Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 208 of 221
Found at i:61172249 original size:61 final size:62
Alignment explanation
Indices: 61172174--61172291 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 62
61172164 TATTAAGATG
* *
61172174 TTAGTTAGTATTA-TTGT-TAGTAAAA-AATTAGTATTATTTTTGTAGTTAGTTATTAATAATT
1 TTAGTTAGTATTATTTGTATA-TAAAATAATTAATATTATTATTGT-GTTAGTTATTAATAATT
*
61172235 TTAGTTAGTATTATTTTGTATATAAAATTATTAATATTATTATTGTGTTAGTTATTA
1 TTAGTTAGTATTA-TTTGTATATAAAATAATTAATATTATTATTGTGTTAGTTATTA
61172292 GGATTAGTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 13 0.26
63 20 0.40
64 17 0.34
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (62 bp):
TTAGTTAGTATTATTTGTATATAAAATAATTAATATTATTATTGTGTTAGTTATTAATAATT
Found at i:61173477 original size:17 final size:17
Alignment explanation
Indices: 61173457--61173490 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61173447 TTTTTTTCCT
61173457 TTTTTTATTCTTTTTTG
1 TTTTTTATTCTTTTTTG
*
61173474 TTTTTTATTTTTTTTTG
1 TTTTTTATTCTTTTTTG
61173491 AAATATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTATTCTTTTTTG
Found at i:61173524 original size:28 final size:28
Alignment explanation
Indices: 61173492--61173560 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
61173482 TTTTTTTTGA
*
61173492 AATATTTTGGTAAATAATAAAAA-TTAT
1 AATATTTTGGTAAATAAAAAAAAGTTAT
*
61173519 ATATATTTTGGTCAATAAAAAAAAGTTAT
1 A-ATATTTTGGTAAATAAAAAAAAGTTAT
61173548 AATATTTTGGTAA
1 AATATTTTGGTAA
61173561 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 31 0.84
29 5 0.14
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (28 bp):
AATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:61174385 original size:38 final size:38
Alignment explanation
Indices: 61174325--61174522 Score: 100
Period size: 40 Copynumber: 5.0 Consensus size: 38
61174315 ATTACCTTAT
61174325 TTTC-TTTTTTTTTCCTTCCTTCTTTCCCTCTTCTTCTTC
1 TTTCTTTTTTTTTTCC-T-CTTCTTTCCCTCTTCTTCTTC
* * *
61174364 TTTCTTTTTTTTTTCCTCTTCTCCTTTCCTTTTCTT-TCC
1 TTTCTTTTTTTTTTCCTCTTCT--TTCCCTCTTCTTCTTC
** *
61174403 TTAT-TTTTCTTTCTTTCCTCCCCTTT-CCTTTTCTTTCCTTC
1 TT-TCTTTT-TTT-TTTCCTCTTCTTTCCCTCTTC-TT-CTTC
* * * * *
61174444 TTT-TTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTCTTTTTTTTTTCCTCTTCTTTCC--CT-CTTCTTCTTC
* * * * *
61174484 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTTC
1 TTTCTT-TTTTTTTTCCTCTTCTTTCCCTCTTCTTCTTC
61174523 CCCCCACCAA
Statistics
Matches: 126, Mismatches: 18, Indels: 30
0.72 0.10 0.17
Matches are distributed among these distances:
38 24 0.19
39 28 0.22
40 36 0.29
41 18 0.14
42 20 0.16
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (38 bp):
TTTCTTTTTTTTTTCCTCTTCTTTCCCTCTTCTTCTTC
Found at i:61174402 original size:10 final size:10
Alignment explanation
Indices: 61174387--61174487 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
61174377 TCCTCTTCTC
61174387 CTTTCCTTTT
1 CTTTCCTTTT
61174397 CTTTCCTTATT
1 CTTTCCTT-TT
61174408 -TTT-C-TTT
1 CTTTCCTTTT
***
61174415 CTTTCCTCCC
1 CTTTCCTTTT
61174425 CTTTCCTTTT
1 CTTTCCTTTT
61174435 CTTTCCTTCTT
1 CTTTCCTT-TT
61174446 -TTT-C-TTT
1 CTTTCCTTTT
* *
61174453 CTTTCCTCTC
1 CTTTCCTTTT
61174463 CTTTCCTTTT
1 CTTTCCTTTT
* *
61174473 CCTTCTTTTT
1 CTTTCCTTTT
61174483 CTTTC
1 CTTTC
61174488 TTCCTTTCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
7 4 0.06
8 8 0.11
9 4 0.06
10 50 0.71
11 4 0.06
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:61174417 original size:18 final size:18
Alignment explanation
Indices: 61174394--61174504 Score: 95
Period size: 18 Copynumber: 6.1 Consensus size: 18
61174384 CTCCTTTCCT
*
61174394 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
61174412 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
61174431 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
*
61174450 TTTCTTTCC-TCTCCTTTC
1 TTTCTTTCCTTCT-TTTTC
*
61174468 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTTTTC
61174484 TTTC-TTCCTTTCTTTCTTC
1 TTTCTTTCC-TTCTTT-TTC
61174503 TT
1 TT
61174505 CTTCCCCTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.12
17 12 0.16
18 29 0.39
19 14 0.19
20 10 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:61174448 original size:14 final size:14
Alignment explanation
Indices: 61174431--61174504 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
61174421 TCCCCTTTCC
61174431 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
61174445 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
61174460 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
61174479 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
61174491 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
61174504 T
1 T
61174505 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:61174456 original size:28 final size:28
Alignment explanation
Indices: 61174425--61174504 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
61174415 CTTTCCTCCC
61174425 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
61174453 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
61174487 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
61174505 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:61174488 original size:10 final size:10
Alignment explanation
Indices: 61174436--61174507 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
61174426 TTTCCTTTTC
*
61174436 TTTCCTTCTT
1 TTTCTTTCTT
61174446 TTTCTTTCTT
1 TTTCTTTCTT
*
61174456 TCCTCTCCTTTCCT
1 T--T-T-CTTTCTT
*
61174470 TTTCCTTCTT
1 TTTCTTTCTT
61174480 TTTCTTTCTT
1 TTTCTTTCTT
61174490 CCTTTCTTTCTT
1 --TTTCTTTCTT
*
61174502 CTTCTT
1 TTTCTT
61174508 CCCCTCTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 29 0.58
11 1 0.02
12 12 0.24
13 1 0.02
14 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:61174500 original size:22 final size:23
Alignment explanation
Indices: 61174465--61174507 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
61174455 TTCCTCTCCT
*
61174465 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
61174488 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
61174508 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:61174505 original size:28 final size:30
Alignment explanation
Indices: 61174326--61174508 Score: 93
Period size: 28 Copynumber: 6.2 Consensus size: 30
61174316 TTACCTTATT
* *
61174326 TTCTT-TTTTTTTCCTTCC-TTCTTTCCCTC
1 TTCTTCTTTCTTTCCTTCCTTTCTTT-CTTC
61174355 TTCTTC-TTCTTT-CTT--TTT-TTT-TTC
1 TTCTTCTTTCTTTCCTTCCTTTCTTTCTTC
* * * * * *
61174379 CTCTTC-TCCTTTCCTTTTCTTTCCTTATTT
1 TTCTTCTTTCTTTCC-TTCCTTTCTTTCTTC
**
61174409 TTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCCTTC
1 TTC-TTCTTT-CTTTCC-TTCC-TTTCTTT-CTTC
* *
61174444 TTTTTCTTTCTTTCCTCTCCTTTCCTTT-TCC
1 TTCTTCTTTCTTTCCT-TCCTTT-CTTTCTTC
61174475 TTCTT-TTTCTTT-CTTCCTTTCTTTCTTC
1 TTCTTCTTTCTTTCCTTCCTTTCTTTCTTC
61174503 TTCTTC
1 TTCTTC
61174509 CCCTCTCCTT
Statistics
Matches: 117, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
24 12 0.10
25 1 0.01
26 5 0.04
27 6 0.05
28 19 0.16
29 14 0.12
30 11 0.09
31 9 0.08
32 5 0.04
33 19 0.16
34 12 0.10
35 4 0.03
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCTTCTTTCTTTCCTTCCTTTCTTTCTTC
Found at i:61174518 original size:42 final size:40
Alignment explanation
Indices: 61174324--61174521 Score: 105
Period size: 42 Copynumber: 5.0 Consensus size: 40
61174314 AATTACCTTA
* * * *
61174324 TTTTCTTTTTTTTTCCTTCCT-T-CTTTCCCTCTTCTTCT
1 TTTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
* *
61174362 TCTTTC-TTTT-TTT-TTT-C-CT-CTTCTCCTTTCCTT-T
1 T-TTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
* * *
61174396 TCTTTCCTTATT-TTTCTTT-CTTTCC-TCCCCTTTCCTTTTCT
1 T-TTT-CTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCC--TTCT
* * *
61174437 TTCCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCT
1 TT--TTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
* *
61174479 TTTTCTTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCT
1 TTTTCTTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
61174521 T
1 T
61174522 CCCCCCACCA
Statistics
Matches: 126, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
34 6 0.05
35 13 0.10
36 8 0.06
37 7 0.06
38 15 0.12
39 5 0.04
40 9 0.07
41 9 0.07
42 41 0.33
43 5 0.04
44 8 0.06
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.66
Consensus pattern (40 bp):
TTTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
Found at i:61174594 original size:27 final size:27
Alignment explanation
Indices: 61174556--61174623 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
61174546 ATATTTAAGG
*
61174556 TGGTGTCGCCAACAAGGAATCCTTGTT
1 TGGTGCCGCCAACAAGGAATCCTTGTT
**
61174583 TGGTGCCGCCAACAAGGTTTCCTTGTT
1 TGGTGCCGCCAACAAGGAATCCTTGTT
61174610 TGGTGCCGCCAACA
1 TGGTGCCGCCAACA
61174624 GTGTTCCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAATCCTTGTT
Found at i:61174633 original size:27 final size:27
Alignment explanation
Indices: 61174556--61174634 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
61174546 ATATTTAAGG
* *
61174556 TGGTGTCGCCAACAAGGAAT-CCTTGTT
1 TGGTGCCGCCAACAAGG-TTCCCTTGTT
*
61174583 TGGTGCCGCCAACAAGGTTTCCTTGTT
1 TGGTGCCGCCAACAAGGTTCCCTTGTT
61174610 TGGTGCCGCCAAC-AGTGTTCCCTTG
1 TGGTGCCGCCAACAAG-GTTCCCTTG
61174635 ACCAAGGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGTTCCCTTGTT
Found at i:61174720 original size:28 final size:28
Alignment explanation
Indices: 61174688--61174755 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
61174678 TTGGTTTTTT
61174688 TATATATTTTGGTAAATAAAAAAAAT-TA
1 TATATATTTTGGTAAAT-AAAAAAATGTA
61174716 TATATATTTTGGTAAATAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAATGTA
*
61174744 TA-ACATTTTGGT
1 TATATATTTTGGT
61174756 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.41
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAATGTA
Found at i:61175628 original size:22 final size:22
