Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 227 of 228
Found at i:67428672 original size:62 final size:61
Alignment explanation
Indices: 67428592--67428715 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 61
67428582 GAACTGTGCA
*
67428592 AAAGACATTAATATAGTCTGCAATCTGCATGCTGTAATGGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAAT-GGGGAAGAGGCAATCGGTCGACT
67428654 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
67428715 A
1 A
67428716 CTGAAGCAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 24 0.39
62 37 0.61
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.23
Consensus pattern (61 bp):
AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
Found at i:67431108 original size:128 final size:121
Alignment explanation
Indices: 67430832--67431117 Score: 412
Period size: 121 Copynumber: 2.3 Consensus size: 121
67430822 TTGTTTTCAT
* *
67430832 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAATTACTGCTTAAAGATTGGATTATGGTATATC
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
* *
67430897 GATGTTTAATGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATTGTAAGAA
66 AATGTTTAATGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
67430953 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
* *
67431018 AATGTTTAGTGTAGTCTGGGCGTTGGGCATTCAATAGCTTAGTT-ATTGACATCATAGTAAGAA
66 AATGTTTAATGTAG--T---C---GGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
* * *
67431081 TGATTTCAAATGCATTGGATAACGTTCAAGCTAGTTA
1 TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTA
67431118 TATAGCTCGA
Statistics
Matches: 148, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
121 75 0.51
123 1 0.01
126 1 0.01
128 52 0.35
129 19 0.13
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (121 bp):
TCATTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACAGCTTAAAGATTGGATTATGGTATATC
AATGTTTAATGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAA
Found at i:67431266 original size:147 final size:147
Alignment explanation
Indices: 67431039--67431381 Score: 481
Period size: 147 Copynumber: 2.3 Consensus size: 147
67431029 TAGTCTGGGC
*
67431039 GTTGGGCATTCAATAGCTTAGTT-ATTGACATCATAGTAAGAATGATTTCAAATGCATTGGATAA
1 GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAA
* * * * * *
67431103 CGTTCAAGCTAGTTATATAGCTCGACTTATAGCTGTCCATGCTGCTTAAAGATTGGATTATGGTA
66 CGTTCAAGCTAGTTATATAGATCGACCTATAGCTGTCCATACTGCCTAAAGAGTGGATCATGGTA
67431168 TATCGATGTTTAGCTTA
131 TATCGATGTTTAGCTTA
* * *
67431185 GTTGGGCACTCAATAGCTTAGTTCATTGACATCATAGTAAGATTCATTTCAAATGCATTGGCTAA
1 GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAA
* * * * *
67431250 GGTTCAAGCTAGTTATATAGATTGACCTGTAGCTGTCCTTACTGCCTATAGAGTGGATCATGGTA
66 CGTTCAAGCTAGTTATATAGATCGACCTATAGCTGTCCATACTGCCTAAAGAGTGGATCATGGTA
*
67431315 TATTGATGTTTAGCTTA
131 TATCGATGTTTAGCTTA
* * * * * *
67431332 GTCGGGCGTTCAATACCTTAGATCATTGACATCATGGTAAGAATAATTTC
1 GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTC
67431382 TTGACCTGTA
Statistics
Matches: 172, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
146 22 0.13
147 150 0.87
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (147 bp):
GTTGGGCATTCAATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAA
CGTTCAAGCTAGTTATATAGATCGACCTATAGCTGTCCATACTGCCTAAAGAGTGGATCATGGTA
TATCGATGTTTAGCTTA
Found at i:67433460 original size:19 final size:20
Alignment explanation
Indices: 67433424--67433469 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
67433414 TTACAAAAAA
67433424 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
67433443 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
67433463 AAAAATT
1 AAAAATT
67433470 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:67434052 original size:8 final size:7
Alignment explanation
Indices: 67434031--67434063 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
67434021 TTCAAAATCG
67434031 ATGAAAA
1 ATGAAAA
67434038 ATGAAAA
1 ATGAAAA
67434045 ATGAAAA
1 ATGAAAA
*
67434052 ATTAAAA
1 ATGAAAA
67434059 A-GAAA
1 ATGAAA
67434064 TAATTGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 3 0.12
7 21 0.88
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:67434068 original size:14 final size:14
Alignment explanation
Indices: 67434031--67434068 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
67434021 TTCAAAATCG
*
67434031 ATGAAAAATGAAAA
1 ATGAAAAATTAAAA
67434045 ATGAAAAATTAAAA
1 ATGAAAAATTAAAA
67434059 A-GAAATAATT
1 ATGAAA-AATT
67434069 GATTGTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (14 bp):
ATGAAAAATTAAAA
Found at i:67435594 original size:42 final size:42
Alignment explanation
Indices: 67435534--67435614 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
67435524 CGTATATAGT
*
67435534 AGGACCCATTTGAAAGAAAAGCTAGCCGTTGAAGAGGAGAGA
1 AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
* * *
67435576 AGGACCCATTTGATAGAAAAGGTAGCCGTTAAAGGGGAG
1 AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAG
67435615 CGGCCACAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (42 bp):
AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
Found at i:67436351 original size:21 final size:23
Alignment explanation
Indices: 67436327--67436368 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
67436317 ACAAGCTTAC
67436327 AGGTTC-TGTCCCT-GCTTCATT
1 AGGTTCATGTCCCTCGCTTCATT
*
67436348 AGGTTCATGTCCTTCGCTTCA
1 AGGTTCATGTCCCTCGCTTCA
67436369 AACACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (23 bp):
AGGTTCATGTCCCTCGCTTCATT
Found at i:67449092 original size:50 final size:50
Alignment explanation
Indices: 67448998--67449093 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
67448988 TAAGATTCGA
* * **
67448998 TTTGGTACCTAAAGTTTATTTTGGTCCAATTAAGTACTTTAATTTGGCTT
1 TTTGGTACCTAAACTTTATTTTGGTCAAATTAAGTACTAGAATTTGGCTT
* *
67449048 TTTGGTACCTAAACTTTTTTTTTGTCAAATTAAGTACTAGAATTTG
1 TTTGGTACCTAAACTTTATTTTGGTCAAATTAAGTACTAGAATTTG
67449094 ACCTTTTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (50 bp):
TTTGGTACCTAAACTTTATTTTGGTCAAATTAAGTACTAGAATTTGGCTT
Found at i:67453131 original size:22 final size:22
Alignment explanation
Indices: 67453101--67453143 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
67453091 ACAGCAGAAC
* *
67453101 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
67453123 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
67453144 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:67453322 original size:43 final size:42
Alignment explanation
Indices: 67453215--67453570 Score: 439
Period size: 42 Copynumber: 8.4 Consensus size: 42
67453205 ACGTCACTAA
* * *
67453215 CTTTTGCGGCGCTTACATAAAAAAACACCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
67453259 CTTTAGCGGCGTTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
67453301 CTTTAGCGGCGCTTAGAAAAAAAACGCCCCCAAAGATCATGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
67453344 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * *
67453386 CTTTAGCGGTGCTTAGGAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
67453428 CTTTAGCGGCGCTTAGGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCATGTT
* * * * *
67453471 CTTTAACGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* *** *
67453514 CTATAGCGGCGCTTATTCAAAAACACCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCA-TGTT
67453556 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
67453571 TTTCACAAAC
Statistics
Matches: 277, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.00
42 154 0.56
43 108 0.39
44 14 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:67453339 original size:85 final size:85
Alignment explanation
Indices: 67453215--67453570 Score: 450
Period size: 85 Copynumber: 4.2 Consensus size: 85
67453205 ACGTCACTAA
* * * *
67453215 CTTTTGCGGCGCTTACATAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGTTTAGAAAAA
1 CTTTAGCGGCGCTTAGA-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAA
67453280 AACGCCGCTAAAGATCATGTT
65 AACGCCGCTAAAGATCATGTT
* *
67453301 CTTTAGCGGCGCTTAGAAAAAAAACGCCCCCAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
67453366 ACGCCGCTAAAGATCATGTT
66 ACGCCGCTAAAGATCATGTT
* * *
67453386 CTTTAGCGGTGCTTAG-GAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAAAA
*
67453450 AATGCCGCTAAAGATCATGTT
65 AACGCCGCTAAAGATCATGTT
* * * * * * * ***
67453471 CTTTAACGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTTATTCAAA
1 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGAAAAA
*
67453535 AACACCGCTAAA-AGT-AGTGTT
65 AACGCCGCTAAAGA-TCA-TGTT
67453556 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
67453571 TTTCACAAAC
Statistics
Matches: 237, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
84 39 0.16
85 150 0.63
86 48 0.20
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
ACGCCGCTAAAGATCATGTT
Found at i:67454021 original size:12 final size:12
Alignment explanation
Indices: 67453989--67454081 Score: 72
Period size: 12 Copynumber: 8.2 Consensus size: 12
67453979 TTTTGAACCT
* *
67453989 CTGCTTCTATTG
1 CTGCTTCTCTCG
67454001 CTGCTTCTCTCG
1 CTGCTTCTCTCG
67454013 CTGCTTCTCTCG
1 CTGCTTCTCTCG
* **
67454025 TTGCGGC-CT--
1 CTGCTTCTCTCG
67454034 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
67454046 TTGCTTCTCTCG
1 CTGCTTCTCTCG
**
67454058 CTGCGGC-CT--
1 CTGCTTCTCTCG
67454067 CTGCTTCTCTCG
1 CTGCTTCTCTCG
67454079 CTG
1 CTG
67454082 TAGCCGCTGC
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
9 9 0.15
10 4 0.07
11 4 0.07
12 44 0.72
ACGTcount: A:0.01, C:0.38, G:0.20, T:0.41
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:67454043 original size:33 final size:33
Alignment explanation
Indices: 67454001--67454081 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
67453991 GCTTCTATTG
*
67454001 CTGCTTCTCTCGCTGCTTCTCTCGTTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
*
67454034 CTGCTTCTCTCGTTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
