Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 151 of 175
Found at i:45739723 original size:295 final size:290
Alignment explanation
Indices: 45739226--45739762 Score: 681
Period size: 295 Copynumber: 1.8 Consensus size: 290
45739216 TTCAAATCAG
* *
45739226 TCTTTTAATTTGTTTTTGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTAAGATTTAACGTT
1 TCTTTTAATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTAAGATTTAACGTT
* * * ** *
45739291 TTAGGTAATGATTGAGTATTTACTAGCGTCTGGACTCTGTAAAGTCTTCTAATTTTATTTTATTG
66 TTAGGTAATGATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAATTTAATTACATCG
* * * *
45739356 TTTCTGCTAAGCGCTGGCTCCAAAAAGTAATAAAAGCACTTCTTTTTCTACGTTTAAGAGCTTAT
131 TTTCTGCTAAGCACTGGATCCAAAAAGTAATAAAAGCA--TCTTATTCTACGTTTAAGAACTTAT
*
45739421 TGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTTCATCTTATATGATGAGAGGAAAA
194 TGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTCCATCTTATATGATGAGAGGAAAA
45739486 CCGAATTTGTTTAAGATTTTTTTTTTAAACAA
259 CCGAATTTGTTTAAGATTTTTTTTTTAAACAA
* *
45739518 TCTTTTAAATTTCTTTTCGTT-TTTTTTCTCGTAAAAGG-GATATATTAGGTTTAAGGTTTAACA
1 TCTTTT-AATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAG-TATATTAGGTTTAAGATTTAAC-
* * *
45739581 TTTTTTAGGTAATGGTTTGAGTATTTACTAGCGTCTGGACCCTGGGAAGTC-TC--ATATTAATT
63 -GTTTTAGGTAAT-GATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAAT-TTAATT
* * * *
45739643 ACATCGTTTCTGCTAATCATTTGATCCAAACTCAAAAGTAATAAAAGCA-CTTATTCTGCGTTTA
125 ACATCGTTTCTGCTAAGCACTGGATCC--A---AAAAGTAATAAAAGCATCTTATTCTACGTTTA
* * * *
45739707 GGAATTTCTTGATCGATGTATGTTCAAATTTATTGCAGGCATTAGCGTCTCCATCT
185 AGAACTTATTGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTCCATCT
45739763 CAGAGACGCA
Statistics
Matches: 208, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
291 1 0.00
292 45 0.22
293 36 0.17
294 13 0.06
295 97 0.47
298 16 0.08
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.42
Consensus pattern (290 bp):
TCTTTTAATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTAAGATTTAACGTT
TTAGGTAATGATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAATTTAATTACATCG
TTTCTGCTAAGCACTGGATCCAAAAAGTAATAAAAGCATCTTATTCTACGTTTAAGAACTTATTG
ATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTCCATCTTATATGATGAGAGGAAAACC
GAATTTGTTTAAGATTTTTTTTTTAAACAA
Found at i:45749651 original size:45 final size:45
Alignment explanation
Indices: 45749593--45749680 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
45749583 ATAATATTTA
* * *
45749593 ATTATTTTTATATGTGAAATATTTCA-ATTAATTATTTCAAATATC
1 ATTATATTTATATGTGAAATATTTCAGA-TAACTATTTAAAATATC
45749638 ATTATATTTATATGTGAAATATTTCAGATAACTATTTAAAATA
1 ATTATATTTATATGTGAAATATTTCAGATAACTATTTAAAATA
45749681 CACGTATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (45 bp):
ATTATATTTATATGTGAAATATTTCAGATAACTATTTAAAATATC
Found at i:45754171 original size:15 final size:16
Alignment explanation
Indices: 45754145--45754174 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45754135 AATAAATTAT
45754145 TAAAAATACATAAAAA
1 TAAAAATACATAAAAA
45754161 TAAAAAT-CATAAAA
1 TAAAAATACATAAAA
45754175 TTTATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAATACATAAAAA
Found at i:45754491 original size:29 final size:30
Alignment explanation
Indices: 45754456--45754517 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
45754446 AACTCCCAAA
* * *
45754456 CCTTTTTACTTTTCCCTCAAAACTTTTACT
1 CCTTTTCACTTTCCCCCCAAAACTTTTACT
45754486 CCTTTTCACTTTCCCCCCAAAACTTTTACT
1 CCTTTTCACTTTCCCCCCAAAACTTTTACT
45754516 CC
1 CC
45754518 CCTCCCCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.37, G:0.00, T:0.44
Consensus pattern (30 bp):
CCTTTTCACTTTCCCCCCAAAACTTTTACT
Found at i:45755736 original size:27 final size:28
Alignment explanation
Indices: 45755672--45755736 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 28
45755662 TAAAAAAATC
*
45755672 AATTATC-CATTAATTTATTTATCAATG
1 AATTATCAAATTAATTTATTTATCAATG
* * *
45755699 AATT-GCTAAATTAATTT-TTTATCATTT
1 AATTATC-AAATTAATTTATTTATCAATG
45755726 AATTATCAAAT
1 AATTATCAAAT
45755737 GAATAGTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
26 1 0.03
27 20 0.67
28 9 0.30
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (28 bp):
AATTATCAAATTAATTTATTTATCAATG
Found at i:45761970 original size:20 final size:22
Alignment explanation
Indices: 45761947--45761989 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
45761937 ACAATATAAT
*
45761947 TATTTTTAT-TATG-TTTTAAA
1 TATTTTTATATAGGTTTTTAAA
45761967 TATTTTTATATAGGTTTTTAAA
1 TATTTTTATATAGGTTTTTAAA
45761989 T
1 T
45761990 TTAAACCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATTTTTATATAGGTTTTTAAA
Found at i:45762293 original size:29 final size:29
Alignment explanation
Indices: 45762235--45762295 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
45762225 TTAAAATATG
* **
45762235 TTTGTTAAAAATTTTAAATTCTTATTTTT
1 TTTGTGAAAAATTTTAAATTCTTAAATTT
*
45762264 TTTGTGAATAATTTTAAAATT-TTAAATTT
1 TTTGTGAAAAATTTT-AAATTCTTAAATTT
45762293 TTT
1 TTT
45762296 AAACACATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTGTGAAAAATTTTAAATTCTTAAATTT
Found at i:45762465 original size:15 final size:15
Alignment explanation
Indices: 45762420--45762466 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
45762410 TGATAAACCA
*
45762420 AAAAATTAAGTACTG
1 AAAAATTAAGTATTG
* *
45762435 AAAAAATAAGTGTTG
1 AAAAATTAAGTATTG
*
45762450 AAAAATTAACTATTG
1 AAAAATTAAGTATTG
45762465 AA
1 AA
45762467 TTTATATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (15 bp):
AAAAATTAAGTATTG
Found at i:45765445 original size:24 final size:24
Alignment explanation
Indices: 45765408--45765454 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45765398 GGTGTTTCCC
45765408 GTTAATTGAACTTTGAAGCTACCT
1 GTTAATTGAACTTTGAAGCTACCT
** *
45765432 GTTAATTGCTCTTTGGAGCTACC
1 GTTAATTGAACTTTGAAGCTACC
45765455 CATTATAGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (24 bp):
GTTAATTGAACTTTGAAGCTACCT
Found at i:45765768 original size:15 final size:16
Alignment explanation
Indices: 45765741--45765771 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
45765731 CCGAGTTACA
45765741 AAATTCATTCAAATTT
1 AAATTCATTCAAATTT
45765757 AAATTC-TTCAAATTT
1 AAATTCATTCAAATTT
45765772 TTAACATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTCATTCAAATTT
Found at i:45767461 original size:16 final size:16
Alignment explanation
Indices: 45767440--45767471 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45767430 GTTTTGTTGC
*
45767440 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
45767456 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
45767472 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:45767759 original size:51 final size:50
Alignment explanation
Indices: 45767699--45767889 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 50
45767689 CCAGTTCACA
* *
45767699 TAGTAGCCTGCACATAGTACTACATATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCG-TACACG
* * * *
45767750 TAGTAGCCTGCACATAGTACTATACACATGATCGA--AGCTATCCCGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT-CCGTACACG
* * *
45767801 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATC-CGTACACG
45767851 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
45767890 TTCACTTTCA
Statistics
Matches: 117, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
49 5 0.04
50 41 0.35
51 65 0.56
52 5 0.04
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGTACACG
Found at i:45767905 original size:101 final size:102
Alignment explanation
Indices: 45767692--45767877 Score: 277
Period size: 102 Copynumber: 1.8 Consensus size: 102
45767682 AATGATACCA
* *
45767692 GTTCACATAGTAGCCTGCACATAGTACTACATATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
* * *
45767757 CTGCACATAGTACTATACACATGATCGAAGCTATCCC
66 CTGCACATAGTACTACACACATGATCCAAGCTATCAC
* * *
45767794 GTACACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAG
45767857 CCTGCACATAGTACTACACAC
65 CCTGCACATAGTACTACACAC
45767878 GTGACCATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 35 0.45
102 38 0.49
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACATGATCCAAGCTATCAC
Found at i:45785285 original size:14 final size:14
Alignment explanation
Indices: 45785271--45785328 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
45785261 AAAAAAAAAG
45785271 AGAGAAAGGAGAAGA
1 AGAGAAA-GAGAAGA
*
45785286 AGAGAAAGAGAAAA
1 AGAGAAAGAGAAGA
45785300 AGA-AGAAGAGAAGA
1 AGAGA-AAGAGAAGA
45785314 AGAAGAAAGA-AAGA
1 AG-AGAAAGAGAAGA
45785328 A
1 A
45785329 AAAAGGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.03
14 24 0.63
15 12 0.32
16 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAGAAGA
Found at i:45785294 original size:23 final size:20
Alignment explanation
Indices: 45785280--45785324 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
45785270 GAGAGAAAGG
45785280 AGAAGAAGAGAAAGAGAAAA
1 AGAAGAAGAGAAAGAGAAAA
45785300 AGAAGAAGAG-AAGAAGAAGAA
1 AGAAGAAGAGAAAG-AGAA-AA
45785321 AGAA
1 AGAA
45785325 AGAAAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.13
20 14 0.61
21 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAGAAAGAGAAAA
Found at i:45785315 original size:31 final size:30
Alignment explanation
Indices: 45785257--45785333 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
45785247 GCCACACGGT
*
45785257 AGAGAAA-AAAAAAGAGAGAAAGGAGAAGA
1 AGAGAAAGAAAAAAGAGAGAAAGAAGAAGA
45785286 AGAGAAAGAGAAAAAGA-AGAAGAGAAGAAGA
1 AGAGAAAGA-AAAAAGAGAGAA-AGAAGAAGA
45785317 AGAAAGAAAGAAAAAAG
1 AG--AGAAAGAAAAAAG
45785334 GTAATGTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 7 0.17
30 5 0.12
31 17 0.40
32 6 0.14
33 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (30 bp):
AGAGAAAGAAAAAAGAGAGAAAGAAGAAGA
Found at i:45785328 original size:17 final size:16
Alignment explanation
Indices: 45785268--45785328 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
45785258 GAGAAAAAAA
*
45785268 AAGAGAGAAAGGAGAAG
1 AAGA-AGAAAGAAGAAG
*
45785285 AAG-AGAAAG-AGAAA
1 AAGAAGAAAGAAGAAG
45785299 AAGAAGAAGAGAAGAAG
1 AAGAAGAA-AGAAGAAG
45785316 AAGAAAGAAAGAA
1 AAG-AAGAAAGAA
45785329 AAAAGGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 7 0.18
15 10 0.26
16 2 0.05
17 14 0.37
18 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAGAAGAAG
Found at i:45785576 original size:83 final size:83
Alignment explanation
Indices: 45785489--45785722 Score: 219
