanation
Indices: 127700256--127700388 Score: 56
Period size: 3 Copynumber: 43.3 Consensus size: 3
127700246 TTAAGTTTAA
* * * * * ***
127700256 TAT TAT TAC TAT TAT TAC TAT GAT TTT TAC TAT TAT ATAT TAT GGC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
** * * *
127700302 TAT TAT CGT TAC TAT TAT ATAT TAT TAT TGT TAC TAT T-T TCAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* *
127700348 TAT T-T TCAT TAC TAT TAT T-T ATAT ATAT TAT TAT TAC TAT T
1 TAT TAT T-AT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT T
127700389 TCTGTTATTT
Statistics
Matches: 92, Mismatches: 30, Indels: 16
0.67 0.22 0.12
Matches are distributed among these distances:
2 5 0.05
3 72 0.78
4 15 0.16
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:127700271 original size:12 final size:12
Alignment explanation
Indices: 127700265--127700388 Score: 78
Period size: 12 Copynumber: 10.1 Consensus size: 12
127700255 ATATTATTAC
127700265 TATTATTACTAT
1 TATTATTACTAT
* *
127700277 GATTTTTACTAT
1 TATTATTACTAT
127700289 TATATATTATGGCTAT
1 TAT-TATTA---CTAT
**
127700305 TATCGTTACTAT
1 TATTATTACTAT
*
127700317 TA-TA-TATTAT
1 TATTATTACTAT
*
127700327 TATTGTTACTAT
1 TATTATTACTAT
*
127700339 T-TTCATTATTAT
1 TATT-ATTACTAT
127700351 T-TTCATTACTAT
1 TATT-ATTACTAT
127700363 TATTTATATA-TAT
1 TA-TTAT-TACTAT
127700376 TATTATTACTAT
1 TATTATTACTAT
127700388 T
1 T
127700389 TCTGTTATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
10 7 0.08
11 5 0.06
12 50 0.57
13 11 0.13
14 4 0.05
15 3 0.03
16 7 0.08
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:127700298 original size:28 final size:28
Alignment explanation
Indices: 127700251--127700328 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
127700241 GTTAATTAAG
* *
127700251 TTTAATATTATTACTATTATTACTATGATT
1 TTTACTATTA-TA-TATTATTACTATGATC
** *
127700281 TTTACTATTATATATTATGGCTATTATC
1 TTTACTATTATATATTATTACTATGATC
*
127700309 GTTACTATTATATATTATTA
1 TTTACTATTATATATTATTA
127700329 TTGTTACTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 29 0.73
29 2 0.05
30 9 0.22
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTACTATTATATATTATTACTATGATC
Found at i:127701037 original size:125 final size:124
Alignment explanation
Indices: 127700799--127701055 Score: 311
Period size: 125 Copynumber: 2.1 Consensus size: 124
127700789 AACATAAGAA
* * *
127700799 AATATTTTGTGTTTGAAAGTTTGAGAAATTGTGTCCAACCGTGCTGGGTTTTGACCTTTTTCATT
1 AATATTTTGTGTTTGAAAGTTTGAGAAATCGTGCCCAACCGTGCTGGGTTTCGA-CTTTTTCATT
* * *
127700864 CAACCGAAATATGAAATATCCTTGTGAAATTTCGTCCATGTTCCTAAATTAAAACGAGGC
65 CAACCAAAATATGAAATATCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGC
** * * *
127700924 AATATTTTGTGTTTGGGAGTTTGAGAGATCGTGCCCAATCGTGGTGGGTTTCGA-TTTTTCATTC
1 AATATTTTGTGTTTGAAAGTTTGAGAAATCGTGCCCAACCGTGCTGGGTTTCGACTTTTTCATTC
* * * * * *
127700988 GACTAAAATAT-AGAATATCCTTTTGAAATTTCATCCGTGTTTTCTTAAATAAAAATGAGGC
66 AACCAAAATATGA-AATATCCTTGTGAAATTTCATCCATG--TTCCTAAATAAAAACGAGGC
127701049 AATATTT
1 AATATTT
127701056 CGTATTTAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
122 1 0.01
123 41 0.37
125 70 0.62
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (124 bp):
AATATTTTGTGTTTGAAAGTTTGAGAAATCGTGCCCAACCGTGCTGGGTTTCGACTTTTTCATTC
AACCAAAATATGAAATATCCTTGTGAAATTTCATCCATGTTCCTAAATAAAAACGAGGC
Found at i:127701856 original size:29 final size:30
Alignment explanation
Indices: 127701794--127701876 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 30
127701784 AAGGGGAAAC
* * * * *
127701794 AAAGGATTAAATTGAAAACATAACAAAATTT
1 AAAGGACTAAATT-AAAAGAAAATAAAATAT
* *
127701825 AAA-GTCTAAATTACAAGAAAATAAAATAT
1 AAAGGACTAAATTAAAAGAAAATAAAATAT
*
127701854 AAAGGACTAAATTAAAATAAAAT
1 AAAGGACTAAATTAAAAGAAAAT
127701877 GGAAAATACA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
29 15 0.37
30 23 0.56
31 3 0.07
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.24
Consensus pattern (30 bp):
AAAGGACTAAATTAAAAGAAAATAAAATAT
Found at i:127707100 original size:26 final size:25
Alignment explanation
Indices: 127707027--127707114 Score: 88
Period size: 26 Copynumber: 3.5 Consensus size: 25
127707017 ACCGACTATG
* *
127707027 TATAAAA-ATACATACATGAAATAG
1 TATAAAATATATATACATGAAATAA
***
127707051 TATAAAATATATATACAACTAATAA
1 TATAAAATATATATACATGAAATAA
*
127707076 TATAAATATATATATATATGAAATAA
1 TATAAA-ATATATATACATGAAATAA
*
127707102 CAATAAAATATAT
1 -TATAAAATATAT
127707115 GAATAGTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
24 7 0.14
25 18 0.35
26 21 0.41
27 5 0.10
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (25 bp):
TATAAAATATATATACATGAAATAA
Found at i:127707110 original size:28 final size:28
Alignment explanation
Indices: 127707057--127707114 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
127707047 ATAGTATAAA
* *
127707057 ATATATATACAACTAATAATATAAATAT
1 ATATATATACAAATAACAATATAAATAT
*
127707085 ATATATATATGAAATAACAATA-AAATAT
1 ATATATATA-CAAATAACAATATAAATAT
127707113 AT
1 AT
127707115 GAATAGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (28 bp):
ATATATATACAAATAACAATATAAATAT
Found at i:127707226 original size:23 final size:25
Alignment explanation
Indices: 127707172--127707226 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
127707162 ATATATATAT
*
127707172 ATATATAATACAATAAAATATACGA
1 ATATATAATACAATAAAATACACGA
* *
127707197 ATAATATAATATAA-AAAATACATG-
1 AT-ATATAATACAATAAAATACACGA
127707221 ATATAT
1 ATATAT
127707227 GAAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 4 0.15
24 2 0.08
25 10 0.38
26 10 0.38
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (25 bp):
ATATATAATACAATAAAATACACGA
Found at i:127707233 original size:75 final size:81
Alignment explanation
Indices: 127707074--127707243 Score: 194
Period size: 80 Copynumber: 2.2 Consensus size: 81
127707064 TACAACTAAT
* * * *
127707074 AATATAAATATATATATATATGAAATAACAATAAAATATATGAATAGTATGATACTTACAAATAC
1 AATATATATATATATATATAT-AAATAACAATAAAATATACGAATAATATAATAC-TACAAATAC
*
127707139 ATACATAATATAATTAAA
64 ATACATAATATAATAAAA
127707157 AATATATATATATATATATAT-AAT-ACAATAAAATATACGAATAATATAATA-TA-AAA-A-AT
1 AATATATATATATATATATATAAATAACAATAAAATATACGAATAATATAATACTACAAATACAT
*
127707216 ACATGATAT-ATGAAAA
66 ACATAATATAAT-AAAA
*
127707232 AAAATATA-ATAT
1 AATATATATATAT
127707244 TTTTTAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
74 6 0.08
75 20 0.25
76 1 0.01
77 3 0.04
78 2 0.03
80 24 0.30
81 3 0.04
83 20 0.25
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (81 bp):
AATATATATATATATATATATAAATAACAATAAAATATACGAATAATATAATACTACAAATACAT
ACATAATATAATAAAA
Found at i:127707326 original size:29 final size:28
Alignment explanation
Indices: 127707294--127707348 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
127707284 AAAAATAAAA
127707294 ATAATGAAGA-AATGAGCAAAATAATATAC
1 ATAAT-AAGATAATGAG-AAAATAATATAC
*
127707323 ATAATAATATAATGAGAAAATAATAT
1 ATAATAAGATAATGAGAAAATAATAT
127707349 TTTTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.25
Consensus pattern (28 bp):
ATAATAAGATAATGAGAAAATAATATAC
Found at i:127707540 original size:3 final size:3
Alignment explanation
Indices: 127707532--127707605 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
127707522 TAAATATGAT
127707532 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
127707580 ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
127707606 TTATTAGAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 68 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:127707830 original size:3 final size:3
Alignment explanation
Indices: 127707822--127707941 Score: 68
Period size: 3 Copynumber: 39.0 Consensus size: 3
127707812 AATATTATAT
*