67454067 CTGCTTCTCTCGCTG
1 CTGCTTCTCTCGCTG
67454082 TAGCCGCTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.00, C:0.40, G:0.21, T:0.40
Consensus pattern (33 bp):
CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
Found at i:67454071 original size:21 final size:21
Alignment explanation
Indices: 67454047--67454114 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
67454037 CTTCTCTCGT
*
67454047 TGCTTCTCTCGCTGCGGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
67454068 TGCTTCTCTCGCTGTAGCCGC
1 TGCTTCTCTCGCTGCAGCCTC
* * *
67454089 TGCTTCCCTCGTTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
67454110 TGCTT
1 TGCTT
67454115 TAAGTTGCTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.01, C:0.41, G:0.22, T:0.35
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:67459629 original size:9 final size:9
Alignment explanation
Indices: 67459615--67459939 Score: 217
Period size: 9 Copynumber: 36.9 Consensus size: 9
67459605 TTTTTATGTA
67459615 TTATGTAAG
1 TTATGTAAG
67459624 TTATGTAAG
1 TTATGTAAG
*
67459633 TTCTGT-A-
1 TTATGTAAG
67459640 TTATGT-A-
1 TTATGTAAG
*
67459647 TTATGTATG
1 TTATGTAAG
**
67459656 CCCCATGTAAG
1 --TTATGTAAG
*
67459667 TAATGTAAG
1 TTATGTAAG
67459676 TTATGTAAG
1 TTATGTAAG
*
67459685 TAATGT-A-
1 TTATGTAAG
67459692 TTATGTAAG
1 TTATGTAAG
*
67459701 TTGTGT-A-
1 TTATGTAAG
* ** *
67459708 CTACATCA-
1 TTATGTAAG
*
67459716 TTATGTGAG
1 TTATGTAAG
67459725 TTATGTAAG
1 TTATGTAAG
* *
67459734 TTATTTAAT
1 TTATGTAAG
*
67459743 TTACT-TAAT
1 TTA-TGTAAG
67459752 TTATGTAAG
1 TTATGTAAG
67459761 TTATGTAAG
1 TTATGTAAG
* * *
67459770 ATATTTAAT
1 TTATGTAAG
67459779 TTATGTAAG
1 TTATGTAAG
67459788 TTATGTAAG
1 TTATGTAAG
* *
67459797 TTATTTAAT
1 TTATGTAAG
*
67459806 TTACT-TAAT
1 TTA-TGTAAG
67459815 TTATGTAAG
1 TTATGTAAG
* *
67459824 TTATTTAAT
1 TTATGTAAG
*
67459833 TTACT-TAAT
1 TTA-TGTAAG
67459842 TTATGTAAG
1 TTATGTAAG
*
67459851 TTATGCAAG
1 TTATGTAAG
* * *
67459860 ATATTTAAT
1 TTATGTAAG
67459869 TTATGTAAG
1 TTATGTAAG
67459878 TTATGTAAG
1 TTATGTAAG
*
67459887 TTACT-TAAT
1 TTA-TGTAAG
67459896 TTATGTAAG
1 TTATGTAAG
67459905 TTATGTAAG
1 TTATGTAAG
* *
67459914 TTATTTAAT
1 TTATGTAAG
*
67459923 TTTTGTAAG
1 TTATGTAAG
67459932 TTATGTAA
1 TTATGTAA
67459940 TTAACCAAAT
Statistics
Matches: 248, Mismatches: 52, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
7 19 0.08
8 13 0.05
9 206 0.83
10 4 0.02
11 6 0.02
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:67459645 original size:25 final size:25
Alignment explanation
Indices: 67459611--67459734 Score: 85
Period size: 25 Copynumber: 4.9 Consensus size: 25
67459601 TATATTTTTA
*
67459611 TGTATTATGTAAGTTATGTAAGTTC
1 TGTATTATGTAAGTTATGTAAGTAC
* **
67459636 TGTATTATGT-A-TTATGTATGCCCC
1 TGTATTATGTAAGTTATGTAAG-TAC
* *
67459660 ATGTAAGTAATGTAAGTTATGTAAGTAA
1 -TGT-A-TTATGTAAGTTATGTAAGTAC
* *
67459688 TGTATTATGTAAGTTGTGT-ACTAC
1 TGTATTATGTAAGTTATGTAAGTAC
* *
67459712 AT-CATTATGTGAGTTATGTAAGT
1 -TGTATTATGTAAGTTATGTAAGT
67459735 TATTTAATTT
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
23 8 0.11
24 19 0.25
25 29 0.39
26 2 0.03
27 8 0.11
28 1 0.01
29 8 0.11
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (25 bp):
TGTATTATGTAAGTTATGTAAGTAC
Found at i:67459789 original size:54 final size:54
Alignment explanation
Indices: 67459725--67459939 Score: 250
Period size: 54 Copynumber: 3.8 Consensus size: 54
67459715 ATTATGTGAG
* * * *
67459725 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* *
67459779 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAG---------TTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* * *
67459842 TTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
* *
67459896 TTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTAA
1 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAA
67459940 TTAACCAAAT
Statistics
Matches: 138, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
54 89 0.64
63 49 0.36
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (54 bp):
TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
Found at i:67464098 original size:115 final size:115
Alignment explanation
Indices: 67463894--67464105 Score: 266
Period size: 115 Copynumber: 1.8 Consensus size: 115
67463884 GTTAAGACCA
* * *
67463894 AAACTCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATCAAAAAGCGCCGCTAATACCATGATT
1 AAACGCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATAAAAAAGCGCCGCTAATAACATGATT
* ** ***
67463959 TAGTGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATCAAGACTT
66 TAGCGGCGATGACTCAACAACGCCACTAATTCCAGTATACATCAAGACTT
* ** * *
67464009 AAACGCTGCGTTTTTGTTAATATGTTTTGCGGCGCTTATAAAAAAGCGCCGCTAATAATAT-ACT
1 AAACGCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATAAAAAAGCGCCGCTAATAACATGA-T
67464073 TTAGCGGCGATGAC-CAACAAGCGCCACTAATTC
65 TTAGCGGCGATGACTCAACAA-CGCCACTAATTC
67464106 TAATATACCT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
114 4 0.05
115 77 0.95
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (115 bp):
AAACGCTGCGTTTTGGTTAATACATTTTCCGGCGCTTATAAAAAAGCGCCGCTAATAACATGATT
TAGCGGCGATGACTCAACAACGCCACTAATTCCAGTATACATCAAGACTT
Found at i:67474618 original size:29 final size:29
Alignment explanation
Indices: 67474586--67474656 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
67474576 TTTTGAAAAT
*
67474586 TAAGAATTTAGTCCATATATTTGTATTTC
1 TAAGAATTTAGTCCATATATGTGTATTTC
* *
67474615 TAAGAATTTAGTCCCTGTATGTGTATTTC
1 TAAGAATTTAGTCCATATATGTGTATTTC
67474644 T-AGAAATTTAGTC
1 TAAG-AATTTAGTC
67474657 TCTCTACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (29 bp):
TAAGAATTTAGTCCATATATGTGTATTTC
Found at i:67477826 original size:17 final size:18
Alignment explanation
Indices: 67477799--67477834 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
67477789 AATTATAATA
67477799 AAAAGTTATAAAATTTTT
1 AAAAGTTATAAAATTTTT
*
67477817 AAAA-TTATAAATTTTTT
1 AAAAGTTATAAAATTTTT
67477834 A
1 A
67477835 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAAAGTTATAAAATTTTT
Found at i:67477940 original size:29 final size:28
Alignment explanation
Indices: 67477906--67477980 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
67477896 GTTAAAAATT
*
67477906 ATAATTTTATAAATTTTATAAATTTTTTC
1 ATAATTTT-TAAATTTTATAAATTTTTTA
* **
67477935 ATAATTTTTTTCAATTTT-TTTATTTTTTA
1 ATAA--TTTTTAAATTTTATAAATTTTTTA
67477964 ATAATTTTTAAATTTTA
1 ATAATTTTTAAATTTTA
67477981 AAAGGGCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 11 0.29
29 16 0.42
30 7 0.18
31 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (28 bp):
ATAATTTTTAAATTTTATAAATTTTTTA
Found at i:67477943 original size:21 final size:20
Alignment explanation
Indices: 67477910--67477954 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
67477900 AAAATTATAA
67477910 TTTTATAAATTTTATAAATT
1 TTTTATAAATTTTATAAATT
* * *
67477930 TTTTCATAATTTTTTTCAATT
1 TTTT-ATAAATTTTATAAATT
67477951 TTTT
1 TTTT
67477955 TATTTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATAAATTTTATAAATT
Found at i:67478360 original size:2 final size:2
Alignment explanation
Indices: 67478353--67478378 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67478343 CTTAACTTAG
67478353 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
67478379 GAATATACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67478582 original size:109 final size:109
Alignment explanation
Indices: 67478391--67478608 Score: 409
Period size: 109 Copynumber: 2.0 Consensus size: 109
67478381 ATATACACCC
67478391 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
1 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
* *
67478456 CAGTTAAATTGAATGTCAAGTGCCTAGGTTAGATCCTAAATGGG
66 CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
67478500 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
1 ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
*
67478565 CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCTTAAATGGG
66 CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
67478609 GACAAAGCAC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 106 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (109 bp):
ACTCATCCACATATGTTATTAACTTTTCTTTTTTTGTGCAAGACACTCAGAATTCAATATTGTAT
CAATTAAATTGAATGTCAAGTACCTAGGTTAGATCCTAAATGGG
Found at i:67479663 original size:21 final size:21
Alignment explanation
Indices: 67479629--67479674 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
67479619 CTAAGATGTG
*
67479629 AATTGGATTGAATTGA-GTATA
1 AATTGGATTAAATTGATGT-TA
*
67479650 AATTGTATTAAATTGATGTTA
1 AATTGGATTAAATTGATGTTA
67479671 AATT
1 AATT
67479675 CATTCGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (21 bp):
AATTGGATTAAATTGATGTTA
Found at i:67480245 original size:24 final size:23
Alignment explanation
Indices: 67480218--67480265 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
67480208 TATCCGTTAT
67480218 TGGCTCGCATGAGCTTCCTGATTA
1 TGGCTCGCATGAGCTTCCT-ATTA
**
67480242 TGGCTCTTATGAGCTTCCTATTA
1 TGGCTCGCATGAGCTTCCTATTA
67480265 T
1 T
67480266 ACAACCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (23 bp):
TGGCTCGCATGAGCTTCCTATTA
Found at i:67481084 original size:19 final size:19
Alignment explanation
Indices: 67481060--67481108 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
67481050 TGATTTTGGT
*
67481060 TTGGTTTGAATGTCTTGTA
1 TTGGTTTGAAAGTCTTGTA
67481079 TTGGTTTGAAAGTCTTGTA
1 TTGGTTTGAAAGTCTTGTA
67481098 TTGGTTTGAAA
1 TTGGTTTGAAA
67481109 ATATGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (19 bp):
TTGGTTTGAAAGTCTTGTA
Found at i:67486965 original size:16 final size:17
Alignment explanation
Indices: 67486944--67486977 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
67486934 AGCAAAGTAT
*
67486944 AATTTTATTAATT-TAA
1 AATTTTATAAATTATAA
67486960 AATTTTATAAATTATAA
1 AATTTTATAAATTATAA
67486977 A
1 A
67486978 TACCTAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTATAAATTATAA
Found at i:67489824 original size:16 final size:16
Alignment explanation
Indices: 67489803--67489837 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
67489793 GTTTGAGTCA
*
67489803 ATTTTAAGTTCTAATC
1 ATTTTAAGTTCCAATC
67489819 ATTTTAAGTTCCAATC
1 ATTTTAAGTTCCAATC
67489835 ATT
1 ATT
67489838 CCAAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (16 bp):
ATTTTAAGTTCCAATC
Found at i:67493533 original size:30 final size:29
Alignment explanation
Indices: 67493499--67493589 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
67493489 TTGTTTGTGG
*
67493499 AAATTGAATC-AAATTAAAATTTTATGTATA
1 AAATTGAA-CAAAATCAAAA-TTTATGTATA
* *
67493529 AAATTGTACAAAATCAAAATTTATGTATG
1 AAATTGAACAAAATCAAAATTTATGTATA
* * * *
67493558 ATATTGCACATTAAATCAAAGTTCATGTATA
1 AAATTGAACA--AAATCAAAATTTATGTATA
67493589 A
1 A
67493590 TTTTGATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 18 0.36
30 15 0.30
31 17 0.34
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (29 bp):
AAATTGAACAAAATCAAAATTTATGTATA
Found at i:67493540 original size:29 final size:30
Alignment explanation
Indices: 67493499--67493556 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
67493489 TTGTTTGTGG
*
67493499 AAATTGAATC-AAATTAAAATTTTATGTATA
1 AAATTGAATCAAAATCAAAA-TTTATGTATA
*
67493529 AAATTGTA-CAAAATCAAAATTTATGTAT
1 AAATTGAATCAAAATCAAAATTTATGTAT
67493557 GATATTGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATTGAATCAAAATCAAAATTTATGTATA
Found at i:67493563 original size:29 final size:30
Alignment explanation
Indices: 67493509--67493589 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
67493499 AAATTGAATC
* *
67493509 AAATTAAAATTTTATGTATAAAATTGTACA-
1 AAATCAAAA-TTTATGTATAAAATTGCACAT
* *
67493539 AAATCAAAATTTATGTATGATATTGCACATT
1 AAATCAAAATTTATGTATAAAATTGCACA-T
* *
67493570 AAATCAAAGTTCATGTATAA
1 AAATCAAAATTTATGTATAA
67493590 TTTTGATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (30 bp):
AAATCAAAATTTATGTATAAAATTGCACAT
Found at i:67497370 original size:10 final size:10
Alignment explanation
Indices: 67497355--67497396 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
67497345 ATCATGCTAG
*
67497355 TTTTTTGCAT
1 TTTTTTGAAT
67497365 TTTTTTGAAT
1 TTTTTTGAAT
67497375 TTTTTAT-AA-
1 TTTTT-TGAAT
67497384 TTTTTTGAAT
1 TTTTTTGAAT
67497394 TTT
1 TTT
67497397 GAATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 1 0.04
9 7 0.25
10 19 0.68
11 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:67497379 original size:19 final size:19
Alignment explanation
Indices: 67497355--67497396 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
67497345 ATCATGCTAG
* *
67497355 TTTTTTGCATTTTTTTGAA
1 TTTTTTACAATTTTTTGAA
*
67497374 TTTTTTATAATTTTTTGAA
1 TTTTTTACAATTTTTTGAA
67497393 TTTT
1 TTTT
67497397 GAATTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTTACAATTTTTTGAA
Found at i:67516369 original size:34 final size:34
Alignment explanation
Indices: 67516331--67516407 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
67516321 GTAATGTGGC
*
67516331 ATACTTATAATAGATCAATACGATAGCAATTAAT
1 ATACTTATAATAGATCAATACGATAACAATTAAT
* *
67516365 ATACTTATAGTAGATCAATACGATAACAATTATT
1 ATACTTATAATAGATCAATACGATAACAATTAAT
*
67516399 ATGCTTATA
1 ATACTTATA
67516408 CTAATTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (34 bp):
ATACTTATAATAGATCAATACGATAACAATTAAT
Found at i:67523802 original size:31 final size:30
Alignment explanation
Indices: 67523741--67523808 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
67523731 ACAATCCAAG
* *
67523741 ATAGTTGGGTGATCAAAAAAGACAAAACTAA
1 ATAGTTGAGTGACCAAAAAAGACAAAACT-A
*
67523772 ATAGTTGAGTGACCAAAAAAGA-AATTACTA
1 ATAGTTGAGTGACCAAAAAAGACAA-AACTA
67523802 ATAGTTG
1 ATAGTTG
67523809 GGTGGCTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.24
Consensus pattern (30 bp):
ATAGTTGAGTGACCAAAAAAGACAAAACTA
Found at i:67527172 original size:56 final size:56
Alignment explanation
Indices: 67527086--67527199 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
67527076 TAGTCTAGCA
*
67527086 CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGATAAAAAATAG
1 CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGAAAAAAAATAG
* *
67527142 CTTAAATGGTATGGGTTCAAACCCTATTATTCCCTTCTCCCTATGAAAAAAAATAG
1 CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGAAAAAAAATAG
67527198 CT
1 CT
67527200 AACATAGTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (56 bp):
CTTAAATGGCACGGGTTCAAACCCTATTATTCCCTTCTCCCTATGAAAAAAAATAG
Found at i:67530265 original size:35 final size:35
Alignment explanation
Indices: 67530215--67530288 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
67530205 TTTTATAGTA
* * *
67530215 TTGTTGATGTTTGTTTT-ATGATTTATGTTCGTGGT
1 TTGTTGATGTATGTTTTAATG-TTGATGTTCGAGGT
67530250 TTGTTGATGTATGTTTTAATGTTGATGTTCGAGGT
1 TTGTTGATGTATGTTTTAATGTTGATGTTCGAGGT
67530285 TTGT
1 TTGT
67530289 AGTTATCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 32 0.91
36 3 0.09
ACGTcount: A:0.14, C:0.03, G:0.27, T:0.57
Consensus pattern (35 bp):
TTGTTGATGTATGTTTTAATGTTGATGTTCGAGGT
Found at i:67533141 original size:4 final size:4
Alignment explanation
Indices: 67533093--67533122 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
67533083 AATATTATTA
67533093 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
67533123 AATGTTGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:67534903 original size:110 final size:108
Alignment explanation
Indices: 67534710--67535031 Score: 411
Period size: 109 Copynumber: 3.0 Consensus size: 108
67534700 TAAATTCAAT
* * * *
67534710 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCG
1 AGGATATTAGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
67534773 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTAAGA
66 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTAA-A
* * *
67534817 AGGATATTAAG-TCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCT
1 AGGATATTAGGCT-ATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCT
67534881 CGAATTTCCAAACGCAAAACATTGCCTTATTTT-AAAATTTTTAAA
64 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAA-TTTTAAA
* * * * * *
67534926 AGGATATTTGGCTATTAGGTCGAATGAGAAAAATCGAAACCCAACACATTAGGGCACGCTTTCTC
1 AGGATATTAGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACG-TTTCTC
* * *
67534991 GAACTTCCAAATGCAAAATC-TTGCCTTATTTAGAAAATTTT
65 GAATTTCCAAACGCAAAA-CATTGCCTTATTTTGAAAATTTT
67535032 CTTTTTTGAA
Statistics
Matches: 187, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
107 23 0.12
109 115 0.61
110 49 0.26
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AGGATATTAGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTAAA
Found at i:67537971 original size:40 final size:40
Alignment explanation
Indices: 67537838--67537975 Score: 102
Period size: 40 Copynumber: 3.5 Consensus size: 40
67537828 ATTCAAGTCG
* * * * * **
67537838 ATGAGACACTGGGTGTTAATTTACTACTTCGGATTAATTCA
1 ATGAGACACTAGGTGTCAAATTATTACTTCGAATT-AGCCA
* * * *
67537879 ATGAGGCATTAGGTG-CCAA-T-TTACTTCGATTTAGCCA
1 ATGAGACACTAGGTGTCAAATTATTACTTCGAATTAGCCA
* *
67537916 ATGAGACACTAGGTGTCAAATTATTACTTCGAATTATCCG
1 ATGAGACACTAGGTGTCAAATTATTACTTCGAATTAGCCA
* * *
67537956 ATTAGGCACTGGGTGTCAAA
1 ATGAGACACTAGGTGTCAAA
67537976 CTGGTGTGTT
Statistics
Matches: 74, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
37 16 0.22
38 12 0.16
39 2 0.03
40 32 0.43
41 12 0.16
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (40 bp):
ATGAGACACTAGGTGTCAAATTATTACTTCGAATTAGCCA
Found at i:67539464 original size:4 final size:4
Alignment explanation
Indices: 67539455--67539518 Score: 60
Period size: 4 Copynumber: 15.2 Consensus size: 4
67539445 AAATAAAAAG
*
67539455 AGAA AGAA AGAA AGAA ACAAA ATGAAA CAGAA AGGAA AGAA A-AA AGAA
1 AGAA AGAA AGAA AGAA A-GAA A-G-AA -AGAA A-GAA AGAA AGAA AGAA
67539503 AGAA AGAA AG-A AGAA A
1 AGAA AGAA AGAA AGAA A
67539519 CGCAAGGGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
3 6 0.12
4 32 0.63
5 9 0.18
6 3 0.06
7 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:67555804 original size:19 final size:19
Alignment explanation
Indices: 67555769--67555815 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
67555759 TATAGGTACT
** *
67555769 AATTTTTAACAGTAGAAGA
1 AATTTTTAACAAAAGAACA
*
67555788 AATTTTTAACAAAAGAACC
1 AATTTTTAACAAAAGAACA
67555807 AATTTTTAA
1 AATTTTTAA
67555816 TGTAGGTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.34
Consensus pattern (19 bp):
AATTTTTAACAAAAGAACA
Found at i:67556142 original size:6 final size:6
Alignment explanation
Indices: 67556133--67556181 Score: 71
Period size: 6 Copynumber: 7.7 Consensus size: 6
67556123 TACTTCTTAA
67556133 AAAATT AAAATT AAAAATT AAAAATT AAAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT -AAAATT -AAAATT -AAAATT AAAATT AAAATT AAAA
67556182 AACTTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 22 0.52
7 20 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:67556149 original size:7 final size:7
Alignment explanation
Indices: 67556132--67556196 Score: 82
Period size: 7 Copynumber: 9.4 Consensus size: 7
67556122 TTACTTCTTA
67556132 AAAAATT
1 AAAAATT
67556139 -AAAATT
1 AAAAATT
67556145 AAAAATT
1 AAAAATT
67556152 AAAAATT
1 AAAAATT
67556159 AAAAATT
1 AAAAATT
67556166 -AAAATT
1 AAAAATT
67556172 -AAAATT
1 AAAAATT
67556178 AAAAAACTT
1 -AAAAA-TT
*
67556187 AAAAAAT
1 AAAAATT
67556194 AAA
1 AAA
67556197 TAAATTCAGT
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
6 18 0.34
7 24 0.45
8 9 0.17
9 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:67556169 original size:27 final size:28
Alignment explanation
Indices: 67556132--67556196 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
67556122 TTACTTCTTA
67556132 AAAAATTAAAATTAAAAATT-AAAAA-TT
1 AAAAATTAAAATT-AAAATTAAAAAACTT
67556159 AAAAATTAAAATTAAAATTAAAAAACTT
1 AAAAATTAAAATTAAAATTAAAAAACTT
*
67556187 AAAAAATAAA
1 AAAAATTAAA
