Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 11 of 356
Found at i:3861872 original size:36 final size:36
Alignment explanation
Indices: 3861825--3861895 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
3861815 GAATGTGTGT
3861825 TTCTGTTATTGTCTATGGTTCCTAGAACTTTTCTGC
1 TTCTGTTATTGTCTATGGTTCCTAGAACTTTTCTGC
*
3861861 TTCTGTTATTGTCTATGGTTCCTAGAGCTTTTCTG
1 TTCTGTTATTGTCTATGGTTCCTAGAACTTTTCTG
3861896 TAATTTGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.51
Consensus pattern (36 bp):
TTCTGTTATTGTCTATGGTTCCTAGAACTTTTCTGC
Found at i:3867238 original size:29 final size:32
Alignment explanation
Indices: 3867205--3867265 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 32
3867195 AAGTTTATAT
3867205 TTTAGTCACTA-AT-GTT-TCAATTG-TAATAA
1 TTTAGTCAC-AGATAGTTATCAATTGATAATAA
3867234 TTTAGTCACAGATAGTTATCAATTGATAATAA
1 TTTAGTCACAGATAGTTATCAATTGATAATAA
3867266 GTTGGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 1 0.04
29 11 0.39
30 3 0.11
31 7 0.25
32 6 0.21
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (32 bp):
TTTAGTCACAGATAGTTATCAATTGATAATAA
Found at i:3869221 original size:10 final size:10
Alignment explanation
Indices: 3869203--3869245 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
3869193 TAAAAATTGA
3869203 AAAATTATAT
1 AAAATTATAT
*
3869213 AAAAGTATAT
1 AAAATTATAT
3869223 AAAATTATA-
1 AAAATTATAT
*
3869232 AATATATATAT
1 AAAAT-TATAT
3869243 AAA
1 AAA
3869246 TACATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 4 0.15
10 21 0.78
11 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTATAT
Found at i:3869226 original size:28 final size:28
Alignment explanation
Indices: 3869195--3869254 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
3869185 ATTATTTTTA
*
3869195 AAAATTGAAAAAT-TATATA-AAAGTATAT
1 AAAATT-AAAAATATATATATAAA-TACAT
*
3869223 AAAATTATAAATATATATATAAATACAT
1 AAAATTAAAAATATATATATAAATACAT
3869251 AAAA
1 AAAA
3869255 AAAATTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
28 20 0.71
29 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATTAAAAATATATATATAAATACAT
Found at i:3870616 original size:15 final size:15
Alignment explanation
Indices: 3870596--3870648 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
3870586 CAGCAAGGAG
*
3870596 AAGAAAATAAAGAGA
1 AAGAAAAGAAAGAGA
*
3870611 AAGAAAGGAGAAGAG-
1 AAGAAAAGA-AAGAGA
3870626 AAGAAAAAGAAAGAGA
1 AAG-AAAAGAAAGAGA
*
3870642 AGGAAAA
1 AAGAAAA
3870649 AAGAAGGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAAGAGA
Found at i:3870618 original size:25 final size:26
Alignment explanation
Indices: 3870590--3870645 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
3870580 AATCAGCAGC
* *
3870590 AAGGAGAAGAAAATAAAGAGAAAGA-
1 AAGGAGAAGAAAAGAAAAAGAAAGAG
*
3870615 AAGGAGAAGAGAAGAAAAAGAAAGAG
1 AAGGAGAAGAAAAGAAAAAGAAAGAG
3870641 AAGGA
1 AAGGA
3870646 AAAAAGAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (26 bp):
AAGGAGAAGAAAAGAAAAAGAAAGAG
Found at i:3870629 original size:21 final size:20
Alignment explanation
Indices: 3870605--3870643 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3870595 GAAGAAAATA
*
3870605 AAGAGAAAGAAAGGAGAAGAG
1 AAGAAAAAGAAA-GAGAAGAG
3870626 AAGAAAAAGAAAGAGAAG
1 AAGAAAAAGAAAGAGAAG
3870644 GAAAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAGAGAAGAG
Found at i:3870654 original size:31 final size:30
Alignment explanation
Indices: 3870593--3870654 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
3870583 CAGCAGCAAG
* **
3870593 GAGAAGAAAATAAAGAGAAAGAAAGGAGAA
1 GAGAAGAAAAGAAAGAGAAAGAAAAAAGAA
*
3870623 GAGAAGAAAAAGAAAGAGAAGGAAAAAAGAA
1 GAGAAG-AAAAGAAAGAGAAAGAAAAAAGAA
3870654 G
1 G
3870655 GTATAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (30 bp):
GAGAAGAAAAGAAAGAGAAAGAAAAAAGAA
Found at i:3870804 original size:26 final size:26
Alignment explanation
Indices: 3870749--3870806 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
3870739 GTTGTTAGTT
* * *
3870749 ATTAATATTGTCAGTAAAAAACCCTT
1 ATTATTATTGTCAGTAAAAAACCATA
* *
3870775 ATTATTATTGTTAGTAAAAAATCATA
1 ATTATTATTGTCAGTAAAAAACCATA
3870801 ATTATT
1 ATTATT
3870807 GTTAGTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (26 bp):
ATTATTATTGTCAGTAAAAAACCATA
Found at i:3883161 original size:18 final size:19
Alignment explanation
Indices: 3883138--3883175 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
3883128 CGATTGAAAT
3883138 ATGAAA-TTTTTTTTAAAA
1 ATGAAAGTTTTTTTTAAAA
3883156 ATGAAAGTTTTTTTTTAAAA
1 ATGAAAG-TTTTTTTTAAAA
3883176 CACGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
ATGAAAGTTTTTTTTAAAA
Found at i:3883186 original size:17 final size:17
Alignment explanation
Indices: 3883166--3883472 Score: 99
Period size: 17 Copynumber: 18.4 Consensus size: 17
3883156 ATGAAAGTTT
3883166 TTTTTTAAAACACGAGA
1 TTTTTTAAAACACGAGA
3883183 --TTTT-AAACACG-GA
1 TTTTTTAAAACACGAGA
** *
3883196 AATTTTAAAACACGAAA
1 TTTTTTAAAACACGAGA
* *
3883213 ATTTTTAAAA-ACGACA
1 TTTTTTAAAACACGAGA
*
3883229 TTTTTTGAAACACGAGA
1 TTTTTTAAAACACGAGA
* * *
3883246 -ATTTTAAAACAAGATA
1 TTTTTTAAAACACGAGA
* * **
3883262 TTTTTTGAAACACAATT
1 TTTTTTAAAACACGAGA
3883279 TTTTCTTAAAA-A--A-A
1 TTTT-TTAAAACACGAGA
* *
3883293 ---TTTAAAATACAAGAA
1 TTTTTTAAAACACGAG-A
**
3883308 TTTTAAAAAACACGAGA
1 TTTTTTAAAACACGAGA
*
3883325 ATTTTTAAAACACG-GAA
1 TTTTTTAAAACACGAG-A
* **
3883342 ATTTTTAGAAA-ACGATT
1 TTTTTTA-AAACACGAGA
3883359 TTTTTTAAAATCACCG-GA
1 TTTTTTAAAA-CA-CGAGA
* *
3883377 GTTTTTGGAAAACACGAAA
1 -TTTTT-TAAAACACGAGA
* * * *
3883396 ATCTTTGAAACACCGAAA
1 TTTTTTAAAACA-CGAGA
*
3883414 TTTTTGAAAACACGAAGA
1 TTTTTTAAAACACG-AGA
* *
3883432 -TTTTTGAAACACGAAAA
1 TTTTTTAAAACACG-AGA
* *
3883449 TTTTTGAAAATACGAAGA
1 TTTTTTAAAACACG-AGA
3883467 TTTTTT
1 TTTTTT
3883473 TTAACACGGA
Statistics
Matches: 215, Mismatches: 48, Indels: 53
0.68 0.15 0.17
Matches are distributed among these distances:
10 6 0.03
11 2 0.01
13 3 0.01
14 7 0.03
15 10 0.05
16 36 0.17
17 81 0.38
18 56 0.26
19 10 0.05
20 4 0.02
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (17 bp):
TTTTTTAAAACACGAGA
Found at i:3883188 original size:15 final size:15
Alignment explanation
Indices: 3883168--3883651 Score: 84
Period size: 17 Copynumber: 28.9 Consensus size: 15
3883158 GAAAGTTTTT
*
3883168 TTTTAAAACACGAGA
1 TTTTAAAACACGAAA
3883183 TTTT-AAACACGGAAA
1 TTTTAAAACAC-GAAA
3883198 TTTTAAAACACGAAAA
1 TTTTAAAACACG-AAA
*
3883214 TTTTTAAAA-ACGACATT
1 -TTTTAAAACACGA-A-A
*
3883231 TTTTGAAACACGAGAA
1 TTTTAAAACACGA-AA
* *
3883247 TTTTAAAACAAGATATT
1 TTTTAAAACACGA-A-A
* *
3883264 TTTTGAAACAC-AATTT
1 TTTTAAAACACGAA--A
*
3883280 TTTCTTAAA-A--AAA
1 TTT-TAAAACACGAAA
* *
3883293 -TTTAAAATACAAGAA
1 TTTTAAAACACGA-AA
3883308 TTTTAAAAAACACGAGAA
1 TTTT--AAAACACGA-AA
3883326 TTTTTAAAACACGGAAA
1 -TTTTAAAACAC-GAAA
**
3883343 TTTTTAGAAA-ACGATTTT
1 -TTTTA-AAACACGA--AA
**
3883361 TTTTAAAATCACCGGAGT
1 TTTTAAAA-CA-C-GAAA
3883379 TTTTGGAAAACACGAAAA
1 TTTT--AAAACACG-AAA
*
3883397 TCTTTGAAACACCGAAA
1 T-TTTAAAACA-CGAAA
3883414 TTTTTGAAAACACGAAGA
1 -TTTT-AAAACACGAA-A
*
3883432 TTTTTGAAACACGAAAA
1 -TTTTAAAACACG-AAA
*
3883449 TTTTTGAAAATACGAAGA
1 -TTTT-AAAACACGAA-A
**
3883467 TTTTTTTTAACACGGAAA
1 --TTTTAAAACAC-GAAA
* **
3883485 TTTTGAAACACGGTCATTT
1 TTTTAAAACAC-G--A-AA
3883504 TTTTGAAAACACGAAAA
1 TTTT-AAAACACG-AAA
* **
3883521 TTTTGAAAGACATGATT
1 TTTT-AAA-ACACGAAA
*
3883538 TTTTGAAAATACGGAAA
1 TTTT-AAAACAC-GAAA
*
3883555 TTATAAAACACGAAA
1 TTTTAAAACACGAAA
*
3883570 TTTTTTCTGAAAACAAGAAAA
1 ---TTT-T-AAAACACG-AAA
* *
3883591 TTTTGAAACACTAAA
1 TTTTAAAACACGAAA
*
3883606 TTTGAAAACACGAAGA
1 TTTTAAAACACGAA-A
* *
3883622 TTTTGAAACATGAGAA
1 TTTTAAAACACGA-AA
3883638 TTTTAAAAGCACGA
1 TTTTAAAA-CACGA
3883652 GGATTATAGA
Statistics
Matches: 356, Mismatches: 59, Indels: 106
0.68 0.11 0.20
Matches are distributed among these distances:
11 4 0.01
12 3 0.01
14 7 0.02
15 36 0.10
16 90 0.25
17 107 0.30
18 63 0.18
19 24 0.07
20 19 0.05
21 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (15 bp):
TTTTAAAACACGAAA
Found at i:3883249 original size:33 final size:31
Alignment explanation
Indices: 3883166--3883274 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 31
3883156 ATGAAAGTTT
*
3883166 TTTTTTAAAACACGAG-ATTTTAAACACGGAA
1 TTTTTTAAAACACGAGAATTTTAAAAAC-GAA
* *
3883197 -ATTTTAAAACACGAAAATTTTTAAAAACGACA
1 TTTTTTAAAACACGAGAA-TTTTAAAAACGA-A
* *
3883229 TTTTTTGAAACACGAGAATTTTAAAACAAGATA
1 TTTTTTAAAACACGAGAATTTTAAAA-ACGA-A
*
3883262 TTTTTTGAAACAC
1 TTTTTTAAAACAC
3883275 AATTTTTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.20
31 3 0.05
32 18 0.28
33 31 0.48
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (31 bp):