127707822 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GA-A ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA -ATA ATA ATA ATA -A-TA
* ** * * *
127707870 A-A ATA ATA ATA TTTA ATA AGC AGA ATA TTA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
127707915 ATA ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA
127707942 TTAGGAATGA
Statistics
Matches: 91, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
2 5 0.05
3 76 0.84
4 7 0.08
5 3 0.03
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:127707854 original size:16 final size:16
Alignment explanation
Indices: 127707824--127707880 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
127707814 TATTATATAT
127707824 AATAATAAT-ACTAGA
1 AATAATAATAACTAGA
127707839 AATAATAATAACTAGA
1 AATAATAATAACTAGA
*
127707855 AATAATAATACATTA-A
1 AATAATAATA-ACTAGA
127707871 AATAATAATA
1 AATAATAATA
127707881 TTTAATAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 9 0.23
16 27 0.69
17 3 0.08
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (16 bp):
AATAATAATAACTAGA
Found at i:127707926 original size:15 final size:15
Alignment explanation
Indices: 127707824--127707929 Score: 81
Period size: 15 Copynumber: 6.5 Consensus size: 15
127707814 TATTATATAT
*
127707824 AATAATAATACTAGA
1 AATAATAATAATAGA
127707839 AATAATAATAACTAGA
1 AATAATAATAA-TAGA
127707855 AATAATAATACATTA-A
1 AATAATAATA-A-TAGA
127707871 AATAATAATATTTAATAAGCA
1 AATAAT-A-A--TAAT-AG-A
*
127707892 GAATATTAATAATA-A
1 -AATAATAATAATAGA
127707907 CAATAATAATAATAGA
1 -AATAATAATAATAGA
127707923 AATAATA
1 AATAATA
127707930 GTATTAATAA
Statistics
Matches: 75, Mismatches: 5, Indels: 22
0.74 0.05 0.22
Matches are distributed among these distances:
15 30 0.40
16 22 0.29
17 5 0.07
18 6 0.08
19 2 0.03
20 3 0.04
21 2 0.03
22 5 0.07
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (15 bp):
AATAATAATAATAGA
Found at i:127708458 original size:19 final size:20
Alignment explanation
Indices: 127708423--127708461 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
127708413 TAAAAAAAAA
127708423 AAGAGAGAAGAAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
*
127708443 AAGAGAG-AGGAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
127708462 GGAAAGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (20 bp):
AAGAGAGAAGAAGGGAGAGG
Found at i:127708619 original size:2 final size:2
Alignment explanation
Indices: 127708612--127708646 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
127708602 ATATGTTCTA
127708612 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127708647 GGTGAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:127710020 original size:87 final size:87
Alignment explanation
Indices: 127709912--127710907 Score: 1161
Period size: 87 Copynumber: 11.5 Consensus size: 87
127709902 ACATGTAACT
* * *
127709912 CGAGGCTTAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
127709977 TTGAAATTACCTCAGCGTGCCC
66 TTGAAATTACCTCAGCGTGCCC
*
127709999 CGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTG-AAAACAGAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
*
127710063 TTAAAATTACCTCAGCGTGCCC
66 TTGAAATTACCTCAGCGTGCCC
* *
127710085 CGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAT
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
*
127710150 TTGAAATTACCTCAGCGTGTCC
66 TTGAAATTACCTCAGCGTGCCC
* *
127710172 TGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAATAGAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
127710237 TTGAAATTACCTCAGCGTGCCC
66 TTGAAATTACCTCAGCGTGCCC
* * *
127710259 CGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAATAGAAT
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
*
127710324 TTGAAATTACCTCAGCGTGTCC
66 TTGAAATTACCTCAGCGTGCCC
* *
127710346 TGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAT
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
**
127710411 TTGAAATTACCTCAGCGTGTTC
66 TTGAAATTACCTCAGCGTGCCC
* * * ** *
127710433 TGAGGCTCAACTCACCTCTCGCAATATGAGTAGA-AATT--AAAGATAGAATTTG---AAC----
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAG-TAGAAATTGAAAAACAGAA
** ** * *
127710488 A-T--ACCT-CGGCA-TGTGGCC
65 ATTGAAATTACCTCAGCGTGCCC
* * *
127710506 CGAGGCTCAACTCACTTCTCGCAATATGAATTGATATTTTTTGAAAAATAGAATTTG-AAAACAG
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTG--A-TTTTTGAAAAGTAGAAATTGAAAAACAG
** * * *
127710570 ATTTTGAACA-TACTTCGGCATGTGGCC
63 AAATTGAA-ATTACCTCAGC--GTGCCC
* * * * * *
127710597 CGAGGCTCAACTC-TCTCTCGCAATATGAGTTGATTTTTCTGAAAAGCATAAGTTGGAAAAC-GA
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTT-TGAAAAGTAGAAATTGAAAAACAG-
* *
127710660 AAATTGAAAATACCTCAGCGGGCCC
63 AAATTGAAATTACCTCAGCGTGCCC
* * * * *
127710685 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CATAAATTGAAAAGCAGAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGA-AAAGTAGAAATTGAAAAACAGAA
* * *
127710749 TTTGAAAATACCTCAGCGTGTCC
65 ATTGAAATTACCTCAGCGTGCCC
* * * * *
127710772 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAAAAAAAT
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTGAAAAGTAGAAATTG----AAAAAC
127710837 AGAAATTGAAATTACCTCAGCGTGCCC
61 AGAAATTGAAATTACCTCAGCGTGCCC
*
127710864 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAA
127710908 CTGAAATAAA
Statistics
Matches: 799, Mismatches: 75, Indels: 66
0.85 0.08 0.07
Matches are distributed among these distances:
73 33 0.04
74 3 0.00
75 3 0.00
77 3 0.00
78 9 0.01
79 3 0.00
80 3 0.00
82 3 0.00
84 4 0.01
85 9 0.01
86 87 0.11
87 435 0.54
88 47 0.06
89 33 0.04
90 34 0.04
91 29 0.04
92 61 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (87 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAA
TTGAAATTACCTCAGCGTGCCC
Found at i:127710228 original size:14 final size:14
Alignment explanation
Indices: 127710209--127710242 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
127710199 GAATTGATTT
*
127710209 TTGAAAAGTAGAAA
1 TTGAAAAATAGAAA
127710223 TTGAAAAATAGAAA
1 TTGAAAAATAGAAA
127710237 TTGAAA
1 TTGAAA
127710243 TTACCTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:127710315 original size:14 final size:14
Alignment explanation
Indices: 127710296--127710329 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
127710286 GAATTGATTT
*
127710296 TTGAAAAGTAGAAA
1 TTGAAAAATAGAAA
*
127710310 TTGAAAAATAGAAT
1 TTGAAAAATAGAAA
127710324 TTGAAA
1 TTGAAA
127710330 TTACCTCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:127710721 original size:339 final size:333
Alignment explanation
Indices: 127710128--127710802 Score: 896
Period size: 339 Copynumber: 2.0 Consensus size: 333
127710118 ATTTTTGAAA
* *
127710128 AGTAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
1 AGTAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCG
* *
127710193 CAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAATAGAAATTGAAATTACCTCAGCGTGCC
66 CAATATGAATTGATTTTTGAAAAATAGAAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGCC
* *
127710258 CCGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAATAGAA
131 CCGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGCAGAAATTGAAAAAGAGAA
* * * *
127710323 TTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGA-
196 ATTGAAAATACCTCAGCGGGCCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAC
* * *
127710387 AAAGTAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCT
261 AAA-CAGAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
127710452 CGCAATATG
325 CGCAATATG
* * * *
127710461 AGTAGAAATT-AAAGATAGAATTTGAACA-TACCTCGGCATGTGGCCCGAGGCTCAACTCACTTC
1 AGTAGAAATTGAAAAACAGAATTTGAA-ATTACCTCAGC--GTGGCCCGAGGCTCAACTCACCTC
* ** * *
127710524 TCGCAATATGAATTGATATTTTTTGAAAAATAGAATTTG-AAAACAGATTTTGAACA-TACTTCG
63 TCGCAATATGAATTG--A-TTTTTGAAAAATAGAAATTGAAAAACAGAAATTGAA-ATTACCTCA
