Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 163 of 318
Found at i:51599557 original size:68 final size:64
Alignment explanation
Indices: 51599313--51599565 Score: 174
Period size: 68 Copynumber: 3.9 Consensus size: 64
51599303 CATAATTTAG
** * * * ** * *
51599313 GCTCTCTTGTAAACATGGTGAACACTTAGCACCACCCATGTGACCTAGC--CAGTTTAT-CTCGT
1 GCTCTCTTGTCTACATGATGTACACATAGCACCATACATGCGACCTAGCTACA-TATATCCT-GT
51599375 A
64 A
* * * * *
51599376 GCTCTCTTGTCTACATGGTGTCCTTTACCTAGAACCATGCATGCGACCTAGCTACATATATCCTG
1 GCTCTCTTGTCTACATGATGTAC---ACATAGCACCATACATGCGACCTAGCTACATATATCCTG
51599441 TA
63 TA
* * * ** *
51599443 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACATCATAATGCCTC
1 GCTCTCTTGTCTACATGATGTACACATAGCACCATACATGCGACCTAGCTACAT-AT-AT-CCT-
51599508 GTA
62 GTA
* *
51599511 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGATGTACACAT-AGCACCATACATGCGACCTAGCTACATA
51599566 CCATCTGTAT
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
63 19 0.12
64 25 0.16
65 2 0.01
66 23 0.15
67 34 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGATGTACACATAGCACCATACATGCGACCTAGCTACATATATCCTGTA
Found at i:51607667 original size:6 final size:6
Alignment explanation
Indices: 51607656--51607760 Score: 101
Period size: 6 Copynumber: 17.3 Consensus size: 6
51607646 AACCAAAATG
* *
51607656 AGAATC AGAATC AAAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
51607704 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
51607753 AGAATC AG
1 AGAATC AG
51607761 TACTAGTAAC
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
5 6 0.07
6 69 0.84
7 5 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:51607670 original size:18 final size:18
Alignment explanation
Indices: 51607635--51607759 Score: 78
Period size: 18 Copynumber: 6.9 Consensus size: 18
51607625 AAGAAACATT
** *
51607635 ATCAGAATTGGAACCAAA
1 ATCAGAATCAGAATCAAA
*
51607653 ATGAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAAA
*
51607671 ATCAGTAA-CAGAATCAGA
1 ATCAG-AATCAGAATCAAA
* *
51607689 ATCAGAATCA-ATATTAGTA
1 ATCAGAATCAGA-ATCA-AA
*
51607708 A-CAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAAA
* * *
51607725 ATCAGAATTAG-GTGACAGA
1 ATCAGAATCAGAAT--CAAA
51607744 ATCAGAATCAGAATCA
1 ATCAGAATCAGAATCA
51607760 GTACTAGTAA
Statistics
Matches: 84, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
17 6 0.07
18 58 0.69
19 19 0.23
20 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:51607692 original size:30 final size:30
Alignment explanation
Indices: 51607656--51607781 Score: 155
Period size: 30 Copynumber: 4.2 Consensus size: 30
51607646 AACCAAAATG
51607656 AGAATCAGAATCAAAATCAGTAACAGAATC
1 AGAATCAGAATCAAAATCAGTAACAGAATC
* *
51607686 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAAAATCAGTAACAGAATC
* * *
51607716 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAAAATCA-GTAACAGAATC
** *
51607747 AGAATCAGAATCAGTA-CTAGTAACAGAATT
1 AGAATCAGAATCAAAATC-AGTAACAGAATC
51607777 AGAAT
1 AGAAT
51607782 TACGTGACAG
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 59 0.69
31 26 0.31
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAAAATCAGTAACAGAATC
Found at i:51607749 original size:25 final size:24
Alignment explanation
Indices: 51607715--51607806 Score: 116
Period size: 25 Copynumber: 3.8 Consensus size: 24
51607705 GTAACAGAAT
51607715 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTA-GTGA
*
51607740 CAGAATCAGAATCAGAATCAGT-A
1 CAGAATCAGAATCAGAATTAGTGA
*
51607763 CTAGTAA-CAGAATTAGAATTACGTGA
1 C-AG-AATCAGAATCAGAATTA-GTGA
51607789 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
51607807 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
23 2 0.03
24 18 0.31
25 36 0.62
26 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.21
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATTAGTGA
Found at i:51608195 original size:22 final size:22
Alignment explanation
Indices: 51608163--51608220 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
51608153 TAAATACGTT
*
51608163 TGGCACGAAGCCATATTCAAGA
1 TGGCACAAAGCCATATTCAAGA
* * *
51608185 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATATTCAAGA
*
51608207 TGGCACAGAGCCAT
1 TGGCACAAAGCCAT
51608221 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (22 bp):
TGGCACAAAGCCATATTCAAGA
Found at i:51608581 original size:27 final size:28
Alignment explanation
Indices: 51608519--51608582 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
51608509 CAGTCACTTG
*
51608519 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
51608547 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
51608573 CCCACAAGGG
1 CCCACAAGGG
51608583 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:51608592 original size:27 final size:27
Alignment explanation
Indices: 51608562--51608756 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
51608552 AGGGCAAAAT
* * *
51608562 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
51608589 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51608615 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51608642 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51608669 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51608696 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51608723 GGAAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51608750 AGTAATT
1 GGTAATT
51608757 TCACAATCAA
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.17
27 121 0.83
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:51608791 original size:27 final size:27
Alignment explanation
Indices: 51608761--51609276 Score: 550
Period size: 27 Copynumber: 19.2 Consensus size: 27
51608751 GTAATTTCAC
* * *
51608761 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51608788 AATCGAGGGTAAAA-GGATAATTTTGTA
1 AATCGAGGGTAAAACGG-TAATTCTGTA
* * *
51608815 AA-CTGAGGGT-AACCTAGTAATTCTATA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
** * **
51608842 AATTAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51608869 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51608896 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
51608923 AA-CTTAGGCTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
51608950 AATCGAGGGTAAAATTGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51608977 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
51609004 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51609031 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
51609058 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51609085 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
51609112 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51609139 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
51609166 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51609193 AATCGAGGGTAAAACGGTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
* *
51609219 AATCGAGGGT-AAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51609245 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
51609272 AATCG
1 AATCG
51609277 GGAGTACTTT
Statistics
Matches: 416, Mismatches: 53, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
25 12 0.03
26 31 0.07
27 364 0.88
28 9 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:51608904 original size:108 final size:107
Alignment explanation
Indices: 51608751--51609275 Score: 666
Period size: 108 Copynumber: 4.9 Consensus size: 107
51608741 GGGTATTTCA
* * * * *
51608751 GTAATTTCAC-AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA-GGATAATTTTGT
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTGT
* * *
51608814 AAACTGAGGGTAACCTAGTAATTCTATAAATTAAGGGTAAAACG
65 AAACTGAGGGTAAAC-GGTAATTCTATAAATCAAGGGTAAAACG
*
51608858 GTAATTTTACAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
* * * **
51608923 AACTTAGGCTAAAACGGTAATTCTATAAATCGAGGGTAAAATT
66 AACTGAGGGT-AAACGGTAATTCTATAAATCAAGGGTAAAACG
* *
51608966 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
*
51609031 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAA-GGTAAAACG
66 AACTGAGGGT-AAACGGTAATTCTATAAATC-AAGGGTAAAACG
**
51609074 GTAATTTTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
1 GTAATTTTACAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
* *
51609138 AAACTGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACG
65 AAACTGAGGGT-AAACGGTAATTCTATAAATCAAGGGTAAAACG
* * ** * ** *
51609182 ATAATTCTGTAAATCGAGGGTAAAACGGTAATTTTA-AAATCGAGGGT-AAATGGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
*
51609245 AACTGAGGGTAAAACGGTAATTCTGTAAATC
66 AACTGAGGGT-AAACGGTAATTCTATAAATC
51609276 GGGAGTACTT
Statistics
Matches: 378, Mismatches: 33, Indels: 15
0.89 0.08 0.04
Matches are distributed among these distances:
106 43 0.11
107 23 0.06
108 306 0.81
109 6 0.02
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (107 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
AACTGAGGGTAAACGGTAATTCTATAAATCAAGGGTAAAACG
Found at i:51611303 original size:6 final size:6
Alignment explanation
Indices: 51611292--51611466 Score: 114
Period size: 6 Copynumber: 28.8 Consensus size: 6
51611282 AACCAAAATG
* * *
51611292 AGAATC AGAATC AGAATC AGTAA-C ATAATC AAAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
51611340 AGTAA-C AGAATC AGAA-C TAGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC -AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
51611389 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AAAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
51611437 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
51611467 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
5 12 0.09
6 106 0.80
7 11 0.08
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:51611328 original size:30 final size:30
Alignment explanation
Indices: 51611292--51611441 Score: 154
Period size: 30 Copynumber: 5.2 Consensus size: 30
51611282 AACCAAAATG
*
51611292 AGAATCAGAATCAGAATCAGTAACATAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* *
51611322 AAAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGTAACAGAATC
*
51611352 AGAA-CTAGAATCAGAATTAGGT----G-A-C