TTTTTTAAAACACGAGAATTTTAAAAACGAA
Found at i:3883267 original size:49 final size:47
Alignment explanation
Indices: 3883166--3883274 Score: 123
Period size: 49 Copynumber: 2.3 Consensus size: 47
3883156 ATGAAAGTTT
* *
3883166 TTTTTTAAAACACGAGATTTTAAACACGGAAATTTTAAAACACGAAA
1 TTTTTTAAAACACGACATTTTAAACACGGAAATTTTAAAACAAGAAA
* *
3883213 ATTTTTAAAA-ACGACATTTTTTGAAACAC-GAGAATTTTAAAACAAGATA
1 TTTTTTAAAACACGACA--TTTT-AAACACGGA-AATTTTAAAACAAGAAA
*
3883262 TTTTTTGAAACAC
1 TTTTTTAAAACAC
3883275 AATTTTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
46 5 0.10
47 9 0.18
48 6 0.12
49 29 0.57
50 2 0.04
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (47 bp):
TTTTTTAAAACACGACATTTTAAACACGGAAATTTTAAAACAAGAAA
Found at i:3883345 original size:35 final size:35
Alignment explanation
Indices: 3883314--3883496 Score: 144
Period size: 35 Copynumber: 5.2 Consensus size: 35
3883304 AGAATTTTAA
3883314 AAAACACGAGAATTTTTAAAACACGGAAATTTTT-
1 AAAACACGAGAATTTTTAAAACACGGAAATTTTTG
*** *
3883348 AGAAA-ACGATTTTTTTTAAAATCACCGG-AGTTTTTGG
1 A-AAACACGAGAATTTTTAAAA-CA-CGGAAATTTTT-G
* * * *
3883385 AAAACACGAAAATCTTTGAAACACCGAAATTTTTG
1 AAAACACGAGAATTTTTAAAACACGGAAATTTTTG
* *
3883420 AAAACACGA-AGATTTTTGAAACACGAAAATTTTTG
1 AAAACACGAGA-ATTTTTAAAACACGGAAATTTTTG
* * **
3883455 AAAATACGAAGATTTTTTTTAACACGGAAA-TTTTG
1 AAAACACG-AGAATTTTTAAAACACGGAAATTTTTG
3883490 -AAACACG
1 AAAACACG
3883497 GTCATTTTTT
Statistics
Matches: 119, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
34 21 0.18
35 56 0.47
36 29 0.24
37 13 0.11
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (35 bp):
AAAACACGAGAATTTTTAAAACACGGAAATTTTTG
Found at i:3883524 original size:17 final size:17
Alignment explanation
Indices: 3883379--3883651 Score: 143
Period size: 17 Copynumber: 15.8 Consensus size: 17
3883369 TCACCGGAGT
3883379 TTTTGGAAAACACGAAAA
1 TTTT-GAAAACACGAAAA
*
3883397 TCTTTG-AAACACCGAAAT
1 T-TTTGAAAACA-CGAAAA
*
3883415 TTTTGAAAACACGAAGAT
1 TTTTGAAAACACGAA-AA
3883433 TTTTG-AAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
3883449 TTTTTGAAAATACGAAGAT
1 -TTTTGAAAACACGAA-AA
*** *
3883468 TTTTTTTAACACGGAAA
1 TTTTGAAAACACGAAAA
***
3883485 TTTTG-AAACACGGTCATTT
1 TTTTGAAAACAC-G--AAAA
3883504 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* **
3883521 TTTTGAAAGACATG-ATT
1 TTTTGAAA-ACACGAAAA
* *
3883538 TTTTGAAAATACGGAAA
1 TTTTGAAAACACGAAAA
* *
3883555 TTAT-AAAACACGAAATTT
1 TTTTGAAAACACGAAA--A
*
3883573 TTTCTGAAAACAAGAAAA
1 TTT-TGAAAACACGAAAA
*
3883591 TTTTG-AAACAC-TAAA
1 TTTTGAAAACACGAAAA
*
3883606 -TTTGAAAACACGAAGA
1 TTTTGAAAACACGAAAA
* *
3883622 TTTTG-AAACATGAGAA
1 TTTTGAAAACACGAAAA
3883638 TTTT-AAAAGCACGA
1 TTTTGAAAA-CACGA
3883652 GGATTATAGA
Statistics
Matches: 192, Mismatches: 41, Indels: 45
0.69 0.15 0.16
Matches are distributed among these distances:
14 4 0.02
15 9 0.05
16 40 0.21
17 65 0.34
18 47 0.24
19 11 0.06
20 16 0.08
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:3883575 original size:70 final size:70
Alignment explanation
Indices: 3883432--3883598 Score: 187
Period size: 70 Copynumber: 2.4 Consensus size: 70
3883422 AACACGAAGA
* ** * *
3883432 TTTTTG-AAACACGAAAATTTTTGAAAATACGAAGATTTTTTTTAACACGGAAATTTTGAAACAC
1 TTTTTGAAAACACGAAAA-TTTTG-AAAGACGAAGATTTTTTAAAACACGGAAATTATAAAACAC
**
3883496 GGTCATT
64 GGAAATT
* *
3883503 TTTTTGAAAACACGAAAATTTTGAAAGAC-ATGATTTTTTGAAAATACGGAAATTATAAAACAC-
1 TTTTTGAAAACACGAAAATTTTGAAAGACGAAGATTTTTT-AAAACACGGAAATTATAAAACACG
3883566 GAAATT
65 GAAATT
*
3883572 TTTTCTGAAAACAAGAAAATTTTGAAA
1 TTTT-TGAAAACACGAAAATTTTGAAA
3883599 CACTAAATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
69 17 0.20
70 44 0.53
71 11 0.13
72 11 0.13
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (70 bp):
TTTTTGAAAACACGAAAATTTTGAAAGACGAAGATTTTTTAAAACACGGAAATTATAAAACACGG
AAATT
Found at i:3883600 original size:36 final size:35
Alignment explanation
Indices: 3883386--3883641 Score: 169
Period size: 36 Copynumber: 7.4 Consensus size: 35
3883376 AGTTTTTGGA
* * *
3883386 AAACACGAAA-ATCTTTG-AAACACCGAAATTTTTG
1 AAACACGAAATTTTTTTGAAAACA-CGAAAATTTTG
3883420 AAAACACGAAGA--TTTTTG-AAACACGAAAATTTTTG
1 -AAACACGAA-ATTTTTTTGAAAACACGAAAA-TTTTG
* * *
3883455 AAAATACGAAGATTTTTTT--TAACACGGAAATTTTG
1 -AAACACGAA-ATTTTTTTGAAAACACGAAAATTTTG
**
3883490 AAACACGGTCATTTTTTTGAAAACACGAAAATTTTG
1 AAACAC-GAAATTTTTTTGAAAACACGAAAATTTTG
* * * * * *
3883526 AAAGAC-ATGA-TTTTTTGAAAATACGGAAATTATA
1 AAACACGA-AATTTTTTTGAAAACACGAAAATTTTG
*
3883560 AAACACGAAATTTTTTCTGAAAACAAGAAAATTTTG
1 AAACACGAAATTTTTT-TGAAAACACGAAAATTTTG
* *
3883596 AAACACTAAA----TTTGAAAACACGAAGATTTTG
1 AAACACGAAATTTTTTTGAAAACACGAAAATTTTG
*
3883627 AAACATGAGAATTTT
1 AAACACGA-AATTTT
3883642 AAAAGCACGA
Statistics
Matches: 176, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
31 23 0.13
32 4 0.02
34 44 0.25
35 48 0.27
36 52 0.30
37 5 0.03
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (35 bp):
AAACACGAAATTTTTTTGAAAACACGAAAATTTTG
Found at i:3883990 original size:11 final size:11
Alignment explanation
Indices: 3883974--3884022 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
3883964 ATTGAACTTT
3883974 TTTTTTCCTTC
1 TTTTTTCCTTC
3883985 TTTTTTCCTTC
1 TTTTTTCCTTC
3883996 TCTTTTT-CTTC
1 T-TTTTTCCTTC
*
3884007 --TTTTCTTTC
1 TTTTTTCCTTC
3884016 TTTTTTC
1 TTTTTTC
3884023 TTGCTGGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 4 0.12
9 3 0.09
11 21 0.64
12 5 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCCTTC
Found at i:3884020 original size:19 final size:19
Alignment explanation
Indices: 3883982--3884024 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3883972 TTTTTTTTCC
3883982 TTCTTTTTTCCTTCTCTTT
1 TTCTTTTTTCCTTCTCTTT
*
3884001 TTCTTCTTTTCTTTCT-TTT
1 TTCTT-TTTTCCTTCTCTTT
3884020 TTCTT
1 TTCTT
3884025 GCTGGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTCTTTTTTCCTTCTCTTT
Found at i:3884023 original size:11 final size:11
Alignment explanation
Indices: 3883970--3884024 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
3883960 ACGAATTGAA
3883970 CTTT-TTTTTT
1 CTTTCTTTTTT
*
3883980 CCTTCTTTTTT
1 CTTTCTTTTTT
*
3883991 CCTTCTCTTTTT
1 CTTTCT-TTTTT
3884003 C-TTC--TTTT
1 CTTTCTTTTTT
3884011 CTTTCTTTTTT
1 CTTTCTTTTTT
3884022 CTT
1 CTT
3884025 GCTGGCCACT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
10 3 0.08
11 22 0.56
12 6 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
CTTTCTTTTTT
Found at i:3884166 original size:13 final size:13
Alignment explanation
Indices: 3884140--3884184 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
3884130 GGCTGCTTTC
*
3884140 TTTTTTTGGCTTGT
1 TTTTTTTTG-TTGT
*
3884154 TTTTTTTTTTTGT
1 TTTTTTTTGTTGT
*
3884167 TTTTGTTTGTTGT
1 TTTTTTTTGTTGT
3884180 TTTTT
1 TTTTT
3884185 CTTGGGCTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (13 bp):
TTTTTTTTGTTGT
Found at i:3884279 original size:16 final size:16
Alignment explanation
Indices: 3884258--3884312 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 16
3884248 TTTTTTATTA
3884258 TTTCTTTTCTTTTCTT
1 TTTCTTTTCTTTTCTT
3884274 TTTC-TTTC-TTTCTT
1 TTTCTTTTCTTTTCTT
3884288 TTCCTCTTTTCTTCTTCTT
1 TT--TCTTTTCTT-TTCTT
*
3884307 CTTCTT
1 TTTCTT
3884313 CAAGTCTAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
16 6 0.18
17 8 0.24
18 1 0.03
19 6 0.18
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTCTTTTCTT
Found at i:3884283 original size:20 final size:22
Alignment explanation
Indices: 3884258--3884309 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
3884248 TTTTTTATTA
3884258 TTTCTTTTCTTTT-CT-TTTTC
1 TTTCTTTTCTTTTCCTCTTTTC
3884278 TTTC-TTTCTTTTCCTCTTTTC
1 TTTCTTTTCTTTTCCTCTTTTC
3884299 -TTCTTCTTCTT
1 TTTCTT-TTCTT
3884310 CTTCAAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 6 0.21
22 5 0.18
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTTTTCTTTTCCTCTTTTC
Found at i:3884428 original size:23 final size:23
Alignment explanation
Indices: 3884384--3884430 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
3884374 CACCGCCGAC
3884384 TCCTCTCTTCTCTTCTTCCTTCT
1 TCCTCTCTTCTCTTCTTCCTTCT
3884407 TCCTCTCCTTTCTCTT-TT-CTTCT
1 TCCTCT-C-TTCTCTTCTTCCTTCT
3884430 T
1 T
3884431 TTCGAAGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 3 0.14
25 7 0.32
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (23 bp):
TCCTCTCTTCTCTTCTTCCTTCT
Found at i:3884606 original size:29 final size:29
Alignment explanation
Indices: 3884556--3884669 Score: 117
Period size: 29 Copynumber: 3.9 Consensus size: 29
3884546 TATAATTTTT
* *
3884556 AGAAA-TTTAGGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