* * * * * *
127710587 GCATGTGGCCCGAGGCTCAACTC-TCTCTCGCAATATGAGTTGATTTTTCTGAAAAGCATAAGTT
124 GC--GTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAATTGA-TTTT-TGAAAAGCAGAAATT
* *
127710651 GGAAAACGA-AAATTGAAAATACCTCAGCGGGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
185 -GAAAAAGAGAAATTGAAAATACCTCAGCGGGCCCTGAGGCTCAACTCACCTCTCGCAATATGAA
* *
127710715 TTGATTTTTGACAAACATAAATTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTC
249 TTGATTTTTGACAAACAGAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTC
127710780 AACTCACCTCTCGCAATATG
314 AACTCACCTCTCGCAATATG
127710800 AGT
1 AGT
127710803 TGATTTTTTG
Statistics
Matches: 297, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
332 22 0.07
333 11 0.04
334 36 0.12
336 20 0.07
337 37 0.12
338 21 0.07
339 141 0.47
340 9 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (333 bp):
AGTAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGGCCCGAGGCTCAACTCACCTCTCG
CAATATGAATTGATTTTTGAAAAATAGAAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGCC
CCGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGCAGAAATTGAAAAAGAGAA
ATTGAAAATACCTCAGCGGGCCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAC
AAACAGAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATG
Found at i:127710767 original size:426 final size:419
Alignment explanation
Indices: 127710042--127710894 Score: 1135
Period size: 426 Copynumber: 2.0 Consensus size: 419
127710032 ATTTTTGAAA
127710042 AGTAGAAATTGAAAACAGAAATTAAAATTACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGC
1 AGTAGAAATTGAAAACAGAAATTAAAATTACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGC
* *
127710107 AATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGTCC
66 AATATGAATTGATTTTTGAAAAATAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGGCC
* * *
127710172 TGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAATAGAAA
131 CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGCAGAAATTGAAAAAGAGAAA
* *
127710237 TTGAAATTACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAA
196 TTGAAAATACCTCAGCGGGCCCCGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAA
* ** *
127710302 AGTAGAAATTGAAAAATAGAATTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
261 AGCAGAAATTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* * **
127710367 CAATATGAATTGATTTTTGAAAAGTAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGTT
326 CAATATGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGCC
*
127710432 CTGAGGCTCAACTCACCTCTCGCAATATG
391 CCGAGGCTCAACTCACCTCTCGCAATATG
* * * * * * *
127710461 AGTAGAAATT-AAAGATAGAATTTGAACA-TACCTCGGCATGTGGCCCGAGGCTCAACTCACTTC
1 AGTAGAAATTGAAA-ACAGAAATT-AAAATTACCTCAGC--GTGCCCCGAGGCCCAACTCACCTC
* * * *
127710524 TCGCAATATGAATTGATATTTTTTGAAAAATAGAATTTG-AAAACAGATTTTGAACA-TACTTCG
62 TCGCAATATGAATTG--A-TTTTTGAAAAATAGAAATTGAAAAACAGAATTTGAA-ATTACCTCA
* * * *
127710587 GCATGTGGCCCGAGGCTCAACTC-TCTCTCGCAATATGAGTTGATTTTTCTGAAAAGCATAAGTT
123 GC--GTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTT-TGAAAAGCAGAAATT
* * * *
127710651 GGAAAACGA-AAATTGAAAATACCTCAGCGGGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
184 -GAAAAAGAGAAATTGAAAATACCTCAGCGGGCCCCGAGGCCCAACTCACCTCTCGCAATATGAA
*
127710715 TTGATTTTTGACAAA-CATAAATTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCT
248 TTGATTTTTGA-AAAGCAGAAATTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCT
* * *
127710779 CAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAAAAAAATAGAAATT
312 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGTAGAAATTG----AAAAACAGAAATT
127710844 GAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
372 GAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
127710892 AGT
1 AGT
127710895 TGATTTTTGA
Statistics
Matches: 376, Mismatches: 39, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
418 3 0.01
419 25 0.07
420 3 0.01
421 36 0.10
423 22 0.06
424 37 0.10
425 21 0.06
426 143 0.38
427 27 0.07
431 59 0.16
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (419 bp):
AGTAGAAATTGAAAACAGAAATTAAAATTACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGC
AATATGAATTGATTTTTGAAAAATAGAAATTGAAAAACAGAATTTGAAATTACCTCAGCGTGGCC
CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAGCAGAAATTGAAAAAGAGAAA
TTGAAAATACCTCAGCGGGCCCCGAGGCCCAACTCACCTCTCGCAATATGAATTGATTTTTGAAA
AGCAGAAATTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTGAAAAGTAGAAATTGAAAAACAGAAATTGAAATTACCTCAGCGTGCC
CCGAGGCTCAACTCACCTCTCGCAATATG
Found at i:127710836 original size:18 final size:18
Alignment explanation
Indices: 127710813--127710847 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
127710803 TGATTTTTTG
*
127710813 AAAAATATAAATTGAAAA
1 AAAAATAGAAATTGAAAA
127710831 AAAAATAGAAATTGAAA
1 AAAAATAGAAATTGAAA
127710848 TTACCTCAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAAATAGAAATTGAAAA
Found at i:127710855 original size:179 final size:175
Alignment explanation
Indices: 127710502--127710908 Score: 509
Period size: 179 Copynumber: 2.3 Consensus size: 175
127710492 CTCGGCATGT
* *
127710502 GGCCCGAGGCTCAACTCACTTCTCGCAATATGAATTGATATTTTTTGAAAA-ATAGAATTTGAAA
1 GGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--A-TTTTTGAAAACATAGAATTTGAAA
* * * * *
127710566 ACAGATTTTGAACATACTTCGGCATGTGGCCCGAGGCTCAACTCTCTCTCGCAATATGAGTTGAT
63 ACAGAATTTGAAAATACCTCAGCA-GTGGCCCGAGGCTCAACTCCCTCTCGCAATATGAGTTGAT
* * * *
127710631 TTTTCTGAAAAGCATAAGTTGGAAAACGAAAATTGAAAATACCTCAGCG
127 TTTTCTGAAAAACATAAATTGAAAAAAGAAAATTGAAAATACCTCAGCG
127710680 GGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATA-AA-TTGAAAA
1 GGCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACATAGAATTTGAAAA
* *
127710743 GCAGAATTTGAAAATACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
64 -CAGAATTTGAAAATACCTCAGCAGTGGCCCGAGGCTCAACTC-CCTCTCGCAATATGAGTTGAT
* * *
127710807 TTTT-TGAAAAATATAAATTGAAAAAAAAATAGAAATTGAAATTACCTCAGCG
127 TTTTCTGAAAAACATAAATTG---AAAAAAGA-AAATTGAAAATACCTCAGCG
*
127710859 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
1 -GGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
127710909 TGAAATAAAA
Statistics
Matches: 202, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
175 30 0.15
176 38 0.19
177 24 0.12
178 17 0.08
179 89 0.44
180 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (175 bp):
GGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAGAATTTGAAAACA
GAATTTGAAAATACCTCAGCAGTGGCCCGAGGCTCAACTCCCTCTCGCAATATGAGTTGATTTTT
CTGAAAAACATAAATTGAAAAAAGAAAATTGAAAATACCTCAGCG
Found at i:127719263 original size:4 final size:4
Alignment explanation
Indices: 127719217--127719244 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
127719207 TGGGATATGC
127719217 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
127719245 CATAAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:127723136 original size:19 final size:18
Alignment explanation
Indices: 127723078--127723128 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
127723068 ATATAACTAG
127723078 TAATGTTAAAATATATGCA
1 TAATGTTAAAATAT-TGCA
*
127723097 TAATATATAAAA-A-TGCA
1 TAATGT-TAAAATATTGCA
127723114 TAATGTTAAAATATT
1 TAATGTTAAAATATT
127723129 TACATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 5 0.19
17 10 0.37
18 1 0.04
19 6 0.22
20 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (18 bp):
TAATGTTAAAATATTGCA
Found at i:127723150 original size:34 final size:35
Alignment explanation
Indices: 127723078--127723151 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 35
127723068 ATATAACTAG
* *
127723078 TAATGTTAAAATATATGCATAATATATAAAAATGCA
1 TAATGTTAAAATATATACATAATATAT-AAAATACA
* *
127723114 TAATGTTAAAATATTTACATAATATAT-ACATACA