67556197 TAAATTCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 6 0.17
27 18 0.51
28 11 0.31
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAATTAAAATTAAAATTAAAAAACTT
Found at i:67556183 original size:14 final size:13
Alignment explanation
Indices: 67556132--67556181 Score: 84
Period size: 13 Copynumber: 3.8 Consensus size: 13
67556122 TTACTTCTTA
67556132 AAAAATTAAAATT
1 AAAAATTAAAATT
67556145 AAAAATTAAAAATT
1 AAAAATT-AAAATT
67556159 AAAAATTAAAATT
1 AAAAATTAAAATT
67556172 -AAAATTAAAA
1 AAAAATTAAAA
67556182 AACTTAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.28
13 13 0.36
14 13 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:67556190 original size:9 final size:8
Alignment explanation
Indices: 67556129--67556202 Score: 60
Period size: 7 Copynumber: 10.2 Consensus size: 8
67556119 GTTTTACTTC
67556129 TTAAAAAA
1 TTAAAAAA
67556137 TT--AAAA
1 TTAAAAAA
67556143 TT-AAAAA
1 TTAAAAAA
67556150 TT-AAAAA
1 TTAAAAAA
67556157 TT-AAAAA
1 TTAAAAAA
67556164 TT--AAAA
1 TTAAAAAA
67556170 TT--AAAA
1 TTAAAAAA
67556176 TTAAAAAA
1 TTAAAAAA
67556184 CTTAAAAAA
1 -TTAAAAAA
67556193 -TAAATAAA
1 TTAAA-AAA
67556201 TT
1 TT
67556203 CAGTTAAAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
6 18 0.30
7 24 0.40
8 9 0.15
9 9 0.15
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
TTAAAAAA
Found at i:67556436 original size:31 final size:30
Alignment explanation
Indices: 67556398--67556497 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 30
67556388 CCAGAGTGTA
67556398 AACTTGTAAACTTGCTAATAATTTAGTGACC
1 AACTTGTAAACTT-CTAATAATTTAGTGACC
* *
67556429 AACTTGT-AGCATTCTGA-AATTTAGTGACC
1 AACTTGTAAAC-TTCTAATAATTTAGTGACC
* * * *
67556458 AAATTATAAACTTACTAATAGTTGAGTGACC
1 AACTTGTAAACTT-CTAATAATTTAGTGACC
*
67556489 AGCTTGTAA
1 AACTTGTAA
67556498 CTTTTTGAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
29 19 0.35
30 10 0.19
31 25 0.46
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (30 bp):
AACTTGTAAACTTCTAATAATTTAGTGACC
Found at i:67556507 original size:60 final size:60
Alignment explanation
Indices: 67556404--67556548 Score: 191
Period size: 60 Copynumber: 2.4 Consensus size: 60
67556394 TGTAAACTTG
* * * * ** *
67556404 TAAACTTGCTAATAATTTAGTGACCAACTTGTAGCATTCTGAAATTTAGTGACCAAATTA
1 TAAACTTACTAATAGTTGAGTGACCAACTTGTAACATTCTGAAATCCAATGACCAAATTA
* * * *
67556464 TAAACTTACTAATAGTTGAGTGACCAGCTTGTAACTTTTTGAAATCCAATGACCAAATTG
1 TAAACTTACTAATAGTTGAGTGACCAACTTGTAACATTCTGAAATCCAATGACCAAATTA
67556524 TAAACTTACTAATAGTTGAGTGACC
1 TAAACTTACTAATAGTTGAGTGACC
67556549 GAATTTAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (60 bp):
TAAACTTACTAATAGTTGAGTGACCAACTTGTAACATTCTGAAATCCAATGACCAAATTA
Found at i:67557504 original size:3 final size:3
Alignment explanation
Indices: 67557498--67557523 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
67557488 AAGGTAACTG
67557498 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
67557524 TTTTGCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:67559334 original size:48 final size:48
Alignment explanation
Indices: 67559177--67559355 Score: 147
Period size: 48 Copynumber: 3.8 Consensus size: 48
67559167 GTTCCATCTC
** * * *
67559177 CTCCATCAGGACACAAAGTACAACTTAATGCTTCTGCTCTGTCCCCTT
1 CTCCATCAAAACACAAAGTACGACTCAATGCTTCTACTCTGTCCCCTT
* * * *
67559225 CTCCATCGAAAGACAAAGCACGAC-CTAAT-CTTTCTACTCCGAT-CCC-T
1 CTCCATCAAAACACAAAGTACGACTC-AATGC-TTCTACTCTG-TCCCCTT
* **
67559272 -T-CATCAAAAAACAAAGTACGACTCAATGCTTCTTTTCTGTCCCCTT
1 CTCCATCAAAACACAAAGTACGACTCAATGCTTCTACTCTGTCCCCTT
* *
67559318 CTCCATCAAAACACAAAGGAC-AATCCAATGCTTCTACT
1 CTCCATCAAAACACAAAGTACGACT-CAATGCTTCTACT
67559356 TCACGTCCTC
Statistics
Matches: 101, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
44 1 0.01
45 31 0.31
46 4 0.04
47 5 0.05
48 59 0.58
49 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.10, T:0.27
Consensus pattern (48 bp):
CTCCATCAAAACACAAAGTACGACTCAATGCTTCTACTCTGTCCCCTT
Found at i:67563948 original size:17 final size:17
Alignment explanation
Indices: 67563926--67563958 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
67563916 AGTTTCACTA
67563926 TTATAAATACAATACAT
1 TTATAAATACAATACAT
*
67563943 TTATAAGTACAATACA
1 TTATAAATACAATACA
67563959 AATACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (17 bp):
TTATAAATACAATACAT
Found at i:67570758 original size:16 final size:16
Alignment explanation
Indices: 67570712--67570759 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
67570702 AAGTTGTGAT
*
67570712 TTTTTATTATATTTTAA
1 TTTTTA-TATTTTTTAA
* *
67570729 -TTTGATAGTTTTTAA
1 TTTTTATATTTTTTAA
67570744 TTTTTATATTTTTTAA
1 TTTTTATATTTTTTAA
67570760 AATTTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:67574231 original size:4 final size:4
Alignment explanation
Indices: 67574222--67574246 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
67574212 GTAAGTTGAC
67574222 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
67574247 TATATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:67591362 original size:129 final size:129
Alignment explanation
Indices: 67591129--67591381 Score: 416
Period size: 129 Copynumber: 2.0 Consensus size: 129
67591119 TATATTGATC
* *
67591129 ATTTGAATATTCAAATAGAATGTTTTGAAGTTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
1 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
* * * * *
67591194 AGCAATGTTGTTGAAACCATATTGGATCGTTTAGTCAGATTCGTTGGATCATGAATTGACCGGT
66 AGCAATGTTGTTGAAACCATATTCGACCGTCTAGCCAGATTCGTTGGATCAGGAATTGACCGGT
*
67591258 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATTTAAAACCTAAGTCATAGTTCG
1 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
* *
67591323 AGCAATGTTGTTGGAACCATATTCGACCGTCTAGCCAGATTGGTTGGATCAGGAATTGA
66 AGCAATGTTGTTGAAACCATATTCGACCGTCTAGCCAGATTCGTTGGATCAGGAATTGA
67591382 TCAGTATACC
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 114 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (129 bp):
ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATCTAAAACCTAAGTCATAGTTCG
AGCAATGTTGTTGAAACCATATTCGACCGTCTAGCCAGATTCGTTGGATCAGGAATTGACCGGT
Found at i:67592398 original size:36 final size:36
Alignment explanation
Indices: 67592320--67592398 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 36
67592310 TTCAATAATC
*
67592320 TATATTTTTCATATATTTAAAATTTAATCCTCTTAT
1 TATATTTTTCATATATTTAAAATTTAATCCTCCTAT
* *
67592356 TATATTTTT-GTATATTTAAAATTTAATCTTCCTAT
1 TATATTTTTCATATATTTAAAATTTAATCCTCCTAT
67592391 TATTATTT
1 TA-TATTT
67592399 CAAGAGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 25 0.64
36 14 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (36 bp):
TATATTTTTCATATATTTAAAATTTAATCCTCCTAT
Found at i:67592409 original size:36 final size:35
Alignment explanation
Indices: 67592334--67592409 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 35
67592324 TTTTTCATAT
* ** *
67592334 ATTTAAAATTTAATCCTCTTATTATATTTTTGTAT
1 ATTTAAAATTTAATCCTCCTATTATATTTAAGTAG
*
67592369 ATTTAAAATTTAATCTTCCTATTATTATTTCAAG-AG
1 ATTTAAAATTTAATCCTCCTATTA-TATTT-AAGTAG
67592405 ATTTA
1 ATTTA
67592410 GTTTTTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 22 0.65
36 11 0.32
37 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (35 bp):
ATTTAAAATTTAATCCTCCTATTATATTTAAGTAG
Found at i:67599779 original size:16 final size:17
Alignment explanation
Indices: 67599752--67599783 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
67599742 TAATAAATGA
67599752 TAAATATATAAAATTAT
1 TAAATATATAAAATTAT
67599769 TAAATAT-TAAAATTA
1 TAAATATATAAAATTA
67599784 AAATTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATAAAATTAT
Found at i:67602817 original size:7 final size:6
Alignment explanation
Indices: 67602779--67602821 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
67602769 TCAATGTATC
* *
67602779 CCCCCT CTCCCT CCCCC- CCCCC- CCCCCT CCCCAT CCCCCT CCC
1 CCCCCT CCCCCT CCCCCT CCCCCT CCCCCT CCCCCT CCCCCT CCC
67602822 AAAAGGGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.02, C:0.84, G:0.00, T:0.14
Consensus pattern (6 bp):
CCCCCT
Found at i:67612270 original size:30 final size:30
Alignment explanation
Indices: 67612236--67612303 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
67612226 AAAGTTCTAC
67612236 TTAAAATCT-TCAAAAATTTCA-GGAGTTTAA
1 TTAAAAT-TGTCAAAAATTTCATGG-GTTTAA
* *
67612266 TTAAAATTGTCAAAAATTTTATGGGTTTTA
1 TTAAAATTGTCAAAAATTTCATGGGTTTAA
67612296 TTAAAATT
1 TTAAAATT
67612304 TTAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.03
30 31 0.91
31 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (30 bp):
TTAAAATTGTCAAAAATTTCATGGGTTTAA
Found at i:67612452 original size:3 final size:3
Alignment explanation
Indices: 67612440--67612508 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
67612430 TCACAAAACC
67612440 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67612487 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
67612509 ATAGTTACAA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:67618200 original size:29 final size:29
Alignment explanation
Indices: 67618159--67618225 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
67618149 GGAAGGGTCC
67618159 ATAA-AATAATTTCTCTATGGATGAGTGT
1 ATAATAATAATTTCTCTATGGATGAGTGT
67618187 ATAATAATAATTTCTCTATGGATGAGTGT
1 ATAATAATAATTTCTCTATGGATGAGTGT
67618216 ATAATAATAA
1 ATAATAATAA
67618226 CTTCATGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.11
29 34 0.89
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (29 bp):
ATAATAATAATTTCTCTATGGATGAGTGT
Found at i:67623720 original size:31 final size:29
Alignment explanation
Indices: 67623673--67623778 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 29
67623663 CACCATTTTT
* *
67623673 TTTTAGAAATTCTAATTAATCCATATAAAAA
1 TTTTAAAAATTTTAATTAA-CC-TATAAAAA
* * * *
67623704 TTTTGAAAATTTTAATTAGACTCTCTAGAAT
1 TTTTAAAAATTTTAATTA-AC-CTATAAAAA
* *
67623735 TTTTAAAAATTTTCATTAAACCCTTTAAAAA
1 TTTTAAAAATTTTAATT-AA-CCTATAAAAA