1 AGAATC-AGAATCAGAATCA-GTAACAGAATC
51611377 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* * *
51611407 AGAATCAGAATCAGTATTAGTAACAAAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
51611437 AGAAT
1 AGAAT
51611442 TACGTGACAG
Statistics
Matches: 101, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
24 2 0.02
25 17 0.17
26 2 0.02
27 1 0.01
28 1 0.01
29 3 0.03
30 72 0.71
31 3 0.03
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:51611563 original size:27 final size:27
Alignment explanation
Indices: 51611533--51611588 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
51611523 ATGTGGGGAG
51611533 ACAACTCGACCCACCCATCTGCTACAC
1 ACAACTCGACCCACCCATCTGCTACAC
*
51611560 ACAACTCGACCCACCCATTTGCTACAC
1 ACAACTCGACCCACCCATCTGCTACAC
51611587 AC
1 AC
51611589 CACAGAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.46, G:0.07, T:0.16
Consensus pattern (27 bp):
ACAACTCGACCCACCCATCTGCTACAC
Found at i:51611683 original size:27 final size:27
Alignment explanation
Indices: 51611611--51611684 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
51611601 AGCATGGCTG
* *
51611611 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
* * *
51611637 CCAG-ATACATATATTATGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
51611664 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
51611685 AACCCACCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 28 0.78
28 3 0.08
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:51612042 original size:27 final size:26
Alignment explanation
Indices: 51611995--51612050 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
51611985 TCAATCGGTC
51611995 AACAGATATTGTGACAGAGCCACCAG
1 AACAGATATTGTGACAGAGCCACCAG
* *
51612021 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAG
51612048 AAC
1 AAC
51612051 GCTTCCTCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:51612278 original size:27 final size:27
Alignment explanation
Indices: 51612248--51612435 Score: 207
Period size: 27 Copynumber: 7.0 Consensus size: 27
51612238 AGGGGAAAAT
* * *
51612248 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51612275 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51612302 GGT-ATTGCTACCCTATAAGGGTATTTC
1 GGTAATT-CTACCCTACAAGGGTATTTC
* * *
51612329 GATAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
51612356 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
51612383 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51612410 AGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
51612436 TAGTAATTTT
Statistics
Matches: 141, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 3 0.02
27 135 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:51612323 original size:54 final size:54
Alignment explanation
Indices: 51612248--51612435 Score: 234
Period size: 54 Copynumber: 3.5 Consensus size: 54
51612238 AGGGGAAAAT
* * * * * *
51612248 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* *
51612302 GGT-ATTGCTACCCTATAAGGGTATTTCGATAATTCTACCCTATAAGGGTATTTT
1 GGTAATT-CTACCCTATAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* *
51612356 GGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* * * *
51612410 AGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTATAAGGGTATTT
51612436 TAGTAATTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.03
54 109 0.95
55 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
Found at i:51612394 original size:81 final size:82
Alignment explanation
Indices: 51612250--51612443 Score: 241
Period size: 81 Copynumber: 2.4 Consensus size: 82
51612240 GGGAAAATGG
* * * * * **
51612250 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTGCTACCC
1 TAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAATATTGCTACCC
51612315 TATAAGGGTATTTC-GA
66 TATAAGGGTATTTCAGA
* * *
51612331 TAATTCTACCCTATAAGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAATAATT-CTACC
1 TAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAAT-ATTGCTACC
*
51612395 CTATAGGGGTATTTCAGA
65 CTATAAGGGTATTTCAGA
* *
51612413 -AATTCTACCCTACAGGGGTATTTTAGTAATT
1 TAATTCTACCCTACAAGGGTATTTTGGTAATT
51612444 TTACAATCAA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
81 92 0.95
82 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (82 bp):
TAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAATATTGCTACCC
TATAAGGGTATTTCAGA
Found at i:51613057 original size:80 final size:80
Alignment explanation
Indices: 51612448--51613073 Score: 662
Period size: 80 Copynumber: 7.8 Consensus size: 80
51612438 GTAATTTTAC
* * * * *
51612448 AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTT-AAAATC-GAGGGT
** * *
51612512 AACCTAGTAATTCTATA
64 AAAATGGTAATTCTGTA
* * * * ** * *
51612529 AATCAAGGGTAAAAAGATAATTTTACAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTT-AAAATCGAGGGTA
*
51612594 AAATAGTAATTCTGTA
65 AAATGGTAATTCTGTA
* * * * *
51612610 AA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACT-AAGGG
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TAAAATCGAGGG
51612673 TAAAATGGTAATTCT-TA
63 TAAAATGGTAATTCTGTA
* ** * *
51612690 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA-AAATCGAGGGTA
*
51612755 AAATAGTAATTCTGTA
65 AAATGGTAATTCTGTA
* *
51612771 AA-CTGAGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGG
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TAAAATCGAGGG
*
51612833 TAAAACGGTAATTCTGTA
63 TAAAATGGTAATTCTGTA
51612851 AATCGAGGGTAAAACGGTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTGT-AAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATGGTAATT-T-TAAAATCGAGGG
**
51612914 TAAAATGGTAATT-TAAA
63 TAAAATGGTAATTCTGTA
* * *
51612931 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGTTAAAACGGTAATTTTAAAATCGAGGGTAA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAATCGAGGGTAA
*
51612996 AACGGTAATTCTGTA
66 AATGGTAATTCTGTA
*** *
51613011 AATCGAGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAATGGTAATTTTA-AAATCGAGGG
51613074 CATTTCAGTA
Statistics
Matches: 471, Mismatches: 54, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.01
79 28 0.06
80 224 0.48
81 209 0.44
82 6 0.01
83 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (80 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAATCGAGGGTAA
AATGGTAATTCTGTA
Found at i:51613059 original size:27 final size:27
Alignment explanation
Indices: 51612448--51613042 Score: 710
Period size: 27 Copynumber: 22.2 Consensus size: 27
51612438 GTAATTTTAC
* *
51612448 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51612475 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
51612502 AA-CTGAGGGT-AACCTAGTAATTCTATA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * * **
51612529 AATCAAGGGTAAAAAGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51612556 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
51612583 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51612610 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
51612637 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
51612664 AA-CTAAGGGTAAAATGGTAATTCT-TA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
51612690 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51612717 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
51612744 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51612771 AA-CTGAGGGTAAAACGGTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
51612797 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51612824 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
51612851 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51612878 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
51612905 AATCGAGGGTAAAATGGTAATT-TAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51612931 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
51612958 AATCGAGGTTAAAACGGTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
51612984 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51613011 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
51613038 AATCG
1 AATCG
51613043 GGAGTACTTT
Statistics
Matches: 496, Mismatches: 52, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.00
26 98 0.20
27 390 0.79
28 7 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:51613059 original size:107 final size:108
Alignment explanation
Indices: 51612453--51613039 Score: 755
Period size: 107 Copynumber: 5.5 Consensus size: 108
51612443 TTTACAATCA
* * *
51612453 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGT-AACCT
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC-
* * * * *
51612517 AGTAATTCTATAAATCAAGGGTAAAAAGATAATT-T-TACAAATCG
65 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA-AAAT-G
* * ** *
51612561 AGGGTAAAATGGTAATTTTGTAAATTGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAATG
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACG
* ** * *
51612626 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTA
66 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAATG
*
51612669 AGGGTAAAATGGTAATTCT-TAAATCGAGGGTAAAACGGTAATT-T-TACAAATCGAGGGTAAAA
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA-AACT-GAGGGTAAAA
* ** *
51612731 CGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
64 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAATG
*
51612776 AGGGTAAAACGGTAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACG
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACG
*
51612840 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
66 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAATG
* * * *
51612883 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-AAAAATCAAGGGTAAAAC
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGGTAAAAC
*
51612946 GGTAATTCTGTAAATCGAGGTTAAAACGGTAATT-T-TAAAATCG
65 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAAT-G
*
51612989 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA
51613040 TCGGGAGTAC
Statistics
Matches: 425, Mismatches: 41, Indels: 26
0.86 0.08 0.05
Matches are distributed among these distances:
105 7 0.02
106 53 0.12
107 225 0.53
108 130 0.31