1 TAATGTTAAAATATATACATAATATATAAAATACA
127723148 TAAT
1 TAAT
127723152 AATAATGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 9 0.26
36 25 0.74
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.36
Consensus pattern (35 bp):
TAATGTTAAAATATATACATAATATATAAAATACA
Found at i:127723328 original size:24 final size:23
Alignment explanation
Indices: 127723251--127723342 Score: 69
Period size: 24 Copynumber: 3.7 Consensus size: 23
127723241 AATAATAAGG
* *
127723251 ATAATATAAAAAATACATACATGAA
1 ATAATAT--AAAATATATATATGAA
*
127723276 ATAGTATAAAA-ATATATATGCAACTA
1 ATAATATAAAATATATATATG--A--A
127723302 ATAATATAAATATATATATATGAA
1 ATAATATAAA-ATATATATATGAA
*
127723326 ATAACAATAAAATATAT
1 ATAA-TATAAAATATAT
127723343 GAATAGTATG
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
22 7 0.13
23 4 0.07
24 12 0.22
25 11 0.20
26 11 0.20
27 1 0.02
28 9 0.16
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.30
Consensus pattern (23 bp):
ATAATATAAAATATATATATGAA
Found at i:127723338 original size:26 final size:28
Alignment explanation
Indices: 127723280--127723342 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
127723270 CATGAAATAG
* *
127723280 TATAAA-A-ATATATATGCAACTAATAA
1 TATAAATATATATATATGCAAATAACAA
127723306 TATAAATATATATATATG-AAATAACAA
1 TATAAATATATATATATGCAAATAACAA
127723333 TA-AAATATAT
1 TATAAATATAT
127723343 GAATAGTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 14 0.42
27 10 0.30
28 9 0.27
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (28 bp):
TATAAATATATATATATGCAAATAACAA
Found at i:127723388 original size:23 final size:23
Alignment explanation
Indices: 127723361--127723457 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 23
127723351 TGATACTTAC
*
127723361 AAATACATACATAATATAATTAA
1 AAATATATACATAATATAATTAA
* *
127723384 AAATATATATATAATACAA-T-A
1 AAATATATACATAATATAATTAA
*
127723405 AAATATATGA-ATAATATAGTATAA
1 AAATATAT-ACATAATATAAT-TAA
* *
127723429 AAA-A-ATACATGATAT-ATGAA
1 AAATATATACATAATATAATTAA
*
127723449 AAAAATATA
1 AAATATATA
127723458 ATATTTTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
20 5 0.08
21 19 0.32
22 13 0.22
23 18 0.31
24 4 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (23 bp):
AAATATATACATAATATAATTAA
Found at i:127723409 original size:21 final size:21
Alignment explanation
Indices: 127723307--127723420 Score: 61
Period size: 23 Copynumber: 4.9 Consensus size: 21
127723297 AACTAATAAT
127723307 ATAAATATATATATATGAAATAACA
1 ATAAA-ATATATATAT--AAT-ACA
127723332 ATAAAATATATGAATAGTATGATAC-
1 ATAAAATATAT--ATA-TA--ATACA
* * * *
127723357 TTACAAATACATACATAATATA
1 ATA-AAATATATATATAATACA
127723379 ATTAAAAATATATATATAATACA
1 A-T-AAAATATATATATAATACA
127723402 ATAAAATATATGA-ATAATA
1 ATAAAATATAT-ATATAATA
127723421 TAGTATAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
21 18 0.25
22 2 0.03
23 19 0.27
24 9 0.13
25 8 0.11
26 12 0.17
27 3 0.04
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAAAATATATATATAATACA
Found at i:127723435 original size:70 final size:73
Alignment explanation
Indices: 127723276--127723438 Score: 176
Period size: 70 Copynumber: 2.3 Consensus size: 73
127723266 CATACATGAA
* * * * *
127723276 ATAGTATAAAAATATATATGCAACTAATAATATAAATATATATATATGAAATAACAATAAAATAT
1 ATAGTATAAAAAAATACATACAAATAATAATATAAAAATATATATAT-AAATAACAATAAAATAT
*
127723341 ATGAATAGT
65 ATGAATAAT
* *
127723350 AT-G-ATACTTACAAATACATACATAAT-ATAAT-TAAAAATATATATAT-AAT-ACAATAAAAT
1 ATAGTATA--AAAAAATACATACA-AATAATAATATAAAAATATATATATAAATAACAATAAAAT
127723409 ATATGAATAAT
63 ATATGAATAAT
127723420 ATAGTATAAAAAAATACAT
1 ATAGTATAAAAAAATACAT
127723439 GATATATGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
70 31 0.42
71 4 0.05
72 6 0.08
73 15 0.20
74 16 0.22
75 2 0.03
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (73 bp):
ATAGTATAAAAAAATACATACAAATAATAATATAAAAATATATATATAAATAACAATAAAATATA
TGAATAAT
Found at i:127723540 original size:29 final size:28
Alignment explanation
Indices: 127723508--127723562 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
127723498 AAATAAAAAA
127723508 ATAATGAAGA-AATGAGTAAAATAATATAC
1 ATAAT-AAGATAATGAG-AAAATAATATAC
*
127723537 ATAATAATATAATGAGAAAATAATAT
1 ATAATAAGATAATGAGAAAATAATAT
127723563 TTTTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.27
Consensus pattern (28 bp):
ATAATAAGATAATGAGAAAATAATATAC
Found at i:127723661 original size:12 final size:12
Alignment explanation
Indices: 127723644--127723670 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
127723634 AAAGTAAATG
127723644 ATATAATAATAA
1 ATATAATAATAA
127723656 ATATAATAATAA
1 ATATAATAATAA
127723668 ATA
1 ATA
127723671 CATATGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATAATAATAA
Found at i:127723900 original size:143 final size:136
Alignment explanation
Indices: 127723753--127724010 Score: 338
Period size: 143 Copynumber: 1.8 Consensus size: 136
127723743 TATAATAATA
* * * *
127723753 ATAATATAATAATATTATTAGAATAAAGTAATTAAAATAATACTATATTTAAAAATGTATATACA
1 ATAATACAATAATAATATTAAAATAAAGTAATTAAAATAATACTATA--T--AAATATATATACA
* *
127723818 TTCATATATAATAAAACATACACTAAGATTA-ATAATAATAACCATACTAGAAATAATGATGAAA
62 -T-ACATAT-ATAAAACATACACTAAGATTATAT-ATAATAACAATACTAGAAATAATGATGAAA
127723882 TATAAAAAGTAAAT
123 TATAAAAAGTAAAT
* * *
127723896 ATAATACAATAGTAATATTAAAATAAAGTAATTAAGATAATACTATATATATATATATACATACA
1 ATAATACAATAATAATATTAAAATAAAGTAATTAAAATAATACTATATAAATATATATACATACA
* *
127723961 TATATAAAACATACACTAATATTATATATAATAATAATACTAGAAATAAT
66 TATATAAAACATACACTAAGATTATATATAATAACAATACTAGAAATAAT
127724011 AATAACTAGA
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
136 41 0.40
137 7 0.07
138 1 0.01
139 11 0.11
141 1 0.01
143 42 0.41
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (136 bp):
ATAATACAATAATAATATTAAAATAAAGTAATTAAAATAATACTATATAAATATATATACATACA
TATATAAAACATACACTAAGATTATATATAATAACAATACTAGAAATAATGATGAAATATAAAAA
GTAAAT
Found at i:127723996 original size:3 final size:3
Alignment explanation
Indices: 127723988--127724107 Score: 68
Period size: 3 Copynumber: 39.0 Consensus size: 3
127723978 AATATTATAT
*
127723988 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GA-A ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA -ATA ATA ATA ATA -A-TA
* ** * * *
127724036 A-A ATA ATA ATA TTTA ATA ACC AGA ATA TTA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
127724081 ATA ATA GA-A ATA ATA GTA TTA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA
127724108 TTAGGAATGA
Statistics
Matches: 90, Mismatches: 16, Indels: 22
0.70 0.12 0.17
Matches are distributed among these distances:
2 5 0.06
3 75 0.83
4 7 0.08
5 3 0.03
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:127724020 original size:16 final size:16
Alignment explanation
Indices: 127723990--127724046 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
127723980 TATTATATAT
127723990 AATAATAAT-ACTAGA
1 AATAATAATAACTAGA
127724005 AATAATAATAACTAGA
1 AATAATAATAACTAGA
*
127724021 AATAATAATACATTA-A
1 AATAATAATA-ACTAGA
127724037 AATAATAATA
1 AATAATAATA
127724047 TTTAATAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 9 0.23
16 27 0.69
17 3 0.08
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (16 bp):
AATAATAATAACTAGA
Found at i:127724150 original size:17 final size:18
Alignment explanation
Indices: 127724128--127724163 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
127724118 TAAAAAACGA
*
127724128 AAATAAAAT-AAATAAAT
1 AAATAAAATGAAAAAAAT
127724145 AAATAAAATGAAAAAAAT
1 AAATAAAATGAAAAAAAT
127724163 A
1 A
127724164 CTAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATAAAATGAAAAAAAT
Found at i:127724688 original size:18 final size:18
Alignment explanation