67623766 TTTTAAAAATTTT
1 TTTTAAAAATTTT
67623779 CCCCTAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
31 56 0.93
32 4 0.07
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (29 bp):
TTTTAAAAATTTTAATTAACCTATAAAAA
Found at i:67623779 original size:31 final size:31
Alignment explanation
Indices: 67623698--67623779 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
67623688 TTAATCCATA
* * * *
67623698 TAAAAATTTTGAAAATTTTAATTAGACTCTC
1 TAAAAATTTTAAAAATTTTCATTAAACCCTC
* * *
67623729 TAGAATTTTTAAAAATTTTCATTAAACCCTT
1 TAAAAATTTTAAAAATTTTCATTAAACCCTC
67623760 TAAAAATTTTAAAAATTTTC
1 TAAAAATTTTAAAAATTTTC
67623780 CCCTAAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (31 bp):
TAAAAATTTTAAAAATTTTCATTAAACCCTC
Found at i:67628114 original size:34 final size:34
Alignment explanation
Indices: 67628057--67628135 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
67628047 ATTAGAAGAT
* * *
67628057 TAATATTCGCACACATGATAGAAACATACCTACA
1 TAATATACGCATAAATGATAGAAACATACCTACA
* *
67628091 TCATATACGCATAAATGATAGAAACATACCTATA
1 TAATATACGCATAAATGATAGAAACATACCTACA
67628125 TAATATACGCA
1 TAATATACGCA
67628136 CACATTACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (34 bp):
TAATATACGCATAAATGATAGAAACATACCTACA
Found at i:67628381 original size:20 final size:19
Alignment explanation
Indices: 67628358--67628395 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
67628348 TTTTTTTCAT
*
67628358 ATTAATTTTATTTTGATAAA
1 ATTAACTTTATTTT-ATAAA
67628378 ATTAACTTTATTTTATAA
1 ATTAACTTTATTTTATAA
67628396 CTTTTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTAACTTTATTTTATAAA
Found at i:67634127 original size:53 final size:53
Alignment explanation
Indices: 67634005--67634250 Score: 304
Period size: 53 Copynumber: 4.7 Consensus size: 53
67633995 AGCCCCACAA
* * *
67634005 TTAA-TCCTACCTCAATTACGATTTATATAAGCTTAT-CTTTTTAGTTTTTCAT
1 TTAATTCC-ACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
* * * *
67634057 TTAATCCCATCTCAATTAAGATTTAAATAAGCTTATCCTTTTAATTTTTTGAT
1 TTAATTCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
* * * **
67634110 TTAATTCCACCTAAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTTGTT
1 TTAATTCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
*
67634163 TTAATTCCACCTCAATTAAGATTTATATAAACTTATCCTTTTAA-TTTTTCAT
1 TTAATTCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
*
67634215 TTAA-TCTCACATCAA-TAAGGATTTATATAAGCTTAT
1 TTAATTC-CACCTCAATTAA-GATTTATATAAGCTTAT
67634251 GTAATTTACC
Statistics
Matches: 168, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
51 5 0.03
52 62 0.37
53 101 0.60
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (53 bp):
TTAATTCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
Found at i:67634211 original size:105 final size:104
Alignment explanation
Indices: 67634005--67634250 Score: 341
Period size: 105 Copynumber: 2.3 Consensus size: 104
67633995 AGCCCCACAA
* *
67634005 TTAATCCTACCTCAATTACGATTTATATAAGCTTATCTTTTTAGTTTTTCATTTAATCCCATCTC
1 TTAATCC-ACCTCAATTAGGATTTATATAAGCTTATCTTTTTAGTTTTTCATTTAATCCCACCTC
* *
67634070 AATTAAGATTTAAATAAGCTTATCCTTTTAATTTTTTGAT
65 AATTAAGATTTAAATAAACTTATCCTTTTAATTTTTTCAT
* * ** *
67634110 TTAATTCCACCTAAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTTGTTTTAATTCCACCT
1 TTAA-TCCACCTCAATTAGGATTTATATAAGCTTATCTTTTT-AGTTTTTCATTTAATCCCACCT
*
67634175 CAATTAAGATTTATATAAACTTATCCTTTTAA-TTTTTCAT
64 CAATTAAGATTTAAATAAACTTATCCTTTTAATTTTTTCAT
* *
67634215 TTAATCTCACATCAATAAGGATTTATATAAGCTTAT
1 TTAATC-CACCTCAATTAGGATTTATATAAGCTTAT
67634251 GTAATTTACC
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
104 2 0.02
105 73 0.58
106 50 0.40
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (104 bp):
TTAATCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAGTTTTTCATTTAATCCCACCTCA
ATTAAGATTTAAATAAACTTATCCTTTTAATTTTTTCAT
Found at i:67673861 original size:118 final size:118
Alignment explanation
Indices: 67673637--67673862 Score: 341
Period size: 118 Copynumber: 1.9 Consensus size: 118
67673627 TATATTAGAT
67673637 TATTCCAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAAA
1 TATTCCAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAAA
* * ** *
67673702 AATGGATCATTAATGGGGTTCAAAAGAAGGTTATATAAACAATCTCGGTCAAA
66 AATGGATCATCAATGGGGGTCAAAAGAAAATCATATAAACAATCTCGGTCAAA
*
67673755 TATTCCAAAAATATGGGATTTGGG-A-ATCCTCTACTATCCATAATAACAACACATAATAGCTCA
1 TATTCC-AAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACAT-ATAGCTCA
*
67673818 AAAATGGATCATCAGTGGGGGTCAAAAGAAAATCATA-AGAACAAT
64 AAAATGGATCATCAATGGGGGTCAAAAGAAAATCATATA-AACAAT
67673863 TTAGGTTTAG
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
117 30 0.31
118 52 0.53
119 16 0.16
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (118 bp):
TATTCCAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAAA
AATGGATCATCAATGGGGGTCAAAAGAAAATCATATAAACAATCTCGGTCAAA
Found at i:67677469 original size:16 final size:16
Alignment explanation
Indices: 67677448--67677478 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67677438 AAGAAACGAT
*
67677448 AAATATGTATATATAA
1 AAATATGTACATATAA
67677464 AAATATGTACATATA
1 AAATATGTACATATA
67677479 TATGGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATATGTACATATAA
Found at i:67685153 original size:24 final size:24
Alignment explanation
Indices: 67685125--67685176 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
67685115 TTAGTAAGTC
* * *
67685125 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACCAATAAATACT
* *
67685149 AAATATATTATACCAATAAATACT
1 AAATAAACTATACCAATAAATACT
67685173 AAAT
1 AAAT
67685177 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACCAATAAATACT
Found at i:67687119 original size:24 final size:24
Alignment explanation
Indices: 67687091--67687142 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
67687081 TTAGTAAGTG
* *
67687091 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
67687115 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
67687139 AAAT
1 AAAT
67687143 CTTCTAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:67688301 original size:110 final size:114
Alignment explanation
Indices: 67688015--67688320 Score: 378
Period size: 110 Copynumber: 2.7 Consensus size: 114
67688005 TAATAATGTA
* *
67688015 TGTTTGTTTTAG-GTTTTAGGAA-GA--ACTGAACCAGCTTATATGTAACAAAACTGGACATGTT
1 TGTTTGTTTTAGTGTTTTA--AATGAGGACTAAACCAGTTTATATGT-A-AAAACTGGACATGTT
*
67688076 T-AAGCTTTAGCTTGGTGTCTGTAACCTAAGCTATAGCCTAGTGTTTTACTGTTGAC
62 TAAAGC-TTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTG--TTA-TGTTGAC
* *
67688132 TGTTTGTTTTAGTGTTTTAAATTAGGACTAAACCAGTTTACATGTAAAAACTGGACATGTTTAAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
* * *
67688197 GCTTAGCTTGGTGTCTGTAATCTAAGCTGGAGCTTAGTG-T-T-TT-AC
66 GCTTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTGTTATGTTGAC
* * *
67688242 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAGAACTGGTCATGTTTAAC
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
67688307 GCTTAGCTTGGTGT
66 GCTTAGCTTGGTGT
67688321 GTTTATATAT
Statistics
Matches: 171, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
110 76 0.44
111 2 0.01
112 1 0.01
114 1 0.01
116 2 0.01
117 62 0.36
118 11 0.06
119 16 0.09
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (114 bp):
TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
GCTTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTGTTATGTTGAC
Found at i:67688962 original size:194 final size:194
Alignment explanation
Indices: 67688710--67689154 Score: 784
Period size: 194 Copynumber: 2.3 Consensus size: 194
67688700 TCTATATATA
67688710 TATATATATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTTGGACATGT
1 TATATATATATGGAGCTTTGACAAAACCAG-TTTA-TATGTAAGAACTGGACATGTTGGACATGT
67688775 TTAAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACC
64 TTAAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACC
67688840 ATTGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCT-CCCACAACAAACCCTAGCTAGTC
129 ATTGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCTACCC-CAACAAACCCTAGCTAGTC
67688904 TT
193 TT
*
67688906 TATATATATATGGAGTTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTTGGACATGTTT
1 TATATATATATGGAGCTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTTGGACATGTTT
* *
67688971 AAATCTTAGCTTGGTGTGTTTCTATGTGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCAT
66 AAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACCAT
* **
67689036 TGCTGAATCCAAGTTCAGCACCAGAAGCTAAAATCATCTACCCCAACGGACCCTAGCTAGTCTT
131 TGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCTACCCCAACAAACCCTAGCTAGTCTT
* *
67689100 TATATATATATGGAGCTTTGACAAAACCAATTTACATGTAAGAACTGGACATGTT
1 TATATATATATGGAGCTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTT
67689155 TAAGCTTATA
Statistics
Matches: 239, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
194 203 0.85
195 7 0.03
196 29 0.12
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (194 bp):
TATATATATATGGAGCTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTTGGACATGTTT
AAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACCAT
TGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCTACCCCAACAAACCCTAGCTAGTCTT
Found at i:67689417 original size:23 final size:22
Alignment explanation
Indices: 67689391--67689436 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
67689381 TTACTATTCG
* *
67689391 ATTTATATATTGTTTAATTTTTT
1 ATTTATAT-TTCTTTAACTTTTT
*
67689414 ATTTTTATTTCTTTAACTTTTT
1 ATTTATATTTCTTTAACTTTTT
67689436 A
1 A
67689437 CCTGAAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (22 bp):
ATTTATATTTCTTTAACTTTTT
Found at i:67707793 original size:15 final size:14
Alignment explanation
Indices: 67707757--67707789 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
67707747 TAAATCATTG
*
67707757 TTATTAAATTTTTT
1 TTATTAAATTGTTT
67707771 TTATTAAATTGTTT
1 TTATTAAATTGTTT