109 8 0.02
110 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (108 bp):
AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACG
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAATG
Found at i:51614261 original size:27 final size:26
Alignment explanation
Indices: 51614204--51614290 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
51614194 AGGAAGCATC
* *
51614204 CTGGTGGCTATGCCAAATTATCTGTT
1 CTGGTGGCTCTGCCAAAATATCTGTT
*
51614230 CTGGTGGTTCTGCCAGAAATATCTGTT
1 CTGGTGGCTCTGCCA-AAATATCTGTT
*
51614257 TTGGTGGCTCTGCCACAAATATCTGTGT
1 CTGGTGGCTCTGCCA-AAATATCTGT-T
51614285 CTGGTG
1 CTGGTG
51614291 ACTATGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 13 0.25
27 33 0.63
28 6 0.12
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAAATATCTGTT
Found at i:51624224 original size:27 final size:27
Alignment explanation
Indices: 51624187--51624446 Score: 238
Period size: 27 Copynumber: 9.7 Consensus size: 27
51624177 TTAGTATACC
*
51624187 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
51624214 AAATTATCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51624241 AAATTACCAAAATACACTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
51624268 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51624295 AAATTACCAAAATACCCAT-GTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
51624321 AAATTACCAAAATACACCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51624348 AAATTACCAAAATACCACTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* ***
51624375 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
51624402 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
51624429 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
51624447 CAATTTATAG
Statistics
Matches: 194, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 26 0.13
27 165 0.85
28 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:51624352 original size:80 final size:81
Alignment explanation
Indices: 51624187--51624391 Score: 286
Period size: 80 Copynumber: 2.5 Consensus size: 81
51624177 TTAGTATACC
* * * *
51624187 AAATCACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCATGGTTTACAAAATTACCAAA
*
51624252 ATACACTTAGTTTGTA
66 ATACACCTAGTTTGTA
* * * **
51624268 AAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACCCAT-GTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCATGGTTTACAAAATTACCAAA
51624332 ATACACCTAGTTTGTA
66 ATACACCTAGTTTGTA
* * *
51624348 AAATTACCAAAATACCACTGATTTGTGAAATTACTAAAATACCC
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCC
51624392 TCGACCTGTA
Statistics
Matches: 108, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 69 0.64
81 39 0.36
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCATGGTTTACAAAATTACCAAA
ATACACCTAGTTTGTA
Found at i:51624415 original size:134 final size:134
Alignment explanation
Indices: 51624187--51624445 Score: 306
Period size: 134 Copynumber: 1.9 Consensus size: 134
51624177 TTAGTATACC
* * * *
51624187 AAATCACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATCACCAAAATACACCTAGTTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAA
* ** * **
51624252 ATACACTTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACCCATGTT
66 ATACACTGAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCCATGTT
51624317 TGTA
131 TGTA
* *** *
51624321 AAATTACCAAAATACACCTAGTTTGTAAAATTACCAAAATACCAC-TGATTTGTGAAATTACTAA
1 AAATCACCAAAATACACCTAGTTTGTAAAATTACCAAAATACC-CTTGATTTACAAAATTACCAA
* * * * *
51624385 AATACCCTCGA-CCTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
65 AATACACT-GAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCC
51624446 CCAATTTATA
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
134 101 0.98
135 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (134 bp):
AAATCACCAAAATACACCTAGTTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAA
ATACACTGAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCCATGTT
TGTA
Found at i:51624514 original size:27 final size:27
Alignment explanation
Indices: 51624484--51624624 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
51624474 TGATTTACAA
51624484 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
51624511 AATTA-TCGAAATACCCTTGTAGGTTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
51624538 AATTACCT-AAATACCCTTGTAGGGTAG
1 AATTA-CTGAAATACCCTTGTAGGGTAG
*
51624565 AAATA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * * *
51624592 AATTACTGAGATACCCTTATGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
51624619 AATTAC
1 AATTAC
51624625 CATTTTGCCC
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 96 0.96
28 1 0.01
29 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:51625053 original size:22 final size:22
Alignment explanation
Indices: 51625028--51625076 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
51625018 ATGGCTTTGC
51625028 GCCAACCTACA-TACGGCTCTGT
1 GCCAACCTA-ATTACGGCTCTGT
* *
51625050 GCCAACCTAATTATGGCTGTGT
1 GCCAACCTAATTACGGCTCTGT
51625072 GCCAA
1 GCCAA
51625077 ACGTATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (22 bp):
GCCAACCTAATTACGGCTCTGT
Found at i:51625492 original size:25 final size:25
Alignment explanation
Indices: 51625464--51625525 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
51625454 TCACATTTCG
* *
51625464 ATTCTAATTCTGTTACCTGATACTA
1 ATTCTAATTCTGTCACCTAATACTA
* * * *
51625489 ATTCTTATTTTGTCACCTAATTCTG
1 ATTCTAATTCTGTCACCTAATACTA
*
51625514 ATTCTGATTCTG
1 ATTCTAATTCTG
51625526 ATTCTGTCAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (25 bp):
ATTCTAATTCTGTCACCTAATACTA
Found at i:51625519 original size:6 final size:6
Alignment explanation
Indices: 51625508--51625567 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
51625498 TTGTCACCTA
* *
51625508 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
51625557 ATTTTG ATTCT
1 ATTCTG ATTCT
51625568 AGTTCTGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 1 0.02
6 40 0.89
7 3 0.07
8 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:51625524 original size:31 final size:31
Alignment explanation
Indices: 51625480--51625562 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
51625470 ATTCTGTTAC
* * *
51625480 CTGATACTAATTCTTATTTTGTCACCTAATT
1 CTGATTCTGATTCTCATTTTGTCACCTAATT
* * *
51625511 CTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTCATTTTGTCACCTAATT
51625542 CTGATTCTGATTCTCATTTTG
1 CTGATTCTGATTCTCATTTTG
51625563 ATTCTAGTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.48
Consensus pattern (31 bp):
CTGATTCTGATTCTCATTTTGTCACCTAATT
Found at i:51627466 original size:27 final size:27
Alignment explanation
Indices: 51627436--51627714 Score: 274
Period size: 27 Copynumber: 10.3 Consensus size: 27
51627426 TTAGTTTACC
*
51627436 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
51627463 AAATTACCAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*** *
51627490 AAATTACCAAAATACTTTTGGTTTTTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51627517 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
51627544 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51627571 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
51627598 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* ***
51627625 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* ***
51627652 AAATTACTAAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * * *
51627679 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51627706 GAATTACCA
1 AAATTACCA
51627715 TTTTACCCTC
Statistics
Matches: 216, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.02
27 209 0.97
28 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:51627748 original size:27 final size:27
Alignment explanation
Indices: 51627436--51627750 Score: 253
Period size: 27 Copynumber: 11.7 Consensus size: 27
51627426 TTAGTTTACC
* *
51627436 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
51627463 AAATTACCAAAATACCCTTTG-TTTACA
1 AAATTACCAAAATACCC-TCGATTTGTA
** * * *
51627490 AAATTACCAAAATACTTTTGGTTTTTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
51627517 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
51627544 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
51627571 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
51627598 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
51627625 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
51627652 AAATTACTAAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
51627679 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
51627706 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
51627733 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
51627751 TGTAGGGTAG
Statistics
Matches: 239, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.01
27 233 0.97
28 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:51627764 original size:27 final size:27
Alignment explanation
Indices: 51627734--51627929 Score: 266
Period size: 27 Copynumber: 7.3 Consensus size: 27
51627724 CGATTTACAA
51627734 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
51627761 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
51627788 AATTACCTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
51627815 AAATATCGAATTACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
51627842 AATTACTGAGATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
51627869 AAATACCGAAGTACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
51627896 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
51627923 AATTACC
1 AATTACC
51627930 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:51628254 original size:22 final size:22
Alignment explanation
Indices: 51628221--51628285 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
51628211 GCCAATTATT
* *
51628221 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
51628243 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTCTGTGCCAAC
*
51628265 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
51628286 ACGTATTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:51628474 original size:27 final size:26