* * *
3884584 TGAAAGTTTAGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
3884613 AG-AAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTCAAAATGAAATTTAA
* *
3884641 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTA-GGGTCAAAATGAAATTT
3884670 TTATTTAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 12 0.17
29 37 0.52
30 22 0.31
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (29 bp):
AGAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:3892436 original size:19 final size:18
Alignment explanation
Indices: 3892398--3892447 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
3892388 TCATTTCATT
**
3892398 AAAAAATAAAATCTCTTC
1 AAAAAATAAAATCTAATC
3892416 AAAAAATAAAATCTAAATC
1 AAAAAATAAAATCT-AATC
*
3892435 AAATAAATTAAAT
1 AAA-AAATAAAAT
3892448 ATTTAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 14 0.52
19 5 0.19
20 8 0.30
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATAAAATCTAATC
Found at i:3893415 original size:4 final size:4
Alignment explanation
Indices: 3893406--3893430 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3893396 GTAGACTAAT
3893406 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
3893431 AATTCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:3901485 original size:16 final size:16
Alignment explanation
Indices: 3901456--3901489 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
3901446 GAAATTGATA
3901456 TGAATATGTGATTAAT
1 TGAATATGTGATTAAT
3901472 TGAA-ATGTGTATTAAT
1 TGAATATGTG-ATTAAT
3901488 TG
1 TG
3901490 GAAACTGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (16 bp):
TGAATATGTGATTAAT
Found at i:3901683 original size:29 final size:28
Alignment explanation
Indices: 3901644--3901727 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
3901634 CACTTTGTGC
3901644 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
3901673 TATTCTGGTGTGTTTGGGAGGATTGTAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
3901701 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
3901728 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 31 0.63
29 18 0.37
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:3901728 original size:23 final size:25
Alignment explanation
Indices: 3901648--3901741 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 25
3901638 TTGTGCTATT
3901648 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGATTATA-TA
*
3901675 TTCTGGTGTGTTTGGGAGGATTGTATGATA
1 --CTGGTGTGTTTTGGAGGA-T-TAT-ATA
3901705 CTGGTGTGTTTTGGAGGA-T-TATA
1 CTGGTGTGTTTTGGAGGATTATATA
3901728 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
3901742 TTGGACATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
23 17 0.28
24 1 0.02
25 1 0.02
28 20 0.33
29 15 0.25
30 5 0.08
31 1 0.02
ACGTcount: A:0.15, C:0.04, G:0.35, T:0.46
Consensus pattern (25 bp):
CTGGTGTGTTTTGGAGGATTATATA
Found at i:3901962 original size:23 final size:23
Alignment explanation
Indices: 3901932--3902018 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 23
3901922 GCTATACTGA
3901932 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
*
3901955 TCAGGCACCTCT-TGTGTCGTA--
1 TCAGGCA-CTTTATGTGTCGTATT
* *
3901976 TCAGGCACCTTGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
3901998 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
3902019 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.04
21 31 0.57
22 2 0.04
23 16 0.30
24 3 0.06
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:3903853 original size:50 final size:50
Alignment explanation
Indices: 3903729--3903977 Score: 205
Period size: 50 Copynumber: 4.8 Consensus size: 50
3903719 GATAATAACA
* ** * *
3903729 TGCCAA-AGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAACA-CCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* ** * *
3903780 TGCCCATGCCATGTCCCAGACATGGCCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
3903830 TGCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* ** * *
3903880 TGCCCATGCCATGTCCCAGACATGGTCTTACAGAGGACCTCTCATGATCTTAAGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
** * *
3903935 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCT
3903978 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
49 1 0.01
50 86 0.53
51 31 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.24
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACACCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:3903918 original size:100 final size:103
Alignment explanation
Indices: 3903728--3903977 Score: 312
Period size: 100 Copynumber: 2.4 Consensus size: 103
3903718 TGATAATAAC
**
3903728 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAA-CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* * *
3903793 TCCCAGACATGGCCTTATAGGGGACCTCTC-ATC-T-CGG
64 TCCCAGACATGGCCTTACAGAGGACCTCTCAATCTTAAGG
* *
3903830 -TGCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAA-ACCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
3903893 TCCCAGACATGGTCTTACAGAGGACCTCTCATGATCTTAAGG
64 TCCCAGACATGGCCTTACAGAGGACCTCTCA--ATCTTAAGG
* *
3903935 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAA-ACCATGTCCCAGACATGGTCTTACATGGGACCTCT
3903978 TTACCCAAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
99 1 0.01
100 48 0.38
101 34 0.27
102 1 0.01
103 3 0.02
104 1 0.01
105 2 0.02
106 38 0.30
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (103 bp):
ATGCCAAACCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGTC
CCAGACATGGCCTTACAGAGGACCTCTCAATCTTAAGG
Found at i:3904093 original size:13 final size:13
Alignment explanation
Indices: 3904072--3904103 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3904062 GCTTGGATCA
*
3904072 TCATCAAATAAAT
1 TCATAAAATAAAT
3904085 TCATAAAATAAAT
1 TCATAAAATAAAT
3904098 TCATAA
1 TCATAA
3904104 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:3904347 original size:29 final size:30
Alignment explanation
Indices: 3904315--3904371 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3904305 CCTCGACTCT
3904315 AACTTTT-CAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
3904344 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
3904372 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:3909695 original size:14 final size:14
Alignment explanation
Indices: 3909676--3909705 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3909666 ATTTTTTATA
*
3909676 TATTATTATTATTT
1 TATTATTATTAGTT
3909690 TATTATTATTAGTT
1 TATTATTATTAGTT
3909704 TA
1 TA
3909706 CGTTTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTATTATTAGTT
Found at i:3909823 original size:24 final size:24
Alignment explanation
Indices: 3909772--3909853 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
3909762 ATACATGGCA
* *
3909772 TATATATTTATAACATTGTATTA--
1 TATATATTT-TAAAATTATATTATG
3909795 T-TATATTTTAAAATTATATTATG
1 TATATATTTTAAAATTATATTATG
* *
3909818 TATATATTTTCATATTATATTATG
1 TATATATTTTAAAATTATATTATG
3909842 TACATATATTTT
1 T--ATATATTTT
3909854 CTAATATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.22
22 7 0.14
23 2 0.04
24 21 0.42
26 9 0.18
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (24 bp):
TATATATTTTAAAATTATATTATG
Found at i:3909838 original size:13 final size:12
Alignment explanation
Indices: 3909793--3909882 Score: 53
Period size: 13 Copynumber: 7.5 Consensus size: 12
3909783 AACATTGTAT
3909793 TATTATATTTTAA
1 TATTATATTTT-A
* * *
3909806 AATTATATTATG
1 TATTATATTTTA
3909818 TA-TATATTTTCA
1 TATTATATTTT-A
3909830 TATTATATTATGTA
1 TATTATATT-T-TA
* *
3909844 CA-TATATTTTC
1 TATTATATTTTA
* *
3909855 TAATATTTTTTA
1 TATTATATTTTA
3909867 TA-TAT-TTTTA
1 TATTATATTTTA
3909877 TATTAT
1 TATTAT
3909883 TAGTTATATT
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
10 7 0.12
11 15 0.25
12 13 0.22
13 21 0.35
14 3 0.05
15 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:3910017 original size:3 final size:3
Alignment explanation
Indices: 3910011--3910195 Score: 52
Period size: 3 Copynumber: 60.3 Consensus size: 3
3910001 TATTCTCATA
*
3910011 TAT TAT TA- TAT TATT TAT TA- TACT TAT TAT T-T TCAT TAT TAT CACT
1 TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TA-T
* * *
3910057 TAT TAT T-T TAT T-T TAA TAT TAT TGT GTA- TAT ATAT T-T CGTAT ATGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT --TAT -TAT
* * * *
3910103 TAT GTACA TAG TAT TAT TCT CAT ATAT TAT TA- TAT TATT TAT TA- TACT
1 TAT -TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TA-T
* *
3910151 TAT TAT T-T TCAT TAT TAT CACT TAT TAT T-T TAT T-T TAA TAT TAT
1 TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
3910195 T
1 T
3910196 GTGTATATAT