67707785 TTATT
1 TTATT
67707790 TAAAATGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTATTAAATTGTTT
Found at i:67710032 original size:108 final size:108
Alignment explanation
Indices: 67709843--67710135 Score: 423
Period size: 108 Copynumber: 2.7 Consensus size: 108
67709833 CTCCAAGCCA
* *
67709843 AGTGACGTCTACTCCCAAG-CTTCGGAGCAAGCGCACTCGACATTGATGGCTCATTAATCTCGGC
1 AGTGACGTCTACTCCCAAGCCTT-GGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGC
67709907 ACTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
65 ACTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
*
67709951 AGTGACGTCTACTCCCAAGCCTTGGAGTAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
1 AGTGACGTCTACTCCCAAGCCTTGGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
*
67710016 CCAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
66 CTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
* * * * * *
67710059 GGTGACGACTACTCCCACA-CCTCGGAGCAAGCGCACTC-ATCTTTGATGACAT-CTTAATCTCA
1 AGTGACGTCTACTCCCA-AGCCTTGGAGCAAGCGCACTCGA-CATTGATG-GATCCTTAATCTCG
*
67710121 GCACTGACAGTAGGC
63 GCACTAACAGTAGGC
67710136 ATAGGAGAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 161 0.96
109 6 0.04
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (108 bp):
AGTGACGTCTACTCCCAAGCCTTGGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
CTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
Found at i:67717006 original size:15 final size:15
Alignment explanation
Indices: 67716944--67717017 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
67716934 TTTCCGTTTT
*
67716944 TGTTGTTGTTGTTAT
1 TGTTGTTGTTGTTAC
* * * *
67716959 TCTTGTTGCTGCTAT
1 TGTTGTTGTTGTTAC
67716974 TGTTGCCGTTGTTGTTAC
1 TGTT---GTTGTTGTTAC
67716992 TGTTGTTGTTGTTAC
1 TGTTGTTGTTGTTAC
*
67717007 TGTTGCTGTTG
1 TGTTGTTGTTG
67717018 CCGTTGCCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
15 36 0.75
18 12 0.25
ACGTcount: A:0.05, C:0.11, G:0.27, T:0.57
Consensus pattern (15 bp):
TGTTGTTGTTGTTAC
Found at i:67724781 original size:6 final size:6
Alignment explanation
Indices: 67724773--67724812 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
67724763 GTCATTAATG
*
67724773 TTGCCG TTGCCT TTGCCT TTG-CT GTTGCCT TTGCCT TTGC
1 TTGCCT TTGCCT TTGCCT TTGCCT -TTGCCT TTGCCT TTGC
67724813 ATGCGATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 2 0.06
6 27 0.87
7 2 0.06
ACGTcount: A:0.00, C:0.30, G:0.23, T:0.47
Consensus pattern (6 bp):
TTGCCT
Found at i:67724794 original size:18 final size:18
Alignment explanation
Indices: 67724773--67724812 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
67724763 GTCATTAATG
67724773 TTGCCGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
*
67724791 TTGCTGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
67724809 TTGC
1 TTGC
67724813 ATGCGATGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.23, T:0.47
Consensus pattern (18 bp):
TTGCCGTTGCCTTTGCCT
Found at i:67726157 original size:29 final size:28
Alignment explanation
Indices: 67726110--67726187 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
67726100 GTCAGTATTT
67726110 AATTAATTTTTAAAAATTAAAAAACATAA
1 AATT-ATTTTTAAAAATTAAAAAACATAA
* * *
67726139 AATCTATTTTTAAAAATTAATAATCATTA
1 AAT-TATTTTTAAAAATTAAAAAACATAA
67726168 AATTA---TTAAAAATTAAAAAA
1 AATTATTTTTAAAAATTAAAAAA
67726188 AATATTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 13 0.30
28 2 0.05
29 27 0.63
30 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTATTTTTAAAAATTAAAAAACATAA
Found at i:67730830 original size:3 final size:3
Alignment explanation
Indices: 67730822--67730855 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
67730812 CTAACATATC
* *
67730822 TGA TGA TGA TGA TGG TGA TAA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
67730856 CAACACCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:67736427 original size:3 final size:3
Alignment explanation
Indices: 67736419--67736445 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67736409 ACCTAAAATC
67736419 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
67736446 AATATAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:67736999 original size:3 final size:3
Alignment explanation
Indices: 67736991--67737017 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67736981 CTAACATATC
67736991 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
67737018 ACACCATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:67739505 original size:19 final size:19
Alignment explanation
Indices: 67739483--67739535 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
67739473 ATTTTTATTA
*
67739483 TTAATTTATATTATTACTC
1 TTAATTTATATTATAACTC
*
67739502 TTAATATATATTAATAACTC
1 TTAATTTATATT-ATAACTC
67739522 TTAAGTTTA-ATTAT
1 TTAA-TTTATATTAT
67739536 CGAGTCCAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (19 bp):
TTAATTTATATTATAACTC
Found at i:67741060 original size:114 final size:113
Alignment explanation
Indices: 67740849--67741061 Score: 259
Period size: 114 Copynumber: 1.9 Consensus size: 113
67740839 AAAATAAGCA
67740849 TTAGCGGCGCTTTTGAGAAAGCACCGCAAAAAACCTAAGCCCAACGACACAGTTTCCCAAGCTTT
1 TTAGCGGCGCTTTTGAGAAAGCACCGCAAAAAACCTAAGCCCAACGACACAGTTTCCCAAGCTTT
* * * *
67740914 CGGGGGTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCT
66 CGGGGATTTAGCGGCCTTCTCAAGAAAGCGCCGCTAATGCTCAAGGCT
* * * * * * ****
67740962 TTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACTTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGCTTTTGAGAAAGCACCGC-AAAAAACCTAAGCCCAACGACACAGTTTCCCAAGCTT
67741027 TCGGGGATTTAGCGGCACTTCCTCAA-AAA-CGCCGC
65 TCGGGGATTTAGCGGC-CTT-CTCAAGAAAGCGCCGC
67741062 AAGAAATCCT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
113 24 0.29
114 51 0.61
115 5 0.06
116 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (113 bp):
TTAGCGGCGCTTTTGAGAAAGCACCGCAAAAAACCTAAGCCCAACGACACAGTTTCCCAAGCTTT
CGGGGATTTAGCGGCCTTCTCAAGAAAGCGCCGCTAATGCTCAAGGCT
Found at i:67741203 original size:187 final size:186
Alignment explanation
Indices: 67740872--67741229 Score: 565
Period size: 187 Copynumber: 1.9 Consensus size: 186
67740862 TGAGAAAGCA
* *
67740872 CCGCAAAAAACCTAAGCCCAACGACACAGTTTCCCAAGCTTTCGGGGGTTTAGCGGCGTTTTTAA
1 CCGCAAAAAACCTAAACCCAACGACACAGTTTCCCAAGCTTTCGGGGATTTAGCGGCGTTTTTAA
* *
67740937 GAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACTTAAG
66 GAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAG
*
67741002 CCCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGGCACTTCCTCAAAAACG
131 CCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCACTTCCTCAAAAACG
* * ****
67741058 CCGCAAGAAATCCTAAACCCAACGACACCGTTTTGTTAGCTTTCGGGGATTTAGCGGCGTTTTTT
1 CCGCAA-AAAACCTAAACCCAACGACACAGTTTCCCAAGCTTTCGGGGATTTAGCGGCG-TTTTT
* *
67741123 AAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTG
64 AAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTA
*
67741187 AGCCCAACGACGCCGTTTTCTGAGTTTTCGGGGATTTAGCGGC
129 AGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
67741230 GTTTTTAATA
Statistics
Matches: 156, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
186 6 0.04
187 93 0.60
188 57 0.37
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (186 bp):
CCGCAAAAAACCTAAACCCAACGACACAGTTTCCCAAGCTTTCGGGGATTTAGCGGCGTTTTTAA
GAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAG
CCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCACTTCCTCAAAAACG
Found at i:67741249 original size:187 final size:185
Alignment explanation
Indices: 67740849--67741251 Score: 558
Period size: 187 Copynumber: 2.2 Consensus size: 185
67740839 AAAATAAGCA
* * * *
67740849 TTAGCGGCGCTTTTGAGAAAGCACCGCAAAAAACCTAAGCCCAACGACACAGTTTCCCAAGCTTT
1 TTAGCGGCG-TTTTTAAAAAGCGCCGCAAAAAACCTAAACCCAACGACACAGTTTCCCAAGCTTT
* *
67740914 CGGGGGTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGAT
65 CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGAG
* *
67740979 AAAGCGCCGCAAAAAAACTTAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGAT
130 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGAT
* * * * * ****
67741035 TTAGCGGCACTTCCTCAAAAA-CGCCGCAAGAAATCCTAAACCCAACGACACCGTTTTGTTAGCT
1 TTAGCGGC-GTT-TTTAAAAAGCGCCGCAA-AAAACCTAAACCCAACGACACAGTTTCCCAAGCT
*
67741099 TTCGGGGATTTAGCGGCGTTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
63 TTCGGGGATTTAGCGGCG-TTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTT
* *
67741164 GAGAAAGCGCCGC-AAAAAACCTGAGCCCAACGACGCCGTTTTCTGAGTTTTCGGGGAT
127 GAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGAT
67741222 TTAGCGGCGTTTTTAATAAAGCGCCGCAAA
1 TTAGCGGCGTTTTTAA-AAAGCGCCGCAAA
67741252 TGTTCAGGGC
Statistics
Matches: 189, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
185 3 0.02
186 23 0.12
187 106 0.56
188 57 0.30
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (185 bp):
TTAGCGGCGTTTTTAAAAAGCGCCGCAAAAAACCTAAACCCAACGACACAGTTTCCCAAGCTTTC
GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGAGA
AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGAT
Found at i:67741278 original size:113 final size:114
Alignment explanation
Indices: 67741056--67741343 Score: 400
Period size: 114 Copynumber: 2.5 Consensus size: 114
67741046 TCCTCAAAAA
* * * * * *
67741056 CGCCGCAAGAAATCCTAAACCCAACGACACCGTTTTGTTAGCTTTCGGGGATTTAGCGGCGTTTT
1 CGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTTTCTGAGTTTTCGGGGATTTAGCGGCGTTTT
* *
67741121 TTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAG
65 TTAAGAAAGCGCCGCAAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAG
*
67741171 CGCCGCAAAAAACCTGAGCCCAACGACGCCGTTTTCTGAGTTTTCGGGGATTTAGCGGCG-TTTT
1 CGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTTTTCGGGGATTTAGCGGCGTTTTT
* *
67741235 TAATAAAGCGCCGCAAATGTTCAGGGCTTTAGCGGCATTTTTGAGAAAG
66 TAAGAAAGCGCCGCAAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAG
* * * *
67741284 CGCCGCAAAAAATTCTAAGCCCAACGATGCCGTTTTTTGAGCTTTT-AGGGATTTAGCGGC
