Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 41 of 52
Found at i:6728011 original size:22 final size:21
Alignment explanation
Indices: 6727962--6728014 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
6727952 TATTAATTTT
6727962 TATTTAAAT-TTAATTAAAAA
1 TATTTAAATATTAATTAAAAA
*
6727982 TATATAAATATTAA-TATAAAA
1 TATTTAAATATTAATTA-AAAA
6728003 TAATTTAAATAT
1 T-ATTTAAATAT
6728015 ATTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
21 9 0.32
22 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTAAATATTAATTAAAAA
Found at i:6728022 original size:21 final size:21
Alignment explanation
Indices: 6727963--6728026 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
6727953 ATTAATTTTT
* *
6727963 ATTTAAATTTAATTAAAAAT-
1 ATTTAAATATAATTTAAAATA
* *
6727983 ATATAAATATTAATATAAAATA
1 ATTTAAATA-TAATTTAAAATA
*
6728005 ATTTAAATATATTTTAAAATA
1 ATTTAAATATAATTTAAAATA
6728026 A
1 A
6728027 AAAAGTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 7 0.20
21 20 0.57
22 8 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTAAATATAATTTAAAATA
Found at i:6728524 original size:37 final size:37
Alignment explanation
Indices: 6728454--6728539 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
6728444 ATAAATTTTT
6728454 TATTATAATAAATAATAATTTAAATTAAATTAATTTA
1 TATTATAATAAATAATAATTTAAATTAAATTAATTTA
* *
6728491 TATTATAA-AAAGTAA-AATTTAAATTTAATTTAATCTA
1 TATTATAATAAA-TAATAATTTAAA-TTAAATTAATTTA
*
6728528 AATTA-AATAAAT
1 TATTATAATAAAT
6728540 TATTTAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 14 0.33
37 29 0.67
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (37 bp):
TATTATAATAAATAATAATTTAAATTAAATTAATTTA
Found at i:6728958 original size:35 final size:33
Alignment explanation
Indices: 6728919--6729041 Score: 114
Period size: 35 Copynumber: 3.8 Consensus size: 33
6728909 GACATCGCTC
6728919 AAAATATAAATAAAATATAATATAAATATTATATA
1 AAAATATAAATAAAATATAATATAAATA-TA-ATA
* * * *
6728954 AAAATAAAAATATATTATAAAATATAATATAATA
1 AAAATATAAATAAAATATAATATA-AATATAATA
*
6728988 AAAA-AT-AATAAAAT-TAATGTAAATATAA-A
1 AAAATATAAATAAAATATAATATAAATATAATA
**
6729017 AAAAT-TAAAT-TTATATAATATAAAT
1 AAAATATAAATAAAATATAATATAAAT
6729042 TATTAATATA
Statistics
Matches: 72, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
29 8 0.11
30 19 0.26
31 5 0.07
32 6 0.08
33 1 0.01
34 7 0.10
35 22 0.31
36 4 0.06
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (33 bp):
AAAATATAAATAAAATATAATATAAATATAATA
Found at i:6728964 original size:19 final size:19
Alignment explanation
Indices: 6728937--6729023 Score: 58
Period size: 19 Copynumber: 4.7 Consensus size: 19
6728927 AATAAAATAT
*
6728937 AATATAAATATTATATAAA
1 AATAAAAATATTATATAAA
6728956 AATAAAAATA-TAT-TATAA
1 AATAAAAATATTATATA-AA
* *
6728974 AAT-ATAATATAATA-AAA
1 AATAAAAATATTATATAAA
*
6728991 AATAATAAA-ATTAATGTAAA
1 AATAA-AAATATT-ATATAAA
* *
6729011 TATAAAAAAATTA
1 AATAAAAATATTA
6729024 AATTTATATA
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
17 12 0.23
18 14 0.26
19 17 0.32
20 10 0.19
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (19 bp):
AATAAAAATATTATATAAA
Found at i:6728965 original size:25 final size:25
Alignment explanation
Indices: 6728937--6729034 Score: 65
Period size: 26 Copynumber: 3.7 Consensus size: 25
6728927 AATAAAATAT
6728937 AATATAAATATTATATAAAAATAAA
1 AATATAAATATTATATAAAAATAAA
* **
6728962 AATATATTATAAAATATAATATAATAAAA
1 AATATA-AATATTATATAA-A-AAT-AAA
* *
6728991 AATAATAAA-ATTAATGTAAATATAAA
1 AAT-ATAAATATT-ATATAAAAATAAA
*
6729017 AAAATTAAAT-TTATATAA
1 AATA-TAAATATTATATAA
6729035 TATAAATTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
25 12 0.22
26 20 0.36
27 3 0.05
28 5 0.09
29 12 0.22
30 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (25 bp):
AATATAAATATTATATAAAAATAAA
Found at i:6728966 original size:30 final size:30
Alignment explanation
Indices: 6728926--6728994 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
6728916 CTCAAAATAT
*
6728926 AAATAAAATATAATAT-AAATATTATATAA
1 AAATAAAATATAATATAAAATATAATATAA
*
6728955 AAATAAAAATATATTATAAAATATAATATAA
1 AAAT-AAAATATAATATAAAATATAATATAA
*
6728986 TAA-AAAATA
1 AAATAAAATA
6728995 ATAAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.29
30 11 0.31
31 14 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAATAAAATATAATATAAAATATAATATAA
Found at i:6728977 original size:12 final size:12
Alignment explanation
Indices: 6728919--6729051 Score: 71
Period size: 12 Copynumber: 12.1 Consensus size: 12
6728909 GACATCGCTC
6728919 AAAATATAA-AT
1 AAAATATAATAT
6728930 AAAATATAATAT
1 AAAATATAATAT
6728942 -AAATAT--TAT
1 AAAATATAATAT
*
6728951 ATAA-A-AATA-
1 AAAATATAATAT
*
6728960 AAAATATATTAT
1 AAAATATAATAT
6728972 AAAATATAATAT
1 AAAATATAATAT
*
6728984 AATAA-AAAATAAT
1 AA-AATATAAT-AT
*
6728997 AAAAT-TAATGT
1 AAAATATAATAT
6729008 -AAATATAA-A-
1 AAAATATAATAT
6729017 AAAAT-TAA-AT
1 AAAATATAATAT
**
6729027 -TTATATAATAT
1 AAAATATAATAT
*
6729038 AAATTATTAATAT
1 AAAATA-TAATAT
6729051 A
1 A
6729052 TTAAAATTAT
Statistics
Matches: 92, Mismatches: 13, Indels: 32
0.67 0.09 0.23
Matches are distributed among these distances:
9 13 0.14
10 16 0.17
11 24 0.26
12 26 0.28
13 13 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.35
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:6729060 original size:17 final size:16
Alignment explanation
Indices: 6729018--6729089 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
6729008 AAATATAAAA
*
6729018 AAAT-TAAATTTATAT
1 AAATATAAAATTATAT
6729033 -AATAT-AAATTAT-T
1 AAATATAAAATTATAT
6729046 AATATATTAAAATTATAT
1 AA-ATA-TAAAATTATAT
*
6729064 AAATATAAAA-TATTTT
1 AAATATAAAATTA-TAT
6729080 AAATATAAAA
1 AAATATAAAA
6729090 AAACTCCTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
13 1 0.02
14 10 0.21
15 6 0.12
16 18 0.38
17 10 0.21
18 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATAAAATTATAT
Found at i:6730448 original size:5 final size:5
Alignment explanation
Indices: 6730438--6730485 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
6730428 AAATAATTAA
* *
6730438 AATAT AATAT AATAT AATAT AA-AA AATAT AA-AT AAAAT AA-AT -ATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
6730484 AA
1 AA
6730486 AAACTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 1 0.03
4 11 0.30
5 25 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (5 bp):
AATAT
Found at i:6730458 original size:15 final size:14
Alignment explanation
Indices: 6730428--6730486 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
6730418 CAATTATGAA
*
6730428 AAATAATTAAAATAT
1 AAATAA-TATAATAT
6730443 AATATAATATAATAT
1 AA-ATAATATAATAT
*
6730458 AAAAAATATAA-AT
1 AAATAATATAATAT
6730471 AAAATAA-AT-ATAT
1 -AAATAATATAATAT
6730484 AAA
1 AAA
6730487 AACTTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 4 0.11
13 6 0.16
14 13 0.34
15 11 0.29
16 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAATATAATAT
Found at i:6730463 original size:24 final size:25
Alignment explanation
Indices: 6730428--6730488 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
6730418 CAATTATGAA
* *
6730428 AAATA-ATTAAAATAT-AATATAAT
1 AAATATATAAAAATATAAATAAAAT
6730451 ATAATATA-AAAAATATAAATAAAAT
1 A-AATATATAAAAATATAAATAAAAT
6730476 AAATATATAAAAA
1 AAATATATAAAAA
6730489 CTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 1 0.03
24 17 0.53
25 14 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATATATAAAAATATAAATAAAAT
Found at i:6730465 original size:19 final size:18
Alignment explanation
Indices: 6730443--6730478 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6730433 ATTAAAATAT
*
6730443 AATATAATATAATATAAAA
1 AATATAA-ATAAAATAAAA
6730462 AATATAAATAAAATAAA
1 AATATAAATAAAATAAA
6730479 TATATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AATATAAATAAAATAAAA
Found at i:6731348 original size:2 final size:2
Alignment explanation
Indices: 6731341--6731374 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6731331 CTATGATCCC
6731341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6731375 ATAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6732296 original size:19 final size:19
Alignment explanation
Indices: 6732262--6732303 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6732252 TAATATAAAT
6732262 TTTTAAAAATAAATCAATC
1 TTTTAAAAATAAATCAATC
*
6732281 ATTTTAAAAA-ATATCAATC
1 -TTTTAAAAATAAATCAATC
6732300 TTTT
1 TTTT
6732304 TGTATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 9 0.43
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTTAAAAATAAATCAATC
Found at i:6732304 original size:19 final size:20
Alignment explanation
Indices: 6732261--6732304 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
6732251 GTAATATAAA
6732261 TTTTTAAAAATAAATCAATC
1 TTTTTAAAAATAAATCAATC
* *
6732281 ATTTTAAAAA-ATATCAATC
1 TTTTTAAAAATAAATCAATC
6732300 TTTTT
1 TTTTT
6732305 GTATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTTAAAAATAAATCAATC
Found at i:6733534 original size:15 final size:15
Alignment explanation
Indices: 6733514--6733544 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6733504 AATTGTTAAT
6733514 TAATTTAAATCTAAA
1 TAATTTAAATCTAAA
*
6733529 TAATTTAAATTTAAA
1 TAATTTAAATCTAAA
6733544 T
1 T
6733545 TATTAATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTTAAATCTAAA
Found at i:6734008 original size:16 final size:16
Alignment explanation
Indices: 6733995--6734024 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6733985 TTTAATTTTT
6733995 AAAATATTTTATTTAA
1 AAAATATTTTATTTAA
6734011 AAAATA-TTTATTTA
1 AAAATATTTTATTTA
6734025 TGTTCGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATATTTTATTTAA
Found at i:6745499 original size:24 final size:22
Alignment explanation
Indices: 6745474--6745518 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6745464 AATATTTAAA
*
6745474 TAATATATTT-TATATCTATTT
1 TAATAAATTTATATATCTATTT
*
6745495 TAATAAATTTATATATTTATTT
1 TAATAAATTTATATATCTATTT
6745517 TA
1 TA
6745519 TATTCATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATAAATTTATATATCTATTT
Found at i:6745527 original size:17 final size:17
Alignment explanation
Indices: 6745506--6745545 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6745496 AATAAATTTA
6745506 TATATTTA-TTTTATAT
1 TATATTTATTTTTATAT
*
6745522 TCATATATATTTTTATAT
1 T-ATATTTATTTTTATAT
6745540 TATATT
1 TATATT
6745546 ATACATCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.50
18 9 0.45
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTTATTTTTATAT
Found at i:6746073 original size:18 final size:18
Alignment explanation
Indices: 6746052--6746108 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
6746042 TTAATAATTT
6746052 AAATATTATAAATTTATA
1 AAATATTATAAATTTATA
* *
6746070 AAATATAAATATAATTTAAA
1 AAATAT-TATA-AATTTATA
*
6746090 AAATAATTA-AAATATATA
1 AAAT-ATTATAAATTTATA
6746108 A
1 A
6746109 TATAACAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 13 0.42
19 4 0.13
20 12 0.39
21 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATATTATAAATTTATA
Found at i:6746121 original size:30 final size:27
Alignment explanation
Indices: 6746066--6746132 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
6746056 ATTATAAATT
*
6746066 TATAAAATATAAATATAATTTAAAAAATAA
1 TATAAAATATAAATATAA--CAAAAAA-AA
6746096 T-TAAAATATATAATATAACAAAAAAAA
1 TATAAAATATA-AATATAACAAAAAAAA
6746123 TATAAAATAT
1 TATAAAATAT
6746133 TCATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 3 0.09
28 14 0.41
29 9 0.26
30 8 0.24
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (27 bp):
TATAAAATATAAATATAACAAAAAAAA
Found at i:6749663 original size:45 final size:45
Alignment explanation
Indices: 6749612--6750215 Score: 535
Period size: 45 Copynumber: 12.6 Consensus size: 45
6749602 AACTGGTGGC
6749612 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * * * * * *
6749657 TTCTTTGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGT-TC-TGGCTTC-T---CT
* *
6749708 GGAGGCTTCTTTGGAGGTTCATAGACTGGTGGTTTTGGTTCTGGCTTCTCT
1 ------TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
** * * *
6749759 TTCTTTGGAGGTGAATAAACTGGTGGCTTTGGTGGCTTAGG-TTCATACACTGGTGGT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGT-TC-T-GGCTTC-T---C------T
* * *
6749816 TTCTTGGGGGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
6749861 TTCTTTGGATGGTTCATAGACCTGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGA-GGTTCATAGA-CTGGTGGCTTGGGTTCTGGCTTCTCT
* * *
6749908 TTCTTGGGTGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * * *
6749953 TTCTTGGGTGGTTCATAGACCGGTGGCTTGGCTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * * *
6749998 TTCTTGGGTGGTTCATAGACCGGTGGCTTGGCTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * * * *
6750043 TTCTTGGGTGGTTCATAGACCGGTGGCTTGTGTTCTGGCTTTTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
*
6750088 TTCTTTGGAGGTTCATAGACTGGTGGCTTGTGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * *
6750133 TTCTTTGGAGGCTCGTAGACTGGAGGCTTAGGTGGCTTAGGCTCCGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTT--G-GG-TT---CT--GGCTTCTCT
*
6750187 TTCTTTGGAGGTTCATAGACTGGAGGCTT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTT
6750216 AGGCGGCTTA
Statistics
Matches: 475, Mismatches: 47, Indels: 65
0.81 0.08 0.11
Matches are distributed among these distances:
45 288 0.61
46 22 0.05
47 43 0.09
48 5 0.01
49 2 0.00
51 6 0.01
52 2 0.00
54 40 0.08
55 10 0.02
56 2 0.00
57 55 0.12
ACGTcount: A:0.10, C:0.19, G:0.32, T:0.40
Consensus pattern (45 bp):
TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
Found at i:6749716 original size:102 final size:102
Alignment explanation
Indices: 6749603--6750071 Score: 461
Period size: 102 Copynumber: 4.8 Consensus size: 102
6749593 TGGCTAATAA
* *
6749603 ACTGGTGGCTTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGGGGG
1 ACTGGTGGCTTCTTGGGAGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGGGGG
*
6749668 CTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATAC
66 TTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATAC
* * * * * *
6749705 ACTGGAGGCTTCTTTGGAGGTTCATAGACTGGTGGTTTTGGTTCTGGCTTCTCTTTCTTTGGAGG
1 ACTGGTGGCTTCTTGGGAGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGGGGG
** * *
6749770 TGAATAAACTGGTGGCTTTGGTGGCTTAGGTTCATAC
66 TTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATAC
* * *
6749807 ACTGGTGGTTTCTTGGGGGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGGATG
1 ACTGGTGGCTTCTTGGGAGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGG-GG
* * * *
6749872 GTTCATAGACCTGGTGGCTTGGGT-TC-TGGCTTC-T--
65 GTTCATAAACC-GGTGGCTTTGGTGGCTTGGGTTCATAC
*
6749906 -C---T---TTCTTGGGTGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTC-TTGGGTG
1 ACTGGTGGCTTCTTGGGAGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGGG-G
* * *
6749963 GTTCATAGACCGGTGGC-TTGGCT-TC-TGGCTTC-T--
65 GTTCATAAACCGGTGGCTTTGG-TGGCTTGGGTTCATAC
* *
6749996 -C---T---TTCTTGGGTGGTTCATAGACCGGTGGCTTGGCTTCTGGCTTCTCTTTC-TTGGGTG
1 ACTGGTGGCTTCTTGGGAGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGGG-G
*
6750053 GTTCATAGACCGGTGGCTT
65 GTTCATAAACCGGTGGCTT
6750072 GTGTTCTGGC
Statistics
Matches: 333, Mismatches: 29, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
89 3 0.01
90 90 0.27
91 17 0.05
92 47 0.14
95 1 0.00
98 1 0.00
101 1 0.00
102 153 0.46
103 9 0.03
104 11 0.03
ACGTcount: A:0.10, C:0.19, G:0.33, T:0.39
Consensus pattern (102 bp):
ACTGGTGGCTTCTTGGGAGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTTTCTTTGGGGG
TTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATAC
Found at i:6749739 original size:57 final size:55
Alignment explanation
Indices: 6749657--6749844 Score: 144
Period size: 57 Copynumber: 3.5 Consensus size: 55
6749647 TGGCTTCTCT
* *
6749657 TTCTTTGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACTGGAGG
1 TTCTTTGGAGGTTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACTGG-GG
* * * * *
6749713 CTTCTTTGGAGGTTCATAGACTGGTGGTTTTGGT-TC-TGGCTTC-T---CT----
1 -TTCTTTGGAGGTTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACTGGGG
** * *
6749759 TTCTTTGGAGGTGAATAAACTGGTGGCTTTGGTGGCTTAGGTTCATACACTGGTGG
1 TTCTTTGGAGGTTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACTGG-GG
* * *
6749815 TTTCTTGGGGGGTTCATAGACCGGTGGCTT
1 -TTCTTTGGAGGTTCATAAACCGGTGGCTT
6749845 GGGTTCTGGC
Statistics
Matches: 99, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
45 29 0.29
46 1 0.01
47 5 0.05
48 1 0.01
51 4 0.04
54 1 0.01
55 6 0.06
56 1 0.01
57 51 0.52
ACGTcount: A:0.13, C:0.16, G:0.34, T:0.37
Consensus pattern (55 bp):
TTCTTTGGAGGTTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACTGGGG
Found at i:6750182 original size:54 final size:54
Alignment explanation
Indices: 6750124--6750269 Score: 204
Period size: 54 Copynumber: 2.7 Consensus size: 54
6750114 CTTGTGTTCT
* *
6750124 GGCTTCTCTTTCTTTGGAGGCTCGTAGACTGGAGGCTTAGGTGGCTTAGGCTCC
1 GGCTTCTCTTTCTTTGGAGGCTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCC
* *
6750178 GGCTTCTCTTTCTTTGGAGGTTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCT
1 GGCTTCTCTTTCTTTGGAGGCTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCC
* * * *
6750232 GGCTTCTCCTTT-TTTGGTGGTTCATAGACAGGGGGCTT
1 GGCTTCT-CTTTCTTTGGAGGCTCATAGACTGGAGGCTT
6750270 CTTTGGTGGT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 80 0.95
55 4 0.05
ACGTcount: A:0.12, C:0.21, G:0.32, T:0.36
Consensus pattern (54 bp):
GGCTTCTCTTTCTTTGGAGGCTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCC
Found at i:6752745 original size:2 final size:2
Alignment explanation
Indices: 6752734--6752772 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
6752724 GGAAGCTTCT
*
6752734 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6752773 AAAGGTAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6753202 original size:16 final size:16
Alignment explanation
Indices: 6753170--6753216 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6753160 TAATTTTATT
6753170 ATTTTTA-TATTTATAA
1 ATTTTTATTATTT-TAA
6753186 ATTTTTATTATTTTAA
1 ATTTTTATTATTTTAA
** *
6753202 ACATATATTATTTTA
1 ATTTTTATTATTTTA
6753217 TATATCACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTATTATTTTAA
Found at i:6764086 original size:19 final size:19
Alignment explanation
Indices: 6764033--6764203 Score: 80
Period size: 19 Copynumber: 9.3 Consensus size: 19
6764023 TTAACCGTTT
6764033 TATTATATTTAATAATTTATA
1 TATTATATTT-AT-ATTTATA
** *
6764054 TATT-TATAAAATATTTTTA
1 TATTATAT-TTATATTTATA
6764073 TATTATATTTATATTTA-A
1 TATTATATTTATATTTATA
* *
6764091 -AATATA-ATATATTTATA
1 TATTATATTTATATTTATA
** *
6764108 -AAAAT-TTTAATATTTAAA