Indices: 127724648--127724689 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
127724638 AGAGGGGGCT
*
127724648 ACCGGCCACCGGTGGGTC
1 ACCGGCCACCGGTGCGTC
127724666 ACCGGACCACC-GTGCGTC
1 ACCGG-CCACCGGTGCGTC
*
127724684 GCCGGC
1 ACCGGC
127724690 GCCGGCCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.12, C:0.43, G:0.36, T:0.10
Consensus pattern (18 bp):
ACCGGCCACCGGTGCGTC
Found at i:127725634 original size:5 final size:6
Alignment explanation
Indices: 127725606--127725644 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
127725596 ATATAATATG
127725606 AAATTA AAATTA AAATTA AAATT- AAATTA AAATTTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAA-TTA AAA
127725645 AATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:127725838 original size:17 final size:18
Alignment explanation
Indices: 127725790--127725833 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
127725780 CAAAACTGTT
127725790 AAAAAAAAAGCTGAAACGA
1 AAAAAAAAAGCTGAAAC-A
127725809 AAAAAAAAAGCTGAAACA
1 AAAAAAAAAGCTGAAACA
127725827 AAAAAAA
1 AAAAAAA
127725834 GGCTGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.75, C:0.09, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAGCTGAAACA
Found at i:127726031 original size:19 final size:18
Alignment explanation
Indices: 127725999--127726050 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
127725989 TCATTTGGGG
*
127725999 AAGAA-AGAAGAGAAATGA
1 AAGAAGAGAAAAGAAA-GA
127726017 AATG-AGAGAAAAGAAAGA
1 AA-GAAGAGAAAAGAAAGA
127726035 AAGAAGAGAAGAAGAA
1 AAGAAGAGAA-AAGAA
127726051 GGAGCAACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.03
18 13 0.45
19 15 0.52
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (18 bp):
AAGAAGAGAAAAGAAAGA
Found at i:127726586 original size:17 final size:17
Alignment explanation
Indices: 127726566--127726617 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
127726556 CTTAGTGAAA
127726566 AAATAAAATACGAAAAG
1 AAATAAAATACGAAAAG
* * *
127726583 AAATAGAATATGAAAAAT
1 AAATAAAATACG-AAAAG
127726601 ACAATAAAATACGAAAA
1 A-AATAAAATACGAAAA
127726618 ATAGTATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 10 0.36
18 9 0.32
19 9 0.32
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (17 bp):
AAATAAAATACGAAAAG
Found at i:127726611 original size:19 final size:18
Alignment explanation
Indices: 127726566--127726620 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 18
127726556 CTTAGTGAAA
*
127726566 AAATAAAATACG-AAAAG
1 AAATAAAATACGAAAAAT
* *
127726583 AAATAGAATATGAAAAAT
1 AAATAAAATACGAAAAAT
127726601 ACAATAAAATACGAAAAAT
1 A-AATAAAATACGAAAAAT
127726620 A
1 A
127726621 GTATAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 10 0.32
18 5 0.16
19 16 0.52
ACGTcount: A:0.69, C:0.05, G:0.09, T:0.16
Consensus pattern (18 bp):
AAATAAAATACGAAAAAT
Found at i:127726628 original size:19 final size:17
Alignment explanation
Indices: 127726563--127726620 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
127726553 TATCTTAGTG
127726563 AAAA-AATAAAATACGA
1 AAAATAATAAAATACGA
* *
127726579 AAAGA-AATAGAATATGA
1 AAA-ATAATAAAATACGA
127726596 AAAATACAATAAAATACGA
1 AAAAT--AATAAAATACGA
127726615 AAAATA
1 AAAATA
127726621 GTATAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 4 0.12
17 15 0.44
19 15 0.44
ACGTcount: A:0.71, C:0.05, G:0.09, T:0.16
Consensus pattern (17 bp):
AAAATAATAAAATACGA
Found at i:127726794 original size:138 final size:138
Alignment explanation
Indices: 127726626--127727375 Score: 1158
Period size: 138 Copynumber: 5.5 Consensus size: 138
127726616 AAATAGTATA
* * * * *
127726626 AAAATAATATAAAAAATGAAATACAAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTTTAA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
* * * *
127726691 AAATATAAACAAAGGGACAAATTTATGGTTATTTAAAAAACACTAAAATAATACATTTGAAATAT
66 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
*
127726756 TATGTATT
131 TATGTACT
127726764 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC---------AA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
*
127726820 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATATATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
*
127726885 TATATACT
131 TATGTACT
* *
127726893 GAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
*
127726958 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAGAAAACACTAAAATAATACATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
*
127727023 TGTGTACT
131 TATGTACT
* *
127727031 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
* * * *
127727096 AAATACAAACAAATGGACAAAATCAGGGTTATTTTAAAAATACTAAAATAATACATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
127727161 TATGTACT
131 TATGTACT
*
127727169 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
* * * * *
127727234 AAATATAAACAAAGGGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATATATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
127727299 TATGTACT
131 TATGTACT
* * *
127727307 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAGAATCCGAAAACTTTAA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
127727372 AAAT
66 AAAT
127727376 TTTAGAAATA
Statistics
Matches: 568, Mismatches: 35, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
129 121 0.21
138 447 0.79
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.28
Consensus pattern (138 bp):
AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAA
AAATACAAACAAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
TATGTACT
Found at i:127731126 original size:18 final size:18
Alignment explanation
Indices: 127731105--127731139 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
127731095 TCGACCTCTT
127731105 GATCAGTATCACTATCGG
1 GATCAGTATCACTATCGG
127731123 GATCAGTATCACTATCG
1 GATCAGTATCACTATCG
127731140 ACCTCTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
GATCAGTATCACTATCGG
Found at i:127731150 original size:24 final size:24
Alignment explanation
Indices: 127731092--127731151 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 24
127731082 TGTGTTTTTG
127731092 CTATCGACCTCTTGATCAGTATCA
1 CTATCGACCTCTTGATCAGTATCA
*
127731116 CTATCG------GGATCAGTATCA
1 CTATCGACCTCTTGATCAGTATCA
127731134 CTATCGACCTCTTGATCA
1 CTATCGACCTCTTGATCA
127731152 CAAGGATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
18 17 0.61
24 11 0.39
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (24 bp):
CTATCGACCTCTTGATCAGTATCA
Found at i:127733008 original size:11 final size:11
Alignment explanation
Indices: 127732992--127733017 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
127732982 CATGCTTTTT
127732992 ATTTATTTATA
1 ATTTATTTATA
127733003 ATTTATTTATA
1 ATTTATTTATA
127733014 ATTT
1 ATTT
127733018 TGTTTGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTATTTATA
Found at i:127735385 original size:23 final size:23
Alignment explanation
Indices: 127735359--127735402 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
127735349 AAAATGAATT
*
127735359 AAATAATATAA-CAATTTAAAAAA
1 AAATAATA-AAGCAAATTAAAAAA
*
127735382 AAATGATAAAGCAAATTAAAA
1 AAATAATAAAGCAAATTAAAA
127735403 TGAATAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (23 bp):
AAATAATAAAGCAAATTAAAAAA
Found at i:127735562 original size:26 final size:26
Alignment explanation
Indices: 127735524--127735599 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 26
127735514 ATATGTGTAA
* **
127735524 GAAATTTTAAAATAGGTAATATA-GG
1 GAAAGTTTAAAATAAATAATATACGG
*
127735549 CGAAAGTTTGAAATAAATAATATACGG
1 -GAAAGTTTAAAATAAATAATATACGG
* *
127735576 GAAAGAGTTTAAAATGAATTATAT
1 G-AA-AGTTTAAAATAAATAATAT
127735600 GTAAAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 20 0.50
27 4 0.10
28 16 0.40
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.30