1 CGCCGCAAAAAA-CCTAAGCCCAACGACGCCGTTTTCTGAG-TTTTCGGGGATTTAGCGGC
67741344 CAAAAATGTT
Statistics
Matches: 155, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 61 0.39
114 82 0.53
115 12 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (114 bp):
CGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTTTTCGGGGATTTAGCGGCGTTTTT
TAAGAAAGCGCCGCAAATGCTCAGGGCTTTAGCGGCATTTTTGAGAAAG
Found at i:67741710 original size:15 final size:15
Alignment explanation
Indices: 67741673--67741723 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
67741663 TATGGATTAG
*
67741673 GGGTT-GGGATTTAA
1 GGGTTAGGGAGTTAA
*
67741687 GGTTTAGGG-GTTAGA
1 GGGTTAGGGAGTTA-A
*
67741702 GGGTTAGGGATTTAA
1 GGGTTAGGGAGTTAA
67741717 GGGTTAG
1 GGGTTAG
67741724 ACGTGCTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 7 0.23
15 20 0.67
16 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (15 bp):
GGGTTAGGGAGTTAA
Found at i:67741744 original size:24 final size:23
Alignment explanation
Indices: 67741692--67741744 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
67741682 TTTAAGGTTT
* *
67741692 AGGGGTTAGAGGGTTAGGGATTT
1 AGGGGTTAGAGGGCTAGGGATTC
* *
67741715 AAGGGTTAGACGTGCTAGGGATTC
1 AGGGGTTAGA-GGGCTAGGGATTC
67741739 AGGGGT
1 AGGGGT
67741745 CGAGTTAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.23, C:0.06, G:0.45, T:0.26
Consensus pattern (23 bp):
AGGGGTTAGAGGGCTAGGGATTC
Found at i:67741941 original size:14 final size:15
Alignment explanation
Indices: 67741909--67741941 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
67741899 TATTTTAAGG
67741909 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
67741924 TTTAGGGATTAT-GA
1 TTTAGGGAGTATGGA
67741938 TTTA
1 TTTA
67741942 AGAGTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.42
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:67741970 original size:7 final size:7
Alignment explanation
Indices: 67741960--67742008 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
67741950 GATTTAAGGT
67741960 TTAGGGG
1 TTAGGGG
67741967 TTAGGGG
1 TTAGGGG
67741974 TTTAGGGG
1 -TTAGGGG
**
67741982 TTAGATG
1 TTAGGGG
67741989 TTAGGGG
1 TTAGGGG
* *
67741996 TTAAGAG
1 TTAGGGG
67742003 TTAGGG
1 TTAGGG
67742009 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:67741977 original size:15 final size:15
Alignment explanation
Indices: 67741956--67742023 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
67741946 TTGGGATTTA
67741956 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
67741971 GGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
67741986 ATG-TTAGGGGTTA-
1 AGGTTTAGGGGTTAG
*
67741999 AGAG-TTAGGGATTTA-
1 AG-GTTTAGGG-GTTAG
67742014 AGGTTTAGGG
1 AGGTTTAGGG
67742024 ATTCAGGGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.02
14 18 0.40
15 26 0.58
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:67741977 original size:22 final size:22
Alignment explanation
Indices: 67741952--67742006 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
67741942 AGAGTTGGGA
* *
67741952 TTTAAGGTTTAGGGGTTAGGGG
1 TTTAAGGGTTAGAGGTTAGGGG
* *
67741974 TTTAGGGGTTAGATGTTAGGGG
1 TTTAAGGGTTAGAGGTTAGGGG
*
67741996 -TTAAGAGTTAG
1 TTTAAGGGTTAG
67742007 GGATTTAAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (22 bp):
TTTAAGGGTTAGAGGTTAGGGG
Found at i:67742024 original size:15 final size:15
Alignment explanation
Indices: 67741936--67742026 Score: 52
Period size: 15 Copynumber: 6.3 Consensus size: 15
67741926 TAGGGATTAT
67741936 GATTTAAGAG-TT-GG
1 GATTTAAG-GTTTAGG
67741950 GATTTAAGGTTTAGG
1 GATTTAAGGTTTAGG
* *
67741965 G-GTTAGGGGTTTAGG
1 GATTTA-AGGTTTAGG
* *
67741980 G-GTT-AGATGTTAGG
1 GATTTAAGGT-TTAGG
*
67741994 G-GTTAAGAG-TTAGG
1 GATTTAAG-GTTTAGG
67742008 GATTTAAGGTTTAGG
1 GATTTAAGGTTTAGG
67742023 GATT
1 GATT
67742027 CAGGGATCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
13 3 0.05
14 29 0.46
15 31 0.49
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (15 bp):
GATTTAAGGTTTAGG
Found at i:67742803 original size:107 final size:109
Alignment explanation
Indices: 67742664--67742881 Score: 341
Period size: 108 Copynumber: 2.0 Consensus size: 109
67742654 AAAGGTAAGC
* * *
67742664 AATAGCGGCGTTTTTTAAAAAAAACGCCGCAAAAAATAAATCAATTTATA-AAAAAATAAAATAA
1 AATAGCGGCGATTTTTAAAAAAAACGCCGCAAAAAACAAATCAATATATATAAAAAATAAAATAA
** *
67742728 AATTTTTTTAGCATAGCAAAACGGCGTCATTTTGCTGAAAATGA
66 AAAATTTTTAGCATAGCAAAACGGCGTCATTTTGCTCAAAATGA
* *
67742772 AATAGCGGC-ATTTTTATAAAAAACGCCGCAAAAAACAAATCAATATATATATAAAATAAAATAA
1 AATAGCGGCGATTTTTAAAAAAAACGCCGCAAAAAACAAATCAATATATATAAAAAATAAAATAA
*
67742836 AAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
66 AAAATTTTTAGCATAGCAAAACGGCGTCATTTTGCTCAAAATGA
67742880 AA
1 AA
67742882 AAATTTGTGC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 36 0.36
108 64 0.64
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (109 bp):
AATAGCGGCGATTTTTAAAAAAAACGCCGCAAAAAACAAATCAATATATATAAAAAATAAAATAA
AAAATTTTTAGCATAGCAAAACGGCGTCATTTTGCTCAAAATGA
Found at i:67743024 original size:261 final size:264
Alignment explanation
Indices: 67742560--67743104 Score: 954
Period size: 262 Copynumber: 2.1 Consensus size: 264
67742550 GAAATCAATT
**
67742560 TATAAAA-AAAATAAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAATTT
1 TATAAAATAAAATAAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAT
*
67742624 TTTTGCGGCGTTTCTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTTAAAAAAAAC
66 TTGTGCGGCGTTTCTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTTAAAAAAAAC
* *
67742689 GCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAATTTTTTTAGCATAGCAAAACGGCG
131 GCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAACAAAACGGCG
67742754 TCATTTTGCTGAAAATGAAATAGCGGC-ATTTTTATAAAAAACGCCGCAAAAAACAAATCAATAT
196 TCATTTTGCTGAAAATGAAATAGCGGCTATTTTTATAAAAAACGCCGCAAAAAACAAATCAATAT
67742818 AT-A
261 ATAA
*
67742821 TATAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAT
1 TATAAAATAAAATAAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAT
67742886 TTGTGCGGCGTTTCTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTT-AAAAAAAC
66 TTGTGCGGCGTTTCTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTTAAAAAAAAC
*
67742950 GCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAACAAAACGGTG
131 GCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAACAAAACGGCG
*
67743015 TCATTTTGCTGAAAATGAAATAGCGGCTTTTTTTTTATAAAAAACGCCGCAAAAAACAAATCAAT
196 TCATTTTGCTGAAAATGAAATAGCGGC--TATTTTTATAAAAAACGCCGCAAAAAACAAATCAAT
67743080 ATATAAA
259 ATAT-AA
*
67743087 TAAAAAATAAAATAAAAA
1 TATAAAATAAAATAAAAA
67743105 CGCCGCTAAA
Statistics
Matches: 269, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
261 104 0.39
262 109 0.41
264 38 0.14
266 18 0.07
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (264 bp):
TATAAAATAAAATAAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAT
TTGTGCGGCGTTTCTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTTAAAAAAAAC
GCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAACAAAACGGCG
TCATTTTGCTGAAAATGAAATAGCGGCTATTTTTATAAAAAACGCCGCAAAAAACAAATCAATAT
ATAA
Found at i:67743330 original size:102 final size:103
Alignment explanation
Indices: 67743141--67743331 Score: 312
Period size: 102 Copynumber: 1.9 Consensus size: 103
67743131 GTTTTAAAAA
* *
67743141 AAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTTTAGCATAGCAAAAC
1 AAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTTAGAATAGCAAAAC
* *
67743206 GGCGTCATTTTGCTGAAAATGAAATAGCGACGTTTTTT
66 GACGTCATTTTGCTCAAAATGAAATAGCGACGTTTTTT
**
67743244 AAACGCCGCAAAATTTAAATCAATTTATAAAAAACAAAAT-AAAAATTTTTTAGAATAGCAAAAC
1 AAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTTAGAATAGCAAAAC
*
67743308 GACGTCATTTTGTTCAAAATGAAA
66 GACGTCATTTTGCTCAAAATGAAA
67743332 AATTTTTTGC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 44 0.54
103 37 0.46
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.28
Consensus pattern (103 bp):
AAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTTAGAATAGCAAAAC
GACGTCATTTTGCTCAAAATGAAATAGCGACGTTTTTT
Found at i:67747761 original size:22 final size:22
Alignment explanation
Indices: 67747735--67747776 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
67747725 TAGCGGCGTG
*
67747735 AAAAGCGCCACTAAAGGCCTAA
1 AAAAGCGCCACTAAAAGCCTAA
*
67747757 AAAAGCGCCGCTAAAAGCCT
1 AAAAGCGCCACTAAAAGCCT
67747777 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.19, T:0.10
Consensus pattern (22 bp):
AAAAGCGCCACTAAAAGCCTAA
Found at i:67754413 original size:3 final size:3
Alignment explanation
Indices: 67754405--67754431 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67754395 ACCTAAAATC
67754405 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
67754432 ACAAGAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:67758211 original size:16 final size:16
Alignment explanation
Indices: 67758192--67758226 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
67758182 ATATGTAGGT
*
67758192 ATATAAAAATTATAAA
1 ATATAAAAATAATAAA
*
67758208 ATATGAAAATAATAAA
1 ATATAAAAATAATAAA
67758224 ATA
1 ATA
67758227 CGTATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATAAA
Found at i:67758446 original size:3 final size:3
Alignment explanation
Indices: 67758424--67758470 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
67758414 CAAGACATAG
* * *
67758424 ATA ATA ATT ATA ATA TTA ATA ATA ATC ATA ATA ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
67758470 A
1 A
67758471 CTTACTAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:67763146 original size:3 final size:3
Alignment explanation
Indices: 67763138--67763164 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67763128 ACCTAAAATC
67763138 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
67763165 ATAAGAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:67768472 original size:45 final size:44
Alignment explanation