1 TATTATATTT-ATATTTATA
6764126 TAATTA-ATTT-T-TTTATA
1 T-ATTATATTTATATTTATA
* * *
6764143 TATTTTA-ATAAATTTATA
1 TATTATATTTATATTTATA
6764161 TATT-TATTTAATATTTATA
1 TATTATATTT-ATATTTATA
*
6764180 TATT-TTTTTATATTGTAT-
1 TATTATATTTATATT-TATA
6764198 TATTAT
1 TATTAT
6764204 CACTTCGTGT
Statistics
Matches: 115, Mismatches: 20, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
16 12 0.10
17 20 0.17
18 30 0.26
19 36 0.31
20 13 0.11
21 4 0.03
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (19 bp):
TATTATATTTATATTTATA
Found at i:6764086 original size:46 final size:45
Alignment explanation
Indices: 6764035--6764121 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 45
6764025 AACCGTTTTA
* *
6764035 TTATATTTAATAAT-TTATATATTTATAAAATATTTTTATATTATAT
1 TTATATTTAA-AATATAATATATTTATAAAA-ATTTTAATATTATAT
6764081 TTATATTTAAAATATAATATATTTATAAAAATTTTAATATT
1 TTATATTTAAAATATAATATATTTATAAAAATTTTAATATT
6764122 TAAATAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
45 13 0.34
46 25 0.66
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (45 bp):
TTATATTTAAAATATAATATATTTATAAAAATTTTAATATTATAT
Found at i:6764201 original size:18 final size:19
Alignment explanation
Indices: 6764033--6764193 Score: 83
Period size: 18 Copynumber: 8.8 Consensus size: 19
6764023 TTAACCGTTT
6764033 TATTATATTTAATAATTTATA
1 TATT-TATTTAAT-ATTTATA
** *
6764054 TATTTATAAAATATTTTTA
1 TATTTATTTAATATTTATA
6764073 TATTATATTT-ATATTTA-A
1 TATT-TATTTAATATTTATA
* * *
6764091 AATATA-AT-ATATTTATA
1 TATTTATTTAATATTTATA
* ** *
6764108 AAAAT-TTTAATATTTAAA
1 TATTTATTTAATATTTATA
*
6764126 TAATTAATTT--T-TTTATA
1 T-ATTTATTTAATATTTATA
*
6764143 TATTT-TAATAA-ATTTATA
1 TATTTAT-TTAATATTTATA
6764161 TATTTATTTAATATTTATA
1 TATTTATTTAATATTTATA
*
6764180 TATTT-TTTTATATT
1 TATTTATTTAATATT
6764194 GTATTATTAT
Statistics
Matches: 107, Mismatches: 21, Indels: 27
0.69 0.14 0.17
Matches are distributed among these distances:
15 1 0.01
16 12 0.11
17 14 0.13
18 34 0.32
19 30 0.28
20 12 0.11
21 4 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTATTTAATATTTATA
Found at i:6768653 original size:45 final size:45
Alignment explanation
Indices: 6768602--6769260 Score: 487
Period size: 45 Copynumber: 13.6 Consensus size: 45
6768592 AACTGGTGGC
6768602 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * * * * * *
6768647 TTCTTTGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGT-TC-TGGCTTC-T---CT
6768698 GGAGGCTTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
1 ------TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * * * *
6768749 TTCTTTGGGGGTGT-ATAAACCGGTGGCTTTGGTGGCTTAGG-TTCATACACTGGTGGT
1 TTCTTTGGAGGT-TCATAGACTGGTGGCTTGGGT-TC-T-GGCTTC-T---C------T
* * * *
6768806 TTCTTGGGGGGTTCATAGACTGGTGGTTTTGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
*** * * *
6768851 TTCTTTGGAGGAGAATAAACTGGTGGCTTTGGTGGCTTAGG-TTCATACACTGGTGGT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGT-TC-T-GGCTTC-T---C------T
* * *
6768908 TTCTTGGGGGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTTTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
*
6768953 TTCTTTGGAGGCTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * *
6768998 TTCTTGGGTGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * *
6769043 TTCTTGGGTGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * * * *
6769088 TTCTTGGGTGGTTCATAGACCGGTGGCTTGTGTTCTGGCTTTTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
*
6769133 TTCTTTGGAGGTTCATAGACTGGTGGCTTGTGTTCTGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * *
6769178 TTCTTTGGAGGCTCGTAGACTGGAGGCTTAGGTGGCTTAGGCTCCGGCTTCTCT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTT--G-GG-TT---CT--GGCTTCTCT
*
6769232 TTCTTTGGAGGTTCATAGACTGGAGGCTT
1 TTCTTTGGAGGTTCATAGACTGGTGGCTT
6769261 AGGCGGCTTA
Statistics
Matches: 502, Mismatches: 61, Indels: 93
0.77 0.09 0.14
Matches are distributed among these distances:
45 320 0.64
46 4 0.01
47 15 0.03
48 8 0.02
49 2 0.00
51 8 0.02
52 2 0.00
54 43 0.09
55 13 0.03
56 4 0.01
57 83 0.17
ACGTcount: A:0.10, C:0.17, G:0.33, T:0.39
Consensus pattern (45 bp):
TTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
Found at i:6768705 original size:102 final size:102
Alignment explanation
Indices: 6768587--6768981 Score: 585
Period size: 102 Copynumber: 3.9 Consensus size: 102
6768577 ATAAGGTGGC
* *
6768587 TCATAAACTGGTGGCTTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTT
1 TCATACACTGGTGGCTTCTTGGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTT
*
6768652 TGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTGGGT
66 TGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTAGGT
* *
6768689 TCATACACTGGAGGCTTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTT
1 TCATACACTGGTGGCTTCTTGGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTT
*
6768754 TGGGGG-TGTATAAACCGGTGGCTTTGGTGGCTTAGGT
66 TGGGGGCT-CATAAACCGGTGGCTTTGGTGGCTTAGGT
* * * *
6768791 TCATACACTGGTGGTTTCTTGGGGGGTTCATAGACTGGTGGTTTTGGTTCTGGCTTCTCTTTCTT
1 TCATACACTGGTGGCTTCTTGGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTT
* *** *
6768856 TGGAGGAGAATAAACTGGTGGCTTTGGTGGCTTAGGT
66 TGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTAGGT
* * *
6768893 TCATACACTGGTGGTTTCTTGGGGGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTTTCTTTCTT
1 TCATACACTGGTGGCTTCTTGGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTT
* * *
6768958 TGGAGGCTCATAGACTGGTGGCTT
66 TGGGGGCTCATAAACCGGTGGCTT
6768982 GGGTTCTGGC
Statistics
Matches: 270, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
101 1 0.00
102 269 1.00
ACGTcount: A:0.12, C:0.16, G:0.33, T:0.38
Consensus pattern (102 bp):
TCATACACTGGTGGCTTCTTGGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTCTT
TGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTAGGT
Found at i:6768729 original size:57 final size:55
Alignment explanation
Indices: 6768647--6768936 Score: 181
Period size: 57 Copynumber: 5.5 Consensus size: 55
6768637 TGGCTTCTCT
* *
6768647 TTCTTTGGGGGCTCATAAACCGGTGGCTTTGGTGGCTTGGGTTCATACACTGGAGG
1 TTCTTTGGGGGTTCATAAACTGGTGGCTTTGGTGGCTTGGGTTCATACACTGG-GG
* * * * *
6768703 CTTCTTTGGAGGTTCATAGACTGGTGGCTTGGGT-TC-TGGCTTC-T---CT----
1 -TTCTTTGGGGGTTCATAAACTGGTGGCTTTGGTGGCTTGGGTTCATACACTGGGG
* *
6768749 TTCTTTGGGGGTGT-ATAAACCGGTGGCTTTGGTGGCTTAGGTTCATACACTGGTGG
1 TTCTTTGGGGGT-TCATAAACTGGTGGCTTTGGTGGCTTGGGTTCATACACTGG-GG
* * * * *
6768805 TTTCTTGGGGGGTTCATAGACTGGTGGTTTTGGT-TC-TGGCTTC-T---CT----
1 -TTCTTTGGGGGTTCATAAACTGGTGGCTTTGGTGGCTTGGGTTCATACACTGGGG
* *** *
6768851 TTCTTTGGAGGAGAATAAACTGGTGGCTTTGGTGGCTTAGGTTCATACACTGGTGG
1 TTCTTTGGGGGTTCATAAACTGGTGGCTTTGGTGGCTTGGGTTCATACACTGG-GG
* *
6768907 TTTCTTGGGGGGTTCATAGACTGGTGGCTT
1 -TTCTTTGGGGGTTCATAAACTGGTGGCTT
6768937 GGGTTCTGGC
Statistics
Matches: 170, Mismatches: 37, Indels: 52
0.66 0.14 0.20
Matches are distributed among these distances:
45 53 0.31
46 3 0.02
47 10 0.06
48 2 0.01
51 8 0.05
54 2 0.01
55 11 0.06
56 3 0.02
57 78 0.46
ACGTcount: A:0.13, C:0.16, G:0.34, T:0.38
Consensus pattern (55 bp):
TTCTTTGGGGGTTCATAAACTGGTGGCTTTGGTGGCTTGGGTTCATACACTGGGG
Found at i:6768737 original size:21 final size:21
Alignment explanation
Indices: 6768676--6768738 Score: 54
Period size: 27 Copynumber: 2.7 Consensus size: 21
6768666 CCGGTGGCTT
6768676 TGGTGGCTTGGGTTCATACAC
1 TGGTGGCTTGGGTTCATACAC
* *
6768697 TGGAGGCTTCTTTGGAGGTTCATAGAC
1 TGGTGG---C-TT-G-GGTTCATACAC
6768724 TGGTGGCTTGGGTTC
1 TGGTGGCTTGGGTTC
6768739 TGGCTTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
21 10 0.30
22 1 0.03
23 2 0.06
24 2 0.06
25 2 0.06
26 1 0.03
27 15 0.45
ACGTcount: A:0.13, C:0.16, G:0.37, T:0.35
Consensus pattern (21 bp):
TGGTGGCTTGGGTTCATACAC
Found at i:6768937 original size:24 final size:25
Alignment explanation
Indices: 6768890--6768939 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
6768880 TGGTGGCTTA
6768890 GGTTCATACACTGGTGGTTTCTTGGGG
1 GGTTCATACACTGGTGG--TCTTGGGG
*
6768917 GGTTCATAGACTGGTGG-CTTGGG
1 GGTTCATACACTGGTGGTCTTGGG
6768940 TTCTGGCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
27 16 0.73
ACGTcount: A:0.12, C:0.14, G:0.40, T:0.34
Consensus pattern (25 bp):
GGTTCATACACTGGTGGTCTTGGGG
Found at i:6769008 original size:102 final size:99
Alignment explanation
Indices: 6768583--6769162 Score: 528
Period size: 102 Copynumber: 5.9 Consensus size: 99
6768573 GGCCATAAGG
*
6768583 TGGC-TCATAAACTGGTGGCTTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
1 TGGCTTCATACACTGGTGG-TTC-TTGG-GGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* *
6768647 TTCTTTGGGGGCTCATAAACCGGTGGCTTTGGTGGCT
63 TTCTTTGGAGGCTCATAAACCGGTGGCTTGGGTGGCT
* *
6768684 TGGGTTCATACACTGGAGGCTTCTTTGGAGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
1 TGGCTTCATACACTGGTGG-TTC-TTGG-GGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCT
* * *
6768749 TTCTTTGG-GGGTGTATAAACCGGTGGCTTTGGTGGCT
63 TTCTTTGGAGGCT-CATAAACCGGTGGCTTGGGTGGCT
* *
6768786 TAGG-TTCATACACTGGTGGTTTCTTGGGGGGTTCATAGACTGGTGGTTTTGGTTCTGGCTTCTC
1 T-GGCTTCATACACTGGTGG-TTCTT--GGGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTC
*** * *
6768850 TTTCTTTGGAGGAGAATAAACTGGTGGCTTTGGTGGCT
62 TTTCTTTGGAGGCTCATAAACCGGTGGCTTGGGTGGCT
*
6768888 TAGG-TTCATACACTGGTGGTTTCTTGGGGGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTTTC
1 T-GGCTTCATACACTGGTGG-TTCTT--GGGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTC
* * *
6768952 TTTCTTTGGAGGCTCATAGACTGGTGGCTTGGGT-TC-
62 TTTCTTTGGAGGCTCATAAACCGGTGGCTTGGGTGGCT
*
6768988 TGGCTTC-T---C---T--TTCTTGGGTGGTTCATAGACCGGTGGCTTGGGTTCTGGCTTCTCTT
1 TGGCTTCATACACTGGTGGTTCTT-GG-GGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTT
* * * * *
6769044 TCTTGGGTGGTTCATAGACCGGTGGCTTGGGT-TC-
64 TCTTTGGAGGCTCATAAACCGGTGGCTTGGGTGGCT
* * *
6769078 TGGCTTC-T---C---T--TTCTTGGGTGGTTCATAGACCGGTGGCTTGTGTTCTGGCTTTTCTT
1 TGGCTTCATACACTGGTGGTTCTT-GG-GGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTT
* * *
6769134 TCTTTGGAGGTTCATAGACTGGTGGCTTG
64 TCTTTGGAGGCTCATAAACCGGTGGCTTG
6769163 TGTTCTGGCT
Statistics
Matches: 438, Mismatches: 33, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
89 3 0.01
90 150 0.34
93 1 0.00
96 1 0.00
99 3 0.01
100 4 0.01
101 9 0.02
102 261 0.60
103 6 0.01
ACGTcount: A:0.11, C:0.17, G:0.33, T:0.39
Consensus pattern (99 bp):
TGGCTTCATACACTGGTGGTTCTTGGGGTTCATAGACTGGTGGCTTGGGTTCTGGCTTCTCTTTC
TTTGGAGGCTCATAAACCGGTGGCTTGGGTGGCT
Found at i:6769227 original size:54 final size:54
Alignment explanation
Indices: 6769169--6769314 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 54
6769159 CTTGTGTTCT
* *
6769169 GGCTTCTCTTTCTTTGGAGGCTCGTAGACTGGAGGCTTAGGTGGCTTAGGCTCC
1 GGCTTCTCTTTCTTTGGAGGCTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCC
* *
6769223 GGCTTCTCTTTCTTTGGAGGTTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCT
1 GGCTTCTCTTTCTTTGGAGGCTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCC
* * * * *
6769277 GGCTTCTCTTTTTTTGGTGGTTCATAGACAGGGGGCTT
1 GGCTTCTCTTTCTTTGGAGGCTCATAGACTGGAGGCTT
6769315 CTTTGGTGGT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.12, C:0.20, G:0.32, T:0.36
Consensus pattern (54 bp):
GGCTTCTCTTTCTTTGGAGGCTCATAGACTGGAGGCTTAGGCGGCTTAGGCTCC
Found at i:6770815 original size:21 final size:23
Alignment explanation
Indices: 6770791--6770843 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
6770781 ATTGTACCTT
6770791 AGCTGC-CCA-AGTTTCAGAAAA
1 AGCTGCACCACAGTTTCAGAAAA
*
6770812 AGCTGCACTATCAGTTTCAGAAAA
1 AGCTGCACCA-CAGTTTCAGAAAA
6770836 AGCTGCAC
1 AGCTGCAC
6770844 TATCTTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.21
22 2 0.07
24 20 0.71
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (23 bp):
AGCTGCACCACAGTTTCAGAAAA
Found at i:6770829 original size:24 final size:24
Alignment explanation
Indices: 6770800--6770847 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6770790 TAGCTGCCCA
6770800 AGTTTCAGAAAAAGCTGCACTATC
1 AGTTTCAGAAAAAGCTGCACTATC
6770824 AGTTTCAGAAAAAGCTGCACTATC
1 AGTTTCAGAAAAAGCTGCACTATC
6770848 TTTCCATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
AGTTTCAGAAAAAGCTGCACTATC
Found at i:6772029 original size:15 final size:15
Alignment explanation
Indices: 6772009--6772038 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6771999 TTTCATGAGC
6772009 AATCCTTATTGATTA
1 AATCCTTATTGATTA
6772024 AATCCTTATTGATTA
1 AATCCTTATTGATTA
6772039 GACGTTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
AATCCTTATTGATTA
Found at i:6774105 original size:2 final size:2
Alignment explanation
Indices: 6774098--6774132 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6774088 CAATCATCTC
6774098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6774133 GCGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6775901 original size:23 final size:23
Alignment explanation
Indices: 6775858--6775903 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6775848 ATCATATCAG
**
6775858 TTTATATATTTTATCGTATTTTA
1 TTTATATATTTTATCAAATTTTA
6775881 TTTATATATTTATAT-AAATTTTA
1 TTTATATATTT-TATCAAATTTTA
6775904 ATATGTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTATATATTTTATCAAATTTTA
Found at i:6775985 original size:16 final size:15
Alignment explanation
Indices: 6775966--6776003 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
6775956 TTTTAAAATA
6775966 TTTATATTTATATTTT
1 TTTATATTTAT-TTTT
6775982 TTTATA-TTATTTTT
1 TTTATATTTATTTTT
6775996 TTTCATAT
1 TTT-ATAT
6776004 CTAATATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.35
15 7 0.35
16 6 0.30
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATATTTATTTTT
Found at i:6776795 original size:28 final size:30
Alignment explanation
Indices: 6776741--6776799 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
6776731 GACAAATTAA
* *
6776741 AATATAAGTACTAAATTGAGAATAAAAATT
1 AATATAAGTACTAAAGTGAGAAAAAAAATT
*
6776771 AATA-AAGTACTTAAGTGA-AAAAAAAATT
1 AATATAAGTACTAAAGTGAGAAAAAAAATT
6776799 A
1 A
6776800 GGGGTTACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 10 0.38
29 12 0.46
30 4 0.15
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.27
Consensus pattern (30 bp):
AATATAAGTACTAAAGTGAGAAAAAAAATT
Found at i:6777019 original size:2 final size:2
Alignment explanation
Indices: 6777007--6777036 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6776997 ACATTGTTGG
6777007 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6777037 TGAAATGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6779233 original size:219 final size:219
Alignment explanation
Indices: 6778171--6779222 Score: 1820
Period size: 219 Copynumber: 4.8 Consensus size: 219
6778161 AGGCCTGTGC
* * * * *
6778171 GGTGGGTTCTCATGTCGGAAACTTGATGGCTCAAGTTCATGTGGAGGCTTATGGGGAGGCCTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
* * * *
6778236 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGTGGTTTATGATTGTCCTCCACATCCT
66 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
*
6778301 CACTCAAGAGGCGTCTGTGAGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
6778366 TTGTGTTCTGGGAATGGCTTCTTG
196 TTGTGTTCTGGGAATGGCTTCTTG
*
6778390 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGATTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
6778455 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
66 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
6778520 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
6778585 TTGTGTTCTGGGAATGGCTTCTTG
196 TTGTGTTCTGGGAATGGCTTCTTG
6778609 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
6778674 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
66 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
6778739 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
6778804 TTGTGTTCTGGGAATGGCTTCTTG
196 TTGTGTTCTGGGAATGGCTTCTTG
6778828 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
*
6778893 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTGTGAGTGTCCTCCACATCCT
66 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
6778958 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
6779023 TTGTGTTCTGGGAATGGCTTCTTG
196 TTGTGTTCTGGGAATGGCTTCTTG
* *
6779047 AGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTCG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
* * ** * * * * * * *
6779112 TCCATTACCCTGGGGTGGTTTAAAGCCTGGGTTTTTTGGGGGTTTATGTGTATCCTCAACTTCCT
66 TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
* * *
6779177 CACTCAAGAGGTGTC-GATGAGGAGGTTTATCC-CCATGCGGTGGCTC
131 CACTCAAGAGGCGTCTG-TGGGGAGGTTT-TCCACCATGTGGTGGCTC
6779223 CTCCCCCTTA
Statistics
Matches: 801, Mismatches: 30, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
218 1 0.00
219 797 1.00
220 3 0.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (219 bp):
GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
TCCATGACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCCACATCCT
CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
TTGTGTTCTGGGAATGGCTTCTTG
Found at i:6779864 original size:28 final size:28
Alignment explanation
Indices: 6779815--6779888 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
6779805 AAGTTTTATT
* *
6779815 TTTAAAATTTT-AAAATAATTATTCATAA
1 TTTATAATTTTAAAAATAATTA-TAATAA
* *
6779843 TTTTTAATTTTAAAAAT-TTTATAATAA
1 TTTATAATTTTAAAAATAATTATAATAA
6779870 TTTATATATATTTAAAAAT
1 TTTATA-AT-TTTAAAAAT
6779889 GATATTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
27 10 0.26
28 14 0.37
29 14 0.37
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTATAATTTTAAAAATAATTATAATAA
Found at i:6779947 original size:24 final size:24
Alignment explanation
Indices: 6779915--6779966 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
6779905 AATTAAATTT
*
6779915 TTAATTATTTATGATTAATT-TAAA
1 TTAAATATTT-TGATTAATTATAAA
* *
6779939 TTAAATATTTTTATTTATTATAAA
1 TTAAATATTTTGATTAATTATAAA
6779963 TTAA
1 TTAA
6779967 TTTTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTAAATATTTTGATTAATTATAAA
Found at i:6779966 original size:34 final size:35
Alignment explanation
Indices: 6779911--6779978 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
6779901 TATTAATTAA
* *
6779911 ATTTTTAATTATTTATGATTAA-TTTAAATTAAAT
1 ATTTTTAATTATTTATAATTAATTTTAAACTAAAT
*
6779945 ATTTTTATTTA-TTATAAATTAATTTTAAACTAAA
1 ATTTTTAATTATTTAT-AATTAATTTTAAACTAAA
6779979 AATATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 4 0.14
34 15 0.52
35 10 0.34
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (35 bp):
ATTTTTAATTATTTATAATTAATTTTAAACTAAAT
Found at i:6780137 original size:18 final size:18
Alignment explanation