Alignment explanation
Indices: 51628444--51628552 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
51628434 ATTCTGTTAA
* *
51628444 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
51628471 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
51628498 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
51628525 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
51628551 GT
1 GT
51628553 AGCCATGCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.21
27 51 0.70
28 7 0.10
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:51628725 original size:25 final size:25
Alignment explanation
Indices: 51628669--51628736 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
51628659 TTGCATTCAC
* * * *
51628669 ATTCTGATTCTAATTATGTTACTTG
1 ATTCTGATTCTAATTTTGTCACCTA
*
51628694 ATACTGATTCTAATTTTGTCACCTA
1 ATTCTGATTCTAATTTTGTCACCTA
* *
51628719 ATTCTGATTTTGATTTTG
1 ATTCTGATTCTAATTTTG
51628737 ATTCTGTCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (25 bp):
ATTCTGATTCTAATTTTGTCACCTA
Found at i:51628733 original size:31 final size:31
Alignment explanation
Indices: 51628692--51628773 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
51628682 TTATGTTACT
*
51628692 TGATACTGATTCTAATTTTGTCACCTAATTC
1 TGATTCTGATTCTAATTTTGTCACCTAATTC
* * * * *
51628723 TGATTTTGATTTTGATTCTGTCACCTGATTC
1 TGATTCTGATTCTAATTTTGTCACCTAATTC
*
51628754 TGATTCTGATTCTCATTTTG
1 TGATTCTGATTCTAATTTTG
51628774 ATTCTAGTTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
TGATTCTGATTCTAATTTTGTCACCTAATTC
Found at i:51628756 original size:6 final size:6
Alignment explanation
Indices: 51628719--51628787 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
51628709 TTGTCACCTA
* * * *
51628719 ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
51628768 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
51628788 AATGTTTCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:51631087 original size:55 final size:55
Alignment explanation
Indices: 51631003--51631114 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
51630993 AAAATTGAGT
51631003 TAGATTTTCTTGAATGAAACAAAGGGACTAAAATCATAAAAATTAATTACATAAA
1 TAGATTTTCTTGAATGAAACAAAGGGACTAAAATCATAAAAATTAATTACATAAA
51631058 TAGATTTTCTTGAATGAAACAAAGGGACTAAAATCATAAAAATTAATTACATAAA
1 TAGATTTTCTTGAATGAAACAAAGGGACTAAAATCATAAAAATTAATTACATAAA
51631113 TA
1 TA
51631115 TTAATTACAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (55 bp):
TAGATTTTCTTGAATGAAACAAAGGGACTAAAATCATAAAAATTAATTACATAAA
Found at i:51631112 original size:15 final size:15
Alignment explanation
Indices: 51631092--51631186 Score: 110
Period size: 15 Copynumber: 6.5 Consensus size: 15
51631082 GGACTAAAAT
*
51631092 CATAAAAATTAATTA
1 CATAAATATTAATTA
51631107 CATAAATATTAATTA
1 CATAAATATTAATTA
*
51631122 CA-AACT-TATAATTA
1 CATAAATAT-TAATTA
51631136 CATAAATATTAATTA
1 CATAAATATTAATTA
51631151 -A-AAACT-TATAATTA
1 CATAAA-TAT-TAATTA
51631165 CATAAATATTAATTA
1 CATAAATATTAATTA
51631180 CATAAAT
1 CATAAAT
51631187 GGAATTAACA
Statistics
Matches: 69, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
13 5 0.07
14 19 0.28
15 40 0.58
16 5 0.07
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (15 bp):
CATAAATATTAATTA
Found at i:51631135 original size:14 final size:14
Alignment explanation
Indices: 51631116--51631166 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
51631106 ACATAAATAT
51631116 TAATTACAAACTTA
1 TAATTACAAACTTA
*
51631130 TAATTACATAA-ATA
1 TAATTACA-AACTTA
*
51631144 TTAATTAAAAACTTA
1 -TAATTACAAACTTA
51631159 TAATTACA
1 TAATTACA
51631167 TAAATATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATTACAAACTTA
Found at i:51631143 original size:29 final size:29
Alignment explanation
Indices: 51631101--51631181 Score: 153
Period size: 29 Copynumber: 2.8 Consensus size: 29
51631091 TCATAAAAAT
51631101 TAATTACATAAATATTAATTACAAACTTA
1 TAATTACATAAATATTAATTACAAACTTA
*
51631130 TAATTACATAAATATTAATTAAAAACTTA
1 TAATTACATAAATATTAATTACAAACTTA
51631159 TAATTACATAAATATTAATTACA
1 TAATTACATAAATATTAATTACA
51631182 TAAATGGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (29 bp):
TAATTACATAAATATTAATTACAAACTTA
Found at i:51631193 original size:29 final size:28
Alignment explanation
Indices: 51631096--51631186 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 28
51631086 TAAAATCATA
51631096 AAAAT-TAATTACATAAATATTAATTAC
1 AAAATATAATTACATAAATATTAATTAC
*
51631123 AAACTTATAATTACATAAATATTAATTA-
1 AAA-ATATAATTACATAAATATTAATTAC
51631151 AAAACTTATAATTACATAAATATTAATTAC
1 AAAA--TATAATTACATAAATATTAATTAC
51631181 ATAAAT
1 A-AAAT
51631187 GGAATTAACA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.05
28 4 0.07
29 45 0.80
30 1 0.02
31 3 0.05
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATATAATTACATAAATATTAATTAC
Found at i:51631446 original size:27 final size:28
Alignment explanation
Indices: 51631416--51631494 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
51631406 TGTTAAAAGC
51631416 ATTAATTAAAA-ATTAAAAATAAAT-TT
1 ATTAATTAAAATATTAAAAATAAATATT
* * *
51631442 AATTACTTAGAAATATTTAAAATTAATATT
1 -ATTAATTA-AAATATTAAAAATAAATATT
*
51631472 A-TATATTAAAATATTAATAATAA
1 ATTA-ATTAAAATATTAAAAATAA
51631495 GTTATAATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
27 7 0.17
28 17 0.41
29 15 0.37
30 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
ATTAATTAAAATATTAAAAATAAATATT
Found at i:51631691 original size:13 final size:13
Alignment explanation
Indices: 51631655--51631728 Score: 76
Period size: 13 Copynumber: 5.7 Consensus size: 13
51631645 CTCAAAATTT
*
51631655 TCAAAAGCACCTC
1 TCAAAAGCACTTC
*
51631668 TTAAAAGCACTTC
1 TCAAAAGCACTTC
* *
51631681 TAAAAAGCACTTT
1 TCAAAAGCACTTC
* *
51631694 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
51631707 TCAAAAGCACTTT
1 TCAAAAGCACTTC
*
51631720 TTAAAAGCA
1 TCAAAAGCA
51631729 ATGAAGAACT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:51634520 original size:46 final size:46
Alignment explanation
Indices: 51634470--51634642 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
51634460 TGGTTGAGCA
51634470 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
51634516 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
51634561 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51634609 CCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
51634643 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51634626 original size:93 final size:93
Alignment explanation
Indices: 51634467--51634637 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
51634457 GGATGGTTGA
* * *
51634467 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
51634532 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
51634560 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
51634625 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
51634638 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:51638722 original size:7 final size:7
Alignment explanation
Indices: 51638712--51638738 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
51638702 AATGATGAAT
51638712 GATGAGG
1 GATGAGG
51638719 GATGAGG
1 GATGAGG
51638726 GATGAGG
1 GATGAGG
51638733 GATGAG
1 GATGAG
51638739 TAGAAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:51643814 original size:63 final size:63
Alignment explanation
Indices: 51643607--51643815 Score: 213
Period size: 63 Copynumber: 3.3 Consensus size: 63
51643597 CACACGATTG
* * * * * *
51643607 TGTGTCTAGGCCGTGTGACTCACTATTTTACCTTTAGAA-ACCACACGGGCTAGAGACACGGGCA
1 TGTGTCCAGGTCGTGTGACTCACT-GTTTGCCATTA-AAGAGCACACGGGCTAGAGACACGGGCA
* * * * * * *
51643671 TGTCTCCAGGCCGTGTAACTCACTGTTTTCCATTAAGGATCACACGGGCCAGAGACACGGGCA
1 TGTGTCCAGGTCGTGTGACTCACTGTTTGCCATTAAAGAGCACACGGGCTAGAGACACGGGCA
* * * * *
51643734 TATGTCCAGGTCATGTGACTCACTGTTTGCTATTAAAGAGCACACGAGCTAGAGACACAGGCA
1 TGTGTCCAGGTCGTGTGACTCACTGTTTGCCATTAAAGAGCACACGGGCTAGAGACACGGGCA
* *
51643797 TGTGTCTAGGTTGTGTGAC
1 TGTGTCCAGGTCGTGTGAC
51643816 CAACTTTTTA
Statistics
Matches: 119, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
62 1 0.01
63 97 0.82
64 21 0.18
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (63 bp):
TGTGTCCAGGTCGTGTGACTCACTGTTTGCCATTAAAGAGCACACGGGCTAGAGACACGGGCA
Found at i:51667920 original size:16 final size:17
Alignment explanation
Indices: 51667890--51667922 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51667880 TTTGCATTTA
*
51667890 ATTTTTTTTTCTTTTCT
1 ATTTTCTTTTCTTTTCT
51667907 ATTTTCTTTT-TTTTCT
1 ATTTTCTTTTCTTTTCT
51667923 GCAGGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
ATTTTCTTTTCTTTTCT
Found at i:51695480 original size:35 final size:34
Alignment explanation
Indices: 51695441--51695507 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
51695431 TTTGTAACCT
*
51695441 TATCTATATCTGAAATGGGCTCAGGCCCGAATTTA
1 TATCTATATCTGAAATGGGCTCAAGCCC-AATTTA
* *
51695476 TATCTGTATCTGACATGGGCTCAAGCCCAATT
1 TATCTATATCTGAAATGGGCTCAAGCCCAATT
51695508 ATGATATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (34 bp):
TATCTATATCTGAAATGGGCTCAAGCCCAATTTA
Found at i:51697229 original size:48 final size:47
Alignment explanation
Indices: 51697116--51697328 Score: 171
Period size: 48 Copynumber: 4.5 Consensus size: 47
51697106 GCTAATGTCG
* * * * * * **
51697116 TGTCCCAGACAAGTCTTACACTGGCTCTCATTTATCGATGTTGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCT-TGATATCTCGAAGCCGAT-CCA
* ** *
51697165 TGTCCCAGACAGGTCTTATGCTAGCTTGTATATCTCGAGGCCGATCCA
1 TGTCCCAGACATGTCTTACACTAGCTTG-ATATCTCGAAGCCGATCCA
* * *
51697213 TATCCCAGACATGTCTTACACTAGCTCTG--GTCTC-AATGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-TGATATCTCGAA-GCCGATCCA
* * * * *
51697259 TGTCCTAGACATGTCTTACACTGGCTTGCATCTCTCGAAGCCAATGCA
1 TGTCCCAGACATGTCTTACACTAGCTTG-ATATCTCGAAGCCGATCCA
51697307 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
51697329 GGCTCTCGTA
Statistics
Matches: 134, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.02
46 35 0.26
48 59 0.44
49 37 0.28
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCTTGATATCTCGAAGCCGATCCA
Found at i:51697271 original size:46 final size:46
Alignment explanation