Statistics
Matches: 135, Mismatches: 20, Indels: 54
0.65 0.10 0.26
Matches are distributed among these distances:
2 23 0.17
3 80 0.59
4 31 0.23
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:3910037 original size:21 final size:21
Alignment explanation
Indices: 3910009--3910069 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
3909999 ATTATTCTCA
*
3910009 TATA-TTATTATATTATTTAT
1 TATACTTATTATTTTATTTAT
3910029 TATACTTATTATTTTCA-TTAT
1 TATACTTATTATTTT-ATTTAT
3910050 TATCACTTATTATTTTATTT
1 TAT-ACTTATTATTTTATTT
3910070 TAATATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 15 0.42
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATACTTATTATTTTATTTAT
Found at i:3910040 original size:12 final size:11
Alignment explanation
Indices: 3909998--3910195 Score: 62
Period size: 13 Copynumber: 17.6 Consensus size: 11
3909988 ATATATATAG
* *
3909998 TATTATTCTCA
1 TATTATTATTA
3910009 TA-TATTATTA
1 TATTATTATTA
3910019 TATTATTTATTA
1 TATTA-TTATTA
3910031 TACTTATTATT-
1 TA-TTATTATTA
*
3910042 T-TCATTATTA
1 TATTATTATTA
*
3910052 TCACTTATTATTT
1 T-A-TTATTATTA
3910065 TATT-TTA--A
1 TATTATTATTA
*
3910073 TATTATTGTGTA
1 TATTATTAT-TA
3910085 TATATATT-TCGTA
1 TAT-TATTAT--TA
*
3910098 TATGTTATGTA-CA
1 TA--TTAT-TATTA
* *
3910111 TAGTATTATTC
1 TATTATTATTA
3910122 TCATATATTATTA
1 T-AT-TATTATTA
3910135 TATTATTTATTA
1 TATTA-TTATTA
3910147 TACTTATTATT-
1 TA-TTATTATTA
*
3910158 T-TCATTATTA
1 TATTATTATTA
*
3910168 TCACTTATTATTT
1 T-A-TTATTATTA
3910181 TATT-TTA--A
1 TATTATTATTA
3910189 TATTATT
1 TATTATT
3910196 GTGTATATAT
Statistics
Matches: 143, Mismatches: 17, Indels: 56
0.66 0.08 0.26
Matches are distributed among these distances:
8 8 0.06
9 18 0.13
10 18 0.13
11 16 0.11
12 36 0.25
13 42 0.29
14 3 0.02
15 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (11 bp):
TATTATTATTA
Found at i:3910077 original size:38 final size:38
Alignment explanation
Indices: 3909993--3910195 Score: 127
Period size: 38 Copynumber: 5.3 Consensus size: 38
3909983 ACATTATATA
* * *
3909993 TATAGTATTATTCTCATATATTATTA--TATTA-TTTAT
1 TATAATATTATTTTCAT-TATTATCACTTATTATTTTAT
*
3910029 TATACTTATTATTTTCATTATTATCACTTATTATTTTAT
1 TATA-ATATTATTTTCATTATTATCACTTATTATTTTAT
* ** * *
3910068 TTTAATATTATTGTGT-A-TATATATTTCGTA-TATGTTAT
1 TATAATATTATT-T-TCATTAT-TATCACTTATTATTTTAT
* * *
3910106 GTACATAGTATTATTCTCATATATTATTA--TATTA-TTTAT
1 -T--ATAATATTATTTTCAT-TATTATCACTTATTATTTTAT
*
3910145 TATACTTATTATTTTCATTATTATCACTTATTATTTTAT
1 TATA-ATATTATTTTCATTATTATCACTTATTATTTTAT
*
3910184 TTTAATATTATT
1 TATAATATTATT
3910196 GTGTATATAT
Statistics
Matches: 130, Mismatches: 19, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
36 21 0.16
37 22 0.17
38 35 0.27
39 32 0.25
40 4 0.03
41 13 0.10
42 3 0.02
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (38 bp):
TATAATATTATTTTCATTATTATCACTTATTATTTTAT
Found at i:3910121 original size:116 final size:116
Alignment explanation
Indices: 3909994--3910228 Score: 470
Period size: 116 Copynumber: 2.0 Consensus size: 116
3909984 CATTATATAT
3909994 ATAGTATTATTCTCATATATTATTATATTATTTATTATACTTATTATTTTCATTATTATCACTTA
1 ATAGTATTATTCTCATATATTATTATATTATTTATTATACTTATTATTTTCATTATTATCACTTA
3910059 TTATTTTATTTTAATATTATTGTGTATATATATTTCGTATATGTTATGTAC
66 TTATTTTATTTTAATATTATTGTGTATATATATTTCGTATATGTTATGTAC
3910110 ATAGTATTATTCTCATATATTATTATATTATTTATTATACTTATTATTTTCATTATTATCACTTA
1 ATAGTATTATTCTCATATATTATTATATTATTTATTATACTTATTATTTTCATTATTATCACTTA
3910175 TTATTTTATTTTAATATTATTGTGTATATATATTTCGTATATGTTATGTAC
66 TTATTTTATTTTAATATTATTGTGTATATATATTTCGTATATGTTATGTAC
3910226 ATA
1 ATA
3910229 CATTTTTCAA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (116 bp):
ATAGTATTATTCTCATATATTATTATATTATTTATTATACTTATTATTTTCATTATTATCACTTA
TTATTTTATTTTAATATTATTGTGTATATATATTTCGTATATGTTATGTAC
Found at i:3910153 original size:21 final size:21
Alignment explanation
Indices: 3910125--3910185 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
3910115 ATTATTCTCA
*
3910125 TATA-TTATTATATTATTTAT
1 TATACTTATTATTTTATTTAT
3910145 TATACTTATTATTTTCA-TTAT
1 TATACTTATTATTTT-ATTTAT
3910166 TATCACTTATTATTTTATTT
1 TAT-ACTTATTATTTTATTT
3910186 TAATATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 15 0.42
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATACTTATTATTTTATTTAT
Found at i:3917933 original size:26 final size:26
Alignment explanation
Indices: 3917903--3917984 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
3917893 TGAAATTCCC
3917903 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
3917929 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
3917955 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
3917981 ATCA
1 ATCA
3917985 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:3923130 original size:26 final size:27
Alignment explanation
Indices: 3923101--3923164 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 27
3923091 TATCAAAGAT
3923101 TTTATTGATTAAAATATA-TATATT-TA
1 TTTATT-ATTAAAATATATTATATTATA
* *
3923127 TTTAATAATT-AAGTATATTATATTATA
1 TTT-ATTATTAAAATATATTATATTATA
3923154 TTATATTATTA
1 TT-TATTATTA
3923165 TATATAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
25 6 0.20
26 12 0.40
27 11 0.37
28 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTATTATTAAAATATATTATATTATA
Found at i:3927377 original size:3 final size:3
Alignment explanation
Indices: 3927329--3927361 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
3927319 TTTTTATATA
3927329 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
3927362 GTTTACGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3927390 original size:15 final size:15
Alignment explanation
Indices: 3927372--3927405 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3927362 GTTTACGTTT
3927372 TATTATATATATATC
1 TATTATATATATATC
* *
3927387 TATTATATGTATATG
1 TATTATATATATATC
3927402 TATT
1 TATT
3927406 GAATATATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (15 bp):
TATTATATATATATC
Found at i:3927472 original size:13 final size:12
Alignment explanation
Indices: 3927456--3927532 Score: 50
Period size: 13 Copynumber: 6.2 Consensus size: 12
3927446 AACATTGTAT
3927456 TATTATATTTTAA
1 TATTATATTTT-A
* *
3927469 TATTATATTATG
1 TATTATATTTTA
3927481 TA-TATATTTTCA
1 TATTATATTTT-A
3927493 TATTATATTATGTA
1 TATTATATT-T-TA
* *
3927507 CA-TATATTTTC
1 TATTATATTTTA
* *
3927518 TAATATTTTTTA
1 TATTATATTTTA
3927530 TAT
1 TAT
3927533 ATTATCATGT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
11 9 0.18
12 14 0.29
13 22 0.45
14 3 0.06
15 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:3927486 original size:24 final size:24
Alignment explanation
Indices: 3927435--3927516 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 24
3927425 ATACATGGCA
* *
3927435 TATATATTTATAACATTGTATTA--
1 TATATATTT-TAATATTATATTATG
3927458 T-TATATTTTAATATTATATTATG
1 TATATATTTTAATATTATATTATG
*
3927481 TATATATTTTCATATTATATTATG
1 TATATATTTTAATATTATATTATG
3927505 TACATATATTTT
1 T--ATATATTTT
3927517 CTAATATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.22
22 7 0.14
23 2 0.04
24 22 0.43
26 9 0.18
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATATTTTAATATTATATTATG
Found at i:3927569 original size:20 final size:22
Alignment explanation
Indices: 3927520--3927576 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
3927510 ATATTTTCTA
*
3927520 ATATTTTTTATATATTATCATGT
1 ATATATTTT-TATATTATCATGT
*
3927543 ATATATTTTTATATTATTA-GT
1 ATATATTTTTATATTATCATGT
3927564 -TATATTTTTATAT
1 ATATATTTTTATAT
3927577 ACCATCTCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 13 0.41
21 2 0.06
22 9 0.28
23 8 0.25
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
ATATATTTTTATATTATCATGT
Found at i:3927577 original size:22 final size:22
Alignment explanation
Indices: 3927524--3927577 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
3927514 TTTCTAATAT
3927524 TTTTTATATATTATCATGTATA
1 TTTTTATATATTATCATGTATA
*
3927546 TATTTT-TATATTATTA-GTTATA
1 T-TTTTATATATTATCATG-TATA
3927568 TTTTTATATA
1 TTTTTATATA
3927578 CCATCTCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 5 0.18
22 19 0.68
23 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
TTTTTATATATTATCATGTATA
Found at i:3927714 original size:21 final size:21
Alignment explanation
Indices: 3927686--3927746 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
3927676 ATTATTCTCA
*
3927686 TATA-TTATTATATTATTTAT
1 TATACTTATTATTTTATTTAT
3927706 TATACTTATTATTTTCA-TTAT
1 TATACTTATTATTTT-ATTTAT
3927727 TATCACTTATTATTTTATTT
1 TAT-ACTTATTATTTTATTT
3927747 TAATATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 15 0.42