Indices: 6780114--6780148 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6780104 TCTTTAATAT
*
6780114 AAATATATTTATTTATTA
1 AAATATATTTATATATTA
*
6780132 AAATATTTTTATATATT
1 AAATATATTTATATATT
6780149 TATAAAATTA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATATATTTATATATTA
Found at i:6780219 original size:15 final size:13
Alignment explanation
Indices: 6780184--6780214 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6780174 ATTTAAAAAT
*
6780184 ATATAAAATATAA
1 ATATTAAATATAA
6780197 ATATTAAATATAA
1 ATATTAAATATAA
6780210 ATATT
1 ATATT
6780215 TTAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:6781243 original size:27 final size:24
Alignment explanation
Indices: 6781188--6781245 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
6781178 AAAATTAAAA
*
6781188 AATTATTTTAAATTAATATTTTAT
1 AATTATTTTAAATTAAAATTTTAT
6781212 AATTATATTTAAATATAAAAATTTT-T
1 AATTAT-TTTAAAT-T-AAAATTTTAT
6781238 ACATTATT
1 A-ATTATT
6781246 AAATAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 6 0.21
25 7 0.24
26 4 0.14
27 12 0.41
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTATTTTAAATTAAAATTTTAT
Found at i:6781750 original size:15 final size:17
Alignment explanation
Indices: 6781718--6781776 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 17
6781708 TTTTGATATA
*
6781718 TTTATAT-ATTTA-TAT
1 TTTATATCATATATTAT
6781733 TTTAT-TCATATATT-T
1 TTTATATCATATATTAT
*
6781748 TTTATATCATATTTTAT
1 TTTATATCATATATTAT
*
6781765 TTTATATTATAT
1 TTTATATCATAT
6781777 TTTAATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.03
15 15 0.41
16 9 0.24
17 12 0.32
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATATCATATATTAT
Found at i:6781769 original size:17 final size:17
Alignment explanation
Indices: 6781723--6781780 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
6781713 ATATATTTAT
6781723 ATATTTATATTTTAT-TC
1 ATATTT-TATTTTATATC
*
6781740 ATATATT-TTTTATATC
1 ATATTTTATTTTATATC
*
6781756 ATATTTTATTTTATATT
1 ATATTTTATTTTATATC
6781773 ATATTTTA
1 ATATTTTA
6781781 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 6 0.17
16 9 0.25
17 21 0.58
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTTTATTTTATATC
Found at i:6781769 original size:39 final size:39
Alignment explanation
Indices: 6781701--6781777 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
6781691 AATTCGTGTT
*
6781701 ATATATTTTTTGATATATTTATATATTTATATTTTATTC
1 ATATATTTTTTGATATATTTATATATTTATATTATATTC
*
6781740 ATATATTTTTT-ATATCATATTTTAT-TTTATATTATATT
1 ATATATTTTTTGATAT-AT-TTATATATTTATATTATATT
6781778 TTAATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 4 0.12
39 25 0.74
40 5 0.15
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (39 bp):
ATATATTTTTTGATATATTTATATATTTATATTATATTC
Found at i:6781790 original size:11 final size:12
Alignment explanation
Indices: 6781714--6781792 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 12
6781704 TATTTTTTGA
6781714 TATATTTATATATT
1 TATATTT-TATA-T
6781728 TATATTTTAT-T
1 TATATTTTATAT
*
6781739 CATATATTT-T-T
1 TATAT-TTTATAT
*
6781750 TATA--TCATAT
1 TATATTTTATAT
*
6781760 TTTATTTTATAT
1 TATATTTTATAT
6781772 TATATTTTA-AT
1 TATATTTTATAT
*
6781783 TATTTTTTAT
1 TATATTTTAT
6781793 GTAAAATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
8 1 0.02
9 1 0.02
10 4 0.08
11 20 0.38
12 16 0.31
13 3 0.06
14 7 0.13
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:6782474 original size:18 final size:19
Alignment explanation
Indices: 6782428--6782476 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6782418 GATAATGAAT
*
6782428 AATATAA-A-TATAATTTA
1 AATATAATATTATTATTTA
*
6782445 AATATTATATTATTATTTA
1 AATATAATATTATTATTTA
6782464 AAT-TAATATTATT
1 AATATAATATTATT
6782477 TAAAAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
19 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATAATATTATTATTTA
Found at i:6782475 original size:15 final size:14
Alignment explanation
Indices: 6782455--6782523 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 14
6782445 AATATTATAT
6782455 TATTATTTAAATTAA
1 TATTATTTAAATT-A
6782470 TATTATTTAAAAGTT-
1 TATTATTT-AAA-TTA
*
6782485 TAGATATTTAAATT-
1 TA-TTATTTAAATTA
*
6782499 TTTTATTTAAATTCA
1 TATTATTTAAATT-A
6782514 TATTACTTTA
1 TATTA-TTTA
6782524 TGAATATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 10 0.23
14 3 0.07
15 17 0.39
16 12 0.27
17 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (14 bp):
TATTATTTAAATTA
Found at i:6782728 original size:22 final size:20
Alignment explanation
Indices: 6782681--6782733 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
6782671 TTATTTAATT
*
6782681 TGAATTTAAATAATAATATA
1 TGAATTTAAATAATAATAAA
* *
6782701 TAAATTTAATGTAGATAATAAA
1 TGAATTTAA-ATA-ATAATAAA
6782723 TGAATTTAAAT
1 TGAATTTAAAT
6782734 TGTAAGATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 8 0.31
21 3 0.12
22 15 0.58
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.40
Consensus pattern (20 bp):
TGAATTTAAATAATAATAAA
Found at i:6783087 original size:3 final size:3
Alignment explanation
Indices: 6783079--6783109 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6783069 CGTCCTTCCC
6783079 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6783110 CATCATCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6785460 original size:432 final size:430
Alignment explanation
Indices: 6784657--6785696 Score: 1534
Period size: 432 Copynumber: 2.4 Consensus size: 430
6784647 AGGCTTGTGC
* * * * *
6784657 GGTGGGTTCTCATGTCGGAAACTTGATGGCTCAAGTTCACGTGGAGGCTTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
*
6784722 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGTGGTTTATGAGTGTCCTCGACATCCT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
* * ** *
6784787 CACTCAAGAGGCCTCTGTGTGGAGGTTTTCCGCCATGCGGTGG--CTCCTTTGTTGGTGGCTTTT
131 CACTCAAGAGGCGTCTGTGAGGAGGTTTTCC-CCATGCGGTGGCTCTCCTTACTTGGTGGCTTGT
* *
6784850 GTTCCGGGAATGGCTTCTTGGGTGGTTTCTCATATGAGAACCTTGATGGCTCAAGTTCATGTGGA
195 GTTCCGGGAATGGCTTCTTGGGTGGTTTCTCATATGAGAAACTTGATGACTCAAGTTCATGTGGA
* *
6784915 GGCTTATGAGGAGGCTTTTGTCCATTACCCTTGGGTGGATTAAAACCAGGGTTTTTTGGTGGTTC
260 GGCTTATGAGGAGGCTTTTGTCCATTACCCTTGGGTGGAATAAAACCAGGGTTTTTTGGAGGTTC
* *
6784980 ATGAGTGTCCTCGACATCCTCACTCAAGAGGCCTCTGTGCGGAGGTTTTCCGCCATGTGGTGG-C
325 ATGAGTGTCCTCGACATCCTCACTCAAGAGACCTCTGTGCGGAGGTTTTCCACCATGTGGTGGCC
**
6785044 -T-CCTTTGTTGGTGGCTTCTGTTCCGGGAATGGCTTCTTG
390 TTCCCTTACTTGGTGGCTTCTGTTCCGGGAATGGCTTCTTG
*
6785083 GGTGGTTTCTCATATGGGAAACTCGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
* * * *
6785148 TTCATTACCCTTGGGCGGATTAAAACCGGGGTTTTTTGGAGGTCTATGAGTGTCCTCGACATCGT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
*
6785213 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGCGGTGGCTCTTTTCCCTTACTTGGTGGC
131 CACTCAAGAGGCGTCTGTGAGGAGGTTTTCC-CCATGCGGTGGCTC---T-CCTTACTTGGTGGC
* * *
6785278 TTGTGTTCTGGGAATGGCTTCTTGGTTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATG
191 TTGTGTTCCGGGAATGGCTTCTTGGGTGGTTTCTCATATGAGAAACTTGATGACTCAAGTTCATG
* *
6785343 TGGAGGCTTATGGGGAGGCTTTTGTCCATTACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAG
256 TGGAGGCTTATGAGGAGGCTTTTGTCCATTACCCTTGGGTGGAATAAAACCAGGGTTTTTTGGAG
* * *
6785408 GTTTATGAGTGTCCTCGACATCCTCACTCAAGAGACGTCTGTGGGGAGGTTTTCCACCATGTGGT
321 GTTCATGAGTGTCCTCGACATCCTCACTCAAGAGACCTCTGTGCGGAGGTTTTCCACCATGTGGT
* *
6785473 GGCTCTTTTCCCTTACTTGGTGGCTTGTGTTCTGGGAATGGCTTCTTG
386 GGC-C--TTCCCTTACTTGGTGGCTTCTGTTCCGGGAATGGCTTCTTG
*
6785521 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTCG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
* * * * * * * *
6785586 TCCATTACCCTGGGGTGGTTTAAAGCCTGGGTTTTTTGGAGGTTTATGTGTATCCTCAACTTCCT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
*
6785651 CACTCAAGAGGTGTC-GATGAGGAGGTTTATCCCCATGCGGTGGCTC
131 CACTCAAGAGGCGTCTG-TGAGGAGGTTT-TCCCCATGCGGTGGCTC
6785697 CTCCCCCTTA
Statistics
Matches: 549, Mismatches: 51, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
426 159 0.29
428 1 0.00
431 1 0.00
432 194 0.35
434 1 0.00
437 2 0.00
438 188 0.34
439 3 0.01
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (430 bp):
GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
CACTCAAGAGGCGTCTGTGAGGAGGTTTTCCCCATGCGGTGGCTCTCCTTACTTGGTGGCTTGTG
TTCCGGGAATGGCTTCTTGGGTGGTTTCTCATATGAGAAACTTGATGACTCAAGTTCATGTGGAG
GCTTATGAGGAGGCTTTTGTCCATTACCCTTGGGTGGAATAAAACCAGGGTTTTTTGGAGGTTCA
TGAGTGTCCTCGACATCCTCACTCAAGAGACCTCTGTGCGGAGGTTTTCCACCATGTGGTGGCCT
TCCCTTACTTGGTGGCTTCTGTTCCGGGAATGGCTTCTTG
Found at i:6785707 original size:219 final size:217
Alignment explanation
Indices: 6784657--6785701 Score: 1534
Period size: 219 Copynumber: 4.8 Consensus size: 217
6784647 AGGCTTGTGC
* * * * *
6784657 GGTGGGTTCTCATGTCGGAAACTTGATGGCTCAAGTTCACGTGGAGGCTTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
*
6784722 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGTGGTTTATGAGTGTCCTCGACATCCT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
* * * *
6784787 CACTCAAGAGGCCTCTGTGTGGAGGTTTTCCGCCATGCGGTGGCTCCT---TT-GTTGGTGGCTT
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGCGGTGGCTCCTCCCTTACTTGGTGGCTT
*
6784848 TTGTTCCGGGAATGGCTTCTTG
196 GTGTTCCGGGAATGGCTTCTTG
* * * *
6784870 GGTGGTTTCTCATATGAGAACCTTGATGGCTCAAGTTCATGTGGAGGCTTATGAGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