Consensus pattern (26 bp):
GAAAGTTTAAAATAAATAATATACGG
Found at i:127735632 original size:28 final size:28
Alignment explanation
Indices: 127735583--127735649 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 28
127735573 CGGGAAAGAG
* * *
127735583 TTTAAAATGAATTATATGTA-AAAT-AA
1 TTTAAAATAAATAATATATATAAATGAA
* *
127735609 TTTAAGATAAATAATATATATAAATGAG
1 TTTAAAATAAATAATATATATAAATGAA
127735637 TTTAAAATAAATA
1 TTTAAAATAAATA
127735650 TTAAGATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 16 0.48
27 4 0.12
28 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.37
Consensus pattern (28 bp):
TTTAAAATAAATAATATATATAAATGAA
Found at i:127735714 original size:2 final size:2
Alignment explanation
Indices: 127735707--127735736 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
127735697 AAATAACTAG
127735707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127735737 AAATAGATAT
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):
TA
Found at i:127738448 original size:40 final size:41
Alignment explanation
Indices: 127738404--127738484 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
127738394 ATACATTAGC
127738404 GGCG-TTTGAAACAAAACGCCACTAAAAACTGAGCAATAGT
1 GGCGTTTTGAAACAAAACGCCACTAAAAACTGAGCAATAGT
* ** *
127738444 GGCGTTTTTATCCAAAACGCCGCTAAAAACTGAGCAATAGT
1 GGCGTTTTGAAACAAAACGCCACTAAAAACTGAGCAATAGT
127738485 AGCCTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 4 0.11
41 32 0.89
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (41 bp):
GGCGTTTTGAAACAAAACGCCACTAAAAACTGAGCAATAGT
Found at i:127738470 original size:41 final size:40
Alignment explanation
Indices: 127738415--127738541 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 40
127738405 GCGTTTGAAA
*
127738415 CAAAACGCCACTAAAAACTGAGCAATAGTGGCGTTTTTATC
1 CAAAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTT-TC
* * *
127738456 CAAAACGCCGCTAAAAACTGAGCAATAGTAGCCTTTTTTT
1 CAAAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTTTC
* *
127738496 CAAAACGCCGCAAAAAATTGAG-ATATAGTGGCGCTTTTGTTC
1 CAAAACGCCGCTAAAAACTGAGCA-ATAGTGGCG-TTTT-TTC
127738538 CAAA
1 CAAA
127738542 TGCCACAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 28 0.38
41 39 0.53
42 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (40 bp):
CAAAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTTTC
Found at i:127738551 original size:41 final size:41
Alignment explanation
Indices: 127738417--127738576 Score: 139
Period size: 41 Copynumber: 3.9 Consensus size: 41
127738407 GTTTGAAACA
*
127738417 AAACGCCACTAAAAACTGAGCAATAGTGGCG-TTTT-TATCC
1 AAACGCCACAAAAAACTGAGCAATAGTGGCGCTTTTGT-TCC
* * * * *
127738457 AAAACGCCGCTAAAAACTGAGCAATAGTAGC-CTTTTTTTCA
1 -AAACGCCACAAAAAACTGAGCAATAGTGGCGCTTTTGTTCC
* *
127738498 AAACGCCGCAAAAAATTGAG-ATATAGTGGCGCTTTTGTTCC
1 AAACGCCACAAAAAACTGAGCA-ATAGTGGCGCTTTTGTTCC
* *** * *
127738539 AAATGCCACAAAAGGTTGAGCTATAGTGGCGGTTTTGT
1 AAACGCCACAAAAAACTGAGCAATAGTGGCGCTTTTGT
127738577 AAAAGCGCCG
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 25 0.25
41 73 0.73
42 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (41 bp):
AAACGCCACAAAAAACTGAGCAATAGTGGCGCTTTTGTTCC
Found at i:127739143 original size:30 final size:29
Alignment explanation
Indices: 127739107--127739163 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
127739097 AAAACGTGAA
*
127739107 GCCTAACCCTTAAATCATAAACCCATGACC
1 GCCTAACCCCTAAATCAT-AACCCATGACC
127739137 GCCTAACCCCTAAATCATAACCCATGA
1 GCCTAACCCCTAAATCATAACCCATGA
127739164 TCTAAACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.37, C:0.37, G:0.07, T:0.19
Consensus pattern (29 bp):
GCCTAACCCCTAAATCATAACCCATGACC
Found at i:127740446 original size:20 final size:20
Alignment explanation
Indices: 127740401--127740452 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
127740391 CCCTACCCAA
*
127740401 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
127740421 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
127740440 ATTTCCCCAAATC
1 ATTTCCCCAAATC
127740453 AAAATCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:127741209 original size:26 final size:25
Alignment explanation
Indices: 127741180--127741288 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 25
127741170 TGATACAAAT
127741180 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
127741206 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
* *
127741232 TGATAATGGGTTAGGTAAATGTTTA
1 TGATAATAGGTTAGGTAAATGTTCA
*
127741257 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
127741283 TGATAA
1 TGATAA
127741289 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 22 0.28
26 55 0.71
27 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:127741278 original size:51 final size:52
Alignment explanation
Indices: 127741180--127741288 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
127741170 TGATACAAAT
127741180 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
* * * *
127741232 TGATAATGGGTTAGGTAAATGTT-TATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
127741283 TGATAA
1 TGATAA
127741289 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 31 0.58
52 22 0.42
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCAATGATAATAGGTTAGGTAAATGTTCCA
Found at i:127742804 original size:26 final size:26
Alignment explanation
Indices: 127742774--127742826 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
127742764 TTTATAGCTT
*
127742774 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
127742800 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
127742826 T
1 T
127742827 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:127745106 original size:14 final size:13
Alignment explanation
Indices: 127745083--127745112 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
127745073 ATTACTATAA
127745083 TAATTATATGAAG
1 TAATTATATGAAG
127745096 TAATATATATGAAG
1 TAAT-TATATGAAG
127745110 TAA
1 TAA
127745113 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:127746190 original size:23 final size:23
Alignment explanation
Indices: 127746160--127746204 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
127746150 ATTAATCAAA
127746160 TGTATGAATTGCAGCCCTTTAAC
1 TGTATGAATTGCAGCCCTTTAAC
*
127746183 TGTATGAATTGCAGCCTTTTAA
1 TGTATGAATTGCAGCCCTTTAA
127746205 ATAAACTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (23 bp):
TGTATGAATTGCAGCCCTTTAAC
Found at i:127746587 original size:9 final size:9
Alignment explanation
Indices: 127746573--127746662 Score: 72
Period size: 9 Copynumber: 9.3 Consensus size: 9
127746563 TAGTTTAAAG
*
127746573 TTACATAAT
1 TTACATAAC
127746582 TTACATAACAAC
1 TTACAT-A--AC
127746594 TTACATAAC
1 TTACATAAC
*
127746603 TCACATAAC
1 TTACATAAC
*
127746612 TTACATAAT
1 TTACATAAC
*
127746621 TTAGATAAC
1 TTACATAAC
*
127746630 TCACATAAC
1 TTACATAAC
*
127746639 GTACATAACAAC
1 TTACAT---AAC
127746651 TTACATAAC
1 TTACATAAC
127746660 TTA
1 TTA
127746663 ACTAATACAT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
9 47 0.73
10 1 0.02
11 1 0.02
12 15 0.23
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:127749928 original size:21 final size:21
Alignment explanation
Indices: 127749904--127749951 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
127749894 TCAACTTAGA
*
127749904 GCGGAGGCAGCAACGCGGGAG
1 GCGGAGGCAGCAACGAGGGAG
*
127749925 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
127749946 GCGGAG
1 GCGGAG
127749952 CAGAACAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAACGAGGGAG
Found at i:127751392 original size:21 final size:22
Alignment explanation
Indices: 127751368--127751411 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
127751358 TTATGGACTC