Period size: 83 Copynumber: 2.8 Consensus size: 83
45785479 TTAGATTAGA
*
45785489 ATTTTGTATGAATATTTTAACTTTTTTGTATGAATATTATAATTTTTT-TATGAATATTATAATG
1 ATTTTGTATGAATATTTTAA-TTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATG
* *
45785553 TTGTATGAATATTGTAATT
65 TTGTATGAACATTATAATT
* * * * * *
45785572 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATTTTTTGTATGAATATTGTA
1 ATTTTGT-ATGAATATTT-TAATTTTTTG-TATGAATATTA-TAATTTTTTGTATGAATATTGTA
*
45785633 ATTTTGTATGAACATTATAATT
62 ATGTTGTATGAACATTATAATT
* *
45785655 -TTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTG
1 ATTTTGTATGAATATTTTAA---T-T--TTTTGTATGAATATTATAATTTTTTGTATGAATATTG
45785719 TAAT
60 TAAT
45785723 ATTATAATTT
Statistics
Matches: 118, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
81 9 0.08
82 23 0.19
83 45 0.38
84 5 0.04
85 1 0.01
86 1 0.01
87 3 0.03
88 27 0.23
89 4 0.03
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.56
Consensus pattern (83 bp):
ATTTTGTATGAATATTTTAATTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATGT
TGTATGAACATTATAATT
Found at i:45785654 original size:40 final size:40
Alignment explanation
Indices: 45785490--45785777 Score: 181
Period size: 48 Copynumber: 6.7 Consensus size: 40
45785480 TAGATTAGAA
*
45785490 TTTTGTATGAATATTTTAACTTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAA---TTTTGTATGAATATTATAATT
* * *
45785533 TTTT-TATGAATATTATAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
45785572 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
*
45785615 TTTTGTATGAATATTGTAATTTTGTATGAACATTATAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
*
45785655 TTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATATTT
1 TTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTATAATT
**
45785703 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTG--------TAATTTTGTATGAATATTATAA-TT
*
45785752 TTTTGTATGAATATTGTAATATTGTA
1 TTTTGTATGAATATTGTAATTTTGTA
45785778 ATTTTGTATG
Statistics
Matches: 197, Mismatches: 19, Indels: 60
0.71 0.07 0.22
Matches are distributed among these distances:
39 22 0.11
40 22 0.11
41 28 0.14
42 36 0.18
43 11 0.06
44 3 0.02
45 1 0.01
46 2 0.01
47 1 0.01
48 53 0.27
49 18 0.09
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:45785680 original size:48 final size:48
Alignment explanation
Indices: 45785624--45785851 Score: 291
Period size: 48 Copynumber: 4.7 Consensus size: 48
45785614 TTTTTGTATG
*
45785624 AATATTGTAATTTTGTATGAACATTATAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* *
45785672 AATTTTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* **
45785720 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAA-TTTTTTGTATGAATATTGT
* * ** *
45785769 AATATTGTAATTTTGTATGAATATTGTAA-TGTGGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
*
45785814 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTATAATT-TTTT
45785852 ATAATTTATT
Statistics
Matches: 158, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
45 17 0.11
47 24 0.15
48 70 0.44
49 47 0.30
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (48 bp):
AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
Found at i:45785690 original size:27 final size:26
Alignment explanation
Indices: 45785624--45785798 Score: 180
Period size: 27 Copynumber: 7.1 Consensus size: 26
45785614 TTTTTGTATG
*
45785624 AATATTGTAATTTTGTATGAACA-T-T
1 AATATT-TAATTTTGTATGAATATTGT
*
45785649 -ATAATT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
*
45785672 AATTTTGTAATTTTGTATGAATA-T-T
1 AATATT-TAATTTTGTATGAATATTGT
45785697 -ATATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
45785720 AATATTATAATTTTGTATGAATATTG-
1 AATATT-TAATTTTGTATGAATATTGT
*
45785746 CA-ATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
45785769 AATATTGTAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
45785796 AAT
1 AAT
45785799 GTGGGGATAT
Statistics
Matches: 126, Mismatches: 7, Indels: 32
0.76 0.04 0.19
Matches are distributed among these distances:
21 25 0.20
22 18 0.14
23 5 0.04
24 20 0.16
25 7 0.06
26 2 0.02
27 49 0.39
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.54
Consensus pattern (26 bp):
AATATTTAATTTTGTATGAATATTGT
Found at i:45785744 original size:19 final size:19
Alignment explanation
Indices: 45785720--45785777 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
45785710 TGAATATTGT
45785720 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
45785739 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
45785761 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
45785778 ATTTTGTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:45785798 original size:19 final size:19
Alignment explanation
Indices: 45785488--45785680 Score: 122
Period size: 19 Copynumber: 9.5 Consensus size: 19
45785478 TTTAGATTAG
*
45785488 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
45785507 AACTTTTTTGTATGAATATTAT
1 AA---TTTTGTATGAATATTGT
* *
45785529 AATTTTTTTATGAATATTAT
1 AA-TTTTGTATGAATATTGT
*
45785549 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
45785568 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
45785591 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
45785611 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
* *
45785632 AATTTTGTATGAACATTAT
1 AATTTTGTATGAATATTGT
45785651 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
45785672 AATTTTGTA
1 AATTTTGTA
45785681 ATTTTGTATG
Statistics
Matches: 138, Mismatches: 18, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
19 45 0.33
20 33 0.24
21 25 0.18
22 24 0.17
23 7 0.05
24 3 0.02
25 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:45785881 original size:33 final size:33
Alignment explanation
Indices: 45785844--45785940 Score: 84
Period size: 33 Copynumber: 3.1 Consensus size: 33
45785834 GAATATTGTA
45785844 ATTATTTTATAATTTATTTGTTAGTAATTTAGG
1 ATTATTTTATAATTTATTTGTTAGTAATTTAGG
* *
45785877 ATTATGTTATAAATT-TTTG-T-GT--TTGTA--
1 ATTATTTTATAATTTATTTGTTAGTAATT-TAGG
* *
45785904 ATTA-TTTAAAATTTAATTTATTAGTAATTTAGG
1 ATTATTTTATAATTT-ATTTGTTAGTAATTTAGG
45785937 ATTA
1 ATTA
45785941 AGCTATAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
26 7 0.14
27 4 0.08
28 5 0.10
29 3 0.06
30 4 0.08
31 3 0.06
32 6 0.12
33 17 0.35
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (33 bp):
ATTATTTTATAATTTATTTGTTAGTAATTTAGG
Found at i:45785928 original size:60 final size:60
Alignment explanation
Indices: 45785839--45785960 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
45785829 TGTATGAATA
* * * * *
45785839 TTGTAATTATTTTATAATTTATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTTATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
45785899 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAATTT-ATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
45785959 TT
1 TT
45785961 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 9 0.16
60 46 0.84
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTTATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:45786039 original size:38 final size:38
Alignment explanation
Indices: 45785994--45786075 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
45785984 CATATAAAGT
45785994 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
45786032 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
45786070 TTATAA
1 TTATAA
45786076 CTGACTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:45786153 original size:15 final size:15
Alignment explanation
Indices: 45786112--45786153 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
45786102 GTTAACTCAT
*
45786112 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
45786127 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
45786143 TTAAATTTTAT
1 TTAAATTTTAT
45786154 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:45787797 original size:6 final size:6
Alignment explanation
Indices: 45787779--45787858 Score: 126
Period size: 6 Copynumber: 13.3 Consensus size: 6
45787769 TCATACACCG
*
45787779 GAGCCA GAACCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA
*
45787827 GAGCCA GAGCCA GA-CCTA GAGCCA GACCCA GA
1 GAGCCA GAGCCA GAGCC-A GAGCCA GAGCCA GA
45787859 ACTACATTCT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
5 2 0.03
6 65 0.94
7 2 0.03
ACGTcount: A:0.35, C:0.34, G:0.30, T:0.01
Consensus pattern (6 bp):
GAGCCA
Found at i:45791214 original size:22 final size:21
Alignment explanation
Indices: 45791179--45791223 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
45791169 TACCTAATTT
*
45791179 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
45791200 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
45791222 TT
1 TT
45791224 ATTTCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:45791319 original size:27 final size:28
Alignment explanation
Indices: 45791289--45791364 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
45791279 AAAATAACAG
*
45791289 CATTGGCGCCTCTCAGAAT-GGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
45791316 CATTGGCGCCTCCCAG-GTAGGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
45791343 CATTGGCGCCTCCCAG-ATAGGC
1 CATTGGCGCCTCCCAGAATAGGC
45791365 GCCAATACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGGCACCAC
Found at i:45794289 original size:13 final size:13
Alignment explanation
Indices: 45794271--45794296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45794261 AAAGTGCAAG
45794271 CCTGTTGAAGACA
1 CCTGTTGAAGACA
45794284 CCTGTTGAAGACA
1 CCTGTTGAAGACA
45794297 ATATGCAAAG
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:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:45808815 original size:23 final size:22
Alignment explanation
Indices: 45808763--45808815 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
45808753 TCCACGTCTT
*
45808763 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
45808785 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
45808808 TTTCTTTT
1 TTTCTTTT
45808816 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:45811506 original size:30 final size:27
Alignment explanation
Indices: 45811472--45811535 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
45811462 AATAAATACC
*
45811472 AAAAAATTGTTTTAAAAATGAAAAAATTTT
1 AAAAAATTATTTT-AAAATGAAAAAA--TT
* *
45811502 AAAAAAGTATTTTAAAATTAAAAAATT
1 AAAAAATTATTTTAAAATGAAAAAATT
45811529 AAAAAAT
1 AAAAAAT