* * *
6784935 TCCATTACCCTTGGGTGGATTAAAACCAGGGTTTTTTGGTGGTTCATGAGTGTCCTCGACATCCT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
* * * * *
6785000 CACTCAAGAGGCCTCTGTGCGGAGGTTTTCCGCCATGTGGTGGCTCCT---TT-GTTGGTGGCTT
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGCGGTGGCTCCTCCCTTACTTGGTGGCTT
*
6785061 CTGTTCCGGGAATGGCTTCTTG
196 GTGTTCCGGGAATGGCTTCTTG
*
6785083 GGTGGTTTCTCATATGGGAAACTCGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
* * * *
6785148 TTCATTACCCTTGGGCGGATTAAAACCGGGGTTTTTTGGAGGTCTATGAGTGTCCTCGACATCGT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
*
6785213 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGCGGTGGCTCTTTTCCCTTACTTGGTGGC
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGCGGTGGCTC--CTCCCTTACTTGGTGGC
*
6785278 TTGTGTTCTGGGAATGGCTTCTTG
194 TTGTGTTCCGGGAATGGCTTCTTG
*
6785302 GTTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
*
6785367 TCCATTACCCTTGGGTGGAATAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
* * *
6785432 CACTCAAGAGACGTCTGTGGGGAGGTTTTCCACCATGTGGTGGCTCTTTTCCCTTACTTGGTGGC
131 CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGCGGTGGCTC--CTCCCTTACTTGGTGGC
*
6785497 TTGTGTTCTGGGAATGGCTTCTTG
194 TTGTGTTCCGGGAATGGCTTCTTG
*
6785521 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTCG
1 GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
* * * * * * * *
6785586 TCCATTACCCTGGGGTGGTTTAAAGCCTGGGTTTTTTGGAGGTTTATGTGTATCCTCAACTTCCT
66 TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
* *
6785651 CACTCAAGAGGTGTC-GATGAGGAGGTTTATCC-CCATGCGGTGGCTCCTCCC
131 CACTCAAGAGGCGTCTG-TGGGGAGGTTT-TCCACCATGCGGTGGCTCCTCCC
6785702 CCTTACCGCC
Statistics
Matches: 767, Mismatches: 57, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
213 361 0.47
215 1 0.00
217 4 0.01
218 3 0.00
219 395 0.51
220 3 0.00
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (217 bp):
GGTGGTTTCTCATATGGGAAACTTGATGACTCAAGTTCATGTGGAGGCTTATGGGGAGGCTTTTG
TCCATTACCCTTGGGTGGATTAAAACCGGGGTTTTTTGGAGGTTTATGAGTGTCCTCGACATCCT
CACTCAAGAGGCGTCTGTGGGGAGGTTTTCCACCATGCGGTGGCTCCTCCCTTACTTGGTGGCTT
GTGTTCCGGGAATGGCTTCTTG
Found at i:6786419 original size:26 final size:25
Alignment explanation
Indices: 6786359--6786411 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
6786349 TTAAAAATAT
*
6786359 ATTATTTTATATTAATTAAAATTTTA
1 ATTA-TTTATATTAATTAAAATTTAA
*
6786385 ATTATTTATGATTAATTTAAA-TTAA
1 ATTATTTAT-ATTAATTAAAATTTAA
6786410 AT
1 AT
6786412 ATCTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
ATTATTTATATTAATTAAAATTTAA
Found at i:6787743 original size:22 final size:21
Alignment explanation
Indices: 6787708--6787748 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
6787698 ATAATAAAAT
6787708 AAAAATAATTT-AAATTTATA
1 AAAAATAATTTAAAATTTATA
6787728 AAAAATTATATTTAAAATTTA
1 AAAAA-TA-ATTTAAAATTTA
6787749 ATTTATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 4 0.22
23 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATAATTTAAAATTTATA
Found at i:6788079 original size:16 final size:17
Alignment explanation
Indices: 6788054--6788094 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
6788044 TTAGTTTTAA
*
6788054 TATATTTATATTAT-AT
1 TATATTTATATCATAAT
*
6788070 TATTTTTATATCATAAT
1 TATATTTATATCATAAT
6788087 TATATTTA
1 TATATTTA
6788095 AATTGTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATTTATATCATAAT
Found at i:6788137 original size:35 final size:38
Alignment explanation
Indices: 6788065--6788152 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 38
6788055 ATATTTATAT
*
6788065 TATATTATTTTTATATCATAATTATATTTAAATTGTTA
1 TATATTATTTTTATATCATAATTATAATTAAATTGTTA
*
6788103 TATATT-TTATTT-TATCATAATTATAATT-CA-TGTTA
1 TATATTATT-TTTATATCATAATTATAATTAAATTGTTA
*
6788138 TATA-TATTTTGATAT
1 TATATTATTTTTATAT
6788153 ATTTACATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
34 3 0.07
35 14 0.32
36 1 0.02
37 17 0.39
38 9 0.20
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (38 bp):
TATATTATTTTTATATCATAATTATAATTAAATTGTTA
Found at i:6788484 original size:2 final size:2
Alignment explanation
Indices: 6788471--6788508 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
6788461 AAGCATTGGG
* *
6788471 AT AT AT AA AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6788509 TTTCATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6791089 original size:22 final size:22
Alignment explanation
Indices: 6791049--6791094 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
6791039 TAAAAAATAA
** *
6791049 AAAATAAATTTTTTTATAACAT
1 AAAATAAATTTTTAAATAAAAT
*
6791071 AAAATTAATTTTTAAATAAAAT
1 AAAATAAATTTTTAAATAAAAT
6791093 AA
1 AA
6791095 TTTCATTATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATAAATTTTTAAATAAAAT
Found at i:6791890 original size:3 final size:3
Alignment explanation
Indices: 6791884--6791914 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6791874 TTTTTTTTAA
6791884 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
6791915 TGGTCCAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:6794670 original size:6 final size:6
Alignment explanation
Indices: 6794659--6794683 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6794649 TTTTATGTTT
6794659 GCAGGA GCAGGA GCAGGA GCAGGA G
1 GCAGGA GCAGGA GCAGGA GCAGGA G
6794684 GGGTGTCACT
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:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (6 bp):
GCAGGA
Found at i:6796168 original size:23 final size:23
Alignment explanation
Indices: 6796132--6796192 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
6796122 TAAAATTAAT
*
6796132 TAAA-AAAATATAATTATTCA-ATA
1 TAAATAAAAT-TAATTAATCATA-A
6796155 TAAATAAAATTAATTAATCATAA
1 TAAATAAAATTAATTAATCATAA
* *
6796178 TCAATTAAATTAATT
1 TAAATAAAATTAATT
6796193 CAATTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 27 0.82
24 6 0.18
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATAAAATTAATTAATCATAA
Found at i:6796380 original size:26 final size:24
Alignment explanation
Indices: 6796334--6796381 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
6796324 TCAATTTTTA
**
6796334 TATATTTATATAAAATTAGTTATT
1 TATATTTATATAAAACAAGTTATT
6796358 TATATTTATATAAAAGACAAGTTA
1 TATATTTATAT-AAA-ACAAGTTA
6796382 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 3 0.15
26 6 0.30
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (24 bp):
TATATTTATATAAAACAAGTTATT
Found at i:6796950 original size:18 final size:19
Alignment explanation
Indices: 6796918--6796955 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6796908 AAAAATAATT
6796918 AAAATATAATATAATATAA
1 AAAATATAATATAATATAA
*
6796937 AAAATA-AATGTAATATAA
1 AAAATATAATATAATATAA
6796955 A
1 A
6796956 TTTATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAATATAATATAATATAA
Found at i:6796951 original size:28 final size:27
Alignment explanation
Indices: 6796883--6796954 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
6796873 TTTTATATAT
*
6796883 AAATAAAATTAATA-AACATAATTTAAA
1 AAAT-AAATTAATATAACATAATATAAA
*
6796910 AAAT-AATTAAAATATAATATAATATAAA
1 AAATAAATT--AATATAACATAATATAAA
6796938 AAATAAATGTAATATAA
1 AAATAAAT-TAATATAA
6796955 ATTTATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 4 0.11
27 8 0.21
28 22 0.58
29 3 0.08
30 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
AAATAAATTAATATAACATAATATAAA
Found at i:6797016 original size:10 final size:10
Alignment explanation
Indices: 6796949--6797021 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
6796939 AATAAATGTA
6796949 ATATAAATTT
1 ATATAAATTT
6796959 ATA-AAATTT
1 ATATAAATTT
*
6796968 TTA-AAATTT
1 ATATAAATTT
6796977 ATATAGAATGATT
1 ATATA-AAT--TT
*
6796990 -TATTAATTT
1 ATATAAATTT
6796999 ATCA-AAATTT
1 AT-ATAAATTT
*
6797009 ATATAAATAT
1 ATATAAATTT
6797019 ATA
1 ATA
6797022 ATATTTTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
9 19 0.37
10 20 0.39
11 7 0.14
12 3 0.06
13 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (10 bp):
ATATAAATTT
Found at i:6808731 original size:19 final size:20
Alignment explanation
Indices: 6808709--6808756 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6808699 TTATTTTGAA
6808709 TTAATTTAAAATA-ATATTT
1 TTAATTTAAAATATATATTT
6808728 TTAA-TTAAAATATTATATTT
1 TTAATTTAAAATA-TATATTT
6808748 TT-ATTTAAA
1 TTAATTTAAA
6808757 TTTAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 5 0.19
20 13 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTTAAAATATATATTT
Found at i:6808737 original size:49 final size:52
Alignment explanation
Indices: 6808683--6808800 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 52
6808673 AAATTTAAGT
* * *
6808683 TTAAAATTTTAT-TTTATTATTTTGAA-TTAATT-TAAAATA-AT-ATTTTTAA
1 TTAAAATTTTATATTT-TTA-TTTAAATTTAATTATAAAATATATAAATATTAA
*
6808732 TTAAAATATTATATTTTTATTTAAATTTAATTATAAAATATATAAATATTAA
1 TTAAAATTTTATATTTTTATTTAAATTTAATTATAAAATATATAAATATTAA
*
6808784 TATAAAATTTTTTATTT
1 T-TAAAATTTTATATTT
6808801 AAGATAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
48 5 0.09
49 20 0.35
50 10 0.18
51 2 0.04
52 7 0.12
53 13 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (52 bp):
TTAAAATTTTATATTTTTATTTAAATTTAATTATAAAATATATAAATATTAA
Found at i:6808757 original size:19 final size:20
Alignment explanation