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATACTTATTATTTTATTTAT
Found at i:3927717 original size:12 final size:11
Alignment explanation
Indices: 3927675--3927756 Score: 50
Period size: 12 Copynumber: 7.6 Consensus size: 11
3927665 ATATATATAG
* *
3927675 TATTATTCTCA
1 TATTATTATTA
3927686 TA-TATTATTA
1 TATTATTATTA
3927696 TATTATTTATTA
1 TATTA-TTATTA
3927708 TACTTATTATT-
1 TA-TTATTATTA
*
3927719 T-TCATTATTA
1 TATTATTATTA
*
3927729 TCACTTATTATTT
1 T-A-TTATTATTA
3927742 TATT-TTA--A
1 TATTATTATTA
3927750 TATTATT
1 TATTATT
3927757 GTGTATATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 4 0.07
9 9 0.16
10 12 0.21
11 7 0.12
12 14 0.25
13 11 0.19
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTATTA
Found at i:3927837 original size:11 final size:10
Alignment explanation
Indices: 3927811--3927851 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
3927801 ATTTATTTTA
3927811 TATATATATG
1 TATATATATG
*
3927821 TATATATCATC
1 TATATAT-ATG
3927832 TATATATTATG
1 TATATA-TATG
3927843 TATATATAT
1 TATATATAT
3927852 ACTCTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.37
11 16 0.59
12 1 0.04
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:3927941 original size:19 final size:19
Alignment explanation
Indices: 3927913--3927952 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3927903 CTAACACTGC
3927913 TTTTTATATATATATACTA
1 TTTTTATATATATATACTA
*
3927932 TTTTTTTATATATATACTA
1 TTTTTATATATATATACTA
3927951 TT
1 TT
3927953 ATCATTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATATATATATACTA
Found at i:3929783 original size:18 final size:18
Alignment explanation
Indices: 3929762--3929813 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
3929752 TAAAAAATGT
3929762 ATAAAATTATAAAATAAA
1 ATAAAATTATAAAATAAA
*
3929780 ATAAAA-TATAAATATTTAA
1 ATAAAATTATAAA-A-TAAA
*
3929799 A-AAAATTAAAAAATA
1 ATAAAATTATAAAATA
3929814 TGGGCGGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.25
18 12 0.43
19 9 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAATTATAAAATAAA
Found at i:3929810 original size:25 final size:25
Alignment explanation
Indices: 3929761--3929809 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
3929751 ATAAAAAATG
3929761 TATAAAATTATAAAATAAAATAAAA
1 TATAAAATTATAAAATAAAATAAAA
*
3929786 TATAAATATT-TAAAA-AAATTAAAA
1 TATAAA-ATTATAAAATAAAATAAAA
3929810 AATATGGGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 11 0.50
26 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
TATAAAATTATAAAATAAAATAAAA
Found at i:3933039 original size:48 final size:47
Alignment explanation
Indices: 3932964--3933156 Score: 201
Period size: 48 Copynumber: 4.0 Consensus size: 47
3932954 GCACCTGCGA
* * * * * *
3932964 CTCTTGTTGGTCATGATTCTGTAGTTTGTTTCCCTTGGGTTCATCTTG
1 CTCTAGTTGGTCTTGATT-TGTTGTTTGGTTCCCTTCGGTTCATCTTC
* * *
3933012 CTCTAGTTGATCTTGATTTAGTTGTTTGGTCCCCTTCGATTCATCTTC
1 CTCTAGTTGGTCTTGATTT-GTTGTTTGGTTCCCTTCGGTTCATCTTC
* * *
3933060 CTCTAGTTGGTCTTGATTCGGTTGTTTGGTTCCCTTGGGTTCATCCTC
1 CTCTAGTTGGTCTTGATT-TGTTGTTTGGTTCCCTTCGGTTCATCTTC
*
3933108 CTCTAGTTGGTCTTGAATTT-TTGGTTTGTTTACCC-TCGGTTCATCTTC
1 CTCTAGTTGGTCTTG-ATTTGTT-GTTTGGTT-CCCTTCGGTTCATCTTC
3933156 C
1 C
3933157 ATTTCCGCCA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
47 3 0.02
48 112 0.93
49 6 0.05
ACGTcount: A:0.09, C:0.22, G:0.21, T:0.48
Consensus pattern (47 bp):
CTCTAGTTGGTCTTGATTTGTTGTTTGGTTCCCTTCGGTTCATCTTC
Found at i:3933151 original size:96 final size:95
Alignment explanation
Indices: 3932964--3933156 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 95
3932954 GCACCTGCGA
* * * * *
3932964 CTCTTGTTGGTCATGATTCTGTAGTTTGTTTCCCTTGGGTTCATCTTGCTCTAGTTGATCTTGAT
1 CTCTAGTTGGTCATGATTCGGTAGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGATCTTGAT
*
3933029 TTAGTTGTTTGGTCCCCTTCGATTCATCTTC
66 TTA-TTGTTTGGTACCCTTCGATTCATCTTC
* * *
3933060 CTCTAGTTGGTCTTGATTCGGTTGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGGTCTTGAA
1 CTCTAGTTGGTCATGATTCGGTAGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGATCTTG-A
* *
3933125 TTT-TTGGTTTGTTTACCC-TCGGTTCATCTTC
65 TTTATT-GTTTG-GTACCCTTCGATTCATCTTC
3933156 C
1 C
3933157 ATTTCCGCCA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 2 0.02
96 73 0.88
97 8 0.10
ACGTcount: A:0.09, C:0.22, G:0.21, T:0.48
Consensus pattern (95 bp):
CTCTAGTTGGTCATGATTCGGTAGTTTGGTTCCCTTGGGTTCATCCTCCTCTAGTTGATCTTGAT
TTATTGTTTGGTACCCTTCGATTCATCTTC
Found at i:3936736 original size:16 final size:16
Alignment explanation
Indices: 3936685--3936737 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
3936675 TATTATTCAT
*
3936685 AATTTTTCAAATATTTA
1 AATTTTT-AAATATATA
3936702 AA-TTTTAATATAAATATA
1 AATTTTTAA-AT--ATATA
3936720 AATTTTTAAATATATA
1 AATTTTTAAATATATA
3936736 AA
1 AA
3936738 AGGATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 2 0.06
16 13 0.42
17 2 0.06
18 8 0.26
19 6 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTTTAAATATATA
Found at i:3946448 original size:18 final size:18
Alignment explanation
Indices: 3946425--3946459 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3946415 CGTCGGCTAA
*
3946425 TTCCTCTGCTTCTTCTTT
1 TTCCTCCGCTTCTTCTTT
*
3946443 TTCCTCCGTTTCTTCTT
1 TTCCTCCGCTTCTTCTT
3946460 CCTCCAACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.06, T:0.60
Consensus pattern (18 bp):
TTCCTCCGCTTCTTCTTT
Found at i:3956524 original size:19 final size:20
Alignment explanation
Indices: 3956485--3956524 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3956475 GAAAGGATTG
*
3956485 TGTTATAATTATATTTAAAA
1 TGTTATAATTATATATAAAA
*
3956505 TGTTATAGTT-TATATAAAA
1 TGTTATAATTATATATAAAA
3956524 T
1 T
3956525 TTAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
TGTTATAATTATATATAAAA
Found at i:3960936 original size:14 final size:14
Alignment explanation
Indices: 3960917--3960947 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3960907 CTGAAAAAAG
3960917 AAAGAATCTGTTGT
1 AAAGAATCTGTTGT
3960931 AAAGAATCTGTTGT
1 AAAGAATCTGTTGT
3960945 AAA
1 AAA
3960948 TCACGGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (14 bp):
AAAGAATCTGTTGT
Found at i:3965247 original size:18 final size:18
Alignment explanation
Indices: 3965224--3965259 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3965214 TTATATATTT
3965224 TTTTATAATTTTTAAAAA
1 TTTTATAATTTTTAAAAA
3965242 TTTTATAATTTTTAAAAA
1 TTTTATAATTTTTAAAAA
3965260 AATATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAATTTTTAAAAA
Found at i:3965269 original size:18 final size:18
Alignment explanation
Indices: 3965227--3965271 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
3965217 TATATTTTTT
* *
3965227 TATAATTTTTAAAAATTT
1 TATAATTTTTAAAAAATA
3965245 TATAATTTTTAAAAAA-A
1 TATAATTTTTAAAAAATA
3965262 TATAAATTTT
1 TAT-AATTTT
3965272 GAAATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATAATTTTTAAAAAATA
Found at i:3965308 original size:19 final size:20
Alignment explanation
Indices: 3965267--3965315 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
3965257 AAAAATATAA
*
3965267 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
3965287 ATTTTG-AA-TTTTAAAAATT
1 ATTTTGAAATTTTTAAAAA-T
*
3965306 ATTTTTAAAT
1 ATTTTGAAAT
3965316 AATTTTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:3966572 original size:50 final size:50
Alignment explanation
Indices: 3966497--3966596 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
3966487 GGTTAACTAA
*
3966497 GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAAGGAAAAAG
1 GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
*
3966547 GAGTGAAATTTTTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
1 GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
3966597 CGACCATGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (50 bp):
GAGTGAAATTATTCTTCACATGCTTGTAACCCAAGAATAAAACGAAAAAG
Found at i:3970598 original size:14 final size:15
Alignment explanation
Indices: 3970579--3970611 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3970569 ATTTTTTATT
3970579 TAAAAAATA-TGACA
1 TAAAAAATATTGACA
3970593 TAAAAAATATTGACA
1 TAAAAAATATTGACA
3970608 -AAAA
1 TAAAA
3970612 TATTTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (15 bp):
TAAAAAATATTGACA
Found at i:3978100 original size:15 final size:15
Alignment explanation
Indices: 3978080--3978132 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
3978070 ATATATTTAT
*
3978080 AAATAATTAATATAA
1 AAATAAATAATATAA
3978095 AAATAACGATAATAATAA
1 AAATAA--ATAAT-ATAA
* *
3978113 AATTAAATACTATAA
1 AAATAAATAATATAA
3978128 AAATA
1 AAATA
3978133 GACTAAATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 14 0.45