Alignment explanation
Indices: 61175603--61175665 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
61175593 TAATCGAAAT
61175603 TAAATTATAATTTTTATGATAA
1 TAAATTATAATTTTTATGATAA
* **
61175625 TAAAAATATAATTTTATCATTTTAA
1 T-AAATTATAATTTT-T-ATGATAA
*
61175650 TAATTTAT-ATTTTTAT
1 TAAATTATAATTTTTAT
61175666 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 2 0.06
22 2 0.06
23 17 0.52
24 6 0.18
25 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TAAATTATAATTTTTATGATAA
Found at i:61175667 original size:15 final size:16
Alignment explanation
Indices: 61175631--61175670 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
61175621 ATAATAAAAA
61175631 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
61175648 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
61175663 TATAATTT
1 TATAATTT
61175671 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:61178560 original size:13 final size:14
Alignment explanation
Indices: 61178534--61178562 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61178524 CTATCAATAT
61178534 TTTAAAGACTTGTA
1 TTTAAAGACTTGTA
61178548 TTTAAAG-CTTGTA
1 TTTAAAGACTTGTA
61178561 TT
1 TT
61178563 CCATGATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
TTTAAAGACTTGTA
Found at i:61183677 original size:17 final size:17
Alignment explanation
Indices: 61183655--61183692 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
61183645 AATCGGGTAT
61183655 TTAACCGAACTTAATAA
1 TTAACCGAACTTAATAA
61183672 TTAACCGAACTTAATAA
1 TTAACCGAACTTAATAA
61183689 TTAA
1 TTAA
61183693 TAATACAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (17 bp):
TTAACCGAACTTAATAA
Found at i:61184588 original size:94 final size:94
Alignment explanation
Indices: 61184350--61184631 Score: 334
Period size: 94 Copynumber: 3.0 Consensus size: 94
61184340 AATCATGTCA
*** * * *
61184350 AATAAAAATATAAAAAGATTAAATCTTAGTTTTGAGTTTAGTAGAGGGACCAAAACTGTAATCTT
1 AATAAAAATAT--AAAGATTAAATCTTAAAATTGAGTTTAATAGAGGGACCAAAACTGAAATTTT
61184415 ACCATTATAATTGAAATGGCAAACAAAAGCTG
64 ACCATTATAATTGAAATGGCAAA-AAAAGCTG
* * *
61184447 AAGTAAAAATTTAAAGATTAAATCTT-AAATTAGAGTTTAACAAAGGGACCAAAACTGAAATTTT
1 AA-TAAAAATATAAAGATTAAATCTTAAAATT-GAGTTTAATAGAGGGACCAAAACTGAAATTTT
* *
61184511 TCCATTATAATTGAAATGGCAAAAAGAG-TGG
64 ACCATTATAATTGAAATGGCAAAAAAAGCT-G
* * * *
61184542 CATAAAAATATAAAGATTAAATCTTAAAATTGAGTTTAATAGAGGGATCAAAAATGAAAATTTAC
1 AATAAAAATATAAAGATTAAATCTTAAAATTGAGTTTAATAGAGGGACCAAAACTGAAATTTTAC
* * *
61184607 CAGTATAATTAAAAGGGCAAAAAAA
66 CATTATAATTGAAATGGCAAAAAAA
61184632 AAAAGTGTGG
Statistics
Matches: 158, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
94 72 0.46
95 13 0.08
96 63 0.40
97 2 0.01
98 8 0.05
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.28
Consensus pattern (94 bp):
AATAAAAATATAAAGATTAAATCTTAAAATTGAGTTTAATAGAGGGACCAAAACTGAAATTTTAC
CATTATAATTGAAATGGCAAAAAAAGCTG
Found at i:61185860 original size:23 final size:24
Alignment explanation
Indices: 61185805--61185860 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 24
61185795 CTCCTTTATC
61185805 TTAATTACTTTATAAATGGGGTTTTAA
1 TTAATTACTTTATAAAT---GTTTTAA
* *
61185832 TCAATTACTTTATAAAT-TTTTTA
1 TTAATTACTTTATAAATGTTTTAA
61185855 TTAATT
1 TTAATT
61185861 GGCCATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 10 0.38
27 16 0.62
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAATTACTTTATAAATGTTTTAA
Found at i:61188144 original size:10 final size:10
Alignment explanation
Indices: 61188129--61188167 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
61188119 GAAGGAGGAG
61188129 AAGAAAAAAA
1 AAGAAAAAAA
*
61188139 AAGAAAAAGA
1 AAGAAAAAAA
* *
61188149 AAGGAAAATA
1 AAGAAAAAAA
61188159 AAGAAAAAA
1 AAGAAAAAA
61188168 GACAAAAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:61188458 original size:30 final size:27
Alignment explanation
Indices: 61188424--61188480 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 27
61188414 AAAATTATGC
61188424 AATTTTGATTCAATGTATAATTTATACATA
1 AATTTTGATT-AA-GTATAA-TTATACATA
*
61188454 AATTTTGATTTAGTATAATTATACATA
1 AATTTTGATTAAGTATAATTATACATA
61188481 CAAAACTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 9 0.35
28 6 0.23
29 1 0.04
30 10 0.38
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (27 bp):
AATTTTGATTAAGTATAATTATACATA
Found at i:61188731 original size:29 final size:30
Alignment explanation
Indices: 61188674--61188731 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
61188664 AATTGAATCC
*
61188674 AATCAAAATTACATTTATAAAATTACATAA
1 AATCAAAATTACATATATAAAATTACATAA
* *
61188704 AATCAAAATT-TATATATAAAATTGCATA
1 AATCAAAATTACATATATAAAATTACATA
61188732 TTAGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (30 bp):
AATCAAAATTACATATATAAAATTACATAA
Found at i:61190467 original size:18 final size:17
Alignment explanation
Indices: 61190440--61190473 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
61190430 ATATATACCT
61190440 AAAAATCTGATTAATAC
1 AAAAATCTGATTAATAC
61190457 AAAAGATCTGATTAATA
1 AAAA-ATCTGATTAATA
61190474 TCTCCGACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (17 bp):
AAAAATCTGATTAATAC
Found at i:61194589 original size:11 final size:11
Alignment explanation
Indices: 61194573--61194601 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
61194563 GTATATACGT
61194573 ATGTGTATGTG
1 ATGTGTATGTG
61194584 ATGTGTATGTG
1 ATGTGTATGTG
61194595 A-GTGTAT
1 ATGTGTAT
61194602 ATGTATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (11 bp):
ATGTGTATGTG
Found at i:61194709 original size:18 final size:18
Alignment explanation
Indices: 61194661--61194715 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
61194651 GCTATCTTGA
61194661 GTATATGTATATGTATAT-
1 GTATATG-ATATGTATATG
61194679 GTATATGTATATGTATATG
1 GTATATG-ATATGTATATG
*
61194698 CGTATATG-TATGTTTATG
1 -GTATATGATATGTATATG
61194716 TGCATACACA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 27 0.79
20 7 0.21
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (18 bp):
GTATATGATATGTATATG
Found at i:61194716 original size:6 final size:6
Alignment explanation
Indices: 61194661--61194708 Score: 78
Period size: 6 Copynumber: 7.7 Consensus size: 6
61194651 GCTATCTTGA
61194661 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GCGTATAT GTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT --GTATAT GTAT
61194709 GTTTATGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 34 0.85
8 6 0.15
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (6 bp):
GTATAT
Found at i:61197736 original size:6 final size:6
Alignment explanation
Indices: 61197720--61197749 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
61197710 ATTTGTCTCT
61197720 CTTTACC CTTTCC CTTTCC CTTTCC CTTTC
1 CTTT-CC CTTTCC CTTTCC CTTTCC CTTTC
61197750 GTTGTTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTTCC
Found at i:61198132 original size:21 final size:21
Alignment explanation
Indices: 61198080--61198140 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
61198070 AATATTGAAT
**
61198080 AATTATTAAATGTTATAAAAA
1 AATTATTAAAAATTATAAAAA
*
61198101 ATATT-TT-AAAATTGTAAAAA
1 A-ATTATTAAAAATTATAAAAA
*
61198121 AATTATTAAAAATAATAAAA
1 AATTATTAAAAATTATAAAA
61198141 TATTAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 13 0.41
22 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
AATTATTAAAAATTATAAAAA
Found at i:61198387 original size:22 final size:21
Alignment explanation
Indices: 61198349--61198420 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 21
61198339 ATGCCATCGG
**
61198349 TTCAC-AATTTTCAAATATATT
1 TTCACAAATTTTTTAATA-ATT
* *
61198370 TTTACAATTTTTTTAATAATT
1 TTCACAAATTTTTTAATAATT
61198391 TTCACAAA--TTTTAATAATT
1 TTCACAAATTTTTTAATAATT
* *
61198410 TTAATAAATTT
1 TTCACAAATTT
61198421 AATAAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 17 0.43
21 14 0.35
22 9 0.22
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (21 bp):
TTCACAAATTTTTTAATAATT
Found at i:61198392 original size:9 final size:9
Alignment explanation
Indices: 61198380--61198432 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
61198370 TTTACAATTT
61198380 TTTTAATAA
1 TTTTAATAA
61198389 TTTTCACA-AA
1 TTTT-A-ATAA
61198399 TTTTAATAA
1 TTTTAATAA
61198408 TTTTAATAA
1 TTTTAATAA
*
61198417 ATTTAATAAA
1 TTTTAAT-AA
61198427 TTTTAA
1 TTTTAA
61198433 ATAAAGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 1 0.03
9 22 0.58
10 14 0.37
11 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (9 bp):
TTTTAATAA
Found at i:61198404 original size:19 final size:19
Alignment explanation
Indices: 61198380--61198432 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
61198370 TTTACAATTT
*
61198380 TTTTAATAATTTTCACAAA
1 TTTTAATAATTTTAACAAA
*
61198399 TTTTAATAATTTTAATAAA
1 TTTTAATAATTTTAACAAA
61198418 -TTTAATAAATTTTAA
1 TTTTAAT-AATTTTAA
61198433 ATAAAGTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATAATTTTAACAAA
Found at i:61203044 original size:14 final size:14
Alignment explanation
Indices: 61203025--61203052 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61203015 TTTGCAATCC
61203025 GGGGCTCGGTTTAG
1 GGGGCTCGGTTTAG
61203039 GGGGCTCGGTTTAG
1 GGGGCTCGGTTTAG
61203053 TGTGCTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.50, T:0.29
Consensus pattern (14 bp):
GGGGCTCGGTTTAG
Found at i:61208546 original size:20 final size:20
Alignment explanation
Indices: 61208521--61208602 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
61208511 ATACTATTTA
61208521 AAAAATAGTTTAAAAATTAT
1 AAAAATAGTTTAAAAATTAT
* *
61208541 AAAAATATTTTTAAAA--AT
1 AAAAATAGTTTAAAAATTAT
*
61208559 AAAAAT-G-TTCAAAATTA-
1 AAAAATAGTTTAAAAATTAT
* *
61208576 AAAAA-AGTATATAAAGTTCAT
1 AAAAATAGTTTA-AAAATT-AT
61208597 AAAAAT
1 AAAAAT
61208603 TCAAAGAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
16 6 0.13
17 6 0.13
18 10 0.21
19 5 0.11