Indices: 6808709--6808762 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
6808699 TTATTTTGAA
6808709 TTAATTTAAA-ATAATATTT
1 TTAATTTAAATATAATATTT
* *
6808728 TTAATTAAAATATTATATTT
1 TTAATTTAAATATAATATTT
*
6808748 TT-ATTTAAATTTAAT
1 TTAATTTAAATATAAT
6808763 TATAAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTTAAATATAATATTT
Found at i:6809756 original size:2 final size:2
Alignment explanation
Indices: 6809751--6809776 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6809741 GATATATCTT
6809751 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6809777 ACACATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6812164 original size:29 final size:28
Alignment explanation
Indices: 6812132--6812217 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 28
6812122 GTAATTTACG
*
6812132 TACAAATTAAAAGTTAAATCTTATTTTAA
1 TACAAATTAAAA-TTAAATCTTATTTAAA
6812161 TACAAATT---A-TAAA-CTTATTTAAA
1 TACAAATTAAAATTAAATCTTATTTAAA
* *
6812184 TATAAATTTAAAATTAAATATTATTTAAA
1 TACAAA-TTAAAATTAAATCTTATTTAAA
6812213 TACAA
1 TACAA
6812218 TAAAAATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
23 14 0.30
24 6 0.13
26 1 0.02
27 1 0.02
28 4 0.09
29 21 0.45
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (28 bp):
TACAAATTAAAATTAAATCTTATTTAAA
Found at i:6812177 original size:23 final size:23
Alignment explanation
Indices: 6812145--6812195 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
6812135 AAATTAAAAG
*
6812145 TTAAATCTTATTTTAATACAAAT
1 TTAAATCTTATTTAAATACAAAT
*
6812168 TATAAA-CTTATTTAAATATAAAT
1 T-TAAATCTTATTTAAATACAAAT
6812191 TTAAA
1 TTAAA
6812196 ATTAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 17 0.68
24 4 0.16
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAAATCTTATTTAAATACAAAT
Found at i:6812388 original size:2 final size:2
Alignment explanation
Indices: 6812381--6812413 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6812371 TTTGTTACAA
6812381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6812414 ACTTATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6815603 original size:5 final size:5
Alignment explanation
Indices: 6815595--6815619 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6815585 ATTTTATAAT
6815595 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
6815620 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:6815946 original size:36 final size:36
Alignment explanation
Indices: 6815899--6815971 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
6815889 TTACGCGTAA
6815899 GCGCCACTAGATCTTGTCATGAACTAAAGTTGAGTG
1 GCGCCACTAGATCTTGTCATGAACTAAAGTTGAGTG
*
6815935 GCGCCCCTAGATCTTGTCATGAACTAAAGTTGAGTG
1 GCGCCACTAGATCTTGTCATGAACTAAAGTTGAGTG
6815971 G
1 G
6815972 GTTCGTTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (36 bp):
GCGCCACTAGATCTTGTCATGAACTAAAGTTGAGTG
Found at i:6816644 original size:22 final size:23
Alignment explanation
Indices: 6816603--6816650 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
6816593 TAATTAATAT
6816603 TATGTATTTTTTTGTCATGTTCA
1 TATGTATTTTTTTGTCATGTTCA
6816626 TATGTATGTTTTTT-T-ATGTTCA
1 TATGTAT-TTTTTTGTCATGTTCA
6816648 TAT
1 TAT
6816651 ATTAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 10 0.42
23 8 0.33
24 6 0.25
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (23 bp):
TATGTATTTTTTTGTCATGTTCA
Found at i:6816855 original size:82 final size:81
Alignment explanation
Indices: 6816749--6816906 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 81
6816739 CATATAATAT
* * ** *
6816749 TTCAATTCATCCATTATTTTGTATAGA-TTATCATAATATTTCAATTTAGAGAAAGTTTTATATA
1 TTCAATTCATCCATTATTTTGTATA-ATTTATCATAATAATTCAATTTAAAGAAA-AATTATACA
6816813 TTCATGTCATATTCATGC
64 TTCATGTCATATTCATGC
* * *
6816831 TTCAATTTATCTCA-TATTTTGTATAATTTATTATACTAATTCAATTTAAAGAAAAATTATACAT
1 TTCAATTCATC-CATTATTTTGTATAATTTATCATAATAATTCAATTTAAAGAAAAATTATACAT
6816895 TCATGTCATATT
65 TCATGTCATATT
6816907 TACATTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
81 20 0.30
82 44 0.67
83 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (81 bp):
TTCAATTCATCCATTATTTTGTATAATTTATCATAATAATTCAATTTAAAGAAAAATTATACATT
CATGTCATATTCATGC
Found at i:6817141 original size:34 final size:34
Alignment explanation
Indices: 6817072--6817145 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
6817062 TATCATATCT
* *
6817072 TAATTTATTTAATATTTTATATAATTTATTATAA
1 TAATTTATTTAATATTTTAAATAATTTACTATAA
*
6817106 TAATTTAATTTAAT-TTTTAAATTTATTTACT-TAA
1 TAATTT-ATTTAATATTTTAAA-TAATTTACTATAA
6817140 TAATTT
1 TAATTT
6817146 GATTATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 21 0.60
35 14 0.40
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (34 bp):
TAATTTATTTAATATTTTAAATAATTTACTATAA
Found at i:6823081 original size:24 final size:23
Alignment explanation
Indices: 6823052--6823097 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
6823042 TTATCATATT
6823052 TAAAATATT-ATATAATTATATAAA
1 TAAAATATTAATAT-ATTA-ATAAA
*
6823076 TAAAATTTTAATATATTAATAA
1 TAAAATATTAATATATTAATAA
6823098 TTTATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAATATTAATATATTAATAAA
Found at i:6823092 original size:32 final size:32
Alignment explanation
Indices: 6823049--6823134 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 32
6823039 AAATTATCAT
*
6823049 ATTTAAAATATTATATAATTAT-ATAAATAAA
1 ATTTAATATATTATATAATTATGATAAATAAA
* *
6823080 ATTTTAATATATTA-ATAATTTATGTTATATAAA
1 A-TTTAATATATTATATAA-TTATGATAAATAAA
6823113 ATTTAATATATT-TATATATTAT
1 ATTTAATATATTATATA-ATTAT
6823135 TTATATTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
31 5 0.11
32 33 0.70
33 9 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
ATTTAATATATTATATAATTATGATAAATAAA
Found at i:6823136 original size:20 final size:20
Alignment explanation
Indices: 6823086--6823154 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
6823076 TAAAATTTTA
* *
6823086 ATATATTA-ATAATTTATGTT
1 ATATATTATTTAATATAT-TT
**
6823106 ATATAAAATTTAATATATTT
1 ATATATTATTTAATATATTT
6823126 ATATATTATTT-ATATTATTT
1 ATATATTATTTAATA-TATTT
*
6823146 TTATATTAT
1 ATATATTAT
6823155 ATTTTAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.08
20 30 0.75
21 7 0.17
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (20 bp):
ATATATTATTTAATATATTT
Found at i:6823152 original size:11 final size:11
Alignment explanation
Indices: 6823123--6823166 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
6823113 ATTTAATATA
6823123 TTTATA-TATT
1 TTTATATTATT
6823133 ATTTATATTATT
1 -TTTATATTATT
6823145 TTTATATTATAT
1 TTTATATTAT-T
6823157 TTTA-ATTATT
1 TTTATATTATT
6823167 GTTTGGTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.03
11 21 0.68
12 9 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATATTATT
Found at i:6823157 original size:22 final size:22
Alignment explanation
Indices: 6823114--6823166 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
6823104 TTATATAAAA
*
6823114 TTTAA-TATATTTATATATTA-
1 TTTAATTATTTTTATATATTAT
6823134 TTTATATTATTTTTATAT-TATAT
1 TTTA-ATTATTTTTATATAT-TAT
6823157 TTTAATTATT
1 TTTAATTATT
6823167 GTTTGGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.14
21 2 0.07
22 18 0.64
23 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTAATTATTTTTATATATTAT
Found at i:6824191 original size:2 final size:2
Alignment explanation
Indices: 6824184--6824218 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6824174 GTAACTTAAA
6824184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6824219 AAATATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6824611 original size:2 final size:2
Alignment explanation
Indices: 6824604--6824629 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6824594 CTGAGATAAT
6824604 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6824630 AATGAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6826694 original size:2 final size:2
Alignment explanation
Indices: 6826687--6826723 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6826677 TGTTTCGCAT
6826687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6826724 CGGTTTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6826793 original size:13 final size:12
Alignment explanation
Indices: 6826775--6826821 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
6826765 TCTATTACTA
6826775 AATATTTATAATT
1 AATATTTATAA-T
*
6826788 AATATTTATTAT
1 AATATTTATAAT
*
6826800 AATTAATTATAAT
1 AA-TATTTATAAT
6826813 AATATTTAT
1 AATATTTAT
6826822 TACGTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATATTTATAAT
Found at i:6830026 original size:7 final size:8
Alignment explanation
Indices: 6830009--6830035 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6829999 ATTAACTTAA
6830009 TTTATTTT
1 TTTATTTT
6830017 TTTATTTT
1 TTTATTTT
6830025 TTTATTTT
1 TTTATTTT
6830033 TTT
1 TTT
6830036 TGTAATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTATTTT
Found at i:6830162 original size:20 final size:22
Alignment explanation
Indices: 6830137--6830189 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
6830127 TATATTTAAT
6830137 ATTTTTAAATA-T-TAAAATAA
1 ATTTTTAAATATTATAAAATAA
6830157 ATTTTTAAATATTATAAAATAA
1 ATTTTTAAATATTATAAAATAA
6830179 ATTTTTAAATA
1 ATTTTTAAATA
6830190 AAAAACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 19 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTTTAAATATTATAAAATAA
Found at i:6830166 original size:12 final size:12
Alignment explanation
Indices: 6830151--6830191 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6830141 TTAAATATTA
6830151 AAATAAATTTTT
1 AAATAAATTTTT
* *
6830163 AAAT--ATTATA
1 AAATAAATTTTT
6830173 AAATAAATTTTT
1 AAATAAATTTTT
6830185 AAATAAA
1 AAATAAA
6830192 AAACTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.35
12 15 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATAAATTTTT
Found at i:6831016 original size:2 final size:2
Alignment explanation
Indices: 6831005--6831037 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6830995 AATTCCTAAG
6831005 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6831038 CTTAATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6835447 original size:40 final size:40
Alignment explanation
Indices: 6835403--6835480 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
6835393 TGTAAAAAAT
*
6835403 TTTCAACCGTTAAATATATATTGAAACAAATAGAATCAAC
1 TTTCAACCGTTAAATATATATTGAAAAAAATAGAATCAAC
* *
6835443 TTTCAATCGTTAAATATATATTGAAAAAAATTGAATCA
1 TTTCAACCGTTAAATATATATTGAAAAAAATAGAATCA
6835481 TCGATCGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (40 bp):
TTTCAACCGTTAAATATATATTGAAAAAAATAGAATCAAC
Found at i:6838707 original size:18 final size:18
Alignment explanation
Indices: 6838665--6838717 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
6838655 TAAATAAAAA
*
6838665 AATTTATTTGTTAAAATTT
1 AATTTATAT-TTAAAATTT
6838684 AATTTA-ATTTAAATATTT
1 AATTTATATTTAAA-ATTT
*
6838702 ATTTTATATTTAAAAT
1 AATTTATATTTAAAAT
6838718 ATATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 5 0.17
18 12 0.40
19 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTTATATTTAAAATTT
Found at i:6838722 original size:18 final size:17
Alignment explanation
Indices: 6838675--6838722 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
6838665 AATTTATTTG
*
6838675 TTAAAATTTAATTTAAT
1 TTAAAATTTATTTTAAT
6838692 TTAAATATTTATTTTATAT
1 TTAAA-ATTTATTTTA-AT
*
6838711 TTAAAATATATT
1 TTAAAATTTATT
6838723 AAAATACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 15 0.56
19 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTATTTTAAT
Found at i:6842425 original size:12 final size:12
Alignment explanation
Indices: 6842406--6842435 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6842396 TTTTTAAAAT
6842406 AAAATTTTATAA
1 AAAATTTTATAA
*
6842418 ATAATTTTATAA
1 AAAATTTTATAA
6842430 AAAATT
1 AAAATT
6842436 AAATTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AAAATTTTATAA
Found at i:6842474 original size:28 final size:25
Alignment explanation
Indices: 6842419--6842479 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 25
6842409 ATTTTATAAA
6842419 TAATTTT-ATAAAAAATTAAATTTT
1 TAATTTTAATAAAAAATTAAATTTT
6842443 TAATTTTAATAAAAAAATATAAATTTAT
1 TAATTTTAAT-AAAAAAT-TAAATTT-T
6842471 TAATTTTAA
1 TAATTTTAA
6842480 ATATAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 7 0.21
25 2 0.06
26 7 0.21
27 7 0.21
28 10 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TAATTTTAATAAAAAATTAAATTTT
Found at i:6842480 original size:25 final size:23
Alignment explanation
Indices: 6842419--6842480 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 23
6842409 ATTTTATAAA
6842419 TAATTTTATAAAAAATTAAATTTT
1 TAATTTTA-AAAAAATTAAATTTT
6842443 TAATTTTAATAAAAAAATATAAATTTAT
1 TAA-TTT--TAAAAAAAT-TAAATTT-T
6842471 TAATTTTAAA
1 TAATTTTAAA
6842481 TATAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
24 3 0.09
25 7 0.21
26 7 0.21
27 12 0.36
28 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTTTAAAAAAATTAAATTTT
Found at i:6842491 original size:25 final size:24
Alignment explanation
Indices: 6842419--6842491 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 24
6842409 ATTTTATAAA
*
6842419 TAATTTTATAAAAAATTAAATTTT
1 TAATTTTATAAAAAATAAAATTTT
6842443 TAATTTTAATAAAAAAATATAAATTTAT
1 TAATTTT-AT-AAAAAATA-AAATTT-T
*
6842471 TAATTTTA-AATATAATAAAAT
1 TAATTTTATAA-AAAATAAAAT
6842492 AATAATAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 7 0.17
25 8 0.19
26 12 0.29
27 7 0.17
28 8 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATTTTATAAAAAATAAAATTTT
Found at i:6843293 original size:16 final size:16
Alignment explanation
Indices: 6843269--6843325 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
6843259 AATTATTTGT
6843269 TAAAATTTTTTATTTA
1 TAAAATTTTTTATTTA
*
6843285 TATAATTTTATATATTTA
1 TAAAATTTT-T-TATTTA
**
6843303 TAAAAAATTTTATTTA
1 TAAAATTTTTTATTTA
6843319 -AAAATTT
1 TAAAATTT
6843326 ATATTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.15
16 14 0.42
17 2 0.06
18 12 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAAAATTTTTTATTTA
Found at i:6844010 original size:13 final size:14
Alignment explanation
Indices: 6843985--6844013 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6843975 TTACTTTATA
6843985 ATTATTATAATATT
1 ATTATTATAATATT
6843999 ATTATT-TAATATT
1 ATTATTATAATATT
6844012 AT
1 AT
6844014 ATGTGTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTATAATATT
Found at i:6845693 original size:3 final size:3
Alignment explanation
Indices: 6845685--6845716 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6845675 GAGCGGTTAG
6845685 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
6845717 CTCTGAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:6849182 original size:25 final size:25
Alignment explanation
Indices: 6849137--6849190 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
6849127 ATATTCATTG
*
6849137 ATAATATTTATCGTGATTAATCATA
1 ATAATATTTATCATGATTAATCATA
* *
6849162 ATAATATTTATTATCGA-TAATCTTA
1 ATAATATTTATCAT-GATTAATCATA
6849187 ATAA
1 ATAA
6849191 ATATGATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (25 bp):
ATAATATTTATCATGATTAATCATA
Found at i:6849920 original size:2 final size:2
Alignment explanation
Indices: 6849913--6849938 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6849903 AAAGCATGAA
6849913 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6849939 GTATGATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6850913 original size:3 final size:3
Alignment explanation
Indices: 6850907--6850932 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6850897 TAATCCATCA
6850907 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
6850933 ATGGATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6853810 original size:15 final size:14
Alignment explanation
Indices: 6853778--6853817 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
6853768 TTTTTATTTT
*
6853778 TTTAACTTTTAAAA
1 TTTAATTTTTAAAA
6853792 TTTAATTTTTAATAA
1 TTTAATTTTTAA-AA
6853807 TTTAATATTTT
1 TTTAAT-TTTT
6853818 TTTATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 8 0.35
16 4 0.17
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAATTTTTAAAA
Found at i:6853834 original size:39 final size:40
Alignment explanation
Indices: 6853772--6853867 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
6853762 TCTATATTTT
* * * *
6853772 TATTTTTTTAACTT-TTAAAATTT-AATTTTTAATAATTTAA
1 TATTTTTTT-A-TTATTAAAATTTAAAATATAAATAACTTAA
*
6853812 TATTTTTTTATTATTAAGATTTAAAATATAAATAACTTAA
1 TATTTTTTTATTATTAAAATTTAAAATATAAATAACTTAA
6853852 TATATATTTTTATTAT
1 TAT-T-TTTTTATTAT
6853868 AATATTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.04
39 9 0.19
40 25 0.53
41 1 0.02
42 10 0.21
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (40 bp):
TATTTTTTTATTATTAAAATTTAAAATATAAATAACTTAA
Found at i:6853920 original size:7 final size:7
Alignment explanation
Indices: 6853908--6853945 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
6853898 AAAAATTATT
6853908 TAATATA
1 TAATATA
6853915 TAATATA
1 TAATATA
*
6853922 TAA-ATT
1 TAATATA
6853928 TAATATA
1 TAATATA
*
6853935 TATTATA
1 TAATATA
6853942 TAAT
1 TAAT
6853946 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAATATA
Found at i:6853930 original size:20 final size:20
Alignment explanation
Indices: 6853905--6853944 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6853895 GATAAAAATT
6853905 ATTTAATATATAATATATAA
1 ATTTAATATATAATATATAA
*
6853925 ATTTAATATATATTATATAA
1 ATTTAATATATAATATATAA
6853945 TTAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATATATAATATATAA
Found at i:6856094 original size:12 final size:12
Alignment explanation
Indices: 6856077--6856130 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
6856067 TCTTCTCTCC
6856077 TCTTCTGATCCT
1 TCTTCTGATCCT
6856089 TCTTCTGATTCC-
1 TCTTCTGA-TCCT
** *
6856101 TCTTCTTCTTCT
1 TCTTCTGATCCT
*
6856113 TCCTCTGATCCT
1 TCTTCTGATCCT
6856125 TCTTCT
1 TCTTCT
6856131 TCTTCAGTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
11 2 0.06
12 27 0.84
13 3 0.09
ACGTcount: A:0.06, C:0.35, G:0.06, T:0.54
Consensus pattern (12 bp):
TCTTCTGATCCT
Found at i:6856114 original size:24 final size:24
Alignment explanation
Indices: 6856087--6856135 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
6856077 TCTTCTGATC
*
6856087 CTTCTTCTGATTCC-TCTTCTTCTT
1 CTTCCTCTGA-TCCTTCTTCTTCTT
6856111 CTTCCTCTGATCCTTCTTCTTCTT
1 CTTCCTCTGATCCTTCTTCTTCTT
6856135 C
1 C
6856136 AGTTCTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.04, C:0.37, G:0.04, T:0.55
Consensus pattern (24 bp):
CTTCCTCTGATCCTTCTTCTTCTT
Done.