127751368 TTTTTAT-TACATTATTT-ATGA
1 TTTTTATCTA-ATTATTTAATGA
*
127751389 TTTTTTTCTAATTATTTAATGA
1 TTTTTATCTAATTATTTAATGA
127751411 T
1 T
127751412 ATTTCAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTATCTAATTATTTAATGA
Found at i:127751569 original size:14 final size:14
Alignment explanation
Indices: 127751547--127751585 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
127751537 AGATTTGAGT
*
127751547 TTTAAGATTCAAGG
1 TTTAGGATTCAAGG
* *
127751561 TTTGGGATTCAATG
1 TTTAGGATTCAAGG
127751575 TTTAGGATTCA
1 TTTAGGATTCA
127751586 GGATTCAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (14 bp):
TTTAGGATTCAAGG
Found at i:127753008 original size:6 final size:6
Alignment explanation
Indices: 127752999--127753024 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
127752989 TGACAATGAT
127752999 AACGAA AACGAA AACGAA AACGAA AA
1 AACGAA AACGAA AACGAA AACGAA AA
127753025 TAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AACGAA
Found at i:127753848 original size:21 final size:23
Alignment explanation
Indices: 127753806--127753851 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
127753796 TTAATAGTAA
127753806 TAATAATAACCATATAGGTGATAT
1 TAATAATAACCATATA-GTGATAT
*
127753830 TAATAATAACGATA-A-TGATAT
1 TAATAATAACCATATAGTGATAT
127753851 T
1 T
127753852 TAGAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (23 bp):
TAATAATAACCATATAGTGATAT
Found at i:127754606 original size:11 final size:11
Alignment explanation
Indices: 127754590--127754619 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
127754580 CTTTTTTTAT
127754590 TAATATAGGTA
1 TAATATAGGTA
127754601 TAATATAGGTA
1 TAATATAGGTA
127754612 TATATATA
1 TA-ATATA
127754620 TGCAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (11 bp):
TAATATAGGTA
Found at i:127755929 original size:43 final size:42
Alignment explanation
Indices: 127755803--127756019 Score: 184
Period size: 44 Copynumber: 5.0 Consensus size: 42
127755793 TCAGGGAGAC
* *
127755803 AAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTT
1 AAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTA-GGGGTT
* * * * * * *
127755847 AAGGTCTATCATTATTGA-TCTGTTTCCCTACTGCTTAGGGTGAT
1 AAGATCTGT-A-AATTCAGCCTGTTACCCTACTGCTTAGGG-GTT
* * *
127755891 AAGATCTGCAAATTCAGCTTGTCACCCTACTGCTTAGGGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTA-GGGGTT
** * * * *
127755934 AAAGCCCTTTGAATTCAACCTGTTACCCTATTGCTTAGGGGTTT
1 -AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG-TT
*
127755978 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTT
127756020 TAAGGCTTGG
Statistics
Matches: 131, Mismatches: 35, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
42 6 0.05
43 58 0.44
44 63 0.48
45 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (42 bp):
AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTT
Found at i:127756020 original size:43 final size:43
Alignment explanation
Indices: 127755803--127756023 Score: 185
Period size: 43 Copynumber: 5.1 Consensus size: 43
127755793 TCAGGGAGAC
* * *
127755803 AAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTT
1 AAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGGGGTTT
* * * * * * *
127755847 AAGGTCTAT-CATTATTGATCTGTTTCCCTACTGCTTA-GGGTGAT
1 AAGATCTGTAAATT-TAG-CCTGTTACCCTACTGCTTAGGGGT-TT
* * * * *
127755891 AAGATCTGCAAATTCAGCTTGTCACCCTACTGCTTAGGGGGTTA
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTA-GGGGTTT
** * * * * *
127755935 AAGCCCTTTGAATTCAACCTGTTACCCTATTGCTTAGGGGTTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTT
127755978 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTT
127756021 AAG
1 AAG
127756024 GCTTGGTGAA
Statistics
Matches: 132, Mismatches: 39, Indels: 13
0.72 0.21 0.07
Matches are distributed among these distances:
43 66 0.50
44 59 0.45
45 7 0.05
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (43 bp):
AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTT
Found at i:127756034 original size:87 final size:85
Alignment explanation
Indices: 127755803--127756037 Score: 231
Period size: 87 Copynumber: 2.7 Consensus size: 85
127755793 TCAGGGAGAC
* * * * * * *
127755803 AAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGTCTATCATTATT-GATC
1 AAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CTTTGA--ATTCAACC
*
127755867 TGTTTCCCTACTGCTTAGGGTGAT
62 TGTTACCCTACTGCTTAGGGTGAT
* * * * * *
127755891 AAGATCTGCAAATTCAGCTTGTCACCCTACTGCTTAGGGGGTTAAAGCCCTTTGAATTCAACCTG
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTA-GGGGTTTAAG-GCTTTGAATTCAACCTG
* *
127755956 TTACCCTATTGCTTAGGG-GTTT
64 TTACCCTACTGCTTAGGGTG-AT
127755978 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGGTGAATTCA
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTT--TGAATTCA
127756038 CTGATTCTAG
Statistics
Matches: 119, Mismatches: 22, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
85 3 0.03
86 13 0.11
87 79 0.66
88 24 0.20
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (85 bp):
AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTTGAATTCAACCTGTT
ACCCTACTGCTTAGGGTGAT
Found at i:127764061 original size:11 final size:11
Alignment explanation
Indices: 127764045--127764081 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
127764035 TTAGTGCGTA
127764045 TGATGCAATGC
1 TGATGCAATGC
127764056 TGATGC-ATG-
1 TGATGCAATGC
127764065 -GATGCAATGC
1 TGATGCAATGC
127764075 TGATGCA
1 TGATGCA
127764082 TGAATGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.22
9 3 0.13
10 3 0.13
11 12 0.52
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (11 bp):
TGATGCAATGC
Found at i:127764070 original size:19 final size:19
Alignment explanation
Indices: 127764046--127764092 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
127764036 TAGTGCGTAT
127764046 GATGCAATGCTGATGCATG
1 GATGCAATGCTGATGCATG
127764065 GATGCAATGCTGATGCATG
1 GATGCAATGCTGATGCATG
*
127764084 AATGCAATG
1 GATGCAATG
127764093 AATGCGATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (19 bp):
GATGCAATGCTGATGCATG
Found at i:127767877 original size:6 final size:6
Alignment explanation
Indices: 127767868--127767899 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
127767858 TGACAATGAT
127767868 AACGAA AACGAA AACGAA AACGAA AACGAA AA
1 AACGAA AACGAA AACGAA AACGAA AACGAA AA
127767900 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
AACGAA
Found at i:127768723 original size:21 final size:23
Alignment explanation
Indices: 127768681--127768726 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
127768671 TTAATAGTAA
127768681 TAATAATAACCATATAGGTGATAT
1 TAATAATAACCATATA-GTGATAT
*
127768705 TAATAATAACGATA-A-TGATAT
1 TAATAATAACCATATAGTGATAT
127768726 T
1 T
127768727 TAGAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (23 bp):
TAATAATAACCATATAGTGATAT
Found at i:127771396 original size:28 final size:26
Alignment explanation
Indices: 127771355--127771406 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
127771345 TCTCGTCTTC
127771355 TTTTTTATTTTA-TTTCTTGTTTTCTG
1 TTTTTTATTTTATTTTC-TGTTTTCTG
127771381 TTTTCTTATTTTTATTTTCTGTTTTC
1 TTTT-TTA-TTTTATTTTCTGTTTTC
127771407 AAATTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 4 0.17
27 3 0.13
28 12 0.52
29 4 0.17
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.77
Consensus pattern (26 bp):
TTTTTTATTTTATTTTCTGTTTTCTG
Found at i:127771400 original size:21 final size:22
Alignment explanation
Indices: 127771364--127771406 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
127771354 CTTTTTTATT
*
127771364 TTATTTCTTGTTTTCTGTTTTC
1 TTATTTCTTATTTTCTGTTTTC
127771386 TTATTT-TTATTTTCTGTTTTC
1 TTATTTCTTATTTTCTGTTTTC
127771407 AAATTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (22 bp):