45811536 ATATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 8 0.27
29 11 0.37
30 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (27 bp):
AAAAAATTATTTTAAAATGAAAAAATT
Found at i:45811966 original size:24 final size:24
Alignment explanation
Indices: 45811951--45812002 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45811941 AATCAAAGTC
45811951 AAATATATTATACTAAAAAATGCT
1 AAATATATTATACTAAAAAATGCT
* * *
45811975 AAATATATTATACTTATAAATACT
1 AAATATATTATACTAAAAAATGCT
45811999 AAAT
1 AAAT
45812003 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAAAAAATGCT
Found at i:45818278 original size:16 final size:16
Alignment explanation
Indices: 45818245--45818278 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45818235 TGCGTATGTT
* *
45818245 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
45818261 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
45818277 AA
1 AA
45818279 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:45821105 original size:21 final size:21
Alignment explanation
Indices: 45821079--45821119 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45821069 AGACGAGCAA
* *
45821079 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
45821100 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
45821120 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:45823058 original size:16 final size:16
Alignment explanation
Indices: 45823025--45823058 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45823015 GGAGATTGTT
* *
45823025 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
45823041 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
45823057 AA
1 AA
45823059 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:45826996 original size:20 final size:20
Alignment explanation
Indices: 45826971--45827010 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45826961 CGTAAAATGA
* *
45826971 TTTCTGGAAAGTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45826991 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45827011 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45828250 original size:13 final size:11
Alignment explanation
Indices: 45828218--45828251 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
45828208 GTAGGAATTA
45828218 GTACAATATAT
1 GTACAATATAT
45828229 GTACAATATAT
1 GTACAATATAT
45828240 GTACAATATAT
1 GTACAATATAT
45828251 G
1 G
45828252 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:45828529 original size:18 final size:18
Alignment explanation
Indices: 45828506--45828543 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
45828496 CAATTGAAAA
*
45828506 AAATGCTCAACTTTAAAC
1 AAATGCACAACTTTAAAC
45828524 AAATGCACAACTTTAAAC
1 AAATGCACAACTTTAAAC
45828542 AA
1 AA
45828544 CAGCAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATGCACAACTTTAAAC
Found at i:45829159 original size:16 final size:16
Alignment explanation
Indices: 45829138--45829171 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45829128 GGACGGAGAG
*
45829138 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
45829154 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
45829170 GA
1 GA
45829172 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:45837675 original size:24 final size:23
Alignment explanation
Indices: 45837642--45837712 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
45837632 GACCCGCAGC
45837642 CAGAGTCAGAGCCAAAACCGGAGG
1 CAGAGTCAGAG-CAAAACCGGAGG
* *
45837666 CAGAGACAGAGCAAGAACC-GAAG
1 CAGAGTCAGAGCAA-AACCGGAGG
*
45837689 CAAGAGTTAGAGGCAAAACCGGAG
1 C-AGAGTCAGA-GCAAAACCGGAG
45837713 CCGGATCCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 7 0.18
24 25 0.66
25 6 0.16
ACGTcount: A:0.42, C:0.21, G:0.32, T:0.04
Consensus pattern (23 bp):
CAGAGTCAGAGCAAAACCGGAGG
Found at i:45837763 original size:66 final size:66
Alignment explanation
Indices: 45837648--45837795 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
45837638 CAGCCAGAGT
* * * *
45837648 CAGAGCCAAAACCGGAGGCAGAGACAGAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGGAG
1 CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAG
45837713 C
66 C
* * ** * * *
45837714 CGGATCCAGAACCGGAGGCAGAGCCAAAGCAAGAATGGGAGCCCA-AGTTAGAGGGAAAACCGAA
1 CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAG-CAAGAGTTAGAGGCAAAACCGAA
45837778 GC
65 GC
45837780 CAGATCCAGAACCGGA
1 CAGATCCAGAACCGGA
45837796 ACCAAAACCG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
66 67 0.97
67 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.32, T:0.05
Consensus pattern (66 bp):
CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAG
C
Found at i:45837835 original size:30 final size:30
Alignment explanation
Indices: 45837801--45837861 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45837791 CCGGAACCAA
* *
45837801 AACCGGAGACAGAGCCAGAGTTAGAGGCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
* * *
45837831 AACCGAAGTCGGATCCAGAGTTAGAGCCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
45837861 A
1 A
45837862 GTCAGAACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (30 bp):
AACCGAAGACAGAGCCAGAGTTAGAGCCAG
Found at i:45837930 original size:24 final size:24
Alignment explanation
Indices: 45837903--45837951 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
45837893 CCAGAATCGA
* *
45837903 AGTCAGACCCGCAGCTAGAGTCAG
1 AGTCAGACCCGCAGCCAGAGACAG
**
45837927 AGTCAGAGTCGCAGCCAGAGACAG
1 AGTCAGACCCGCAGCCAGAGACAG
45837951 A
1 A
45837952 ACCAGTGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.31, T:0.10
Consensus pattern (24 bp):
AGTCAGACCCGCAGCCAGAGACAG
Found at i:45841475 original size:20 final size:19
Alignment explanation
Indices: 45841437--45841475 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
45841427 AGCATATGCG
*
45841437 AATTTGTATTTTGATAATT
1 AATTTGTATTTTGAAAATT
*
45841456 AATTTTTATGTTTGAAAATT
1 AATTTGTAT-TTTGAAAATT
45841476 TTATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
AATTTGTATTTTGAAAATT
Found at i:45847558 original size:25 final size:25
Alignment explanation
Indices: 45847528--45847582 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
45847518 AGTGGAAGCA
* *
45847528 GTGGCAGTATATCTGCAAATCAGTG
1 GTGGCAATATATCTACAAATCAGTG
* *
45847553 GTGGCAATATATCTATAATTCAGTG
1 GTGGCAATATATCTACAAATCAGTG
45847578 GTGGC
1 GTGGC
45847583 TTTCCACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (25 bp):
GTGGCAATATATCTACAAATCAGTG
Found at i:45851319 original size:84 final size:84
Alignment explanation
Indices: 45851173--45851328 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
45851163 CTCCAAAACA
* * * * * *
45851173 ATCATCTCAAGTTCCTTCTTGGTTTCGAATGTCGCCACCTCGAAACGTCGCGTCGTCGTCATCAT
1 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCGTCATCATCATCAT
*
45851238 CTTCATCGTCGTCGTCGTC
66 CATCATCGTCGTCGTCGTC
*
45851257 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCTCCACCTCCAAACGTCG-GATCATCATCATCA
1 ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCG-TCATCATCATCA
45851321 TCATCATC
65 TCATCATC
45851329 TCAAGTTCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 1 0.02
84 62 0.98
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.32
Consensus pattern (84 bp):
ATCATCTCAAGTTCCTTCTTGGTTACAAATGCCGCCACCTCCAAACGTCGCGTCATCATCATCAT
CATCATCGTCGTCGTCGTC
Found at i:45851357 original size:66 final size:66
Alignment explanation
Indices: 45851255--45851405 Score: 259
Period size: 66 Copynumber: 2.3 Consensus size: 66
45851245 GTCGTCGTCG
*
45851255 TCATCATCTCAAGTTCCTTCTTGGTTACAAATGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
45851320 A
66 A
* *
45851321 TCATCATCTCAAGTTCCTTCTTGTTTACGAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
1 TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
45851386 A
66 A
45851387 TCATC-TCCTCAAGTTCCTT
1 TCATCAT-CTCAAGTTCCTT
45851406 TTTCGCAGCC
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
65 1 0.01
66 80 0.99
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (66 bp):
TCATCATCTCAAGTTCCTTCTTGGTTACAAACGCCTCCACCTCCAAACGTCGGATCATCATCATC
A
Found at i:45854735 original size:15 final size:15
Alignment explanation
Indices: 45854724--45854756 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
45854714 CTACGGCTTT
45854724 CTTCTCCTCGGCTGG
1 CTTCTCCTCGGCTGG
*
45854739 CTTCTTCTCGGCTGG
1 CTTCTCCTCGGCTGG
45854754 CTT
1 CTT
45854757 TTTTTCAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.24, T:0.39
Consensus pattern (15 bp):
CTTCTCCTCGGCTGG
Found at i:45857224 original size:93 final size:93
Alignment explanation
Indices: 45857105--45857296 Score: 296
Period size: 98 Copynumber: 2.0 Consensus size: 93
45857095 TAGTGTTAGC
*
45857105 TTAATGCTACACTTACTTGGGACATGTTAGACTC-TATGAGTTATTAGTGTAATAGAGATCTATG
1 TTAATGCTACACTTACTTGGGACATGTTAGACTCATATGAGTCATTAGTGTAATAGAGATCTATG
*
45857169 TATCCGATGTGCTGTATTTTTATACATA
66 TATCCGATGTGCTATATTTTTATACATA
* *
45857197 TTAATGCTACACTTTACTTTGGACATGTTAGACTCTATGATATGAGTCATTAGTGTAATAGTGAT
1 TTAATGCTACAC-TTACTTGGGACATGTTAGACTC----ATATGAGTCATTAGTGTAATAGAGAT
45857262 CTATGTATCCGATGTGCTATATTTTTATACATA
61 CTATGTATCCGATGTGCTATATTTTTATACATA
45857295 TT
1 TT
45857297 TCATAATCAC
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
92 12 0.13
93 21 0.23
98 57 0.63
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (93 bp):
TTAATGCTACACTTACTTGGGACATGTTAGACTCATATGAGTCATTAGTGTAATAGAGATCTATG
TATCCGATGTGCTATATTTTTATACATA
Found at i:45861334 original size:57 final size:57
Alignment explanation
Indices: 45861241--45861354 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
45861231 ATCGGGACAA
*
45861241 TTTCTTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
1 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
45861298 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
1 TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
45861355 AACCGTTCCC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (57 bp):
TTTCGTGTTCTTCATGAAACCCACCAAAAGAAAGAATATTGGTATCCTCCTTACCAT
Found at i:45865211 original size:21 final size:21
Alignment explanation
Indices: 45865185--45865240 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
45865175 AACAGCGCTG
*
45865185 GCGGTGAGATTAGTTACTGCA
1 GCGGTGAGATTAGATACTGCA
*
45865206 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGCA
45865227 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