20 15 0.32
21 5 0.11
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAAATAGTTTAAAAATTAT
Found at i:61213386 original size:11 final size:13
Alignment explanation
Indices: 61213356--61213387 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61213346 TTAATGTACA
61213356 ACACAATGGCAAT
1 ACACAATGGCAAT
61213369 ACACAATGGC-AT
1 ACACAATGGCAAT
61213381 -CACAATG
1 ACACAATG
61213388 TACGAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 2 0.11
13 10 0.53
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.16
Consensus pattern (13 bp):
ACACAATGGCAAT
Found at i:61215263 original size:69 final size:69
Alignment explanation
Indices: 61215148--61215339 Score: 197
Period size: 69 Copynumber: 2.8 Consensus size: 69
61215138 TCATAAAATA
** ** * * *
61215148 AGATATATCTCCAAAAAGTTTATTGGAACCGAGATCTAAATACTCGAGCGACT-TTAAATTTTTA
1 AGATATATCTCCAAAAAAATTATTGGAAGAGATATCTAAATACTCGAG-GAATGTTAAATTCTTA
* *
61215212 AGCAT
65 AACAC
* * * * *
61215217 AGATATATCTCCAAAAAAACTGTTGGAAGAGATATCTAAATTCTCGAGTAATGTTAGATTCTTAA
1 AGATATATCTCCAAAAAAATTATTGGAAGAGATATCTAAATACTCGAGGAATGTTAAATTCTTAA
*
61215282 ATAC
66 ACAC
* * * *
61215286 ATATATATTTCCAAAAAAATTATTGGAAGAGATATCTAAATACTTGAGGGATGT
1 AGATATATCTCCAAAAAAATTATTGGAAGAGATATCTAAATACTCGAGGAATGT
61215340 GAGTTCAGAG
Statistics
Matches: 99, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
68 2 0.02
69 97 0.98
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (69 bp):
AGATATATCTCCAAAAAAATTATTGGAAGAGATATCTAAATACTCGAGGAATGTTAAATTCTTAA
ACAC
Found at i:61219833 original size:22 final size:22
Alignment explanation
Indices: 61219807--61219855 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
61219797 ATATTCAAAT
61219807 AATAATA-TCAAAATAGTAGCAA
1 AATAATAGT-AAAATAGTAGCAA
* *
61219829 CATAATAGTAAAATGGTAGCAA
1 AATAATAGTAAAATAGTAGCAA
61219851 AATAA
1 AATAA
61219856 AGAGAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.22
Consensus pattern (22 bp):
AATAATAGTAAAATAGTAGCAA
Found at i:61219863 original size:22 final size:22
Alignment explanation
Indices: 61219807--61219865 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
61219797 ATATTCAAAT
**
61219807 AATAATATCAAAATAGTAGCAA
1 AATAATAGGAAAATAGTAGCAA
* * *
61219829 CATAATAGTAAAATGGTAGCAA
1 AATAATAGGAAAATAGTAGCAA
61219851 AATAA-AGAGAAAATA
1 AATAATAG-GAAAATA
61219866 ACAATAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (22 bp):
AATAATAGGAAAATAGTAGCAA
Found at i:61220320 original size:38 final size:36
Alignment explanation
Indices: 61220245--61220320 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
61220235 TAGTACTTTC
* *
61220245 CTGCAAATCTTTCTTTGTGGAAATACGGTCAATTTT
1 CTGCAAATCTTTCTTTGTGGAAATACAGTCAAATTT
*
61220281 CTGCAAGTCTTTCTTTGTGGAAAAATACAGTCAAATTT
1 CTGCAAATCTTTCTTTGTGG--AAATACAGTCAAATTT
61220319 CT
1 CT
61220321 TAGTACTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 19 0.54
38 16 0.46
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (36 bp):
CTGCAAATCTTTCTTTGTGGAAATACAGTCAAATTT
Found at i:61220583 original size:5 final size:5
Alignment explanation
Indices: 61220550--61220616 Score: 64
Period size: 5 Copynumber: 12.6 Consensus size: 5
61220540 ATTTTTTCTT
*
61220550 AAATA CAAATA CAAATA CAAATAA AAATA AAATA AAATA AAATA AATTAA
1 AAATA -AAATA -AAATA -AAAT-A AAATA AAATA AAATA AAATA AAAT-A
*
61220600 AAATA AATTA AAA-A AAA
1 AAATA AAATA AAATA AAA
61220617 CGTAAAGTAC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
4 4 0.07
5 26 0.47
6 24 0.44
7 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:61220584 original size:11 final size:11
Alignment explanation
Indices: 61220550--61220613 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
61220540 ATTTTTTCTT
*
61220550 AAATACAAATA
1 AAATAAAAATA
*
61220561 CAAATACAAATA
1 -AAATAAAAATA
61220573 AAA-ATAAAATA
1 AAATA-AAAATA
61220584 AAAT-AAAATA
1 AAATAAAAATA
*
61220594 AATTAAAAATA
1 AAATAAAAATA
*
61220605 AATTAAAAA
1 AAATAAAAA
61220614 AAACGTAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
10 10 0.21
11 26 0.55
12 11 0.23
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:61226438 original size:15 final size:15
Alignment explanation
Indices: 61226413--61226452 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
61226403 TCAAATCTTG
*
61226413 TTGATTCTTGAAGGCT
1 TTGA-TCTTGAAGCCT
61226429 TTGATCTTGAAGCCT
1 TTGATCTTGAAGCCT
*
61226444 TTGTTCTTG
1 TTGATCTTG
61226453 GTACAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.47
Consensus pattern (15 bp):
TTGATCTTGAAGCCT
Found at i:61228251 original size:13 final size:13
Alignment explanation
Indices: 61228233--61228257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61228223 AATTGCTTAT
61228233 CAAATGCATATAC
1 CAAATGCATATAC
61228246 CAAATGCATATA
1 CAAATGCATATA
61228258 TATTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAATGCATATAC
Found at i:61228527 original size:40 final size:41
Alignment explanation
Indices: 61228443--61228572 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
61228433 TAATTTGGTA
* * * *
61228443 CACCGGCTTTTAGCCTGCTAGACTTATAGTCCG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAATAAT-T-T
*
61228484 CACCGGCATTAAGCCTGCT-GACGTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAATAATTT
* * *
61228524 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAATAATTT
*
61228565 CACTGGCA
1 CACCGGCA
61228573 ATAAATCAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
40 30 0.39
41 44 0.57
42 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAATAATTT
Found at i:61230234 original size:25 final size:25
Alignment explanation
Indices: 61230189--61230237 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
61230179 TATTTGTTTA
*
61230189 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
61230214 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
61230238 AAAACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:61235874 original size:24 final size:24
Alignment explanation
Indices: 61235847--61235898 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61235837 TTAGTAAGTC
*
61235847 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
61235871 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
61235895 AAAT
1 AAAT
61235899 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:61237844 original size:24 final size:24
Alignment explanation
Indices: 61237817--61237868 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61237807 TTAGTAAGTC
*
61237817 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
61237841 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
61237865 AAAT
1 AAAT
61237869 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:61239951 original size:9 final size:9
Alignment explanation
Indices: 61239902--61240099 Score: 204
Period size: 9 Copynumber: 23.3 Consensus size: 9
61239892 TATTTCACGC
61239902 GTAAGTTAT
1 GTAAGTTAT
*
61239911 AT-A-TTAT
1 GTAAGTTAT
61239918 GTAAGTTAT
1 GTAAGTTAT
* *
61239927 ATAAGTTGT
1 GTAAGTTAT
61239936 GT-A-TTAT
1 GTAAGTTAT
61239943 GTAAGTTAT
1 GTAAGTTAT
**
61239952 GTAAGTTGC
1 GTAAGTTAT
61239961 GTAAGTTAT
1 GTAAGTTAT
*
61239970 GT-A-TAAT
1 GTAAGTTAT
61239977 GTAAGTTAT
1 GTAAGTTAT
61239986 GTAAGTTAT
1 GTAAGTTAT
*
61239995 GTAAGTTGT
1 GTAAGTTAT
*
61240004 GT-A-TAAT
1 GTAAGTTAT
61240011 GTAAGTTAT
1 GTAAGTTAT
61240020 GTAAGTTAT
1 GTAAGTTAT
**
61240029 GTAAGTTGC
1 GTAAGTTAT
61240038 GTAAGTTAT
1 GTAAGTTAT
61240047 GT-A-TTAT
1 GTAAGTTAT
61240054 GTAAGTTAT
1 GTAAGTTAT
*
61240063 GTAAGTTCT
1 GTAAGTTAT
61240072 GT-A-TTAT
1 GTAAGTTAT
61240079 GTAAGTTAT
1 GTAAGTTAT
*
61240088 GTAAGTTGT
1 GTAAGTTAT
61240097 GTA
1 GTA
61240100 TAATGTAATT
Statistics
Matches: 154, Mismatches: 23, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
7 30 0.19
8 12 0.08
9 112 0.73
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:61239952 original size:34 final size:34
Alignment explanation
Indices: 61239914--61240099 Score: 259
Period size: 34 Copynumber: 5.5 Consensus size: 34
61239904 AAGTTATATA
*
61239914 TTATGTAAGTTATATAAGTTGTGTATTATGTAAG
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAG
** * *
61239948 TTATGTAAGTTGCGTAAGTTATGTATAATGTAAG
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAG
*
61239982 TTATGTAAGTTATGTAAGTTGTGTATAATGTAAG
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAG
*
61240016 TTATGTAAGTTATGTAAGTTGCGTAAGTTATGT-A-
1 TTATGTAAGTTATGTAAGTTGTGT-A-TTATGTAAG
*
61240050 TTATGTAAGTTATGTAAGTTCTGTATTATGTAAG
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAAG
*
61240084 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
61240100 TAATGTAATT
Statistics
Matches: 135, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
32 6 0.04
33 2 0.01
34 120 0.89
35 2 0.01
36 5 0.04
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.45
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTGTGTATTATGTAAG
Found at i:61239959 original size:25 final size:27
Alignment explanation
Indices: 61239902--61240099 Score: 204
Period size: 25 Copynumber: 7.8 Consensus size: 27
61239892 TATTTCACGC
*
61239902 GTAAGTTATAT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
* *
61239927 ATAAGTTGTGT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
** *
61239952 GTAAGTTGCGTAAGTTATGT-A-TAAT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
*
61239977 GTAAGTTATGTAAGTTATGTAAGTTGT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
*
61240004 GT-A-TAATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
**
61240029 GTAAGTTGCGTAAGTTATGT-A-TTAT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
*
61240054 GTAAGTTATGTAAGTTCTGT-A-TTAT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
*
61240079 GTAAGTTATGTAAGTTGTGTA
1 GTAAGTTATGTAAGTTATGTA
61240100 TAATGTAATT
Statistics
Matches: 147, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
25 119 0.81
26 6 0.04
27 22 0.15