Indices: 51697215--51697377 Score: 181
Period size: 46 Copynumber: 3.5 Consensus size: 46
51697205 CCGATCCATA
*
51697215 TCCCAGACATGTCTTACACTAGCTCTGGTCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCTGGTCTCAATGCCAATGCATG
* * *
51697261 TCCTAGACATGTCTTACACTGGCT-TGCATCTCTCGAA-GCCAATGCATG
1 TCCCAGACATGTCTTACACTAGCTCTG---GTCTC-AATGCCAATGCATG
* * *
51697309 TCCCAGACATGTCTTACACTGGCTCTCG--TAAAGTGGCCAATGCATG
1 TCCCAGACATGTCTTACACTAGCTCTGGTCTCAA-T-GCCAATGCATG
51697355 TCCCAGACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
51697378 ACACATATCA
Statistics
Matches: 100, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 2 0.02
46 55 0.55
48 37 0.37
49 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCTCTGGTCTCAATGCCAATGCATG
Found at i:51697295 original size:94 final size:94
Alignment explanation
Indices: 51697158--51697377 Score: 264
Period size: 94 Copynumber: 2.3 Consensus size: 94
51697148 TATCGATGTT
* ** * * *
51697158 GATGCCATGTCCCAGACAGGTCTTATGCTAGCTTGTATATCTCGAGGCCGATCCATATCCCAGAC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAAGCCAATCCATATCCCAGAC
* *
51697223 ATGTCTTACACTAGCTCTGGTCTCAA-T-GCC
65 ATGTCTTACACTAGCTCTCG--TAAAGTGGCC
* * * * *
51697253 GATGCATGTCCTAGACATGTCTTACACTGGCTTGCATCTCTCGAAGCCAATGCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAAGCCAATCCATATCCCAGACA
*
51697318 TGTCTTACACTGGCTCTCGTAAAGTGGCC
66 TGTCTTACACTAGCTCTCGTAAAGTGGCC
*
51697347 AATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
51697378 ACACATATCA
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 3 0.03
93 1 0.01
94 98 0.92
95 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAAGCCAATCCATATCCCAGACA
TGTCTTACACTAGCTCTCGTAAAGTGGCC
Found at i:51697329 original size:48 final size:47
Alignment explanation
Indices: 51697017--51697374 Score: 210
Period size: 49 Copynumber: 7.5 Consensus size: 47
51697007 ATGCCGATGC
* * * *
51697017 CATGTCCCAGACATGGTCTTACATTGGCTAGCA-C-ATCAAAGTCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTATCGAAGCCAATG
* * * * *
51697064 CCATGTCCCAGAGAGGTCTTACACTGACTTTCATATATC-AAGGCTAATG
1 -CATGTCCCAGACATGTCTTACACTGGC-TTCATCTATCGAA-GCCAATG
* * * * ***
51697113 TCGTGTCCCAGACAAGTCTTACACTGGCTCTCATTTATCGATGTTGATG
1 -CATGTCCCAGACATGTCTTACACTGGCT-TCATCTATCGAAGCCAATG
* ** * * * * * * *
51697162 CCATGTCCCAGACAGGTCTTATGCTAGCTTGTATATCTCGAGGCCGATC
1 -CATGTCCCAGACATGTCTTACACTGGCTT-CATCTATCGAAGCCAATG
* * * * *
51697211 CATATCCCAGACATGTCTTACACTAGC-TC-TGGTCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTCAT-CTATCGAA-GCCAATG
* *
51697257 CATGTCCTAGACATGTCTTACACTGGCTTGCATCTCTCGAAGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTATCGAAGCCAATG
** **
51697305 CATGTCCCAGACATGTCTTACACTGGC-TC-TCGTAAAGTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTTCATC-TATCGAAGCCAATG
51697351 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
51697375 AGCACACATA
Statistics
Matches: 247, Mismatches: 49, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.02
46 68 0.28
47 16 0.06
48 77 0.31
49 81 0.33
50 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTATCGAAGCCAATG
Found at i:51699347 original size:21 final size:21
Alignment explanation
Indices: 51699323--51699387 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
51699313 CAACCACCAG
51699323 TACAATTTCTTCAAGTCGTTA
1 TACAATTTCTTCAAGTCGTTA
51699344 TAC-A-TT-TTC-A-TAC--T-
1 TACAATTTCTTCAAGT-CGTTA
51699358 TACAATTTCTTCAAGTCGTTA
1 TACAATTTCTTCAAGTCGTTA
*
51699379 TACATTTTC
1 TACAATTTC
51699388 ACACTACCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 18
0.64 0.02 0.34
Matches are distributed among these distances:
14 3 0.09
15 2 0.06
16 3 0.09
17 5 0.15
18 5 0.15
19 3 0.09
20 2 0.06
21 11 0.32
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (21 bp):
TACAATTTCTTCAAGTCGTTA
Found at i:51699757 original size:18 final size:18
Alignment explanation
Indices: 51699734--51699769 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51699724 TTTCCCGGAG
51699734 GTAGTCAGTTATCAACTC
1 GTAGTCAGTTATCAACTC
**
51699752 GTAGTCTTTTATCAACTC
1 GTAGTCAGTTATCAACTC
51699770 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCAGTTATCAACTC
Found at i:51709223 original size:9 final size:9
Alignment explanation
Indices: 51709209--51709234 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
51709199 TGAAAATTGA
51709209 AATTTAAAT
1 AATTTAAAT
51709218 AATTTAAAT
1 AATTTAAAT
51709227 AATTTAAA
1 AATTTAAA
51709235 ATCGTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTTAAAT
Found at i:51712075 original size:46 final size:45
Alignment explanation
Indices: 51712025--51712200 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
51712015 TGGTTGAGCA
51712025 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
** * *
51712071 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATAT-AACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAAG
*
51712118 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
51712164 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51712201 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 7 0.06
45 1 0.01
46 65 0.59
47 28 0.25
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:51712181 original size:93 final size:93
Alignment explanation
Indices: 51712022--51712192 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
51712012 GGATGGTTGA
* *
51712022 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51712087 TGAGTCCGAGTTCGAGAGATATAACTAG
66 TGAGTCCGAGTTCGAGAGATATAACTAG
* *
51712115 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51712180 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51712193 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATATAACTAG
Found at i:51715161 original size:15 final size:15
Alignment explanation
Indices: 51715141--51715209 Score: 93
Period size: 15 Copynumber: 4.6 Consensus size: 15
51715131 GTATCTTGGG
51715141 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
51715156 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
*
51715171 TTTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
51715186 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
51715201 TTTCTTTAT
1 TTTCTTTAT
51715210 TCGGTTTTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:51715210 original size:30 final size:30
Alignment explanation
Indices: 51715132--51715219 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
51715122 CATAGGATCG
* * * *
51715132 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
51715162 TAT-TCTGGATTTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
51715192 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
51715220 TGTTATCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.16
30 42 0.82
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:51717665 original size:46 final size:46
Alignment explanation
Indices: 51717612--51717779 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 46
51717602 TGAGCATCCA
51717612 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * ** * *
51717658 AACTCGTTGAGTTGAGTCCAAGCTCGAGAGATAT-AACTAG-GTAT-T-CG
1 AACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAATGTCCG
* * *
51717705 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-CG
*
51717751 AGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 AACTCGTTGAGTTGAGTCCGAGTTCACTT
51717780 TGGGCGGGTT
Statistics
Matches: 96, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 1 0.01
46 53 0.55
47 23 0.24
48 2 0.02
49 8 0.08
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:51724611 original size:49 final size:49
Alignment explanation
Indices: 51724550--51724768 Score: 170
Period size: 49 Copynumber: 4.6 Consensus size: 49
51724540 CATCAAAGTC
51724550 GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
* * * * * *
51724599 GATGCCGTGTCCCGGACAGGTCTTACACTGGCTCTCATCTATCG-GTG-T
1 GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG-GCT
* * * * * * *
51724647 CAATGCTACGTCCTAGATAGGTCTTACACTGAC--ACACA-A-C-AAGCT
1 -GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
* *
51724692 GACGCCATGTCCCAGATAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCT
1 GATGCCATGTCCCAGATAGGTCTTACACTGA-CTT-TCATATATCGAGGCT
* * *
51724741 GATG-CATGTACCAGACATGTCTTACACT
1 GATGCCATGTCCCAGATAGGTCTTACACT
51724769 AGCTATAGTC
Statistics
Matches: 128, Mismatches: 31, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
43 1 0.01
44 26 0.20
45 2 0.02
46 3 0.02
47 2 0.02
48 24 0.19
49 70 0.55
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:51724764 original size:48 final size:47
Alignment explanation
Indices: 51724697--51724910 Score: 138
Period size: 46 Copynumber: 4.5 Consensus size: 47
51724687 AAGCTGACGC
* *
51724697 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGT-CCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
** *
51724745 CATGTACCAGACATGTCTTACACTAGC---TATAGTCTC-AATCTCGGTG
1 CATGT-CCAGACATGTCTTACACTAGCTTGTATA-TCTCGAGGCT-GATG
* * * * * * *
51724791 CATGTCCTAGGCATGTCTTATACTGGCTTGCATCTCTCGGGGCCGATG
1 CATGTCC-AGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* * * * *
51724839 CAAGTTCCAAACATGTCTTACACTGGTCCTCGTA-A--T-GTGGCTGATG
1 CATG-TCCAGACATGTCTTACACTAG--CTTGTATATCTCGAGGCTGATG
51724885 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCC-AGACATGTCTTACACTAG
51724911 AACACATATC
Statistics
Matches: 127, Mismatches: 28, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
45 12 0.09
46 55 0.43
47 1 0.01
48 49 0.39
49 6 0.05
50 4 0.03
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (47 bp):
CATGTCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:51736530 original size:32 final size:32
Alignment explanation
Indices: 51736484--51736544 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
51736474 TGAGATTACA
* *
51736484 TGTAAGACCATGTCTGGGACATTGGCATCGTT
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTT
*
51736516 TGTAAGACCCTGTCTAGGACAGTGGCATC
1 TGTAAGACCATGTCTAGGACAGTGGCATC
51736545 AATATGTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (32 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTT
Found at i:51741691 original size:8 final size:8
Alignment explanation
Indices: 51741674--51741704 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
51741664 GTAGAACAGC
*
51741674 AAATGTCG
1 AAATGCCG
51741682 AAATGCCG
1 AAATGCCG
51741690 AAATGCCG
1 AAATGCCG
51741698 AAATGCC
1 AAATGCC
51741705 AGTCACACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (8 bp):
AAATGCCG
Found at i:51741979 original size:27 final size:27
Alignment explanation
Indices: 51741949--51742433 Score: 347
Period size: 27 Copynumber: 18.0 Consensus size: 27
51741939 TATAGGGTAG
* * **
51741949 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * **
51741976 AATTACT-AAATACCATTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
51742002 AATTACTAAAATACCCTCGATTAGCAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
51742029 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
51742056 AATTACCAAAATACCCTTAATTTGTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
51742083 AATTA-TCGAAATACCCTTGACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* *
51742110 AATTACTTAAATA-CCTTCGACTTGTAA
1 AATTACTAAAATACCCTT-GATTTGTAA
* * *
51742137 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
51742164 AATTACCAAAATACCCTTGATTTGTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * ** *
51742191 AATTACCAAAATACGCTCGACCTATAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
51742218 AATTA-TCGAAATACCATTGACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* *
51742245 AATTACTAAAATACCTTTAATTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * * *
51742272 AATTACCAAAACACCCCTAATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
51742299 AATTA-TCGAAATACCCTTGATTTGGAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* * **
51742326 AATTAC-ATAAATACCCCTGGTTTACAA
1 AATTACTA-AAATACCCTTGATTTGTAA
* **
51742353 AATTACAAAAATACCCTTGACTTTCAAA
1 AATTACTAAAATACCCTTGA-TTTGTAA
* * *
51742381 AATTAC-AGAAATACCATTGGTTTGCAA
1 AATTACTA-AAATACCCTTGATTTGTAA
* *
51742408 AATTA-TCGAAATACCCTTGGTTTGTA
1 AATTACT-AAAATACCCTTGATTTGTA
51742434 GATTTACCAA
Statistics
Matches: 372, Mismatches: 71, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
26 29 0.08
27 316 0.85
28 27 0.07
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:51742114 original size:81 final size:80
Alignment explanation
Indices: 51741957--51742445 Score: 390
Period size: 81 Copynumber: 6.0 Consensus size: 80
51741947 AGAATTACTG
* ** * * * ** *
51741957 AAATACCCTTGGTTTACAAAATTA-CTAAATACCATTGGTTTACAAAATTACTAAAATACCCTCG
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTAC-AAAATACCCTTG
* *
51742021 ATTAGCAAAATTACCA
65 ATTTGTAAAATTACCA
* * * *
51742037 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTAATTTGTGAAATTATCGAAATACCCTTG
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTA-CAAAATACCCTTG
* **
51742102 ACTTGTAAAATTACTT
65 ATTTGTAAAATTACCA
* * *
51742118 AAATA-CCTTCGACTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT
1 AAATACCCTT-GATTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTA-CAAAATACCCTT
*
51742182 GATTTGTGAAATTACCA
64 GATTTGTAAAATTACCA
* * ** * * * * * * *
51742199 AAATACGCTCGACCTATAAAATTATCGAAATACCATTGACTTGTAAAATTACTAAAATACCTTTA
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTAC-AAAATACCCTTG
51742264 ATTTGTAAAATTACCA
65 ATTTGTAAAATTACCA
* * * * * * * *
51742280 AAACACCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTACATAAATACCCCTG
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACA-AAATACCCTTG
* ** *
51742345 GTTTACAAAATTACAA
65 ATTTGTAAAATTACCA
** * * * *
51742361 AAATACCCTTGACTTTCAAAAATTA-CAGAAATACCATTGGTTTGCAAAATTATCGAAATACCCT
1 AAATACCCTTGA-TTTGTAAAATTACCA-AAATACCCTTGATTTGTAAAATTA-CAAAATACCCT
* * *
51742425 TGGTTTGTAGATTTACCA
63 TGATTTGTAAAATTACCA
51742443 AAA
1 AAA
51742446 ATGACTAAAA
Statistics
Matches: 324, Mismatches: 76, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
80 28 0.09
81 237 0.73
82 58 0.18
83 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACAAAATACCCTTGA
TTTGTAAAATTACCA
Found at i:51742402 original size:55 final size:54
Alignment explanation
Indices: 51742297--51742426 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 54
51742287 CCTAATTTGG
* ** * *
51742297 AAAATTATCGAAATACCCTTGATTTGGAAAATTACATAAATACCCCTGGTTTAC
1 AAAATTATCAAAATACCCTTGATTTCAAAAATTACAGAAATACCACTGGTTTAC
* *
51742351 AAAATTA-CAAAAATACCCTTGACTTTCAAAAATTACAGAAATACCATTGGTTTGC
1 AAAATTATC-AAAATACCCTTGA-TTTCAAAAATTACAGAAATACCACTGGTTTAC
*
51742406 AAAATTATCGAAATACCCTTG
1 AAAATTATCAAAATACCCTTG
51742427 GTTTGTAGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
53 1 0.02
54 19 0.29
55 44 0.68
56 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTATCAAAATACCCTTGATTTCAAAAATTACAGAAATACCACTGGTTTAC
Found at i:51742746 original size:40 final size:41
Alignment explanation
Indices: 51742673--51742763 Score: 132
Period size: 40 Copynumber: 2.2 Consensus size: 41
51742663 GAAGGAAGAA
51742673 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCT
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCT
* *
51742714 ATTGATGATCGCAT-GTTGCTTGACGA-CTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATC-GTGGATCCACCT
*
51742754 ATTAAGGATC
1 ATTGAGGATC
51742764 ATGTGGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 31 0.69
41 13 0.29
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCT
Found at i:51742954 original size:21 final size:22
Alignment explanation
Indices: 51742903--51742954 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
51742893 AGCCAATTTT
*
51742903 CTGATTATGGCTTTGTGCTAAC
1 CTGATTATGGCTTTGTGCCAAC
51742925 CT-ATATATGGCTTTGT-CCAAC
1 CTGAT-TATGGCTTTGTGCCAAC
51742946 CTGATTATG
1 CTGATTATG
51742955 ATTGTGTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:51743220 original size:22 final size:22
Alignment explanation
Indices: 51743168--51743221 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
51743158 CATTTCTGCG
*
51743168 ATGTTTACGGCTATGTGCTATC
1 ATGTTTACGGCTATGTGATATC
* * *
51743190 CTATTTACGGCTATGTGATGTC
1 ATGTTTACGGCTATGTGATATC
*
51743212 ATGTCTACGG
1 ATGTTTACGG
51743222 TGTTGAGCCG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (22 bp):
ATGTTTACGGCTATGTGATATC
Found at i:51743329 original size:21 final size:20
Alignment explanation
Indices: 51743304--51743344 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
51743294 TATCCCCACA
51743304 TGGTGTGCTGGTTGGTACTGG
1 TGGTGTGCTGGTTGG-ACTGG
*
51743325 TGGTGTGTTGGTTGGACTGG
1 TGGTGTGCTGGTTGGACTGG
51743345 GCTGGTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.05, C:0.07, G:0.49, T:0.39
Consensus pattern (20 bp):
TGGTGTGCTGGTTGGACTGG
Found at i:51743803 original size:17 final size:18
Alignment explanation
Indices: 51743777--51743810 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51743767 TTTCGGAGAA
51743777 AATAAAGTTTTA-AAGAT
1 AATAAAGTTTTACAAGAT
*
51743794 AATAATGTTTTACAAGA
1 AATAAAGTTTTACAAGA
51743811 GAATGACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (18 bp):
AATAAAGTTTTACAAGAT
Found at i:51747644 original size:17 final size:17
Alignment explanation
Indices: 51747622--51747677 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
51747612 ATAAAAATAA
51747622 CAAAACATAAGAAAACC
1 CAAAACATAAGAAAACC
* *
51747639 CAAAACTTAA-AAATA-A
1 CAAAACATAAGAAA-ACC
51747655 CAAAACATAAGAAAACC
1 CAAAACATAAGAAAACC
51747672 CAAAAC
1 CAAAAC
51747678 TTCTGAGGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.66, C:0.21, G:0.04, T:0.09
Consensus pattern (17 bp):
CAAAACATAAGAAAACC
Found at i:51747653 original size:33 final size:33
Alignment explanation
Indices: 51747613--51747679 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
51747603 CTTAAATGAA
51747613 TAAAAATAACAAAACATAAGAAAACCCAAAACT
1 TAAAAATAACAAAACATAAGAAAACCCAAAACT
51747646 TAAAAATAACAAAACATAAGAAAACCCAAAACT
1 TAAAAATAACAAAACATAAGAAAACCCAAAACT
51747679 T
1 T
51747680 CTGAGGGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.66, C:0.18, G:0.03, T:0.13
Consensus pattern (33 bp):
TAAAAATAACAAAACATAAGAAAACCCAAAACT
Found at i:51747660 original size:16 final size:16
Alignment explanation
Indices: 51747612--51747664 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
51747602 TCTTAAATGA
51747612 ATAAAAATAACAAAAC
1 ATAAAAATAACAAAAC
*
51747628 ATAAGAAA-ACCCAAAAC
1 ATAA-AAATA-ACAAAAC
*
51747645 TTAAAAATAACAAAAC
1 ATAAAAATAACAAAAC
51747661 ATAA
1 ATAA
51747665 GAAAACCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.70, C:0.15, G:0.02, T:0.13
Consensus pattern (16 bp):
ATAAAAATAACAAAAC
Found at i:51747763 original size:13 final size:13
Alignment explanation
Indices: 51747745--51747770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51747735 GCTCGACAGG
51747745 GACACGCCCGTGT
1 GACACGCCCGTGT
51747758 GACACGCCCGTGT
1 GACACGCCCGTGT
51747771 ATGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:51757825 original size:21 final size:20
Alignment explanation
Indices: 51757799--51757841 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
51757789 GTCATAGTGA
51757799 CCACACAAGCGTGTTGCCCTT
1 CCACACAAGCGTGTT-CCCTT
**
51757820 CCACACGGGCGTGTTCCCTT
1 CCACACAAGCGTGTTCCCTT
51757840 CC
1 CC
51757842 TCAAGTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.14, C:0.42, G:0.21, T:0.23
Consensus pattern (20 bp):
CCACACAAGCGTGTTCCCTT
Found at i:51759029 original size:24 final size:23
Alignment explanation
Indices: 51758937--51759045 Score: 107
Period size: 24 Copynumber: 4.7 Consensus size: 23
51758927 ACCACAACTT
**
51758937 ATAGAAGCTTACTGTTTCAGCTC-
1 ATAG-AGCTTACCATTTCAGCTCG
*
51758960 ATTGGAGCTTACCGATTT-AGCTCG
1 A-TAGAGCTTACC-ATTTCAGCTCG
* *
51758984 AAAGAGCTTA-CAATTCAGCTCG
1 ATAGAGCTTACCATTTCAGCTCG
51759006 ATAGAGCTTACCATTTTCAGCTCG
1 ATAGAGCTTACCA-TTTCAGCTCG
*
51759030 ATAGAGCTTACTATTT
1 ATAGAGCTTACCATTT
51759046 ATCAGCTCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
21 3 0.04
22 16 0.23
23 25 0.35
24 27 0.38
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (23 bp):
ATAGAGCTTACCATTTCAGCTCG
Found at i:51762617 original size:29 final size:30
Alignment explanation