Indices: 67768370--67768530 Score: 177
Period size: 44 Copynumber: 3.6 Consensus size: 44
67768360 TCGCATCTAG
*
67768370 TCTTATCTCCCTCAAGTTGCAGTGGAGCAGAC-AAAGAAGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGCAAA
*
67768414 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGCAAA
** * **
67768459 TCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGCCG-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGCA-AA
*
67768503 TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
67768531 GGATTAAAAC
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 4 0.04
44 55 0.56
45 37 0.37
46 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGCAAA
Found at i:67768554 original size:44 final size:44
Alignment explanation
Indices: 67768370--67768577 Score: 151
Period size: 44 Copynumber: 4.7 Consensus size: 44
67768360 TCGCATCTAG
* * **
67768370 TCTTATCTCCCTCAAGTTGCAGTGGAGCAGA-CAAAGAAGGCA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCG-ATAA
* * **
67768414 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-AA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCG-ATAA
** *
67768459 TCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAA
* * * *
67768503 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT-AA
* *
67768547 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
67768578 CGCATCTAGT
Statistics
Matches: 134, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
43 12 0.09
44 86 0.64
45 31 0.23
46 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGATAA
Found at i:67768678 original size:45 final size:44
Alignment explanation
Indices: 67768585--67768683 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 44
67768575 GATCGCATCT
*
67768585 AGTTGCAGTGCAGCAGACTAAGAAAGCAAGTCTTATCCTCCTGA
1 AGTTGCAGTGCAGCAGACTAAGAAAGCAAATCTTATCCTCCTGA
*
67768629 AGTTGCAGTG-AGGCAGACTGAA-AATGGCAAATCTTAT-CTCCCTGA
1 AGTTGCAGTGCA-GCAGACT-AAGAA-AGCAAATCTTATCCT-CCTGA
67768674 AGTTGCAGTG
1 AGTTGCAGTG
67768684 GAGTAGATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.43
45 27 0.55
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (44 bp):
AGTTGCAGTGCAGCAGACTAAGAAAGCAAATCTTATCCTCCTGA
Found at i:67768721 original size:44 final size:44
Alignment explanation
Indices: 67768615--67768778 Score: 158
Period size: 44 Copynumber: 3.7 Consensus size: 44
67768605 AGAAAGCAAG
* * *
67768615 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAAATGGC-AAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GTAGA-TTAAAA-GCCAAAA
67768660 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAAGCCAA-AA
* * * * *
67768704 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAAGCCAAAA
* *
67768748 TCTTATCTCCTTGAAGTTGCAG-AGAGTAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
67768779 CGCATCTAGT
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
42 2 0.02
43 11 0.11
44 55 0.54
45 31 0.30
46 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAAGCCAAAA
Found at i:67768729 original size:201 final size:201
Alignment explanation
Indices: 67768384--67768788 Score: 661
Period size: 201 Copynumber: 2.0 Consensus size: 201
67768374 ATCTCCCTCA
* *
67768384 AGTTGCAGTGGAGCAGACAAAGAAGGCAAATCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGA
1 AGTTGCAGTGCAGCAGACAAAGAAAGCAAATCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGA
* * *
67768449 AGATGGCAAATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCC
66 AAATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCC
**
67768514 TGAAGTTGCAGTGGAGCGGATTAAAA-CCTTGGATCTTATCT-CTCTGAAGTTGCAGAGAGCAGA
131 TGAAGTTGCAGTGGAGCGGATTAAAATCC-CAGATCTTATCTCCT-TGAAGTTGCAGAGAGCAGA
67768577 TCGCATCT
194 TCGCATCT
* *
67768585 AGTTGCAGTGCAGCAGACTAAGAAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGA
1 AGTTGCAGTGCAGCAGACAAAGAAAGCAAATCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGA
* *
67768650 AAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCC
66 AAATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCC
* *
67768715 TGAAGTTGCAGTGGAGTGGATTAAAATCCCAGATCTTATCTCCTTGAAGTTGCAGAGAGTAGATC
131 TGAAGTTGCAGTGGAGCGGATTAAAATCCCAGATCTTATCTCCTTGAAGTTGCAGAGAGCAGATC
67768780 GCATCT
196 GCATCT
67768786 AGT
1 AGT
67768789 CTTATCTCCC
Statistics
Matches: 189, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
201 185 0.98
202 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (201 bp):
AGTTGCAGTGCAGCAGACAAAGAAAGCAAATCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGA
AAATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCC
TGAAGTTGCAGTGGAGCGGATTAAAATCCCAGATCTTATCTCCTTGAAGTTGCAGAGAGCAGATC
GCATCT
Found at i:67768883 original size:44 final size:44
Alignment explanation
Indices: 67768791--67768902 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
67768781 CATCTAGTCT
* * * *
67768791 TATCTCCCTGAGGTTGCAGTGGAGCAGGCTAAGTAATCCAGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGACGAAGTAATCCAATCC
*
67768835 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAG-ACA-CCAATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGAC-GAAGTA-ATCCAATCC
* *
67768879 TATCTCCCCGAGGTTGCAATGGAG
1 TATCTCCCTGAGGTTGCAGTGGAG
67768903 TGGATTGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 54 0.93
45 4 0.07
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (44 bp):
TATCTCCCTGAGGTTGCAGTGGAGCAGACGAAGTAATCCAATCC
Found at i:67769333 original size:19 final size:19
Alignment explanation
Indices: 67769309--67769381 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
67769299 AATCTTCAGG
67769309 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
67769328 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
67769347 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
67769366 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
67769382 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:67769407 original size:22 final size:21
Alignment explanation
Indices: 67769309--67769407 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
67769299 AATCTTCAGG
*
67769309 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
67769328 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
67769347 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
67769366 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
67769388 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
67769408 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
19 47 0.67
22 12 0.17
23 11 0.16
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:67770569 original size:19 final size:20
Alignment explanation
Indices: 67770528--67770569 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
67770518 ATTTCTATGA
* *
67770528 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
67770548 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
67770567 CAT
1 CAT
67770570 CACATCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:67772775 original size:4 final size:5
Alignment explanation
Indices: 67772748--67772776 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
67772738 GTGAAACAAT
67772748 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
67772777 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:67784184 original size:16 final size:16
Alignment explanation
Indices: 67784163--67784193 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67784153 AAGAAACGAT
*
67784163 AAATATGTATATATAA
1 AAATATGTACATATAA
67784179 AAATATGTACATATA
1 AAATATGTACATATA
67784194 TATGGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATATGTACATATAA
Found at i:67786430 original size:87 final size:87
Alignment explanation
Indices: 67786339--67786583 Score: 303
Period size: 87 Copynumber: 2.8 Consensus size: 87
67786329 TCAACTTGGG
* *
67786339 CCACTGCAACTTCAGGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
* * * *
67786404 AGATCTCTTATTTTAATCCGTT
66 AGATCTCTGACTTCAATCCGCT
* *
67786426 CCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATG
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
* *
67786491 AGATCTCTGGCTTCAATCTGCT
66 AGATCTCTGACTTCAATCCGCT
* * * * * *
67786513 CCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGA
1 CCACTGTAACTTCAGGGAGATAAGATAGTG----TCTTCGATCTGCTCCGCTGTAATCTCAGGGA
67786577 GATAAGA
62 GATAAGA
67786584 CCTGATGTGA
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
86 2 0.01
87 101 0.74
90 33 0.24
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
AGATCTCTGACTTCAATCCGCT
Found at i:67786575 original size:46 final size:45
Alignment explanation
Indices: 67786369--67786753 Score: 245
Period size: 44 Copynumber: 8.8 Consensus size: 45
67786359 TAAGATAGTG
* * *
67786369 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * * * *
67786412 TATTTTAATCCGTTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 T-CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * *
67786455 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
67786499 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
67786546 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
67786589 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
67786626 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
67786669 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
67786716 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
67786754 CCTGTATTAT
Statistics
Matches: 261, Mismatches: 56, Indels: 47
0.72 0.15 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.00
38 1 0.00
39 22 0.08
40 2 0.01
41 24 0.09
42 2 0.01
43 31 0.12
44 101 0.39
45 2 0.01
46 70 0.27
47 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:67798848 original size:4 final size:5
Alignment explanation
Indices: 67798821--67798849 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
67798811 GTGAAACAAT
67798821 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
67798850 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Done.