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (27 bp):
GTAAGTTATGTAAGTTATGTAAGTTAT
Found at i:61240869 original size:11 final size:12
Alignment explanation
Indices: 61240853--61240897 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
61240843 ATAGTTTAAG
61240853 TATTAAAA-AAA
1 TATTAAAATAAA
61240864 TATTAAAATAAA
1 TATTAAAATAAA
61240876 -A-TAAAATAAA
1 TATTAAAATAAA
61240886 TATTAAAATAAA
1 TATTAAAATAAA
61240898 AGAAGTGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.29
11 10 0.32
12 12 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TATTAAAATAAA
Found at i:61240887 original size:22 final size:21
Alignment explanation
Indices: 61240856--61240898 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
61240846 GTTTAAGTAT
61240856 TAAAAAAATATTAAAATAAAA
1 TAAAAAAATATTAAAATAAAA
61240877 TAAAATAAATATTAAAATAAAA
1 TAAAA-AAATATTAAAATAAAA
61240899 GAAGTGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAAAAATATTAAAATAAAA
Found at i:61241178 original size:19 final size:19
Alignment explanation
Indices: 61241154--61241207 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
61241144 CGGAAAATAG
61241154 AGAAACAAGAAACAGCTAC
1 AGAAACAAGAAACAGCTAC
*
61241173 AGAAAC-A-AAACATGCTAG
1 AGAAACAAGAAACA-GCTAC
61241191 AGAAACAAGAAACAGCT
1 AGAAACAAGAAACAGCT
61241208 TAGAGTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 5 0.16
18 11 0.35
19 10 0.32
20 5 0.16
ACGTcount: A:0.57, C:0.19, G:0.17, T:0.07
Consensus pattern (19 bp):
AGAAACAAGAAACAGCTAC
Found at i:61241194 original size:18 final size:17
Alignment explanation
Indices: 61241151--61241212 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 17
61241141 AAACGGAAAA
61241151 TAGAGAAACAAGAAACAGC
1 TAGAGAAAC-A-AAACAGC
*
61241170 TACAGAAACAAAACATGC
1 TAGAGAAACAAAACA-GC
61241188 TAGAGAAACAAGAAACAGC
1 TAGAGAAAC-A-AAACAGC
61241207 TTAGAG
1 -TAGAG
61241213 TTTAACATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 5 0.14
18 11 0.30
19 11 0.30
20 10 0.27
ACGTcount: A:0.55, C:0.16, G:0.19, T:0.10
Consensus pattern (17 bp):
TAGAGAAACAAAACAGC
Found at i:61243016 original size:18 final size:18
Alignment explanation
Indices: 61242990--61243046 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
61242980 TACGACCGTT
*
61242990 TACGATACTATTCACGTA
1 TACGGTACTATTCACGTA
61243008 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
61243026 TACGGCACTGTTCACGTA
1 TACGGTACTATTCACGTA
61243044 TAC
1 TAC
61243047 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:61252569 original size:9 final size:9
Alignment explanation
Indices: 61252539--61252787 Score: 222
Period size: 9 Copynumber: 30.3 Consensus size: 9
61252529 TATTTTATGC
61252539 GTAAGTTAT
1 GTAAGTTAT
*
61252548 GT-A-TTAG
1 GTAAGTTAT
61252555 GTAAGTTAT
1 GTAAGTTAT
*
61252564 GTAAGTTTT
1 GTAAGTTAT
61252573 GT-A-TTAT
1 GTAAGTTAT
*
61252580 GTAAGTTCT
1 GTAAGTTAT
*
61252589 GTAAGTTGT
1 GTAAGTTAT
61252598 GT-A-TTAT
1 GTAAGTTAT
61252605 GTAAGTTAT
1 GTAAGTTAT
*
61252614 GTAAGTTGT
1 GTAAGTTAT
*
61252623 GTAAGTTGT
1 GTAAGTTAT
61252632 GT-A-TTAT
1 GTAAGTTAT
61252639 GTAAGTTAT
1 GTAAGTTAT
*
61252648 GTAAGTTCT
1 GTAAGTTAT
61252657 GT-A-TTAT
1 GTAAGTTAT
*
61252664 ATAAGTTAT
1 GTAAGTTAT
61252673 GT-A---AT
1 GTAAGTTAT
*
61252678 -TAAGTTGT
1 GTAAGTTAT
*
61252686 GT-A-TTAC
1 GTAAGTTAT
*
61252693 GTAAGTTGT
1 GTAAGTTAT
61252702 GTAAGTTAT
1 GTAAGTTAT
61252711 GT-A-TTAT
1 GTAAGTTAT
61252718 GT-AGTTAT
1 GTAAGTTAT
*
61252726 GTAAGTTGT
1 GTAAGTTAT
61252735 GT-A-TTAT
1 GTAAGTTAT
61252742 GTAAGTTAT
1 GTAAGTTAT
61252751 GTAAGTTAT
1 GTAAGTTAT
61252760 GT-A-TTAT
1 GTAAGTTAT
61252767 GTAAGTTAT
1 GTAAGTTAT
61252776 GTAAGTTAT
1 GTAAGTTAT
61252785 GTA
1 GTA
61252788 TAATGTAATT
Statistics
Matches: 196, Mismatches: 21, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
7 46 0.23
8 25 0.13
9 121 0.62
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:61252569 original size:25 final size:25
Alignment explanation
Indices: 61252539--61252650 Score: 122
Period size: 25 Copynumber: 4.5 Consensus size: 25
61252529 TATTTTATGC
61252539 GTAAGTTATGTATTAGGTAAGTTAT
1 GTAAGTTATGTATTAGGTAAGTTAT
* * *
61252564 GTAAGTTTTGTATTATGTAAGTTCT
1 GTAAGTTATGTATTAGGTAAGTTAT
* *
61252589 GTAAGTTGTGTATTATGTAAGTTAT
1 GTAAGTTATGTATTAGGTAAGTTAT
*
61252614 GTAAGTTGTGTAAGTT-GTGT-A-TTAT
1 GTAAGTTATGT-A-TTAG-GTAAGTTAT
61252639 GTAAGTTATGTA
1 GTAAGTTATGTA
61252651 AGTTCTGTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.01
25 70 0.91
26 2 0.03
27 4 0.05
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (25 bp):
GTAAGTTATGTATTAGGTAAGTTAT
Found at i:61252651 original size:25 final size:25
Alignment explanation
Indices: 61252555--61252795 Score: 186
Period size: 25 Copynumber: 9.8 Consensus size: 25
61252545 TATGTATTAG
*
61252555 GTAAGTTATGTAAGTTTTGT-A-TTAT
1 GTAAGTTATGT-A-TTATGTAAGTTAT
* *
61252580 GTAAGTTCTGTAAGTTGTGT-A-TTAT
1 GTAAGTTATGT-A-TTATGTAAGTTAT
* *
61252605 GTAAGTTATGTAAGTTGTGTAAGTTGT
1 GTAAGTTATGT-A-TTATGTAAGTTAT
*
61252632 GT-A-TTATGTAAGTTATGTAAGTTCT
1 GTAAGTTATGT-A-TTATGTAAGTTAT
*
61252657 GT-A-TTATATAAGTTATGT-A---AT
1 GTAAGTTATGT-A-TTATGTAAGTTAT
* * *
61252678 -TAAGTTGTGTATTACGTAAGTTGT
1 GTAAGTTATGTATTATGTAAGTTAT
61252702 GTAAGTTATGTATTATGT-AGTTAT
1 GTAAGTTATGTATTATGTAAGTTAT
*
61252726 GTAAGTTGTGTATTATGTAAGTTAT
1 GTAAGTTATGTATTATGTAAGTTAT
61252751 GTAAGTTATGTATTATGTAAGTTAT
1 GTAAGTTATGTATTATGTAAGTTAT
*
61252776 GTAAGTTATGTATAATGTAA
1 GTAAGTTATGTATTATGTAA
61252796 TTAAGTTATA
Statistics
Matches: 188, Mismatches: 18, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
20 6 0.03
21 4 0.02
22 4 0.02
24 24 0.13
25 143 0.76
26 2 0.01
27 5 0.03
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (25 bp):
GTAAGTTATGTATTATGTAAGTTAT
Found at i:61252663 original size:16 final size:16
Alignment explanation
Indices: 61252539--61252795 Score: 168
Period size: 16 Copynumber: 16.2 Consensus size: 16
61252529 TATTTTATGC
*
61252539 GTAAGTTATGTATTAG
1 GTAAGTTATGTATTAT
*
61252555 GTAAGTTATGTAAGTTTT
1 GTAAGTTATGT-A-TTAT
*
61252573 GT-A-TTATGTAAGTTCT
1 GTAAGTTATGT-A-TTAT
*
61252589 GTAAGTTGTGTATTAT
1 GTAAGTTATGTATTAT
*
61252605 GTAAGTTATGTAAGTTGT
1 GTAAGTTATGT-A-TTAT
*
61252623 GTAAGTTGTGTATTAT
1 GTAAGTTATGTATTAT
61252639 GT-A---A-G--TTAT
1 GTAAGTTATGTATTAT
*
61252648 GTAAGTTCTGTATTAT
1 GTAAGTTATGTATTAT
*
61252664 ATAAGTTATGTA--AT
1 GTAAGTTATGTATTAT
* *
61252678 -TAAGTTGTGTATTAC
1 GTAAGTTATGTATTAT
*
61252693 GTAAGTTGTGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
61252711 GT-A-TTATGTAGTTAT
1 GTAAGTTATGTA-TTAT
*
61252726 GTAAGTTGTGTATTAT
1 GTAAGTTATGTATTAT
61252742 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
61252760 GT-A-TTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
*
61252776 GTAAGTTATGTATAAT
1 GTAAGTTATGTATTAT
61252792 GTAA
1 GTAA
61252796 TTAAGTTATA
Statistics
Matches: 197, Mismatches: 20, Indels: 48
0.74 0.08 0.18
Matches are distributed among these distances:
9 6 0.03
10 1 0.01
11 1 0.01
13 10 0.05
14 3 0.02
15 10 0.05
16 109 0.55
17 18 0.09
18 39 0.20
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:61253669 original size:18 final size:17
Alignment explanation
Indices: 61253648--61253690 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
61253638 CTACACAAGA
*
61253648 AAAAATGGCTAGAGGAAC
1 AAAAAT-GCTAGAGAAAC
61253666 AAAACATGCTAGAGAAAC
1 AAAA-ATGCTAGAGAAAC
61253684 AGAAAAT
1 A-AAAAT
61253691 AGAAAACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.56, C:0.12, G:0.21, T:0.12
Consensus pattern (17 bp):
AAAAATGCTAGAGAAAC
Found at i:61253701 original size:13 final size:15
Alignment explanation
Indices: 61253675--61253730 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 15
61253665 CAAAACATGC
61253675 TAGAGAAACAGAAAA
1 TAGAGAAACAGAAAA
61253690 TAGA-AAAC-GAAAA
1 TAGAGAAACAGAAAA
** *
61253703 CGGA-AAACGGAAAA
1 TAGAGAAACAGAAAA
61253717 TAGAGAAACA-AAAA
1 TAGAGAAACAGAAAA
61253731 ACTGCTACAG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 11 0.32
14 15 0.44
15 8 0.24
ACGTcount: A:0.66, C:0.09, G:0.20, T:0.05
Consensus pattern (15 bp):
TAGAGAAACAGAAAA
Found at i:61253744 original size:19 final size:19
Alignment explanation
Indices: 61253720--61253762 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
61253710 CGGAAAATAG
61253720 AGAAACAAAAAACTGCTAC
1 AGAAACAAAAAACTGCTAC
61253739 AGAAACAAAAAACTGCTAC
1 AGAAACAAAAAACTGCTAC
61253758 AGAAA
1 AGAAA
61253763 TATTTGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.60, C:0.19, G:0.12, T:0.09
Consensus pattern (19 bp):
AGAAACAAAAAACTGCTAC
Found at i:61256532 original size:15 final size:15
Alignment explanation
Indices: 61256487--61256594 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
61256477 CCAATATCTC
*
61256487 GATACCCATATCTTT
1 GATACCCATATATTT
**
61256502 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
61256517 GATACCCATATCTTT
1 GATACCCATATATTT
**
61256532 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
61256547 GATACCAATATATTT
1 GATACCCATATATTT
**
61256562 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
61256577 GATACCCATATCTTT
1 GATACCCATATATTT
61256592 GAT
1 GAT
61256595 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:61256601 original size:30 final size:30
Alignment explanation
Indices: 61256477--61256600 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
61256467 TTTTATTATG
*
61256477 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
61256508 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
61256538 CCAATATTTGATACCAATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
61256568 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61256598 CCA
1 CCA
61256601 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:61261172 original size:15 final size:15
Alignment explanation
Indices: 61261127--61261234 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
61261117 CCAATATCTC