Indices: 51762578--51762656 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
51762568 CTTAATAATC
51762578 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
51762608 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
51762637 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
51762657 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:51765084 original size:100 final size:100
Alignment explanation
Indices: 51764906--51765104 Score: 265
Period size: 100 Copynumber: 2.0 Consensus size: 100
51764896 TATTGTGATG
* * * *
51764906 TCACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAATTATTGGTCGCATGTGTAGTATT
1 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAATTGGTCGCATGTATAGTACT
* * *
51764971 AAATGTATGCTACTATGTGTACCCGATAACTTTGA
66 AAATGCAGGCTACTATGTGTACCAGATAACTTTGA
* * * *
51765006 TCACGTGTGTAGTACTAAGTGCT-GGCTACTACGTGTACTGGATAATTGGTCGTATGTATAGTAC
1 TCACATGTGTAGTACTAAGTG-TAGGCTACTACGTGTACCGAATAATTGGTCGCATGTATAGTAC
* *
51765070 TAACTGCAGGCTACTATGTGTACCAGATAGCTTTG
65 TAAATGCAGGCTACTATGTGTACCAGATAACTTTG
51765105 GCTACAAGTG
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 84 0.99
101 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAATTGGTCGCATGTATAGTACT
AAATGCAGGCTACTATGTGTACCAGATAACTTTGA
Found at i:51765091 original size:49 final size:49
Alignment explanation
Indices: 51764909--51765098 Score: 200
Period size: 49 Copynumber: 3.8 Consensus size: 49
51764899 TGTGATGTCA
* * *
51764909 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAATTATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCG
* * * * * * *
51764958 CATGTGTAGTATTAAATGTATGCTACTATGTGTACCCGATAACTTTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA--TTGGTCG
* * * *
51765009 CGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACTGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCG
* * * *
51765058 TATGTATAGTACTAACTGCAGGCTACTATGTGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
51765099 GCTTTGGCTA
Statistics
Matches: 112, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
49 74 0.66
51 38 0.34
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCG
Found at i:51771047 original size:16 final size:16
Alignment explanation
Indices: 51771026--51771056 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51771016 ATGGCCTTAA
51771026 TAAACCTCATTTCATG
1 TAAACCTCATTTCATG
51771042 TAAACCTCATTTCAT
1 TAAACCTCATTTCAT
51771057 CTGTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAACCTCATTTCATG
Found at i:51777633 original size:11 final size:11
Alignment explanation
Indices: 51777597--51777652 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
51777587 CATGGTATGT
51777597 ATGATATGCAC
1 ATGATATGCAC
* *
51777608 ATGACATG--T
1 ATGATATGCAC
51777617 ATGATATGCAC
1 ATGATATGCAC
*
51777628 ATGATATG--T
1 ATGATATGCAC
51777637 ATGATATGCAC
1 ATGATATGCAC
51777648 ATGAT
1 ATGAT
51777653 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:51777652 original size:20 final size:20
Alignment explanation
Indices: 51777586--51777652 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
51777576 ATTTTGATAA
*
51777586 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
51777606 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
51777626 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51777646 ACATGAT
1 ACATGAT
51777653 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:51777785 original size:24 final size:24
Alignment explanation
Indices: 51777701--51777832 Score: 203
Period size: 25 Copynumber: 5.4 Consensus size: 24
51777691 GTAGGAAGTG
51777701 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
51777725 GATAAAGGGCTTATGCCTCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
51777750 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
51777775 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
51777799 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
51777822 TAAAAGAGGCT
1 TAAAAG-GGCT
51777833 AGGCCTCTAG
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
23 18 0.18
24 38 0.37
25 46 0.45
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:51778075 original size:31 final size:31
Alignment explanation
Indices: 51778040--51778102 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
51778030 CGTTTACAGT
51778040 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
51778071 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
51778102 A
1 A
51778103 GTGTGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:51779681 original size:25 final size:25
Alignment explanation
Indices: 51779653--51779704 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
51779643 AGGAAGTGCA
51779653 AACATAAA-TGGGAAGAAGATATTGG
1 AACATAAATTGGGAAG-AGATATTGG
* *
51779678 AACATAAATTTGGAAGAGATGTTGG
1 AACATAAATTGGGAAGAGATATTGG
51779703 AA
1 AA
51779705 GCAGGAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.46, C:0.04, G:0.27, T:0.23
Consensus pattern (25 bp):
AACATAAATTGGGAAGAGATATTGG
Found at i:51781333 original size:13 final size:13
Alignment explanation
Indices: 51781311--51781343 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
51781301 AGGGGTTTGT
51781311 TTAT-TAAACTAA
1 TTATCTAAACTAA
51781323 TTATCTAAACTAA
1 TTATCTAAACTAA
*
51781336 TTAACTAA
1 TTATCTAA
51781344 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:51781805 original size:20 final size:20
Alignment explanation
Indices: 51781780--51781819 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
51781770 GCATTAATAA
51781780 CACATAATTAAGAACAAATC
1 CACATAATTAAGAACAAATC
51781800 CACATAATTAAGAACAAATC
1 CACATAATTAAGAACAAATC
51781820 AAGTTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (20 bp):
CACATAATTAAGAACAAATC
Found at i:51784285 original size:6 final size:6
Alignment explanation
Indices: 51784271--51784348 Score: 63
Period size: 6 Copynumber: 13.5 Consensus size: 6
51784261 AATAAAATTG
* * *
51784271 AAATGA AAACAA AAATAA AAAT-A AAAT-A AAAT-A AAATAA GAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* * * * *
51784316 GAATAA GAATAA GAATAA GAATAA GAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
51784349 AAGGAGGATT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
5 15 0.23
6 51 0.77
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:51784322 original size:12 final size:12
Alignment explanation
Indices: 51784284--51784345 Score: 94
Period size: 12 Copynumber: 5.4 Consensus size: 12
51784274 TGAAAACAAA
*
51784284 AATAAAAATAA-
1 AATAAGAATAAG
51784295 AATAA-AATAA-
1 AATAAGAATAAG
51784305 AATAAGAATAAG
1 AATAAGAATAAG
51784317 AATAAGAATAAG
1 AATAAGAATAAG
51784329 AATAAGAATAAG
1 AATAAGAATAAG
51784341 AATAA
1 AATAA
51784346 AAAAAGGAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.20
11 10 0.20
12 29 0.59
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (12 bp):
AATAAGAATAAG
Found at i:51784328 original size:18 final size:18
Alignment explanation
Indices: 51784284--51784345 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
51784274 TGAAAACAAA
*
51784284 AATAAAAATAA-AATAA-
1 AATAAGAATAAGAATAAG
51784300 AATAA-AATAAGAATAAG
1 AATAAGAATAAGAATAAG
51784317 AATAAGAATAAGAATAAG
1 AATAAGAATAAGAATAAG
51784335 AATAAGAATAA
1 AATAAGAATAA
51784346 AAAAAGGAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.12
16 10 0.23
17 5 0.12
18 23 0.53
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (18 bp):
AATAAGAATAAGAATAAG
Found at i:51795648 original size:34 final size:35
Alignment explanation
Indices: 51795575--51795648 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
51795565 AATAATCATT
** *
51795575 TACATTTACATGTCAATATGACCAATTATGACCTA
1 TACATTTACATGAAAATATGACCAATTATAACCTA
51795610 TACATTTACATGAAAATATGACCAA-TATAACCTA
1 TACATTTACATGAAAATATGACCAATTATAACCTA
51795644 TACAT
1 TACAT
51795649 GCCATTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 13 0.36
35 23 0.64
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (35 bp):
TACATTTACATGAAAATATGACCAATTATAACCTA
Found at i:51799328 original size:10 final size:10
Alignment explanation
Indices: 51799309--51799343 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
51799299 AAATCTGTCG
51799309 AAAA-TAATC
1 AAAATTAATC
51799318 AAAATTAATC
1 AAAATTAATC
*
51799328 AAAATTAATT
1 AAAATTAATC
51799338 AAAATT
1 AAAATT
51799344 CATTATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:51801164 original size:21 final size:21
Alignment explanation
Indices: 51801140--51801179 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
51801130 AAAACCCTTC
*
51801140 TTAAAATAAAAGAAACCTTAA
1 TTAAAATAAAAAAAACCTTAA
**
51801161 TTAACTTAAAAAAAACCTT
1 TTAAAATAAAAAAAACCTT
51801180 TCAGTTGCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (21 bp):
TTAAAATAAAAAAAACCTTAA
Found at i:51802255 original size:29 final size:29
Alignment explanation
Indices: 51802176--51802287 Score: 93
Period size: 29 Copynumber: 3.9 Consensus size: 29
51802166 ACCCCTACAT
* * *
51802176 ACATGCATAGGGCCCACTATGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * * *
51802204 TTATTCAAATGGCCCATCT-GGCCTAGTTC
1 ACATTCATATGGCCCA-CTAGGCCCAATTC
* **
51802233 ATATTTTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
*
51802262 ACATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
51802288 ATCATATTAT
Statistics
Matches: 63, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 17 0.27
29 46 0.73
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:51802293 original size:58 final size:57
Alignment explanation
Indices: 51802186--51802295 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 57
51802176 ACATGCATAG
* ** * **
51802186 GGCCCACTATGCCCAATCTTATTCAAATGGCCCATCTGGCCTAGTTCATATTTTTAT
1 GGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTTTTAT
*
51802243 GGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 GGCCCACTAGGCCCAA-TCACATTCAAATGGCCCATCT-GGCCCAAATCATATT
51802296 ATATTCATGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
57 16 0.36
58 28 0.64
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (57 bp):
GGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTTTTAT
Found at i:51802531 original size:16 final size:16