45865241 AACAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGCA
Found at i:45870061 original size:25 final size:25
Alignment explanation
Indices: 45870033--45870084 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
45870023 TTCATTTATA
45870033 TTTCACCAGTCCCGAT-TGTTTAAGT
1 TTTCACCAGTCCCG-TCTGTTTAAGT
*
45870058 TTTCACTAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTCTGTTTAAGT
45870083 TT
1 TT
45870085 ACTGATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTCACCAGTCCCGTCTGTTTAAGT
Found at i:45871247 original size:26 final size:26
Alignment explanation
Indices: 45871218--45871358 Score: 86
Period size: 26 Copynumber: 5.5 Consensus size: 26
45871208 TATATTTTTA
45871218 TTAAATTATATTTAATATTAATTATT
1 TTAAATTATATTTAATATTAATTATT
*
45871244 TTAAATTATA-TT-ATA-T-AGTATT
1 TTAAATTATATTTAATATTAATTATT
* *
45871266 ATATATTATGATTT--TATTAAATTCA-T
1 TTAAATTAT-ATTTAATATT-AATT-ATT
*
45871292 ATAAGA--ATATTTAATATTAAGAATT-TT
1 TTAA-ATTATATTTAATATT---AATTATT
* *
45871319 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTTAATATTAATTATT
45871346 TTAAATTATATTT
1 TTAAATTATATTT
45871359 TATAGTATTA
Statistics
Matches: 90, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
22 12 0.13
23 4 0.04
24 10 0.11
25 4 0.04
26 37 0.41
27 5 0.06
28 7 0.08
29 11 0.12
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TTAAATTATATTTAATATTAATTATT
Found at i:45871323 original size:102 final size:102
Alignment explanation
Indices: 45871213--45871432 Score: 386
Period size: 102 Copynumber: 2.2 Consensus size: 102
45871203 AATTATATAT
* *
45871213 TTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTATATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTATATAGTATTATATATTATGAT
**
45871278 TTTATTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
*
45871315 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTATATAGTATTATATATTATGAT
45871380 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
*
45871417 TTTTGTTAAATTATAT
1 TTTTATTAAATTATAT
45871433 ATTTTTATTA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 112 1.00
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTATATAGTATTATATATTATGAT
TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
Found at i:45871330 original size:59 final size:59
Alignment explanation
Indices: 45871146--45871331 Score: 206
Period size: 56 Copynumber: 3.1 Consensus size: 59
45871136 AGCCAATTGC
45871146 TTATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
1 TTATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
** *
45871205 TTATA-TAT--TTTTATTAAATT-ATAT-TTAATA-TTAATTATTTTAA-ATTATATTATATAGT
1 TTATATTATGATTTTATTAAATTCATATAAGAATATTTAA-TA--TTAAGA--ATTTTAT-TA--
*
45871263 AT
58 AA
45871265 TATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
1 T-TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
45871325 TTATATT
1 TTATATT
45871332 TAATAATAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 32
0.72 0.06 0.22
Matches are distributed among these distances:
53 4 0.04
54 6 0.06
55 5 0.05
56 16 0.16
57 6 0.06
58 5 0.05
59 11 0.11
60 4 0.04
61 4 0.04
62 5 0.05
63 6 0.06
64 16 0.16
65 5 0.05
66 6 0.06
67 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (59 bp):
TTATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAA
Found at i:45871439 original size:120 final size:120
Alignment explanation
Indices: 45871315--45871829 Score: 897
Period size: 120 Copynumber: 4.3 Consensus size: 120
45871305 ATATTAAGAA
45871315 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
45871380 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTGTTAAATTATATAT
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
45871435 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
45871500 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA-
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
45871554 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
45871619 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATAT
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * * * *
45871674 TTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTATCATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
* * * * *
45871739 TTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGTAAATTATATAT
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
45871794 TTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
45871830 ATATGATTAA
Statistics
Matches: 379, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
119 118 0.31
120 261 0.69
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:45871533 original size:222 final size:222
Alignment explanation
Indices: 45871147--45871791 Score: 993
Period size: 239 Copynumber: 2.8 Consensus size: 222
45871137 GCCAATTGCT
**
45871147 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
*
45871212 TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTATATAGTATTATATATTATGA
66 TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
*
45871277 TTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTAATAATAAT
131 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTAATAATAAT
45871342 TATGTTAAATTATATTTTATAGTATTA
196 TATGTTAAATTATATTTTATAGTATTA
*
45871369 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTGTTAAATTATATA
1 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* *
45871434 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA
66 TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
*
45871499 TTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTATTAAA
131 TTTTAGTAAATTCATATAAGAATATTTAATATTAAG----------------A-ATTTTATTAAA
45871564 TTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
179 TTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
*
45871608 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATA
1 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
* * *
45871673 TTTTAATTAAAATATATTTAATATTAATTATTTTAAATTATATTTTATAGTATCATATATTATGA
66 TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
* * * *
45871738 TTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAGTAAATTATAT
131 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
45871792 ATTTTAATTA
Statistics
Matches: 386, Mismatches: 20, Indels: 34
0.88 0.05 0.08
Matches are distributed among these distances:
222 174 0.45
223 1 0.00
238 1 0.00
239 210 0.54
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (222 bp):
TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATATTAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTAATAATAAT
TATGTTAAATTATATTTTATAGTATTA
Found at i:45871556 original size:17 final size:17
Alignment explanation
Indices: 45871536--45871569 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45871526 AATATTAAGA
45871536 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
45871553 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
45871570 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:45872028 original size:44 final size:45
Alignment explanation
Indices: 45871965--45872061 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
45871955 CTATTACACC
*
45871965 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
45872009 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
45872054 TCCATTAC
1 TCCATTAC
45872062 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:45872062 original size:16 final size:16
Alignment explanation
Indices: 45872041--45872087 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
45872031 TTGATTTGCT
45872041 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
45872057 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
45872073 ATTACACTTCTATTC
1 ATTACGCCTCTATTC
45872088 TAATACAGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.21, C:0.34, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:45873039 original size:30 final size:29
Alignment explanation
Indices: 45872967--45873325 Score: 542
Period size: 30 Copynumber: 11.9 Consensus size: 29
45872957 GAATATAAAC
45872967 TATATTTTTTATTTTTAAAATACACTACATA
1 TATATTTTTTATTTTTAAAATACACTAC--A
*
45872998 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
45873027 TATATATTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTATTTTTAAAATACACTACA
45873057 TAT-TTTTTTATTTTTAAAATACACTACATA
1 TATATTTTTTATTTTTAAAATACACTAC--A
45873087 TATATTTTTTTATTTTTAAAATACACTACA
1 TATA-TTTTTTATTTTTAAAATACACTACA
45873117 TATAATTTTTTATTTTTAAAATACACTACA
1 TAT-ATTTTTTATTTTTAAAATACACTACA
45873147 TATATTTTTTTATTTTTAAAATACACTACA
1 TATA-TTTTTTATTTTTAAAATACACTACA
45873177 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
*
45873206 TAT-TTTTTTATTTTTAAAATACACTATA
1 TATATTTTTTATTTTTAAAATACACTACA
*
45873234 CATATTTTTTAATTTTTAAAATACACTACATA
1 TATATTTTTT-ATTTTTAAAATACACTAC--A
45873266 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
45873295 TATATTTTTTTTTTATTTTTAAAATACACTA
1 TATA----TTTTTTATTTTTAAAATACACTA
45873326 ATACAGTGCA
Statistics
Matches: 307, Mismatches: 6, Indels: 28
0.90 0.02 0.08
Matches are distributed among these distances:
28 49 0.16
29 47 0.15
30 108 0.35
31 46 0.15
32 34 0.11
33 23 0.07
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:45873069 original size:89 final size:89
Alignment explanation
Indices: 45872971--45873325 Score: 567
Period size: 89 Copynumber: 3.9 Consensus size: 89
45872961 ATAAACTATA
*
45872971 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATATACTACATATATATTT
1 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTT
45873036 TTATTTTTAAAATACACTACATAT
66 TTATTTTTAAAATACACTACATAT
45873060 TTTTTTATTTTTAAAATACACTACATATATATTTTTTTATTTTTAAAATACACTACATATA-ATT
1 TTTTTTATTTTTAAAATACACTACATATATA-TTTTTTATTTTTAAAATACACTACATATATA-T
45873124 TTTTATTTTTAAAATACACTACATATAT
64 TTTTATTTTTAAAATACACTAC--ATAT
45873152 TTTTTTATTTTTAAAATACACTAC--ATATATTTTTTATTTTTAAAATACACTACATAT-T-TTT
1 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTT
45873213 TTATTTTTAAAATACACTATACATAT
66 TTATTTTTAAAATACAC--TACATAT
* *
45873239 TTTTTAATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATTTTT
1 TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATA---TA
45873304 TTTTTATTTTTAAAATACACTA
63 TTTTTATTTTTAAAATACACTA
45873326 ATACAGTGCA
Statistics
Matches: 250, Mismatches: 2, Indels: 25
0.90 0.01 0.09
Matches are distributed among these distances:
87 47 0.19
89 96 0.38
90 56 0.22
92 30 0.12
93 1 0.00
94 20 0.08