61261127 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
61261142 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
61261157 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
61261172 GACTTTCTA-ATATTT
1 GA-TACCCATATCTTT
61261187 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
61261202 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
61261217 GATACCCATATCTTT
1 GATACCCATATCTTT
61261232 GAT
1 GAT
61261235 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:61261241 original size:30 final size:30
Alignment explanation
Indices: 61261117--61261240 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
61261107 TTTTATTATG
*
61261117 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
61261148 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
61261178 CTAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
61261208 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61261238 CCA
1 CCA
61261241 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:61263282 original size:69 final size:69
Alignment explanation
Indices: 61263156--61263357 Score: 269
Period size: 69 Copynumber: 2.9 Consensus size: 69
61263146 AAAATGAGAT
* * * *
61263156 ATATCTCCAGAAAACTTATTGGACGAGAGATCTAAAAACTCGAGTGACCTTAGATTCTTAAACAC
1 ATATCTCCAGAAAAATTATTGGAAGAGAGATCTAAATACTCGAGTGACGTTAGATTCTTAAACAC
*
61263221 ATAA
66 AGAA
* * * * * *
61263225 ATATTTCCAAAAAAATTATTGGAAAAGAGATCTAAATACTTGAGTGAGGTTAGATTCTTGAACAC
1 ATATCTCCAGAAAAATTATTGGAAGAGAGATCTAAATACTCGAGTGACGTTAGATTCTTAAACAC
*
61263290 AGAT
66 AGAA
* * *
61263294 ATATCTCCAGAAAATTTATTGTAAGAGAGATCTAAATACTCAAGTGACGTTAGATTCTTAAACA
1 ATATCTCCAGAAAAATTATTGGAAGAGAGATCTAAATACTCGAGTGACGTTAGATTCTTAAACA
61263358 TAAANNNNNN
Statistics
Matches: 112, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 112 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (69 bp):
ATATCTCCAGAAAAATTATTGGAAGAGAGATCTAAATACTCGAGTGACGTTAGATTCTTAAACAC
AGAA
Found at i:61277241 original size:12 final size:12
Alignment explanation
Indices: 61277224--61277248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61277214 CCCACTCAAA
61277224 TTTCACACTACT
1 TTTCACACTACT
61277236 TTTCACACTACT
1 TTTCACACTACT
61277248 T
1 T
61277249 CCCTACTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTCACACTACT
Found at i:61283198 original size:12 final size:13
Alignment explanation
Indices: 61283171--61283200 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61283161 CATAAAAAAT
61283171 TAATTTAAATTTA
1 TAATTTAAATTTA
61283184 TAATTTAAA-TTA
1 TAATTTAAATTTA
61283196 TAATT
1 TAATT
61283201 ACCACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATTTAAATTTA
Found at i:61283343 original size:44 final size:44
Alignment explanation
Indices: 61283246--61283344 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 44
61283236 TCATTAAAGC
* * * *
61283246 AATAAC-TCTATTAAATTGTAACTATTTTTAAATTTATAATTAT
1 AATAACTTCTATCAAATTATAAATATTTTTAAATGTATAATTAT
* * * *
61283289 CACAATTTCTATCAAATTATAAATCTTTTTAAATGTATAATTAT
1 AATAACTTCTATCAAATTATAAATATTTTTAAATGTATAATTAT
61283333 AATAACTTCTAT
1 AATAACTTCTAT
61283345 TTTACTTCAA
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
43 3 0.07
44 41 0.93
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (44 bp):
AATAACTTCTATCAAATTATAAATATTTTTAAATGTATAATTAT
Found at i:61293161 original size:19 final size:18
Alignment explanation
Indices: 61293126--61293160 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61293116 CTTTTTTGAA
*
61293126 AATTTTAATAAAATTTTC
1 AATTTTTATAAAATTTTC
*
61293144 AATTTTTATACAATTTT
1 AATTTTTATAAAATTTT
61293161 TTATTTTTTA
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:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTTTATAAAATTTTC
Found at i:61298220 original size:18 final size:18
Alignment explanation
Indices: 61298183--61298220 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
61298173 AAAAATTTAA
* *
61298183 AAATATATATATACACAT
1 AAATATATATATAAAAAT
61298201 AAATATATATATAAAAAT
1 AAATATATATATAAAAAT
61298219 AA
1 AA
61298221 GTAAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATATATATAAAAAT
Found at i:61298848 original size:108 final size:108
Alignment explanation
Indices: 61298659--61298854 Score: 340
Period size: 108 Copynumber: 1.8 Consensus size: 108
61298649 TTTTGCGCAA
* * *
61298659 AACACCATATTAAAAAAATAAATTTTAAATCGGTAAGCAATAAATTTAATATCGTGTTTTGAGAA
1 AACACCATATTAAAAAAATAAAATTTAAATCGGTAAACAATAAATTTAATATCATGTTTTGAGAA
61298724 AAAAAATTATGTACTAAATTGAATATCAAAATCAAACTTAAGT
66 AAAAAATTATGTACTAAATTGAATATCAAAATCAAACTTAAGT
*
61298767 AACACCATATTAAAAAAATAAAATTTAAATC-GTCAAACAATAAATTTAATTTCATGTTTTGAGA
1 AACACCATATTAAAAAAATAAAATTTAAATCGGT-AAACAATAAATTTAATATCATGTTTTGAGA
61298831 AAAAAAATTATGTACTAAATTGAA
65 AAAAAAATTATGTACTAAATTGAA
61298855 CAAATTAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
107 2 0.02
108 81 0.98
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (108 bp):
AACACCATATTAAAAAAATAAAATTTAAATCGGTAAACAATAAATTTAATATCATGTTTTGAGAA
AAAAAATTATGTACTAAATTGAATATCAAAATCAAACTTAAGT
Found at i:61304779 original size:13 final size:12
Alignment explanation
Indices: 61304746--61304779 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
61304736 TAATAAATAA
61304746 ATTTT-TCTTGT
1 ATTTTCTCTTGT
61304757 ATTTTCTCTTGT
1 ATTTTCTCTTGT
61304769 ATTTCTCTCTT
1 ATTT-TCTCTT
61304780 TTTAGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 10 0.48
13 6 0.29
ACGTcount: A:0.09, C:0.18, G:0.06, T:0.68
Consensus pattern (12 bp):
ATTTTCTCTTGT
Found at i:61307330 original size:7 final size:7
Alignment explanation
Indices: 61307318--61307347 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
61307308 TACCATTTTT
61307318 AAAAATA
1 AAAAATA
61307325 AAAAATA
1 AAAAATA
61307332 AAAAAT-
1 AAAAATA
61307338 AAAAATA
1 AAAAATA
61307345 AAA
1 AAA
61307348 CGAATCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:61307335 original size:13 final size:14
Alignment explanation
Indices: 61307318--61307347 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
61307308 TACCATTTTT
61307318 AAAAATAAAAAATA
1 AAAAATAAAAAATA
61307332 AAAAAT-AAAAATA
1 AAAAATAAAAAATA
61307345 AAA
1 AAA
61307348 CGAATCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAAATA
Found at i:61308051 original size:22 final size:22
Alignment explanation
Indices: 61307989--61308052 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
61307979 AAAGCAATAA
* *
61307989 AAATATTAATTTTGTTAAACATT
1 AAATA-TAATTTTATTAAACACT
* *
61308012 AAATGATCATTTTTTTAAACACT
1 AAAT-ATAATTTTATTAAACACT
*
61308035 GAATATAATTTTATTAAA
1 AAATATAATTTTATTAAA
61308053 ATTTGATCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.35
23 21 0.62
24 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (22 bp):
AAATATAATTTTATTAAACACT
Found at i:61319062 original size:6 final size:6
Alignment explanation
Indices: 61319051--61319075 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61319041 ATCAGCTTTA
61319051 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
61319076 ATTGATACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:61321241 original size:24 final size:25
Alignment explanation
Indices: 61321180--61321301 Score: 90
Period size: 24 Copynumber: 5.0 Consensus size: 25
61321170 GTCATTAGAG
* *
61321180 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* *
61321204 TTACCGATACTCAGCT-GTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * * *
61321228 TTACTGTTATTCAGCTTGGA-GAAGT
1 TTACCGTTATTCAGCTCGTATG-AGC
* * * *
61321253 TTACTGTTATTCAGCTAGGAAGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
*
61321278 TTACCGTT-TACAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
61321302 ATACATGTAC
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
24 41 0.51
25 38 0.47
26 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTATGAGC
Found at i:61321281 original size:25 final size:24
Alignment explanation
Indices: 61321224--61321281 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
61321214 TCAGCTGTAT
*
61321224 GAGCTTACTGTTATTCAGCTTGGA
1 GAGCTTACTGTTATTCAGCTAGGA
*
61321248 GAAGTTTACTGTTATTCAGCTAGGAA
1 G-AGCTTACTGTTATTCAGCTAGG-A
61321274 GAGCTTAC
1 GAGCTTAC
61321282 CGTTTACAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 26 0.90
26 2 0.07
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (24 bp):
GAGCTTACTGTTATTCAGCTAGGA
Found at i:61324175 original size:6 final size:6
Alignment explanation
Indices: 61324145--61324185 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
61324135 GGTACCTAAT
* *
61324145 CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTAA CAGT
1 CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGT
61324186 GTTCAACACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:61324240 original size:45 final size:45
Alignment explanation
Indices: 61324166--61324408 Score: 290
Period size: 45 Copynumber: 5.6 Consensus size: 45
61324156 AACGGTAGCA
* * *
61324166 GTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
* * *
61324211 GTAACAGTAACAGTAACTGTATTCGACACACAAAGTACCGAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
* *
61324256 GTAACAGTAACGGTAACAATATTCGACACAC--AGTG-TCGAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAATCG
* *
61324299 GTAACAGTAACAATAACAATATTCGACACACAAAGTGCTGAATC-
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
*
61324343 G-----GTAACAGTAACAGTATTCAACACACAAAGTG-TCGAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAATCG
*
61324383 GTAACAGTAACGGTAACAGTATTCGA
1 GTAACAGTAACAGTAACAGTATTCGA
61324409 TTTAACTTTT
Statistics
Matches: 169, Mismatches: 18, Indels: 22
0.81 0.09 0.11
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 1 0.01
43 38 0.22
44 1 0.01
45 94 0.56
46 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
Found at i:61324398 original size:127 final size:129
Alignment explanation