Alignment explanation
Indices: 51802510--51802552 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
51802500 ATAGCCCAAC
*
51802510 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
*
51802526 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
*
51802542 TTTTGGCTTTT
1 TTTCGGCTTTT
51802553 GCCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.16, G:0.23, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:51804985 original size:42 final size:41
Alignment explanation
Indices: 51804924--51805075 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 41
51804914 AGATTACGTG
* *
51804924 TAAGACCATATCTGAGATATGGCATCGATATGACACTTTGT
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTTGT
* * * *
51804965 ATAAGACCATATCTGGGATATGGAATCAATGTGAGATTTTGT
1 -TAAGACCATATCTGGGATATGGCATCGATATGAGACTTTGT
* * *
51805007 GTAAGACCATAAT-TGGGCTATTTGCATCGATATGAGATCCTATG-
1 -TAAGACCAT-ATCTGGGATA-TGGCATCGATATGAGA--CTTTGT
51805051 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
51805076 TGGTATATTA
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 57 0.64
43 29 0.33
45 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (41 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGACTTTGT
Found at i:51805164 original size:21 final size:21
Alignment explanation
Indices: 51805140--51805180 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51805130 GTTCAAAGGG
* *
51805140 AAATTCAATGAGTATGTTAAA
1 AAATACAAAGAGTATGTTAAA
*
51805161 AAATAGAAAGAGTATGTTAA
1 AAATACAAAGAGTATGTTAA
51805181 GTCACGAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.29
Consensus pattern (21 bp):
AAATACAAAGAGTATGTTAAA
Found at i:51805798 original size:30 final size:30
Alignment explanation
Indices: 51805762--51805830 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
51805752 ATGGGATAGA
51805762 CCGTGTGTCACACACAGCCTAGACACATAC
1 CCGTGTGTCACACACAGCCTAGACACATAC
* *
51805792 TCGTGTGTCACACACAGCCTAGACACATGC
1 CCGTGTGTCACACACAGCCTAGACACATAC
51805822 CCGTGTGTC
1 CCGTGTGTC
51805831 TATCCATGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCCTAGACACATAC
Found at i:51807443 original size:24 final size:24
Alignment explanation
Indices: 51807391--51807444 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
51807381 GAGGATATCA
51807391 AGGAGAAAGTTGTGGAGAGGATTG
1 AGGAGAAAGTTGTGGAGAGGATTG
* * *
51807415 GGGAGAGATTTGTGGAGAGGAATT-
1 AGGAGAAAGTTGTGGAGAGG-ATTG
51807439 AGGAGA
1 AGGAGA
51807445 TGGAGGTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.20
Consensus pattern (24 bp):
AGGAGAAAGTTGTGGAGAGGATTG
Found at i:51809228 original size:26 final size:26
Alignment explanation
Indices: 51809176--51809228 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
51809166 GCTGCGATAT
*
51809176 TGGTGTGTTGGTTGTGTTGGTACGGG
1 TGGTGTGTTGGTTGTGTTGGGACGGG
*
51809202 TGGTGTGTTGGTTG-GATTGGGATGGG
1 TGGTGTGTTGGTTGTG-TTGGGACGGG
51809228 T
1 T
51809229 TGCATATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.06, C:0.02, G:0.51, T:0.42
Consensus pattern (26 bp):
TGGTGTGTTGGTTGTGTTGGGACGGG
Found at i:51826020 original size:18 final size:17
Alignment explanation
Indices: 51825986--51826020 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51825976 TTTCTAGGCT
*
51825986 ATGTGGGCCATATGGGC
1 ATGTGGGCCACATGGGC
51826003 ATGTGGGCCCACATGGGC
1 ATGTGGG-CCACATGGGC
51826021 CCGCAGTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.20
Consensus pattern (17 bp):
ATGTGGGCCACATGGGC
Found at i:51829374 original size:40 final size:40
Alignment explanation
Indices: 51829304--51829481 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
51829294 AAACCAAGTA
* * *
51829304 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
51829343 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
51829383 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
51829423 CCTTCGGGACTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51829463 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51829482 TTACCATCTG
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.89
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:51835909 original size:6 final size:6
Alignment explanation
Indices: 51835898--51835923 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51835888 AACCAAAATT
51835898 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
51835924 ACTTTAAATA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:51842214 original size:67 final size:63
Alignment explanation
Indices: 51842143--51842349 Score: 186
Period size: 67 Copynumber: 3.2 Consensus size: 63
51842133 CATCATGTGT
51842143 ACAAGAGAGCTACAAGAATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTAC-AG-A-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
51842208 AG
62 AG
* * * * * * *
51842210 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTAC-AGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
51842275 AG
62 AG
* * * * *
51842277 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTAC-AGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
51842339 TACAAGAGAGC
1 -ACAAGAGAGC
51842350 CAAACTATAT
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 21 0.18
65 11 0.09
66 17 0.15
67 45 0.39
68 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (63 bp):
ACAAGAGAGCTACAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:51844420 original size:18 final size:19
Alignment explanation
Indices: 51844378--51844423 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
51844368 TCACAATCGC
*
51844378 CATATTTCAAGTCATGCAAA
1 CATATTT-AATTCATGCAAA
51844398 -A-ATTTAATTCATG-AAA
1 CATATTTAATTCATGCAAA
51844414 CATATTTAAT
1 CATATTTAAT
51844424 AAACAAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 11 0.48
19 1 0.04
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (19 bp):
CATATTTAATTCATGCAAA
Found at i:51847348 original size:18 final size:18
Alignment explanation
Indices: 51847325--51847364 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
51847315 CCAACTCTCT
51847325 AACTCAATTTGGGTCTAC
1 AACTCAATTTGGGTCTAC
51847343 AACTCAATTTGGGTCTAC
1 AACTCAATTTGGGTCTAC
51847361 AACT
1 AACT
51847365 ACTCCACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
AACTCAATTTGGGTCTAC
Found at i:51852452 original size:8 final size:8
Alignment explanation
Indices: 51852439--51852463 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
51852429 AATAACATAT
51852439 ATTACCTA
1 ATTACCTA
51852447 ATTACCTA
1 ATTACCTA
51852455 ATTACCTA
1 ATTACCTA
51852463 A
1 A
51852464 CCATCCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTACCTA
Found at i:51855212 original size:17 final size:17
Alignment explanation
Indices: 51855190--51855222 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51855180 AACTTAAGTA
51855190 TTGATATCC-ATAGCTAT
1 TTGATA-CCTATAGCTAT
51855207 TTGATACCTATAGCTA
1 TTGATACCTATAGCTA
51855223 CTCGAACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGATACCTATAGCTAT
Found at i:51863977 original size:25 final size:25
Alignment explanation
Indices: 51863949--51863999 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
51863939 CTAATTGTGT
51863949 AAGCATAGAACGCATCTTGTAGATG
1 AAGCATAGAACGCATCTTGTAGATG
51863974 AAGCATAGAACGCATCTTGTAGATG
1 AAGCATAGAACGCATCTTGTAGATG
51863999 A
1 A
51864000 TGTTGACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (25 bp):
AAGCATAGAACGCATCTTGTAGATG
Found at i:51868548 original size:17 final size:17
Alignment explanation
Indices: 51868495--51868550 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
51868485 TTTGAACTTT
*
51868495 TCAAAAGTATTTTTGAG
1 TCAAAAGTATTTTTTAG
* *
51868512 ACAAAA--ATGTTTT-G
1 TCAAAAGTATTTTTTAG
51868526 -CAAAAGTATTTTTTAG
1 TCAAAAGTATTTTTTAG
51868542 TCAAAAGTA
1 TCAAAAGTA
51868551 GAAGCAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 5 0.16
14 1 0.03
15 11 0.35
16 1 0.03
17 13 0.42
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (17 bp):
TCAAAAGTATTTTTTAG
Found at i:51871022 original size:7 final size:7
Alignment explanation
Indices: 51871012--51871037 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51871002 ATAGTTAAAA
51871012 AATATAT
1 AATATAT
51871019 AATATAT
1 AATATAT
51871026 AATATAT
1 AATATAT
51871033 AATAT
1 AATAT
51871038 TTATTCGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:51873586 original size:10 final size:10
Alignment explanation
Indices: 51873568--51873640 Score: 51
Period size: 10 Copynumber: 7.5 Consensus size: 10
51873558 ATTTAAAATA
*
51873568 TTTATATTTT
1 TTTAAATTTT
51873578 TTTAAATTTT
1 TTTAAATTTT
**
51873588 TTT-AATAAT
1 TTTAAATTTT
* **
51873597 TTTAAAATAA
1 TTTAAATTTT
* *
51873607 TTTAAA-ATA
1 TTTAAATTTT
*
51873616 TTTATATTTT
1 TTTAAATTTT
51873626 TTTAAATTTT
1 TTTAAATTTT
51873636 TTTAA
1 TTTAA
51873641 TAATTTTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
9 13 0.27
10 36 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:51873613 original size:48 final size:48
Alignment explanation
Indices: 51873545--51873656 Score: 201
Period size: 48 Copynumber: 2.4 Consensus size: 48
51873535 AGAAATATAA
*
51873545 AATAATTTT-TAA-AATTTAAAATATTTATATTTTTTTAAATTTTTTT
1 AATAATTTTAAAATAATTTAAAATATTTATATTTTTTTAAATTTTTTT
51873591 AATAATTTTAAAATAATTTAAAATATTTATATTTTTTTAAATTTTTTT
1 AATAATTTTAAAATAATTTAAAATATTTATATTTTTTTAAATTTTTTT
51873639 AATAATTTTAAAATAATT
1 AATAATTTTAAAATAATT
51873657 CTAAGGAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
46 9 0.14
47 2 0.03
48 52 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (48 bp):
AATAATTTTAAAATAATTTAAAATATTTATATTTTTTTAAATTTTTTT
Found at i:51873650 original size:19 final size:18
Alignment explanation
Indices: 51873577--51873635 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
51873567 ATTTATATTT
51873577 TTTTAAATTTTTTTAATAA
1 TTTTAAATTTTTTTAA-AA
* **
51873596 TTTTAAAATAATTTAAAA
1 TTTTAAATTTTTTTAAAA
*
51873614 TATTTATATTTTTTT-AAA
1 T-TTTAAATTTTTTTAAAA
51873632 TTTT
1 TTTT
51873636 TTTAATAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 3 0.09
18 7 0.22
19 22 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAAATTTTTTTAAAA
Done.