16 4 0.13
17 4 0.13
18 9 0.29
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (15 bp):
AAATAAATAATATAA
Found at i:3981155 original size:25 final size:27
Alignment explanation
Indices: 3981103--3981156 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
3981093 TATTACCCAT
* * *
3981103 TAATGTGTAAATATTTTAAAATATATA
1 TAATGTGTAAATATTTCAAAAAAAATA
3981130 TAATGTG-AAAT-TTTCAAAAAAAATA
1 TAATGTGTAAATATTTCAAAAAAAATA
3981155 TA
1 TA
3981157 TATATAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.54
26 4 0.17
27 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (27 bp):
TAATGTGTAAATATTTCAAAAAAAATA
Found at i:3986294 original size:18 final size:18
Alignment explanation
Indices: 3986273--3986327 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
3986263 ATTTATAAAA
3986273 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAATTTT
3986291 TATAAATATTTTG-AA-TTT
1 TAT-AA-ATTTTGAAATTTT
*
3986309 TA-AAAGTTTTTAAATTTT
1 TATAAA-TTTTGAAATTTT
3986327 T
1 T
3986328 TTTTGTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 1 0.03
16 6 0.19
17 2 0.06
18 12 0.39
19 4 0.13
20 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TATAAATTTTGAAATTTT
Found at i:3986329 original size:27 final size:27
Alignment explanation
Indices: 3986277--3986328 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
3986267 ATAAAATATA
*
3986277 AATTTTGAAATTTTTATAAATATTTTG
1 AATTTTAAAATTTTTATAAATATTTTG
* *
3986304 AATTTTAAAAGTTTT-TAAATTTTTT
1 AATTTTAAAATTTTTATAAATATTTT
3986329 TTTGTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (27 bp):
AATTTTAAAATTTTTATAAATATTTTG
Found at i:3993350 original size:21 final size:23
Alignment explanation
Indices: 3993308--3993350 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3993298 GTTATCAAAA
*
3993308 CCGTTATTTGAAAATAATAGACC
1 CCGTTATTTAAAAATAATAGACC
3993331 CCGTT-TTTAAAAATAA-AGAC
1 CCGTTATTTAAAAATAATAGAC
3993351 AAGTACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (23 bp):
CCGTTATTTAAAAATAATAGACC
Found at i:4002405 original size:22 final size:23
Alignment explanation
Indices: 4002378--4002433 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
4002368 TTTTTTCACC
*
4002378 ATAAATTTATAGTT-CATAAAAT
1 ATAAATTTATAATTACATAAAAT
4002400 ATAAA-TTA-AATTACCATAAAAT
1 ATAAATTTATAATTA-CATAAAAT
*
4002422 AAAAATTTATAA
1 ATAAATTTATAA
4002434 GGGTTACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 3 0.11
22 17 0.61
23 3 0.11
24 2 0.07
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAAATTTATAATTACATAAAAT
Found at i:4006830 original size:29 final size:30
Alignment explanation
Indices: 4006797--4006872 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
4006787 TGAATTTGGA
4006797 ATTTTTTTTAATTTGACACCTAAATAT-AT
1 ATTTTTTTTAATTTGACACCTAAATATGAT
* ** * *
4006826 ATTTTTTATAATTTGGTATCTAAATTTGAT
1 ATTTTTTTTAATTTGACACCTAAATATGAT
*
4006856 ACTTTTTCTTAATTTGA
1 A-TTTTTTTTAATTTGA
4006873 TACGTAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 22 0.59
30 3 0.08
31 12 0.32
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (30 bp):
ATTTTTTTTAATTTGACACCTAAATATGAT
Found at i:4012008 original size:23 final size:23
Alignment explanation
Indices: 4011978--4012033 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
4011968 ATCAAGGCTC
4011978 CACACGCCCGTGTAGGTATAGAG
1 CACACGCCCGTGTAGGTATAGAG
4012001 CACACGCCCGTGTAGGTATAGAG
1 CACACGCCCGTGTAGGTATAGAG
4012024 CACACGCCCG
1 CACACGCCCG
4012034 GGTGCTAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.29, T:0.14
Consensus pattern (23 bp):
CACACGCCCGTGTAGGTATAGAG
Found at i:4012581 original size:50 final size:50
Alignment explanation
Indices: 4012522--4012626 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
4012512 TTACATGACT
*
4012522 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATACTATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
4012572 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
4012622 -ATACT
1 AATACT
4012627 CACATTAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 5 0.09
50 49 0.91
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
Found at i:4014449 original size:20 final size:18
Alignment explanation
Indices: 4014415--4014451 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4014405 GCAACTCATA
4014415 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
4014433 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
4014452 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:4016693 original size:27 final size:27
Alignment explanation
Indices: 4016655--4016708 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4016645 TCCAAAAAAG
4016655 TTAGAATATCAAAATAAATCTAATTGT
1 TTAGAATATCAAAATAAATCTAATTGT
4016682 TTAGAATATCAAAATAAATCTAATTGT
1 TTAGAATATCAAAATAAATCTAATTGT
4016709 AAATTTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (27 bp):
TTAGAATATCAAAATAAATCTAATTGT
Found at i:4023051 original size:62 final size:61
Alignment explanation
Indices: 4022933--4023060 Score: 161
Period size: 62 Copynumber: 2.1 Consensus size: 61
4022923 TAATTGCTAT
* * *
4022933 AAAAAAACGTAGATACTAAATTGAACATTAGAACCAAACTCAAGTACTCAAATGAGATAATA
1 AAAAAAACGTAGATACTAAAATGAACATTAGAAACAAACTCAAATACTCAAATGAGATAA-A
* * *
4022995 AAAAAAACTTAGTTACTAAAATGAACATTA-AAGACAAATTCAAATA-TCAAATTGAGATAAA
1 AAAAAAACGTAGATACTAAAATGAACATTAGAA-ACAAACTCAAATACTCAAA-TGAGATAAA
4023056 AAAAA
1 AAAAA
4023061 TCAAATATCA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 13 0.22
62 45 0.78
ACGTcount: A:0.57, C:0.12, G:0.09, T:0.22
Consensus pattern (61 bp):
AAAAAAACGTAGATACTAAAATGAACATTAGAAACAAACTCAAATACTCAAATGAGATAAA
Found at i:4024781 original size:12 final size:12
Alignment explanation
Indices: 4024764--4024790 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4024754 CCTTCTTCTC
4024764 CCCTTTCCCCTT
1 CCCTTTCCCCTT
4024776 CCCTTTCCCCTT
1 CCCTTTCCCCTT
4024788 CCC
1 CCC
4024791 CTTGGATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:4024912 original size:25 final size:27
Alignment explanation
Indices: 4024852--4024912 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
4024842 CCAGGTAAGG
*
4024852 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
4024880 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
4024903 CTTCTCTTCT
1 CTTCTCTTCT
4024913 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:4025071 original size:12 final size:12
Alignment explanation
Indices: 4025050--4025081 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4025040 CGTTCTCACT
*
4025050 AAAATTGGTAAA
1 AAAATCGGTAAA
4025062 AAAATCGGTAAA
1 AAAATCGGTAAA
4025074 AAAATCGG
1 AAAATCGG
4025082 CAGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:4025427 original size:12 final size:13
Alignment explanation
Indices: 4025404--4025429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4025394 TCAATGAACC
4025404 CTTAATTTTTTTG
1 CTTAATTTTTTTG
4025417 CTTAATTTTTTTG
1 CTTAATTTTTTTG
4025430 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:4028838 original size:21 final size:21
Alignment explanation
Indices: 4028812--4028864 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4028802 CGCTATTTCT
*
4028812 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
4028833 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
4028854 AATCTCACCGC
1 AATCTCACCGC
4028865 CACTGCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:4030807 original size:29 final size:31
Alignment explanation
Indices: 4030727--4030808 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
4030717 TAAATCAAAC
* * *
4030727 TTAAAGTGTCAAGTATACATTTGAGCCACAA
1 TTAAAGTTTCATGTATACAATTGAGCCACAA
* *
4030758 TTAGAGTTTCATGTGTACAATTGCA-CCA-AA
1 TTAAAGTTTCATGTATACAATTG-AGCCACAA
4030788 TTAAAGTTT-ATGTATACAATT
1 TTAAAGTTTCATGTATACAATT
4030809 TCACATTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 11 0.26
30 10 0.23
31 21 0.49
32 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (31 bp):
TTAAAGTTTCATGTATACAATTGAGCCACAA
Found at i:4035643 original size:22 final size:21
Alignment explanation
Indices: 4035616--4035660 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
4035606 TTAAACTTAA
4035616 AAAATTATAAATAAA-ATAAAAT
1 AAAATT-TAAA-AAACATAAAAT
4035638 AAAATTTAAAAAATCATAAAAT
1 AAAATTTAAAAAA-CATAAAAT
4035660 A
1 A
4035661 TAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 4 0.19
22 14 0.67
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATTTAAAAAACATAAAAT
Found at i:4035666 original size:10 final size:10
Alignment explanation
Indices: 4035625--4035699 Score: 52
Period size: 10 Copynumber: 7.9 Consensus size: 10