Indices: 61324166--61324408 Score: 355
Period size: 127 Copynumber: 1.9 Consensus size: 129
61324156 AACGGTAGCA
* * * *
61324166 GTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCTGTAACAGTAACAGTAACTGT
1 GTAACAGTAACAATAACAATATTCAACACACAAAGTGCTGAATCTG----AGTAACAGTAACAGT
*
61324231 ATTCGACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATTCGACACACAGTGTCGAA
62 ATTCAACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATTCGACACACAGTGTCGAA
61324296 TCG
127 TCG
*
61324299 GTAACAGTAACAATAACAATATTCGACACACAAAGTGCTGAATC-G-GTAACAGTAACAGTATTC
1 GTAACAGTAACAATAACAATATTCAACACACAAAGTGCTGAATCTGAGTAACAGTAACAGTATTC
** *
61324362 AACACACAAAGTGTCGAATCGGTAACAGTAACGGTAACAGTATTCGA
66 AACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATTCGA
61324409 TTTAACTTTT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
127 60 0.59
132 1 0.01
133 40 0.40
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (129 bp):
GTAACAGTAACAATAACAATATTCAACACACAAAGTGCTGAATCTGAGTAACAGTAACAGTATTC
AACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATTCGACACACAGTGTCGAATCG
Found at i:61324557 original size:6 final size:6
Alignment explanation
Indices: 61324524--61324570 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
61324514 GGTACCTGAT
* *
61324524 CAGTAA TCAGTAA CGGTAG C-GATAA CAGTAA CAGTAA CAGTAA CAGT
1 CAGTAA -CAGTAA CAGTAA CAG-TAA CAGTAA CAGTAA CAGTAA CAGT
61324571 GTTCAACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
5 1 0.03
6 27 0.77
7 7 0.20
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:61324625 original size:45 final size:45
Alignment explanation
Indices: 61324551--61324839 Score: 323
Period size: 45 Copynumber: 6.3 Consensus size: 45
61324541 AGCGATAACA
* * *
61324551 GTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
* *
61324596 GTAACAGTAACAGTAACTGTATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
* * **
61324641 GTAACAGTAACGGTAACAATATTCGACACAC--AGTATTGAATCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
* *
61324684 GTAACAGTAACAATAACAGTATTCGACATACAAAGTGCTGAATCGG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC-G
* *
61324730 TAACAGTAACAGTAACAGTAACAGTATTCAACATACAAAGTG-TCGAATCG
1 -----GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAATCG
* * * * *
61324780 GTAACAATAACGGTAACAGTATTCGATACACAAAGTGCCGAACCG
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
*
61324825 GTAACAGTAATAGTA
1 GTAACAGTAACAGTA
61324840 GTCGGCACAT
Statistics
Matches: 205, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
43 36 0.18
45 126 0.61
46 1 0.00
50 2 0.01
51 40 0.20
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCG
Found at i:61324729 original size:385 final size:383
Alignment explanation
Indices: 61324025--61324806 Score: 1311
Period size: 385 Copynumber: 2.0 Consensus size: 383
61324015 TTTCATTTCG
*
61324025 TTCGATTTAACTTTTATTTAATTACCCTTATTAACAGACTCGGGCTTTGACAGATACGTGGATTC
1 TTCGATTTAACTTTTATTTAATTACCCTTATTAACAGACTCGGGCTTTGACAGATACATGGATTC
61324090 CAACCAAACACACCAGTACGGCACATTGTGCCTAAAACCGTACATGGTACCTAATCAGTAATCAG
66 CAACCAAACACACCAGTACGGCACATTGTGCCTAAAACCGTACATGGTACCTAATCAGTAATCAG
61324155 TAACGGTAGCAGTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCTGTAACAGTA
131 TAACGGTAGCAGTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCTGTAACAGTA
61324220 ACAGTAACTGTATTCGACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATTCGACAC
196 ACAGTAACTGTATTCGACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATTCGACAC
*
61324285 ACAGTGTCGAATCGGTAACAGTAACAATAACAATATTCGACACACAAAGTGCTGAA-T-C-G-GT
261 ACAGTATCGAATCGGTAACAGTAACAATAACAATATTCGACACACAAAGTGCTGAAGTACAGAGT
*
61324346 AACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAACGGTAACAGTA
326 AACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAATAACGGTAACAGTA
61324404 TTCGATTTAACTTTTATTTAATTACCCTTATTAACAGACTCGGGCTTTGACAGATACATGGATTC
1 TTCGATTTAACTTTTATTTAATTACCCTTATTAACAGACTCGGGCTTTGACAGATACATGGATTC
* * *
61324469 CAACCAAACACACTAGTACGGCACGTTGTGCCTAAAACCGTACATGGTACCTGATCAGTAATCAG
66 CAACCAAACACACCAGTACGGCACATTGTGCCTAAAACCGTACATGGTACCTAATCAGTAATCAG
61324534 TAACGGTAGCGATAACAGTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCTGTA
131 TAACGGTA--G----CAGTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCTGTA
*
61324599 ACAGTAACAGTAACTGTATTCGACACACAAAGTGCCGAATCGGTAACAGTAACGGTAACAATATT
190 ACAGTAACAGTAACTGTATTCGACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATT
* * *
61324664 CGACACACAGTATTGAATCGGTAACAGTAACAATAACAGTATTCGACATACAAAGTGCTGAATCG
255 CGACACACAGTATCGAATCGGTAACAGTAACAATAACAATATTCGACACACAAAGTGCTGAA---
*
61324729 GTAACAGTAACAGTAACAGTAACAGTATTCAACATACAAAGTGTCGAATCGGTAACAATAACGGT
317 GT-ACAG----AGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAATAACGGT
61324794 AACAGTA
377 AACAGTA
61324801 TTCGAT
1 TTCGAT
61324807 ACACAAAGTG
Statistics
Matches: 374, Mismatches: 11, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
379 134 0.36
381 1 0.00
385 172 0.46
389 1 0.00
391 1 0.00
392 1 0.00
397 64 0.17
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (383 bp):
TTCGATTTAACTTTTATTTAATTACCCTTATTAACAGACTCGGGCTTTGACAGATACATGGATTC
CAACCAAACACACCAGTACGGCACATTGTGCCTAAAACCGTACATGGTACCTAATCAGTAATCAG
TAACGGTAGCAGTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCTGTAACAGTA
ACAGTAACTGTATTCGACACACAAAGTACCGAATCGGTAACAGTAACGGTAACAATATTCGACAC
ACAGTATCGAATCGGTAACAGTAACAATAACAATATTCGACACACAAAGTGCTGAAGTACAGAGT
AACAGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAATAACGGTAACAGTA
Found at i:61324740 original size:6 final size:6
Alignment explanation
Indices: 61324729--61324755 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
61324719 TGCTGAATCG
61324729 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
61324756 TTCAACATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:61324793 original size:139 final size:133
Alignment explanation
Indices: 61324551--61324811 Score: 369
Period size: 139 Copynumber: 1.9 Consensus size: 133
61324541 AGCGATAACA
* * *
61324551 GTAACAGTAACAGTAACAGTGTTCAACACACAAAGTGCTGAATCTGTAACAGTAACAGTAACTGT
1 GTAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAACAGTAACAGT
* *
61324616 ATTCGACACACAAAGTGCCGAATCGGTAACAGTAACGGTAACAATATTCGACACACAGTATTGAA
66 ATTCAACACACAAAGTGCCGAATCGGTAACAATAACGGTAACAATATTCGACACACAGTATTGAA
61324681 TCG
131 TCG
* *
61324684 GTAACAGTAACAATAACAGTATTCGACATACAAAGTGCTGAATCGGTAACAGTAACAGTAACAGT
1 GTAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATC--T----GTAACAGTAACAGT
* * * *
61324749 AACAGTATTCAACATACAAAGTGTCGAATCGGTAACAATAACGGTAACAGTATTCGATACACA
60 AACAGTATTCAACACACAAAGTGCCGAATCGGTAACAATAACGGTAACAATATTCGACACACA
61324812 AAGTGCCGAA
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
133 40 0.36
135 1 0.01
139 70 0.63
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (133 bp):
GTAACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAACAGTAACAGT
ATTCAACACACAAAGTGCCGAATCGGTAACAATAACGGTAACAATATTCGACACACAGTATTGAA
TCG
Found at i:61329065 original size:20 final size:21
Alignment explanation
Indices: 61329019--61329065 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
61329009 TTTTATTTAA
*
61329019 ATATATTTATAAAAAATATGT
1 ATATATTAATAAAAAATATGT
*
61329040 AAATATTAATAAAAAAT-TGT
1 ATATATTAATAAAAAATATGT
*
61329060 TTATAT
1 ATATAT
61329066 ATATTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATATTAATAAAAAATATGT
Found at i:61331486 original size:35 final size:38
Alignment explanation
Indices: 61331404--61331486 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 38
61331394 AAAATTTATA
* ** *
61331404 TTTAATACAATAAAGTATTTATTATACTTATTTGTGTT
1 TTTAATATAATAAAACATTTATTATACTTATGTGTGTT
61331442 TTTAATATAATAAAACATTTATTATA-TT-TGTGT-TT
1 TTTAATATAATAAAACATTTATTATACTTATGTGTGTT
61331477 TTTAATATAA
1 TTTAATATAA
61331487 ATATTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
35 12 0.29
36 4 0.10
37 2 0.05
38 23 0.56
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (38 bp):
TTTAATATAATAAAACATTTATTATACTTATGTGTGTT
Found at i:61331584 original size:16 final size:18
Alignment explanation
Indices: 61331559--61331593 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
61331549 AGTGTATTAT
61331559 ATATATATTTTAAA-AAA
1 ATATATATTTTAAATAAA
61331576 ATATA-ATTTTAAATAAA
1 ATATATATTTTAAATAAA
61331593 A
1 A
61331594 ATTAATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATATATTTTAAATAAA
Found at i:61337586 original size:24 final size:22
Alignment explanation
Indices: 61337559--61337603 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
61337549 ATTGTGAAGT
61337559 TATAAATTTAAATAATTATAAAAC
1 TATAAATTT-AATAATT-TAAAAC
* *
61337583 TATATATTTTATAATTTAAAA
1 TATAAATTTAATAATTTAAAA
61337604 AGATTTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAAATTTAATAATTTAAAAC
Found at i:61344844 original size:26 final size:26
Alignment explanation
Indices: 61344799--61344848 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
61344789 ATGTAAAATA
* *
61344799 TTTAATTAAAAATTATTTGATAAATTG
1 TTTAATAAAAAAATATTTGA-AAATTG
61344826 TTTAATAAAAAAATA-TTGAAAAT
1 TTTAATAAAAAAATATTTGAAAAT
61344849 GATCACTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 4 0.19
27 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (26 bp):
TTTAATAAAAAAATATTTGAAAATTG
Found at i:61354567 original size:21 final size:19
Alignment explanation
Indices: 61354531--61354574 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
61354521 TTTTCCATGA
61354531 TTTTTAAGTTATTGATTGTG
1 TTTTTAAGTTATTGA-TGTG
61354551 TTTTTACATGTTA-TGATGTG
1 TTTTTA-A-GTTATTGATGTG
61354571 TTTT
1 TTTT
61354575 GGTTTGGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.64
21 4 0.18
22 4 0.18
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.61
Consensus pattern (19 bp):
TTTTTAAGTTATTGATGTG
Found at i:61357739 original size:40 final size:40
Alignment explanation