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (89 bp):
TTTTTTATTTTTAAAATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTT
TTATTTTTAAAATACACTACATAT
Found at i:45875834 original size:21 final size:21
Alignment explanation
Indices: 45875810--45875882 Score: 110
Period size: 21 Copynumber: 3.4 Consensus size: 21
45875800 CAAAAAATAG
* *
45875810 GGGAGAAACCAGCAAAAACGA
1 GGGAGAAACCAGCAAGAACAA
*
45875831 GGGACAAACCAGCAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
45875852 GGGAGAAACCAGCAAGAACAA
1 GGGAGAAACCAGCAAGAACAA
45875873 GGGGAGAAAC
1 -GGGAGAAAC
45875883 TGCTGTTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 38 0.81
22 9 0.19
ACGTcount: A:0.51, C:0.19, G:0.30, T:0.00
Consensus pattern (21 bp):
GGGAGAAACCAGCAAGAACAA
Found at i:45878498 original size:34 final size:34
Alignment explanation
Indices: 45878455--45878523 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
45878445 AAACATAGTT
45878455 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
1 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
45878489 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
1 GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
45878523 G
1 G
45878524 TAACAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.23
Consensus pattern (34 bp):
GCAACTTAGCAAGCAAATGCCTTTAAAAATAATA
Found at i:45878547 original size:14 final size:14
Alignment explanation
Indices: 45878514--45878540 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45878504 AATGCCTTTA
45878514 AAAATAATAGTAAC
1 AAAATAATAGTAAC
45878528 AAAATAATAGTAA
1 AAAATAATAGTAA
45878541 TATAATAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAATAATAGTAAC
Found at i:45881289 original size:204 final size:204
Alignment explanation
Indices: 45880939--45881540 Score: 843
Period size: 204 Copynumber: 3.0 Consensus size: 204
45880929 AAGGTTTAAT
* *
45880939 GTGTAAGACCATA-TCTCGACTATGGA-AACCAATAGAGTCTGCTAGGATATTAAACATGGGGTT
1 GTGTAAGACCATAGT-TCGACTAT-GACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTT
* * * ** *
45881002 ATAAGGTGTAAGACCATAGCTCAACTATGGA-AACTAATGGAGTCTGCCAAGACATTAAACATGG
64 ATAAGGTGTAAGACCATAGCTCGACTAT-GACAACCAATAGAGTCCACCAAAACATTAAACATGG
* *
45881066 GGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACA
128 GGTTACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACA
45881131 TGAAGTTACAAA
193 TGAAGTTACAAA
* * *
45881143 GTGTAAGACCATAGTTCGGCTATGACAACCAATAGGGTCCGCCAGGACATTAAACATGGGGTTAT
1 GTGTAAGACCATAGTTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAT
* *
45881208 AAGGTGTAAGACCATAGCTCGGCTATAACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
66 AAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
* * * * *
45881273 TACAAGGTATAAGACCATAGCTTGTCTATGGCAACCAATAGAGTTTGCCAGGACGTTAAACATAA
131 TACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACATGA
*
45881338 AGTTACAAG
196 AGTTACAAA
* * * * * * * *
45881347 GTGTAAGGCTATAGCTCGTCTATGGCAACCAATAGAGTTTGCCAGGACATTAAACATGGAGTTAC
1 GTGTAAGACCATAGTTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAT
*
45881412 AAGGTGTAAGACCATAGCTTGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
66 AAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
* * *
45881477 TATAAGGTGTAAGACCATAGCTC-AGCTATGGCAACCAATAGAGTCTGCTAGGACGTTAAGCATG
131 TACAAGGTGTAAGACCATAGCTCGA-CTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACATG
45881541 GGCTTAGACT
Statistics
Matches: 352, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
203 3 0.01
204 348 0.99
205 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (204 bp):
GTGTAAGACCATAGTTCGACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAT
AAGGTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGT
TACAAGGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCTGCCAGGACGTTAAACATGA
AGTTACAAA
Found at i:45881563 original size:68 final size:68
Alignment explanation
Indices: 45880939--45881576 Score: 710
Period size: 68 Copynumber: 9.4 Consensus size: 68
45880929 AAGGTTTAAT
* * * *
45880939 GTGTAAGACCATATCTC-GACTATGGAAACCAATAGAGTCTGCTAGGATATTAAACATGGGGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
*
45881003 TAAG
65 CAAG
* * * * *
45881007 GTGTAAGACCATAGCTCAACTATGGAAACTAATGGAGTCTGCCAAGACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
45881072 AAG
66 AAG
* **
45881075 GTGTAAGACCATAGCTC-GACTATGACAACCAATAGAGTCTGCCAGGACATTAAACATGAAGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
*
45881139 CAAA
65 CAAG
* * * * * *
45881143 GTGTAAGACCATAGTTCGGCTATGACAACCAATAGGGTCCGCCAGGACATTAAACATGGGGTTAT
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
45881208 AAG
66 AAG
* ** ** **
45881211 GTGTAAGACCATAGCTCGGCTATAACAACCAATAGAGTCCACCAAAACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
45881276 AAG
66 AAG
* * * * ***
45881279 GTATAAGACCATAGCT-TGTCTATGGCAACCAATAGAGTTTGCCAGGACGTTAAACATAAAGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
45881343 CAAG
65 CAAG
* * * *
45881347 GTGTAAGGCTATAGCTC-GTCTATGGCAACCAATAGAGTTTGCCAGGACATTAAACATGGAGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
45881411 CAAG
65 CAAG
* * ** **
45881415 GTGTAAGACCATAGCT-TGACTATGACAACCAATAGAGTCCACCAAAACATTAAACATGGGGTTA
1 GTGTAAGACCATAGCTCAG-CTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTA
*
45881479 TAAG
65 CAAG
* * * * *
45881483 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCTAGGACGTTAAGCATGGGCTTAG
1 GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
**
45881548 ACT
66 AAG
* *
45881551 GTATAAGTCCATAGCTCAGCTATGGC
1 GTGTAAGACCATAGCTCAGCTATGGC
45881577 GTCAGGTGAT
Statistics
Matches: 487, Mismatches: 76, Indels: 14
0.84 0.13 0.02
Matches are distributed among these distances:
67 1 0.00
68 484 0.99
69 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCAGCTATGGCAACCAATAGAGTCTGCCAGGACATTAAACATGGGGTTAC
AAG
Found at i:45883857 original size:21 final size:21
Alignment explanation
Indices: 45883789--45883857 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
45883779 CACAAAAGCA
* *
45883789 CATAAGTGCCAAACAGAAACC
1 CATAAGAGCTAAACAGAAACC
* * * *
45883810 CATAAGGGTTGAAC-GAAAGCT
1 CATAAGAGCTAAACAGAAA-CC
*
45883831 CGTAAGAGCTAAACAGAAACC
1 CATAAGAGCTAAACAGAAACC
45883852 CATAAG
1 CATAAG
45883858 GGTTATACTG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.13
Consensus pattern (21 bp):
CATAAGAGCTAAACAGAAACC
Found at i:45883872 original size:42 final size:41
Alignment explanation
Indices: 45883799--45883916 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 41
45883789 CATAAGTGCC
**
45883799 AAACAGAAACCCATAAGGGTTGAACGAAAGCTCGTAAGAGCT
1 AAACAGAAACCCATAAGGGTT-AACGAAAGCTCAAAAGAGCT
*
45883841 AAACAGAAACCCATAAGGGTTATACTG-AAGCTTAAAAGAGCT
1 AAACAGAAACCCATAAGGGTTA-AC-GAAAGCTCAAAAGAGCT
* * * * *
45883883 GAATAAAAACCCATTAGGGTTAAGCGAAAACTCA
1 AAACAGAAACCCATAAGGGTTAA-CGAAAGCTCA
45883917 TATGAGTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 3 0.05
42 59 0.94
43 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (41 bp):
AAACAGAAACCCATAAGGGTTAACGAAAGCTCAAAAGAGCT
Found at i:45894304 original size:21 final size:22
Alignment explanation
Indices: 45894275--45894321 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
45894265 CAGAAGGAGT
*
45894275 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45894297 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
45894318 GAGT
1 GAGT
45894322 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:45896904 original size:4 final size:4
Alignment explanation
Indices: 45896895--45896925 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
45896885 AGACCAACAA
45896895 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
45896926 AATTTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:45900505 original size:19 final size:21
Alignment explanation
Indices: 45900481--45900527 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
45900471 GAAAGTAGTG
45900481 AATTTTTATTCT-TA-GAATA
1 AATTTTTATTCTCTAGGAATA
*
45900500 AA-TTTTATTTTCTAGGAATA
1 AATTTTTATTCTCTAGGAATA
45900520 ATATTTTT
1 A-ATTTTT
45900528 TTTTTGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 4 0.17
20 6 0.26
21 1 0.04
22 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (21 bp):
AATTTTTATTCTCTAGGAATA
Found at i:45907486 original size:21 final size:20
Alignment explanation
Indices: 45907451--45907532 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 20
45907441 ATTCAATTTG
* *
45907451 AATATATAAACTATATTTTA
1 AATATTTAAAATATATTTTA
45907471 AATATTTTAAAATATAATTATTA
1 AATA-TTTAAAATAT-ATT-TTA
*
45907494 TAA-ATTTAAATATATAATTTA
1 -AATATTTAAA-ATATATTTTA
* *
45907515 TATATTTAAAATAAATTT
1 AATATTTAAAATATATTT
45907533 CAATAGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
20 11 0.22
21 18 0.36
22 11 0.22
23 8 0.16
24 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATTTAAAATATATTTTA
Found at i:45907508 original size:23 final size:21
Alignment explanation
Indices: 45907476--45907532 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
45907466 TTTTAAATAT
45907476 TTTAAAATATAATTATTATAAA
1 TTTAAAATATAATT-TTATAAA
*
45907498 TTTAAATATATAA-TTTATATA
1 TTTAAA-ATATAATTTTATAAA
45907519 TTTAAAATA-AATTT
1 TTTAAAATATAATTT
45907533 CAATAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 12 0.38
22 7 0.22
23 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAATATAATTTTATAAA
Found at i:45911798 original size:15 final size:13
Alignment explanation
Indices: 45911767--45911801 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
45911757 ACTATAACAC
45911767 TTATAATAAAAAA
1 TTATAATAAAAAA
45911780 TTATGAATAAAATAA
1 TTAT-AATAAAA-AA
45911795 TTATAAT
1 TTATAAT
45911802 TATTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 10 0.50
15 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TTATAATAAAAAA
Found at i:45923119 original size:24 final size:24
Alignment explanation
Indices: 45923087--45923142 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
45923077 ATGTCCCAAA
45923087 ATTACAGTGGACTT-AACCTTGAAG
1 ATTACAGTGGA-TTGAACCTTGAAG
*
45923111 ATTACAGTGGATTGAACTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
45923135 ATTACAGT
1 ATTACAGT
45923143 AGGGGCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:45923518 original size:44 final size:44
Alignment explanation
Indices: 45923463--45924142 Score: 556
Period size: 44 Copynumber: 15.6 Consensus size: 44
45923453 TATCCAGTCC
* * *