4035615 AAAAATTATA
*
4035625 AATAAAATAA
1 AATAAAATAT
4035635 AATAAAAT-T
1 AATAAAATAT
*
4035644 --TAAAAAAT
1 AATAAAATAT
*
4035652 CATAAAATAT
1 AATAAAATAT
*
4035662 AATAAATTAT
1 AATAAAATAT
*
4035672 AA-AATATAT
1 AATAAAATAT
*
4035681 ATATATAAT-T
1 A-ATAAAATAT
4035691 AATAAAATA
1 AATAAAATA
4035700 ATCAGTTGCA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
7 5 0.10
8 1 0.02
9 12 0.24
10 28 0.57
11 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (10 bp):
AATAAAATAT
Found at i:4035683 original size:21 final size:22
Alignment explanation
Indices: 4035658--4035699 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4035648 AAATCATAAA
4035658 ATATA-ATA-AATT-ATAAAAT
1 ATATATATATAATTAATAAAAT
4035677 ATATATATATAATTAATAAAAT
1 ATATATATATAATTAATAAAAT
4035699 A
1 A
4035700 ATCAGTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 4 0.20
22 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATATATATAATTAATAAAAT
Found at i:4035695 original size:22 final size:19
Alignment explanation
Indices: 4035617--4035699 Score: 58
Period size: 17 Copynumber: 4.7 Consensus size: 19
4035607 TAAACTTAAA
4035617 AAATTAT-AAATA-A-AAT
1 AAATTATAAAATATATAAT
*
4035633 AAA--ATAAAAT-T-TAAA
1 AAATTATAAAATATATAAT
*
4035648 AAATCAT-AAA-ATATAAT
1 AAATTATAAAATATATAAT
4035665 AAATTATAAAATATATATAT
1 AAATTATAAAATATATA-AT
4035685 ATAATTAATAAAATA
1 A-AATT-ATAAAATA
4035700 ATCAGTTGCA
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.04
15 9 0.17
16 7 0.13
17 11 0.21
18 3 0.06
19 5 0.10
20 3 0.06
21 4 0.08
22 8 0.15
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTATAAAATATATAAT
Found at i:4040079 original size:34 final size:37
Alignment explanation
Indices: 4040036--4040128 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 37
4040026 TCTTCGATCG
4040036 AAATACTATTAACATAAATATT-ATTAAA-TTAATA-
1 AAATACTATTAACATAAATATTAATTAAATTTAATAT
*
4040070 AAATACTATTAACGTAAATATTAAATTAAATTTAATATT
1 AAATACTATTAACATAAATATT-AATTAAATTTAATA-T
*
4040109 AAAT-CTATTAAAAT-AATATT
1 AAATACTATTAACATAAATATT
4040129 TTTTTGGAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
34 21 0.41
36 6 0.12
37 12 0.24
38 8 0.16
39 4 0.08
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (37 bp):
AAATACTATTAACATAAATATTAATTAAATTTAATAT
Found at i:4040516 original size:20 final size:20
Alignment explanation
Indices: 4040491--4040528 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4040481 TCATATTAAT
* *
4040491 TTTAATTAACTTAATTTTAC
1 TTTAATAAAATTAATTTTAC
4040511 TTTAATAAAATTAATTTT
1 TTTAATAAAATTAATTTT
4040529 CCCAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATAAAATTAATTTTAC
Found at i:4043285 original size:47 final size:47
Alignment explanation
Indices: 4043170--4043358 Score: 184
Period size: 47 Copynumber: 3.9 Consensus size: 47
4043160 TGCACATAGT
* * *
4043170 CACATATCACATACCGAGGCCATAGCCCAG-TCATGGTCTTACAC-GAAT
1 CACATATCAC--ACCGATGCCATAGCCCAGAT-ATGGTCTTATACAGAAG
* * * *
4043218 CACGTATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGAAG
* * *
4043265 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGAAG
* *
4043312 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATAC
1 CACATATCACA-----CCGATGCCATAGCCCAGATATGGTCTTATAC
4043359 GGAAATCATA
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
46 26 0.22
47 56 0.47
48 9 0.08
52 27 0.23
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (47 bp):
CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACAGAAG
Found at i:4050898 original size:18 final size:18
Alignment explanation
Indices: 4050875--4050910 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4050865 TTGAAAGTTC
4050875 TCTATCAAGAAAAGAAAA
1 TCTATCAAGAAAAGAAAA
4050893 TCTATCAAGAAAAGAAAA
1 TCTATCAAGAAAAGAAAA
4050911 AAGAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (18 bp):
TCTATCAAGAAAAGAAAA
Found at i:4051176 original size:27 final size:26
Alignment explanation
Indices: 4051142--4051224 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
4051132 TTTGATTTAA
4051142 TGTTTAATTTAGTATTTAATTTTTTT
1 TGTTTAATTTAGTATTTAATTTTTTT
**
4051168 TGTTCTAATTTAGTATTTAAAATTGTTTCAA
1 TGTT-TAATTTAGTATTT--AATT-TTT-TT
*
4051199 TATTTAATTTAGTATTTAATTTTTTT
1 TGTTTAATTTAGTATTTAATTTTTTT
4051225 AATTTGATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 4 0.09
27 16 0.34
28 4 0.09
29 4 0.09
30 16 0.34
31 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (26 bp):
TGTTTAATTTAGTATTTAATTTTTTT
Found at i:4051216 original size:12 final size:11
Alignment explanation
Indices: 4051199--4051248 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
4051189 ATTGTTTCAA
4051199 TATTTAATTTAG
1 TATTTAATTT-G
4051211 TATTTAATTT-
1 TATTTAATTTG
4051221 T-TTTAATTTG
1 TATTTAATTTG
4051231 ATATTTATATTTG
1 -TATTTA-ATTTG
4051244 TATTT
1 TATTT
4051249 TTCTTAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 8 0.24
10 1 0.03
11 1 0.03
12 19 0.56
13 5 0.15
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (11 bp):
TATTTAATTTG
Found at i:4051226 original size:21 final size:22
Alignment explanation
Indices: 4051201--4051242 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4051191 TGTTTCAATA
4051201 TTTAATTT-AGTATTTA-ATTTT
1 TTTAATTTGA-TATTTATATTTT
4051222 TTTAATTTGATATTTATATTT
1 TTTAATTTGATATTTATATTT
4051243 GTATTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTAATTTGATATTTATATTTT
Found at i:4055524 original size:31 final size:30
Alignment explanation
Indices: 4055430--4055546 Score: 107
Period size: 31 Copynumber: 4.0 Consensus size: 30
4055420 TAGAACAAAG
* * *
4055430 AAAACTTAGCTATCAAATTTAATATTGAAAC
1 AAAACTTAGGTATCAAATTGAATATT-AAAT
*
4055461 CAAACTTAGGTATCAAATT-AA-A--AAAT
1 AAAACTTAGGTATCAAATTGAATATTAAAT
*
4055487 AAAACTTAGGTACCAAATTGAATATTAAATT
1 AAAACTTAGGTATCAAATTGAATATTAAA-T
* * * *
4055518 TAAACTTAGGCATCAAATAGTATATTAAA
1 AAAACTTAGGTATCAAATTGAATATTAAA
4055547 CCAGAAAAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
26 20 0.28
27 2 0.03
28 1 0.01
29 1 0.01
30 5 0.07
31 42 0.59
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.31
Consensus pattern (30 bp):
AAAACTTAGGTATCAAATTGAATATTAAAT
Found at i:4060686 original size:20 final size:20
Alignment explanation
Indices: 4060608--4060687 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
4060598 CAATTATTAG
4060608 TAAAACTTAGAAGTTCTGAT
1 TAAAACTTAGAAGTTCTGAT
* * * *
4060628 TAAAATTTTAAAAATTTTGA-
1 TAAAA-CTTAGAAGTTCTGAT
* *
4060648 GAAAA-TTA-AA---CTAAT
1 TAAAACTTAGAAGTTCTGAT
4060663 TAAAACTTAGAAGTTCTGAT
1 TAAAACTTAGAAGTTCTGAT
4060683 TAAAA
1 TAAAA
4060688 TTTTTGAAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
14 2 0.05
15 4 0.09
16 3 0.07
17 4 0.09
18 3 0.07
20 18 0.41
21 10 0.23
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (20 bp):
TAAAACTTAGAAGTTCTGAT
Found at i:4065591 original size:18 final size:18
Alignment explanation
Indices: 4065568--4065605 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4065558 AAACACAACT
4065568 TGTAAGGATTGCCATTGA
1 TGTAAGGATTGCCATTGA
4065586 TGTAAGGATTGCCATTGA
1 TGTAAGGATTGCCATTGA
4065604 TG
1 TG
4065606 AGAAAGGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (18 bp):
TGTAAGGATTGCCATTGA
Found at i:4069842 original size:12 final size:12
Alignment explanation
Indices: 4069825--4069851 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4069815 CCAATGTAAT
4069825 AATTCATTTTTC
1 AATTCATTTTTC
4069837 AATTCATTTTTC
1 AATTCATTTTTC
4069849 AAT
1 AAT
4069852 GCCGCACGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTCATTTTTC
Found at i:4070192 original size:11 final size:11
Alignment explanation
Indices: 4070176--4070203 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4070166 AATTAACATT
4070176 TAAACTGACAA
1 TAAACTGACAA
4070187 TAAACTGACAA
1 TAAACTGACAA
4070198 TAAACT
1 TAAACT
4070204 ATATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (11 bp):
TAAACTGACAA
Found at i:4070258 original size:15 final size:15
Alignment explanation
Indices: 4070238--4070267 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4070228 TTTTAAGTTT
4070238 TATATAAAAAAATAA
1 TATATAAAAAAATAA
*
4070253 TATATAAAAATATAA
1 TATATAAAAAAATAA
4070268 ATTAATCTAT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TATATAAAAAAATAA
Found at i:4074761 original size:21 final size:21
Alignment explanation
Indices: 4074737--4074778 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4074727 ATCGTGAAAG
*
4074737 AAGGATTGGAGACGGCGGAGA
1 AAGGACTGGAGACGGCGGAGA
*
4074758 AAGGGCTGGAGACGGCGGAGA
1 AAGGACTGGAGACGGCGGAGA
4074779 GAGGGATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.50, T:0.07
Consensus pattern (21 bp):