Indices: 61357600--61357740 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 40
61357590 ACTTTGAGTT
* * * * *
61357600 GATGAGACACTAGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTAGGTGCCAAATTATTACTTCGTATT-ATCC
* * *
61357641 GATGAGGCACTAGGTGCC-AA-T-TTACTTCAGT-TTAGCT
1 GATGAGACACTAGGTGCCAAATTATTACTTC-GTATTATCC
* **
61357678 GATGAGACACTGGGTTTCAAATTATTACTTCGTATTATCC
1 GATGAGACACTAGGTGCCAAATTATTACTTCGTATTATCC
* *
61357718 GATGAGGCACTGGGTGCCAAATT
1 GATGAGACACTAGGTGCCAAATT
61357741 GGTGTGTTTT
Statistics
Matches: 78, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
37 15 0.19
38 10 0.13
39 5 0.06
40 32 0.41
41 16 0.21
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
GATGAGACACTAGGTGCCAAATTATTACTTCGTATTATCC
Found at i:61365779 original size:27 final size:27
Alignment explanation
Indices: 61365749--61365810 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
61365739 CCTATCAGGT
61365749 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
61365776 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
61365803 AGGCGCCA
1 AGGCGCCA
61365811 TTACTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:61365996 original size:21 final size:21
Alignment explanation
Indices: 61365972--61366015 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
61365962 AATAAACACC
61365972 AAAAAAT-TTTTAAAAATAAA
1 AAAAAATATTTTAAAAATAAA
*
61365992 AAAAAGTATTTTAAAAATAAA
1 AAAAAATATTTTAAAAATAAA
61366013 AAA
1 AAA
61366016 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATATTTTAAAAATAAA
Found at i:61366199 original size:19 final size:19
Alignment explanation
Indices: 61366177--61366214 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
61366167 AATTTAATTT
*
61366177 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
61366196 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
61366215 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:61366344 original size:27 final size:27
Alignment explanation
Indices: 61366313--61366384 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
61366303 TACCGACATT
* *
61366313 CAATATTCATACAAAATTATAATATTA
1 CAATATTCATACAAAATTACAAAATTA
61366340 CAATATTCATACAAAATTACAAAATTA
1 CAATATTCATACAAAATTACAAAATTA
*
61366367 CAATATTCATATAAAATT
1 CAATATTCATACAAAATT
61366385 GCAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
CAATATTCATACAAAATTACAAAATTA
Found at i:61366517 original size:47 final size:48
Alignment explanation
Indices: 61366423--61366596 Score: 223
Period size: 47 Copynumber: 3.6 Consensus size: 48
61366413 TATAAATTAT
*
61366423 TTAT-ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATA
1 TTATAATTTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAATA
*
61366471 TTATAA-TTTGTATGAATATTGCAATTTTTTGTATGAATATTGTAATA
1 TTATAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATA
* **
61366518 TTATAATTTTGTATGAATATTGTAA-TGTCGGTAT--ATATTGTAATA
1 TTATAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATA
*
61366563 TTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 TTATAA--TTTTGTATGAATATTGTAATT-TTTT
61366597 ATAATTAATT
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
45 16 0.15
47 54 0.49
48 38 0.35
49 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (48 bp):
TTATAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATA
Found at i:61366539 original size:74 final size:69
Alignment explanation
Indices: 61366432--61366596 Score: 194
Period size: 74 Copynumber: 2.3 Consensus size: 69
61366422 TTTATATTTA
61366432 GTATGAATATTGT-A-ATTTTTTTGTATGAATATTGTAATAT-TATA-ATTTGTATGAATATTGC
1 GTATGAATATTGTAATATTTTTTTGTATGAATATTGTAATATGTATATA-TTG--T-AATATTGC
61366493 AATTTTTT
62 AATTTTTT
*
61366501 GTATGAATATTGTAATATTATAATTTTGTATGAATATTGTAATGTCGGTATATATTGTAATATTG
1 GTATGAATATTGTAATATT-T--TTTTGTATGAATATTGTAATAT--GTATATATTGTAATATTG
*
61366566 TAATTTTTT
61 CAATTTTTT
61366575 GTATGAATATTGTAATTATTTT
1 GTATGAATATTGTAA-TATTTT
61366597 ATAATTAATT
Statistics
Matches: 84, Mismatches: 2, Indels: 17
0.82 0.02 0.17
Matches are distributed among these distances:
69 13 0.15
70 1 0.01
71 3 0.04
72 2 0.02
74 52 0.62
75 5 0.06
77 7 0.08
78 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (69 bp):
GTATGAATATTGTAATATTTTTTTGTATGAATATTGTAATATGTATATATTGTAATATTGCAATT
TTTT
Found at i:61366661 original size:19 final size:19
Alignment explanation
Indices: 61366639--61366676 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
61366629 TATAAATTTA
*
61366639 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
61366658 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
61366677 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:61366934 original size:27 final size:28
Alignment explanation
Indices: 61366896--61366972 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
61366886 CCGGCCCGGC
*
61366896 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
61366923 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
61366950 CCATTGGCGCCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
61366973 GCCAATACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:61367042 original size:16 final size:16
Alignment explanation
Indices: 61367020--61367051 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
61367010 GAAAAAGTAA
61367020 AAAAAAATATTTTATTC
1 AAAAAAA-ATTTTATTC
61367037 AAAAAAAATTTTATT
1 AAAAAAAATTTTATT
61367052 ATTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAAAAATTTTATTC
Found at i:61373994 original size:9 final size:9
Alignment explanation
Indices: 61373982--61374016 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
61373972 TGAAGATGTT
61373982 GAAGGTTGA
1 GAAGGTTGA
61373991 GAAGGTTGA
1 GAAGGTTGA
61374000 GAAGGTTGA
1 GAAGGTTGA
61374009 GAAGGTTG
1 GAAGGTTG
61374017 TGAAACTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (9 bp):
GAAGGTTGA
Found at i:61385004 original size:27 final size:27
Alignment explanation
Indices: 61384954--61385007 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
61384944 TAGCAATGCT
61384954 CTTTACAGTTACAAGTATAAAACCTCA
1 CTTTACAGTTACAAGTATAAAACCTCA
61384981 CTTTACAGTTACAAGTATAAAACCTCA
1 CTTTACAGTTACAAGTATAAAACCTCA
61385008 GATTACATAG
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:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
CTTTACAGTTACAAGTATAAAACCTCA
Found at i:61385013 original size:27 final size:27
Alignment explanation
Indices: 61384956--61385014 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
61384946 GCAATGCTCT
*
61384956 TTACAGTTACAAGTATAAAACCTCACT
1 TTACAGTTACAAGTATAAAACCTCACA
*
61384983 TTACAGTTACAAGTATAAAACCTCAGA
1 TTACAGTTACAAGTATAAAACCTCACA
61385010 TTACA
1 TTACA
61385015 TAGAATTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
TTACAGTTACAAGTATAAAACCTCACA
Found at i:61393504 original size:18 final size:19
Alignment explanation
Indices: 61393481--61393521 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61393471 CATTGACTAT
*
61393481 AAAGAAAAACTAAAGGAA-
1 AAAGAAAAACAAAAGGAAG
*
61393499 AAAGAAAAAGAAAAGGAAG
1 AAAGAAAAACAAAAGGAAG
61393518 AAAG
1 AAAG
61393522 GAAGATGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (19 bp):
AAAGAAAAACAAAAGGAAG
Found at i:61400054 original size:62 final size:62
Alignment explanation
Indices: 61399988--61400161 Score: 233
Period size: 52 Copynumber: 3.0 Consensus size: 62
61399978 CACGTATCTC
61399988 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
*
61400050 ----TTCA-T-GCATTA-A---CATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* * * *
61400102 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACG
61400162 TCGAGTTTAG
Statistics
Matches: 96, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
52 40 0.42
55 1 0.01
56 8 0.08
57 1 0.01
58 9 0.09
59 1 0.01
62 36 0.38
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (62 bp):
TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
Found at i:61401880 original size:12 final size:13
Alignment explanation
Indices: 61401858--61401920 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
61401848 TACTTCACTT
61401858 GAAAAA-AAAAAA
1 GAAAAAGAAAAAA
*
61401870 CG-AAAAGAAAAAT
1 -GAAAAAGAAAAAA
61401883 GAAAAATGAAAAAA
1 GAAAAA-GAAAAAA
*
61401897 G-AAAATAAAAAA
1 GAAAAAGAAAAAA
61401909 GAAAAAGAAAAA
1 GAAAAAGAAAAA
61401921 GGAGAGGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 12 0.29
13 23 0.55
14 7 0.17
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.05
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:61401881 original size:6 final size:6
Alignment explanation
Indices: 61401858--61401921 Score: 60
Period size: 6 Copynumber: 10.2 Consensus size: 6
61401848 TACTTCACTT
*
61401858 GAAAAA AAAAAA CG-AAAA GAAAAA TGAAAAA TGAAAAAA GAAAATA -AAAAA
1 GAAAAA GAAAAA -GAAAAA GAAAAA -GAAAAA -G-AAAAA GAAAA-A GAAAAA
61401909 GAAAAA GAAAAA G
1 GAAAAA GAAAAA G
61401922 GAGAGGCCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
5 2 0.04
6 33 0.66
7 10 0.20
8 5 0.10
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:61402956 original size:88 final size:88
Alignment explanation
Indices: 61402807--61403470 Score: 527
Period size: 88 Copynumber: 7.5 Consensus size: 88
61402797 CGTAAATAGG
* *
61402807 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATACAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
61402872 CGAAGTAGATCGAAGGTAGCAGA
66 CGAAGTAGATCGAAGATAGCAGA
*
61402895 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAAATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
61402960 CGAAGTAGATTGCAGAAAGCAGA
66 CGAAGTAGATCGAAGATAGCAGA
* * * * * * * ** *
61402983 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCGGTCTTCCTATATTGGT
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGT
* * *
61403047 AG-GAAGTGGATCAAAGATA-CAGA
64 GGCGAAGTAGATCGAAGATAGCAGA
* * * * * * ***
61403070 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
* * *