45923463 TATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
*
45923507 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG-AAGATCT
* * ** * *** *
45923551 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
*
45923594 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGAAGATCT
* * ** * *** *
45923638 TATCTCCCTAAGCAGTAATGAAGCAGATTTAAGCCACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
45923681 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * * *** *
45923725 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAGGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* *
45923768 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
*
45923812 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCG-A-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-G-GAAGATCT
* * * * ** * ***
45923856 TATCTTCCTAAACAGTAGTGAAGTAGATTTAAGTCACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
45923899 TATCTCCCTAAACAGTAGTGGAGTAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
45923943 TATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * *** *
45923987 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* **
45924030 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAAATAGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGAAGATCT
* * * *
45924074 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
45924118 TATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCA
45924143 AATAGGATCA
Statistics
Matches: 495, Mismatches: 122, Indels: 38
0.76 0.19 0.06
Matches are distributed among these distances:
43 162 0.33
44 326 0.66
45 6 0.01
46 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
Found at i:45923615 original size:131 final size:130
Alignment explanation
Indices: 45923460--45924142 Score: 649
Period size: 131 Copynumber: 5.2 Consensus size: 130
45923450 TCTTATCCAG
* * * ** **
45923460 TCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGATACAAG-TCTTATCTCCCTAAGCAGTAG
* * * * ** * *
45923525 TGGAGCAGATCGAAGACGGCAA-ATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC
65 TGGAGCAGATCAAAGATGG-AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGCCGCG
*
45923589 AG
129 AA
* ** **
45923591 TCCTATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAGATGGAAGATCTTATCTCCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGTAGTGAAGCA-GATTTAAGATACAAG-TCTTATCTCCCTAAGCAGTA
* * ** ***** * * * *
45923655 ATGAAGCAGATTTAAGCCACCA-ATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGGC
64 GTGGAGCAGATCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GCCGC
45923719 GAA
128 GAA
* * * ** * *
45923722 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAGGCCACCAGTCCTATCTCCCTAAGCAGTAGT
1 TCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGATACAAGTCTTATCTCCCTAAGCAGTAGT
* *
45923787 GGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
66 GGAGCAGATCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-CCGCGA
45923852 A
130 A
* * * * * *
45923853 TCTTATCTTCCTAAACAGTAGTGAAGTAGATTTAAG-TCACCAGTCTTATCTCCCTAAACAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGAT-ACAAGTCTTATCTCCCTAAGCAGTAG
* * * *
45923917 TGGAGTAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGGCG
65 TGGAGCAGATCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-CCGCG
45923982 AA
129 AA
* * ** * *
45923984 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGT
1 TCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGATACAAGTCTTATCTCCCTAAGCAGTAGT
* * **
45924049 GGAGCATG-TCAAAAATAGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG-GT
66 GGAGCA-GATCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGCCGCG-
45924112 AGA
129 A-A
*
45924115 TCCTATCTCCCTAAGCAGTAGTGGAGCA
1 TCCTATCTCCCTAAGCAGTAGTGAAGCA
45924143 AATAGGATCA
Statistics
Matches: 473, Mismatches: 69, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
129 1 0.00
130 65 0.14
131 405 0.86
132 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (130 bp):
TCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGATACAAGTCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGCCGCGAA
Found at i:45923616 original size:87 final size:87
Alignment explanation
Indices: 45923507--45924142 Score: 645
Period size: 87 Copynumber: 7.3 Consensus size: 87
45923497 TGGAAGATCT
* *
45923507 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAGTGA
45923572 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* *
45923594 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAGATGG-AAGATCTTATCTCCCTAAGCAGTAAT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGCAA-ATCTTATCTCCCTAAGCAGTAGT
*
45923657 GAAGCAGATTTAAGCCACCAATCC
64 GAAGCAGATTTAAGCCACCAGTCC
* * * * *
45923681 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAGTGA
*
45923746 AGCAGATTTAGGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* *
45923768 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGG-AAGATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA-ATCTTATCTCCCTAAGCAGTAGTG
* ** * * * *
45923832 GAGCAGATCGAAGACAGCGAATCT
65 AAGCAGATTTAAGCCA-CCAGTCC
* * * * ** * * * * * *
45923856 TATCTTCCTAAACAGTAGTGAAGTAGATTTAAGTC-ACCAGTCTTATCTCCCTAAACAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAGTGA
* * ** ***** *
45923920 AGTAGGTCAAAGATGGAAGATCT
66 AGCAGATTTAAGCCACCAG-TCC
* * * *
45923943 TATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAGTGA
45924008 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* **
45924030 TATCTCCCTAAGCAGTAGTGGAGCATG-TCAAAAATAG-AAGATCTTATCTCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGCAA-ATCTTATCTCCCTAAGCAGTAGT
* ** *****
45924093 GGAGCAGATCGAAGATGGTAGATCC
64 GAAGCAGATTTAAGCCACCAG-TCC
45924118 TATCTCCCTAAGCAGTAGTGGAGCA
1 TATCTCCCTAAGCAGTAGTGGAGCA
45924143 AATAGGATCA
Statistics
Matches: 448, Mismatches: 89, Indels: 23
0.80 0.16 0.04
Matches are distributed among these distances:
86 6 0.01
87 347 0.77
88 95 0.21
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (87 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAGTGA
AGCAGATTTAAGCCACCAGTCC
Found at i:45923989 original size:175 final size:175
Alignment explanation
Indices: 45923591--45924142 Score: 528
Period size: 175 Copynumber: 3.2 Consensus size: 175
45923581 AAGCCACCAG
* * *
45923591 TCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
** * * * * * *
45923656 TGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGAGTA-GATC--GAATACGG
66 TGAAGCAGATCGAAGACACCAATCCTATCTCCCTAAACAGTAGTGAAGCATG-TCAAAAATAC-A
* * * * ** * *****
45923718 CGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAGGCCACCAG-
129 AG-ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
*
45923765 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
* * * * * ** *
45923830 TGGAGCAGATCGAAGACAGCGAATCTTATCTTCCTAAACAGTAGTGAAGTA-GAT-TTAAGTCAC
66 TGAAGCAGATCGAAGACA-CCAATCCTATCTCCCTAAACAGTAGTGAAGCATG-TCAAAAAT-AC
* * *
45923893 CAG-TCTTATCTCCCTAAACAGTAGTGGAGTAGGTCAAAGATGGAAGA
128 AAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
* * * *
45923940 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAG-CGAAGACGG-CGAATCTTATCTTCCTAAGCAGT
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAG-GTCAAAGACGGAAG-ATCTTATCTCCCTAAGCAGT
** * * * * *
45924003 AGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAAATAGA
64 AGTGAAGCAGATCGAAGACACCAATCCTATCTCCCTAAACAGTAGTGAAGCATGTCAAAAATACA
* * *
45924068 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
129 AGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
45924115 TCCTATCTCCCTAAGCAGTAGTGGAGCA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCA
45924143 AATAGGATCA
Statistics
Matches: 313, Mismatches: 55, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
174 137 0.44
175 170 0.54
176 4 0.01
177 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (175 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGACGGAAGATCTTATCTCCCTAAGCAGTAG
TGAAGCAGATCGAAGACACCAATCCTATCTCCCTAAACAGTAGTGAAGCATGTCAAAAATACAAG
ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGATGGAAGA
Found at i:45924176 original size:131 final size:129
Alignment explanation
Indices: 45923681--45924167 Score: 656
Period size: 131 Copynumber: 3.7 Consensus size: 129
45923671 CCACCAATCC
* * *
45923681 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
*
45923746 AGCAGATTTAGGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
66 AGCAGATTTAGG--ACCAATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
45923811 T
129 T
* * *
45923812 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTCCTAAACAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
* * * * * *
45923877 AGTAGATTTAAGTCACCAGTCTTATCTCCCTAAACAGTAGTGGAGTAGGTCAAAGATGGAAGATC
66 AGCAGATTT-AG-GACCAATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
45923942 T
129 T
* *
45923943 TATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
* * * * *
45924008 AGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCATGTCAAAAATAGAAGATC
66 AGCAGATTT-AG-GACCAATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATC
45924073 T
129 T
* * *
45924074 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-ATCCTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-AGAATCTTATCTTCCTAAGCAGTAGTG
* * *
45924138 GAGCA-A-ATAGGATCAATCCTATCTCCCTAA
65 AAGCAGATTTAGGACCAATCCTATCTCCCTAA
45924168 AGTCGCAGTG
Statistics
Matches: 323, Mismatches: 30, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
127 17 0.05
128 2 0.01
129 1 0.00
130 1 0.00
131 299 0.93
132 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (129 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAGAATCTTATCTTCCTAAGCAGTAGTGA
AGCAGATTTAGGACCAATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCT
Found at i:45924877 original size:15 final size:15
Alignment explanation
Indices: 45924857--45924888 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45924847 GAACTTCTGC
45924857 TTCTTTTTTTATTTT
1 TTCTTTTTTTATTTT
*
45924872 TTCTTTTTTTCTTTT
1 TTCTTTTTTTATTTT
45924887 TT
1 TT
45924889 TTTATGCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (15 bp):
TTCTTTTTTTATTTT
Found at i:45924890 original size:9 final size:8
Alignment explanation
Indices: 45924857--45924889 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
45924847 GAACTTCTGC
45924857 TTCTTTTT
1 TTCTTTTT
*
45924865 TT-ATTTT
1 TTCTTTTT
45924872 TTCTTTTT
1 TTCTTTTT
45924880 TTCTTTTT
1 TTCTTTTT