AAGGACTGGAGACGGCGGAGA
Found at i:4074783 original size:21 final size:21
Alignment explanation
Indices: 4074743--4074783 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4074733 AAAGAAGGAT
4074743 TGGAGACGGCGGAGAAAGGGC
1 TGGAGACGGCGGAGAAAGGGC
*
4074764 TGGAGACGGCGGAGAGAGGG
1 TGGAGACGGCGGAGAAAGGG
4074784 ATCTTTACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.56, T:0.05
Consensus pattern (21 bp):
TGGAGACGGCGGAGAAAGGGC
Found at i:4078374 original size:117 final size:117
Alignment explanation
Indices: 4078231--4078461 Score: 462
Period size: 117 Copynumber: 2.0 Consensus size: 117
4078221 TAGCCATCAG
4078231 ATAAACTGATAAATATAAAAAGAGAAAAAAGAAAAAATACAACCCAACAAAAAAAGCATGGCTCA
1 ATAAACTGATAAATATAAAAAGAGAAAAAAGAAAAAATACAACCCAACAAAAAAAGCATGGCTCA
4078296 CAGGTAAAATCTGGTTATATTTTTCAAGAATATTAAGCAAAGGTTTAGAGTT
66 CAGGTAAAATCTGGTTATATTTTTCAAGAATATTAAGCAAAGGTTTAGAGTT
4078348 ATAAACTGATAAATATAAAAAGAGAAAAAAGAAAAAATACAACCCAACAAAAAAAGCATGGCTCA
1 ATAAACTGATAAATATAAAAAGAGAAAAAAGAAAAAATACAACCCAACAAAAAAAGCATGGCTCA
4078413 CAGGTAAAATCTGGTTATATTTTTCAAGAATATTAAGCAAAGGTTTAGA
66 CAGGTAAAATCTGGTTATATTTTTCAAGAATATTAAGCAAAGGTTTAGA
4078462 CTTAAGATCA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 114 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (117 bp):
ATAAACTGATAAATATAAAAAGAGAAAAAAGAAAAAATACAACCCAACAAAAAAAGCATGGCTCA
CAGGTAAAATCTGGTTATATTTTTCAAGAATATTAAGCAAAGGTTTAGAGTT
Found at i:4080725 original size:27 final size:27
Alignment explanation
Indices: 4080652--4080726 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
4080642 AAATTGGAAA
*
4080652 AATTAAATTCAATCACTTAAATTTAAAGTC
1 AATTAAATTC-A--ACTTAATTTTAAAGTC
*
4080682 AATTAAATTCAATTTAATTTTAAAAGTC
1 AATTAAATTCAACTTAATTTT-AAAGTC
4080710 AA-T-AATTCAGACTTAAT
1 AATTAAATTCA-ACTTAAT
4080727 GAACCTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 6 0.15
27 15 0.38
28 8 0.20
29 1 0.03
30 10 0.25
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.39
Consensus pattern (27 bp):
AATTAAATTCAACTTAATTTTAAAGTC
Found at i:4090602 original size:13 final size:13
Alignment explanation
Indices: 4090576--4090622 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4090566 CCAAATAATC
*
4090576 ATTTTTTTTCTCTT
1 ATTTTTCTT-TCTT
4090590 ATTTTTCTTTCTT
1 ATTTTTCTTTCTT
4090603 ATTTATT-TTTCTT
1 ATTT-TTCTTTCTT
*
4090616 ACTTTTC
1 ATTTTTC
4090623 ATTCCTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 17 0.59
14 10 0.34
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTCTTTCTT
Found at i:4091634 original size:22 final size:22
Alignment explanation
Indices: 4091609--4091652 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4091599 ATATTCAATA
4091609 ATATTGAAAAATAT-AATATTTT
1 ATATT-AAAAATATAAATATTTT
* *
4091631 ATATTAATAATTTAAATATTTT
1 ATATTAAAAATATAAATATTTT
4091653 TAAGATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAAAAATATAAATATTTT
Found at i:4092117 original size:50 final size:51
Alignment explanation
Indices: 4092025--4092126 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 51
4092015 TTCACACTCC
*
4092025 ACACTCCGCAGTTTCTTCTTTATTAAGTAATATTTATTTTTGCATTAGGGTCT
1 ACACTCCGCAGTTTCTTC--TATTAAGTAATATTTATATTTGCATTAGGGTCT
* *
4092078 ACACTCCGCAGTTTCTTC-ATTACGTAATATTTATATTTGCATTATGGTC
1 ACACTCCGCAGTTTCTTCTATTAAGTAATATTTATATTTGCATTAGGGTC
4092127 CACAACCGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 28 0.61
53 18 0.39
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.45
Consensus pattern (51 bp):
ACACTCCGCAGTTTCTTCTATTAAGTAATATTTATATTTGCATTAGGGTCT
Found at i:4095982 original size:16 final size:16
Alignment explanation
Indices: 4095961--4095991 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4095951 TATATTTTAA
4095961 TATATTATATTAATAT
1 TATATTATATTAATAT
*
4095977 TATATTATGTTAATA
1 TATATTATATTAATA
4095992 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:4096088 original size:12 final size:12
Alignment explanation
Indices: 4096071--4096101 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4096061 GAAGCAGGGG
4096071 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
4096083 AGAAAAAGGGAA
1 AGAAAAAGAGAA
4096095 AGAAAAA
1 AGAAAAA
4096102 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:4099080 original size:33 final size:32
Alignment explanation
Indices: 4099043--4099138 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 32
4099033 AGAATATGGA
4099043 GGTGGATATGGGCCGGGAGGAGTAGAGTACGA-C
1 GGTGGATA-GGGCCGGGAGGAGTAGAGTAC-ATC
* * * *
4099076 GGTGGATACGGCTCTGGAGGAGTTGAGTACATG
1 GGTGGATAGGGC-CGGGAGGAGTAGAGTACATC
*
4099109 GGTGGATACGGGCCGGAAGGAGTAGAGTAC
1 GGTGGATA-GGGCCGGGAGGAGTAGAGTAC
4099139 TGAGATAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
32 4 0.08
33 45 0.87
34 3 0.06
ACGTcount: A:0.24, C:0.12, G:0.46, T:0.18
Consensus pattern (32 bp):
GGTGGATAGGGCCGGGAGGAGTAGAGTACATC
Found at i:4103079 original size:46 final size:45
Alignment explanation
Indices: 4103025--4103286 Score: 301
Period size: 46 Copynumber: 5.7 Consensus size: 45
4103015 ATAGAAAATG
*
4103025 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA-A
* *
4103071 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA-A
* * *
4103117 CGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA-A
* ** *
4103163 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* * *
4103208 TGAATAAGACTATGGTTGAATGATACCATGGCAACATGACA-GAAAA
1 TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
* * * *
4103254 TGAGTAAGACCATAGTTGAGAGACACTATGGCA
1 T--GTAAGACCATGGTTGAAAGATACCATGGCA
4103287 TCATGTCGAA
Statistics
Matches: 191, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
45 2 0.01
46 155 0.81
47 33 0.17
48 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (45 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA
Found at i:4104770 original size:22 final size:23
Alignment explanation
Indices: 4104744--4104809 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
4104734 TCAACATTTT
*
4104744 AATAAATTA-ATAAAAATTATCA
1 AATAAATTATATAAAAATTATAA
*
4104766 AATAAA-TATATAATAA-TATAA
1 AATAAATTATATAAAAATTATAA
*
4104787 AATTACATTATATAAAAATTATA
1 AA-TAAATTATATAAAAATTATA
4104810 TTAAAAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 8 0.22
22 15 0.42
23 9 0.25
24 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (23 bp):
AATAAATTATATAAAAATTATAA
Found at i:4105421 original size:115 final size:114
Alignment explanation
Indices: 4104870--4105429 Score: 928
Period size: 114 Copynumber: 4.9 Consensus size: 114
4104860 ATACTAACAC
* * *
4104870 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTTAAAAAAATCACAATATACACTAATAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTAC-TAAAAAAATCAC-A-ATACACTAAT--
*
4104934 ACACTAAACCACTAAACACTAATAA--TATATAACCTAATCTTAAATTACTAAT
61 ACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
4104986 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACT
4105051 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
4105100 AAAATAGCTATAAAAATATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACT
4105165 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
4105214 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATATACT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACT
*
4105279 AAACCACTAAACACTAACAATTTATATAATCTAATCTTAAATTACTAAT
66 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
4105328 AAAATAGCTATAAAATTATTTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACAT
1 AAAATAGCTATAAAAATA-TTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACAC
* *
4105393 TAAACTACTAAACACTAACAATTTATATAACCAAATC
65 TAAACCACTAAACACTAACAATTTATATAACCTAATC
4105430 AACTATAATT
Statistics
Matches: 422, Mismatches: 18, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
112 24 0.06
114 276 0.65
115 77 0.18
116 35 0.08
117 10 0.02
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (114 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACT
AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:4106411 original size:16 final size:16
Alignment explanation
Indices: 4106390--4106420 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4106380 AAAGTAAAAC
4106390 AAAAGAAAAAGAGAAA
1 AAAAGAAAAAGAGAAA
*
4106406 AAAAGAAACAGAGAA
1 AAAAGAAAAAGAGAA
4106421 GGAGACGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:4118570 original size:3 final size:3
Alignment explanation
Indices: 4118562--4118591 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4118552 ACAAGCATTA
4118562 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4118592 TCTATACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.