61403134 CGTGAAGTAGATCGAAGGTAGCAGA
64 GGCGAAGTAGATCGAAGATAGCAGA
61403159 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
61403224 CGAAGTAGATTGCAGAAAGCAGA
66 CGAAGTAGATCGAAGATAGCAGA
* * * * * * * ** *
61403247 TCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCGGTCTTCCTATATTGGT
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGT
* * * * *
61403311 AG-GAAGTGGATTGACGAT-GTAGA
64 GGCGAAGTAGATCGAAGATAGCAGA
* * * * * * * * ***
61403334 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT--T
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
*
61403397 GGCGTGAAGTAGATCGAAGATTGCAGA
64 GGC--GAAGTAGATCGAAGATAGCAGA
* ** * * **
61403424 TCTTGCCTTCCTGTATTTGGCAGCGAAGAAGATCGAAGATGGCAGAT
1 TCCTATCTTCCTATA-TTGGTAG-GAAGTGGATCGAAGAT-GCAGAT
61403471 TTTACCTCCC
Statistics
Matches: 463, Mismatches: 96, Indels: 31
0.78 0.16 0.05
Matches are distributed among these distances:
86 2 0.00
87 64 0.14
88 276 0.60
89 80 0.17
90 17 0.04
91 24 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (88 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGAAGATAGCAGA
Found at i:61403073 original size:132 final size:132
Alignment explanation
Indices: 61402812--61403425 Score: 944
Period size: 132 Copynumber: 4.7 Consensus size: 132
61402802 ATAGGTCCTA
* * * * * *** * *
61402812 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGA
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGA
* *
61402875 AGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAAATC
65 AGTAGATCGAAGGTAGCAGATCCGATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
61402940 TTG
130 TTG
* *
61402943 TCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
* * *
61403008 GTAGATCGAAGGTAGCAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATCAAAGATACAGATCT
66 GTAGATCGAAGGTAGCAGATCCGATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCT
61403073 TG
131 TG
61403075 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
*
61403140 GTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCT
66 GTAGATCGAAGGTAGCAGATCCGATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCT
61403205 TG
131 TG
* *
61403207 TCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
* * * *
61403272 GTAGATCGAAGGTAGCAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATTGACGATGTAGATCT
66 GTAGATCGAAGGTAGCAGATCCGATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCT
61403337 TG
131 TG
* *
61403339 TCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTTGGCGTGA
1 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA-TTGGCGTGA
* *
61403404 AGTAGATCGAAGATTGCAGATC
65 AGTAGATCGAAGGTAGCAGATC
61403426 TTGCCTTCCT
Statistics
Matches: 444, Mismatches: 36, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 15 0.03
132 380 0.86
133 49 0.11
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (132 bp):
TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
GTAGATCGAAGGTAGCAGATCCGATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCT
TG
Found at i:61403550 original size:88 final size:91
Alignment explanation
Indices: 61403433--61403841 Score: 218
Period size: 88 Copynumber: 4.6 Consensus size: 91
61403423 ATCTTGCCTT
* * *
61403433 CCTGTATTTGGCAG-CGAAGAAGATCGAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGA
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGA
61403494 GTACATTGAAGCCGATAATTCTATCTC
65 GTACATTGAAGCCGATAATTCTATCTC
* * * * * * * *
61403521 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAG
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGAG
* * ** ** ** * *
61403586 CAGATCAAAGATGGCAGATTTTACCTC
66 TACATTGAAGCCGATA-ATTCTATCTC
* * * * * ** ** * * * * *
61403613 CCTG-A-CT-ACAGTGGAGTACATTAAAGCCGATA-ATTCTATCTCCCTGTATTTGGCAGTGGAA
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGAG
* ** * *
61403674 TAGATTGAAGATTGCA-GA-TCT-TGCCTT
66 TACATTGAAG-CCG-ATAATTCTAT--CTC
* * **
61403701 CCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGA
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGA
61403762 GTACATTGAAGCCGATAATTCTATCTC
65 GTACATTGAAGCCGATAATTCTATCTC
* * * *
61403789 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTAT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTAT
61403842 TTGGCAGCGA
Statistics
Matches: 224, Mismatches: 77, Indels: 38
0.66 0.23 0.11
Matches are distributed among these distances:
87 3 0.01
88 116 0.52
89 46 0.21
90 7 0.03
91 28 0.12
92 24 0.11
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (91 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGAG
TACATTGAAGCCGATAATTCTATCTC
Found at i:61403646 original size:134 final size:134
Alignment explanation
Indices: 61403390--61404099 Score: 1244
Period size: 134 Copynumber: 5.3 Consensus size: 134
61403380 CTTATCTTCA
* *
61403390 TGTATTTGGC-GT-GAAGTAGATCGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGA
1 TGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
*
61403453 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
65 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
61403518 CTCCC
130 CTCCC
61403523 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
*
61403588 GATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAATTCTATC
66 GATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
61403653 TCCC
131 TCCC
61403657 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
61403722 GATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
66 GATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
61403787 TCCC
131 TCCC
61403791 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
61403856 GATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
66 GATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
*
61403921 TCTC
131 TCCC
* * *
61403925 TGTATTTGGCAGTGGAATAGATTGAAGACTGCAGATCTTGCCTTCCTGTATTTAGCAACGAAGCA
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
* * * *
61403990 GATCGAAGATGGCAGGTTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCTA
66 GATCAAAGATGGCAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAATTCTA
61404055 TCTCCC
129 TCTCCC
* * *
61404061 TGTATTTGACAGTGGAATAGATCGAAGATTACAGATCTT
1 TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTT
61404100 ATCTCCCTAA
Statistics
Matches: 555, Mismatches: 18, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
133 10 0.02
134 468 0.84
135 3 0.01
136 74 0.13
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCA
GATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATC
TCCC
Found at i:61404286 original size:46 final size:46
Alignment explanation
Indices: 61404226--61404504 Score: 151
Period size: 46 Copynumber: 6.1 Consensus size: 46
61404216 ATAACTCTAT
*
61404226 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * *
61404272 CTTCCTGTATTTGGCAG-AGAAGCAGATCGAAGATGGCAGATTTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGA-TCTTAC
* * * ** * * *
61404319 CTCCCTG-ACTAT---AGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTA-TTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
61404361 CTCCCTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * * * *
61404407 CTTCCTGTTTTTGGCAG-CGAAGCGGATCGAAAATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* **** * * *
61404453 CTCCCTGCATTCAATAGTGGAATAGAGTGAAGATTACAGATCTTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
61404499 CTCCCT
1 CTCCCT
61404505 AAGTAGTAGT
Statistics
Matches: 163, Mismatches: 57, Indels: 26
0.66 0.23 0.11
Matches are distributed among these distances:
41 1 0.01
42 13 0.08
43 2 0.01
44 9 0.06
45 23 0.14
46 96 0.59
47 19 0.12
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:61404355 original size:135 final size:134
Alignment explanation
Indices: 61404174--61404459 Score: 500
Period size: 135 Copynumber: 2.1 Consensus size: 134
61404164 GACGAAACCA
*
61404174 CAGATTTTACCTCCCTGACTACAGTGAAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
1 CAGATTTTACCTCCCTGACTACAGTGAAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTG
*
61404239 GCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGAGAAGCAGATCGAAG
66 GCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGAGAAGCAGATCGAAA
61404304 ATGG
131 ATGG
* *
61404308 CAGATTTTTACCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCT
1 CAGA-TTTTACCTCCCTGACTACAGTGAAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCT
* * *
61404373 GGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTTTTTGGCAGCGAAGCGGATCGAA
65 GGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGAGAAGCAGATCGAA
61404438 AATGG
130 AATGG
61404443 CAGATTTTACCTCCCTG
1 CAGATTTTACCTCCCTG
61404460 CATTCAATAG
Statistics
Matches: 144, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 17 0.12
135 127 0.88
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (134 bp):
CAGATTTTACCTCCCTGACTACAGTGAAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTG
GCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGAGAAGCAGATCGAAA
ATGG
Found at i:61413529 original size:51 final size:51
Alignment explanation
Indices: 61413469--61413571 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
61413459 GGTTCGATAG
61413469 TAGATCAAATTACTCGTTGCAGAGGCATCACTGTCTACTCAGAATAAAGAT
1 TAGATCAAATTACTCGTTGCAGAGGCATCACTGTCTACTCAGAATAAAGAT
*
61413520 TAGATCAAATTACTCGTTGCCGAGGCATCACTGTCTACTCAGAATAAAGAT
1 TAGATCAAATTACTCGTTGCAGAGGCATCACTGTCTACTCAGAATAAAGAT
61413571 T
1 T
61413572 CGGTAATTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (51 bp):
TAGATCAAATTACTCGTTGCAGAGGCATCACTGTCTACTCAGAATAAAGAT
Found at i:61415740 original size:12 final size:12
Alignment explanation
Indices: 61415723--61415747 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61415713 CTCAAACTCA
61415723 ATCAATAATATT
1 ATCAATAATATT
61415735 ATCAATAATATT
1 ATCAATAATATT
61415747 A
1 A
61415748 AAAGTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATCAATAATATT
Done.