45924888 TT
1 TT
45924890 TTATGCGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:45926277 original size:107 final size:106
Alignment explanation
Indices: 45926086--45926410 Score: 440
Period size: 107 Copynumber: 3.1 Consensus size: 106
45926076 AAAGAAATTT
* * * * * *
45926086 TTTCTAAATAAGGCAATATTTTACGTTTAGAAATTTGAGAAAACGTGCCCTAACGTGTTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTT-GAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
* * *
45926151 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
65 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
* *
45926193 TTTTAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTT-GAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
45926258 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
65 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
** * *
45926300 TTTCAAAACGAGGCAATGTTTTGCGTTTGAAAATTCGA-GAGAATGTGCCCTAACGTGCTGGGTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGAAAA-TCGAGGA-AACGTGCCCTAACGTGCTGGGTT
* *
45926364 TCGATTTCTCGTTCGACCAAATAGCTAAATAT-CTTCTT-AAC
64 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
45926405 TTTCAA
1 TTTCAA
45926411 TCGATATTAT
Statistics
Matches: 196, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
105 9 0.05
106 12 0.06
107 175 0.89
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (106 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTC
GATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
Found at i:45936337 original size:36 final size:36
Alignment explanation
Indices: 45936287--45936359 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 36
45936277 CATTCACTTA
45936287 GCTTCTCTATATCTATGGCCTTTACTGAA-GTCAAGG
1 GCTTCTCTATATCTATGGCCTTTACT-AATGTCAAGG
45936323 GCTTCTCT-TCATCTATGGCCTTTACTAATGTCAAGG
1 GCTTCTCTAT-ATCTATGGCCTTTACTAATGTCAAGG
45936359 G
1 G
45936360 ACACTTCACG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (36 bp):
GCTTCTCTATATCTATGGCCTTTACTAATGTCAAGG
Found at i:45938696 original size:15 final size:15
Alignment explanation
Indices: 45938672--45938701 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45938662 ATCATCATCT
45938672 ACTACCACTACCACC
1 ACTACCACTACCACC
*
45938687 ACTACTACTACCACC
1 ACTACCACTACCACC
45938702 GTGGATTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (15 bp):
ACTACCACTACCACC
Found at i:45943707 original size:97 final size:97
Alignment explanation
Indices: 45943594--45944023 Score: 833
Period size: 97 Copynumber: 4.4 Consensus size: 97
45943584 TTAAATTATG
*
45943594 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
45943659 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
*
45943691 TATAAACAATCAATCAAGTTCCAATTTTGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
45943756 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
45943788 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
*
45943853 TATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
45943885 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
45943950 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
45943982 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
45944024 TGTTATTAAA
Statistics
Matches: 328, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 328 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (97 bp):
TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTT
CATATTTTAATTAAAATATAATTCGGTACTTA
Found at i:45944096 original size:23 final size:23
Alignment explanation
Indices: 45944061--45944105 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45944051 CCTTATTTAA
**
45944061 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
45944084 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
45944106 AAAATGACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:45944128 original size:11 final size:11
Alignment explanation
Indices: 45944112--45944138 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45944102 TTATAAAATG
45944112 ACAATATCTCA
1 ACAATATCTCA
45944123 ACAATATCTCA
1 ACAATATCTCA
45944134 ACAAT
1 ACAAT
45944139 TGATAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAATATCTCA
Found at i:45947340 original size:24 final size:25
Alignment explanation
Indices: 45947305--45947352 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45947295 TTATGAAATT
45947305 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
45947329 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
45947353 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:45947348 original size:92 final size:90
Alignment explanation
Indices: 45947170--45947377 Score: 258
Period size: 92 Copynumber: 2.3 Consensus size: 90
45947160 TTGATTTTAG
* * * *
45947170 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAATTATA
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAATTATA
* *
45947235 TTTAATATTAATTATTTTAAATTGTA
65 TGTAATATTAATTATTTTAAATTATA
*
45947261 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATT-AATTA
45947325 TATGTAATAATT-ATTATTTTAAATTATA
63 TATGTAAT-ATTAATTATTTTAAATTATA
* * * *
45947353 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
45947378 GTTATAATTA
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
89 1 0.01
90 29 0.28
91 21 0.21
92 48 0.47
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (90 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAATTATAT
GTAATATTAATTATTTTAAATTATA
Found at i:45947517 original size:66 final size:64
Alignment explanation
Indices: 45947431--45947638 Score: 188
Period size: 66 Copynumber: 3.3 Consensus size: 64
45947421 AAATATATTT
*
45947431 AATATTAATTATTTCAAATTTTTATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TTAAAATTTTTATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
45947496 G
64 G
* * * **
45947497 AATATTAATTATTAAGAA-TTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTAA-AATTTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * *
45947551 AATAATAATTATGT-TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TAAAATTTTTA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
45947615 AG
63 AG
45947617 AATATTAATTATTAAGAATTTT
1 AATATTAATTATTAA-AATTTT
45947639 ATTAAATTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 33
0.68 0.11 0.21
Matches are distributed among these distances:
53 2 0.02
54 15 0.14
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 13 0.12
66 24 0.22
67 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTAAAATTTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:45947531 original size:120 final size:120
Alignment explanation
Indices: 45947393--45947685 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
45947383 AATTATTTTA
* * * * *
45947393 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTTTA-T
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
45947456 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45947513 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
45947578 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45947633 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
45947686 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 7 0.04
120 156 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45947553 original size:15 final size:15
Alignment explanation
Indices: 45947518--45947569 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45947508 TTAAGAATTT
*
45947518 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45947532 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45947546 TATTTAATAATAAT-
1 TATTTAATTATAATA
45947560 TATGTTAATT
1 TAT-TTAATT
45947570 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45947668 original size:16 final size:16
Alignment explanation
Indices: 45947647--45947688 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45947637 TTATTAAATT
*
45947647 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45947663 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45947678 AT-TATGTTTAA
1 ATATAT-TTTAA
45947689 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:45947673 original size:15 final size:15
Alignment explanation
Indices: 45947638--45947679 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45947628 TTAAGAATTT
*
45947638 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45947652 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45947666 TATTTAATAATAAT
1 TATTTAATTATAAT
45947680 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45947799 original size:153 final size:156
Alignment explanation
Indices: 45947622--45947934 Score: 524
Period size: 153 Copynumber: 2.0 Consensus size: 156
45947612 ATAAGAATAT
* * *
45947622 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
45947687 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
45947752 T-A-A-TTACCAAAACAAATTTCTGC
131 TAACATTTACCAAAACAAATTTATGC
* *
45947775 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
45947840 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
45947905 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
45947932 TAA
1 TAA
45947935 GGGTATTCTA
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
153 124 0.84
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:45948078 original size:16 final size:16
Alignment explanation
Indices: 45948057--45948092 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45948047 GATTTGCTAT
45948057 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45948073 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45948089 TACA
1 TACA
45948093 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45949244 original size:34 final size:35
Alignment explanation
Indices: 45949200--45949266 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
45949190 CAGTAAAATA
*
45949200 TTTTCCGTAAAATGA-TTTCTGGAAAAGATTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
* *
45949234 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTT
45949267 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
Found at i:45956338 original size:15 final size:15
Alignment explanation
Indices: 45956318--45956349 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
45956308 TAAGCATTGA
45956318 TTGAACTTAGTTTAG
1 TTGAACTTAGTTTAG
45956333 TTGAACTTAGTTTAG
1 TTGAACTTAGTTTAG
45956348 TT
1 TT
45956350 TTTGTCGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (15 bp):
TTGAACTTAGTTTAG
Found at i:45961359 original size:6 final size:6