TTATTTCTTATTTTCTGTTTTC
Found at i:127772263 original size:2 final size:2
Alignment explanation
Indices: 127772256--127772284 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127772246 GTTTGTTTGC
127772256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
127772285 TATTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:127773869 original size:25 final size:27
Alignment explanation
Indices: 127773832--127773884 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
127773822 TCAAACATGC
127773832 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
127773858 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
127773884 A
1 A
127773885 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:127775398 original size:26 final size:26
Alignment explanation
Indices: 127775362--127775445 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
127775352 CATGAAATTC
127775362 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
127775388 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127775414 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127775440 TTATCA
1 TTATCA
127775446 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:127778190 original size:136 final size:137
Alignment explanation
Indices: 127777946--127778219 Score: 523
Period size: 136 Copynumber: 2.0 Consensus size: 137
127777936 AGCCCATTCA
127777946 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
127778011 ACATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCC
66 ACATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
127778075 CATTTGG
131 CATTTGG
127778082 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
* *
127778147 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 ACATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
127778212 CATTTGG
131 CATTTGG
127778219 G
1 G
127778220 GAGACTAATC
Statistics
Matches: 135, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 113 0.84
137 22 0.16
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
ACATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
CATTTGG
Found at i:127778504 original size:25 final size:27
Alignment explanation
Indices: 127778467--127778520 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
127778457 TCAAACATGC
127778467 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
127778493 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
127778519 AT
1 AT
127778521 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:127780015 original size:26 final size:26
Alignment explanation
Indices: 127779979--127780114 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
127779969 CATGATATTC
127779979 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
127780005 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127780031 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
127780057 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
127780083 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
127780109 TTATCA
1 TTATCA
127780115 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:127780811 original size:21 final size:23
Alignment explanation
Indices: 127780760--127780811 Score: 54
Period size: 26 Copynumber: 2.2 Consensus size: 23
127780750 TTCATGTGTA
127780760 ATATTTAATTTAAACTGTTTTAT
1 ATATTTAATTTAAACTGTTTTAT
*
127780783 ATGTTATTTACTTTAAA-T-TTTTAT
1 A---TATTTAATTTAAACTGTTTTAT
127780807 ATATT
1 ATATT
127780812 ATTTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
21 4 0.16
23 1 0.04
24 7 0.28
25 1 0.04
26 12 0.48
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (23 bp):
ATATTTAATTTAAACTGTTTTAT
Found at i:127780833 original size:28 final size:24
Alignment explanation
Indices: 127780761--127780826 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
127780751 TCATGTGTAA
* *
127780761 TATTTAATTTAAACTGTTTTATATGT
1 TATTTACTTTAAA-T-TTTTATATAT
127780787 TATTTACTTTAAATTTTTATATAT
1 TATTTACTTTAAATTTTTATATAT
*
127780811 TATTTATTTTAAATTT
1 TATTTACTTTAAATTT
127780827 CTTTTTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 24 0.65
25 1 0.03
26 12 0.32
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (24 bp):
TATTTACTTTAAATTTTTATATAT
Found at i:127780893 original size:22 final size:23
Alignment explanation
Indices: 127780853--127780903 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
127780843 ACTTTGAGCC
* *
127780853 TCTTAATATTTATTTTAAA-TT-
1 TCTTTATATTTATTCTAAACTTG
127780874 TCTTTATATATTATTCTAAACTTG
1 TCTTTATAT-TTATTCTAAACTTG
127780898 TCTTTA
1 TCTTTA
127780904 CGTATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 2 0.08
24 6 0.24
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (23 bp):
TCTTTATATTTATTCTAAACTTG
Found at i:127783724 original size:15 final size:16
Alignment explanation
Indices: 127783704--127783804 Score: 65
Period size: 15 Copynumber: 6.3 Consensus size: 16
127783694 GATAAATAAA
127783704 ATAAAAATAT-ATATG
1 ATAAAAATATAATATG
127783719 ATAAAATGTATATAATAT-
1 ATAAAA---ATATAATATG
*
127783737 ATAAAAAATATCATATGG
1 AT-AAAAATATAATAT-G
127783755 AGT-AAAATATAATATG
1 A-TAAAAATATAATATG
127783771 -TAATAAA-ATAATATG
1 ATAA-AAATATAATATG
127783786 A-AAACAA-ATAATAT-
1 ATAAA-AATATAATATG
127783800 ATAAA
1 ATAAA
127783805 TATAGTGAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 26
0.72 0.02 0.26
Matches are distributed among these distances:
14 3 0.04
15 29 0.41
16 12 0.17
17 11 0.15
18 7 0.10
19 9 0.13
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (16 bp):
ATAAAAATATAATATG
Found at i:127783763 original size:17 final size:17
Alignment explanation
Indices: 127783728--127783780 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
127783718 GATAAAATGT
**
127783728 ATATAATATATAA-AAA
1 ATATAATATGGAATAAA
* *
127783744 ATATCATATGGAGTAAA
1 ATATAATATGGAATAAA
*
127783761 ATATAATATGTAATAAA
1 ATATAATATGGAATAAA
127783778 ATA
1 ATA
127783781 ATATGAAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (17 bp):
ATATAATATGGAATAAA
Found at i:127785259 original size:17 final size:17
Alignment explanation
Indices: 127785237--127785269 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
127785227 GTATTCGAGC
127785237 TTGGGT-GTAACCGGGTT
1 TTGGGTAGTAA-CGGGTT
127785254 TTGGGTAGTAACGGGT
1 TTGGGTAGTAACGGGT
127785270 CTGCTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.09, G:0.42, T:0.33
Consensus pattern (17 bp):
TTGGGTAGTAACGGGTT
Found at i:127790339 original size:17 final size:18
Alignment explanation
Indices: 127790291--127790338 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
127790281 AAATTTAAAG
127790291 AAATATATAAAAATACAT
1 AAATATATAAAAATACAT
*
127790309 AAATATTTAAAAATACAT
1 AAATATATAAAAATACAT
127790327 ATAATA-ATAAAA
1 A-AATATATAAAA
127790339 TTTAAAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATATAAAAATACAT
Found at i:127792922 original size:21 final size:21
Alignment explanation
Indices: 127792893--127792940 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
127792883 TTTCTTTTTA
*
127792893 ATTTCTACAATTAATTTTAAT
1 ATTTATACAATTAATTTTAAT
* * **
127792914 ATTTATACAGTTGATTTTTTT
1 ATTTATACAATTAATTTTAAT
127792935 ATTTAT
1 ATTTAT
127792941 TATTATTCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTATACAATTAATTTTAAT
Found at i:127795118 original size:33 final size:33
Alignment explanation
Indices: 127795076--127795140 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
127795066 AGAGGATCTT
127795076 AGAATATGAT-ATTTAAAAT-GGAATTTGATTCTG
1 AGAATATGATCA-TTAAAATAGG-ATTTGATTCTG
*
127795109 AGAATATGATCATTAGAATAGGATTTGATTCT
1 AGAATATGATCATTAAAATAGGATTTGATTCT
127795141 TTAATGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (33 bp):
AGAATATGATCATTAAAATAGGATTTGATTCTG
Done.