Alignment explanation
Indices: 45961348--45961385 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
45961338 AAATAACAAT
45961348 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TT
45961386 AAATCGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:45964169 original size:17 final size:16
Alignment explanation
Indices: 45964144--45964186 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
45964134 TACTGAACAT
45964144 AATTATTCTCAAACAAC
1 AATTATTCT-AAACAAC
* *
45964161 AATTGTTCTGAACAAC
1 AATTATTCTAAACAAC
*
45964177 AACTATTCTA
1 AATTATTCTA
45964187 TATAAGAGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (16 bp):
AATTATTCTAAACAAC
Found at i:45965489 original size:21 final size:19
Alignment explanation
Indices: 45965446--45965491 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
45965436 AATATATATT
**
45965446 ATTTTTTATAATATTTTTC
1 ATTTTTTATAATATTTTGA
45965465 ATTTTTTATATATTATTTTGA
1 ATTTTTTATA-A-TATTTTGA
45965486 ATTTTT
1 ATTTTT
45965492 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 1 0.04
21 12 0.52
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTTATAATATTTTGA
Found at i:45986138 original size:46 final size:47
Alignment explanation
Indices: 45986055--45986266 Score: 192
Period size: 52 Copynumber: 4.3 Consensus size: 47
45986045 TTGCACATAG
* * *
45986055 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGG-A
1 TCACATATCAC--ACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* * * * *
45986103 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
*
45986150 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* *
45986202 GCACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGG-AA
*
45986255 TCACATTTCACA
1 TCACATATCACA
45986267 TGCTGCCATG
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
46 28 0.20
47 12 0.09
48 11 0.08
50 2 0.01
52 77 0.55
53 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
Found at i:45986183 original size:52 final size:51
Alignment explanation
Indices: 45986069--45986250 Score: 230
Period size: 52 Copynumber: 3.6 Consensus size: 51
45986059 ATATCACATA
* * * *
45986069 CCGAGGCCATAGCCCAGCCATGGTCTTATACGGATCACATATCACA---CT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
* * * *
45986117 --GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
*
45986167 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
45986219 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
45986251 GAAATCACAT
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
46 25 0.22
47 13 0.11
50 2 0.02
51 1 0.01
52 75 0.65
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (51 bp):
CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
Found at i:45992846 original size:26 final size:27
Alignment explanation
Indices: 45992795--45992847 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
45992785 CCAGAACAAT
*
45992795 AAAGAAACGTGCCAAAAAACGGCAGAC
1 AAAGAAACGTGCCAAAAAACGACAGAC
45992822 AAAGAAACGTGCC-AAAAACGACAGAC
1 AAAGAAACGTGCCAAAAAACGACAGAC
45992848 CTAACAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.53, C:0.23, G:0.21, T:0.04
Consensus pattern (27 bp):
AAAGAAACGTGCCAAAAAACGACAGAC
Found at i:45993555 original size:11 final size:11
Alignment explanation
Indices: 45993519--45993597 Score: 90
Period size: 11 Copynumber: 7.2 Consensus size: 11
45993509 TAAATCCTTT
*
45993519 CTCTC-AATTT
1 CTCTCAAATTC
45993529 CTCTCCAATATT-
1 CTCT-CAA-ATTC
45993541 CTCTCAAATTC
1 CTCTCAAATTC
45993552 CTCTCAAATTC
1 CTCTCAAATTC
*
45993563 CTCTCAATTTC
1 CTCTCAAATTC
* *
45993574 CTTTCAATTTC
1 CTCTCAAATTC
45993585 CTCTCAAATTC
1 CTCTCAAATTC
45993596 CT
1 CT
45993598 TTTAAAAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
10 7 0.11
11 46 0.75
12 5 0.08
13 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:45993586 original size:33 final size:34
Alignment explanation
Indices: 45993519--45993597 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
45993509 TAAATCCTTT
*
45993519 CTCTC-AATTTCTCTCCAATATTCTCTCAAATTC
1 CTCTCAAATTCCTCTCCAATATTCTCTCAAATTC
* *
45993552 CTCTCAAATTCCTCT-CAAT-TTCCTTTCAATTTC
1 CTCTCAAATTCCTCTCCAATATT-CTCTCAAATTC
45993585 CTCTCAAATTCCT
1 CTCTCAAATTCCT
45993598 TTTAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 2 0.05
33 31 0.76
34 8 0.20
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (34 bp):
CTCTCAAATTCCTCTCCAATATTCTCTCAAATTC
Found at i:45995445 original size:18 final size:18
Alignment explanation
Indices: 45995409--45995451 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
45995399 TGCCAGATGC
* * *
45995409 GTATCCTAGCTCTTTTAT
1 GTATCCTAACCCTTATAT
45995427 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
45995445 GTTTCCT
1 GTATCCT
45995452 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:45999398 original size:126 final size:126
Alignment explanation
Indices: 45999055--45999470 Score: 607
Period size: 126 Copynumber: 3.3 Consensus size: 126
45999045 GGCCAAACAG
* * *
45999055 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * ** *
45999120 CTACTTAAAGCATTTTTGACACTATTTTCTCAGAAATATCTACTCGAAATTATTTTTTTAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* *
45999181 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGTTTTCTTTCGGTACTTTTGCTGACAAAGCAT
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAG-CTTCTTTCAGTACTTTTGCTGACAAAGCAT
**
45999246 CCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTGAACTCGAAATTATTTTTTCAA
65 CCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* * *
45999308 GAGCTACTATAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * * * * *
45999373 TTGCTTAAAGCGTTTTTAACACTATTTGCTTAGGAACGTTTTCTCGAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
*
45999434 GAGCTACTGTAGCAAAAGCGCGTTCACGTGGGAGCTT
1 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
45999471 TTTTAAATTA
Statistics
Matches: 260, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 148 0.57
127 112 0.43
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
Found at i:46002262 original size:30 final size:31
Alignment explanation
Indices: 46002196--46002265 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
46002186 CCACCCTTAA
** *
46002196 AATATTTACACTATTGGTCCTTCAAAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
*
46002227 CATATTTACACT-TTAATCCCTC-AAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
46002256 GAATATTTAC
1 -AATATTTAC
46002266 TCTTGGGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 15 0.45
31 11 0.33
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAAAATTTT
Found at i:46007032 original size:59 final size:59
Alignment explanation
Indices: 46006967--46007154 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 59
46006957 ATTTTATTAA
46006967 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * * * ** * * * *
46007026 ATCATATATTATGATTTTAGTA-AATTCATA-TAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCA-AATTA-TATTTTA-TAGT
* * * *
46007086 ATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTTTATAGT
46007145 ATCATATATT
1 ATCATATATT
46007155 ATGATTTGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
57 5 0.05
58 10 0.11
59 36 0.40
60 25 0.27
61 10 0.11
62 4 0.04
63 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:46007081 original size:119 final size:120
Alignment explanation
Indices: 46006956--46007244 Score: 492
Period size: 119 Copynumber: 2.4 Consensus size: 120
46006946 AATTATTTTA
*
46006956 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
* * *
46007021 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
46007075 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
46007139 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
46007195 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
46007245 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 109 0.68
120 51 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:46007102 original size:18 final size:18
Alignment explanation
Indices: 46007076--46007131 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
46007066 GATTATTAGA
46007076 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
46007093 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
46007109 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
46007123 ATTTTAATT
1 ATTTTAATT
46007132 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:46007212 original size:59 final size:58
Alignment explanation
Indices: 46007030--46007212 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 58
46007020 TATAGTATCA
*
46007030 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * * *
46007088 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATTATT-TTAATTTATATTTTA-CAGTAT
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTATTATTAA--GA-ATTTTATTA-AAT
*
46007147 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
46007208 TATAT
1 TATAT
46007213 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
55 7 0.07
56 15 0.16
57 8 0.09
58 6 0.06
59 13 0.14
61 12 0.13
62 10 0.11
63 14 0.15
64 9 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:46007224 original size:18 final size:17
Alignment explanation
Indices: 46007196--46007230 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46007186 ATTATTAAGA
*
46007196 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46007213 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46007231 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46007338 original size:147 final size:149
Alignment explanation
Indices: 46007184--46007458 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
46007174 ATAAGAATAT
*
46007184 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
46007249 AAATATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
46007312 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
46007331 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
46007396 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
46007459 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:46007371 original size:18 final size:17
Alignment explanation
Indices: 46007343--46007377 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46007333 ATTATTAAGA
*
46007343 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46007360 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46007378 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.