Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold175
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: 1052864
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 31646 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:909820 original size:167 final size:166
Alignment explanation
Indices: 909630--909954 Score: 512
Period size: 167 Copynumber: 2.0 Consensus size: 166
909620 CACGAAAATT
* *
909630 TTTTGAAAACACGGAATTTTTTTGAAAACAAGGAAATTTTCGATACATGAGAATTTTTTGACACG
1 TTTTGAAAACACGGAATTTTTTTGAAAACAAGAAAATTTTCGAAACATGAGAATTTTTTGACACG
*
909695 AAAAATTTTGAAAACACGAAAATTTCGAAAACATGAA-TTTTTTAAAAACATGAATTTTTAAAAA
66 AAAAATTTTGAAAACACGAAAATTTAGAAAACATGAATTTTTTTAAAAAC--GAATTTTT-AAAA
909759 AAACACGAG-AATTTTTTGAAAACACGAAAACATGAAAA
128 AAACACGAGAAATTTTTTGAAAACACGAAAACATGAAAA
* *
909797 TTTTGAAAACACGAGAA-TTTTTTGAAAACACGAAAATTTTTGAAACATGAGAATTTTTTGACAC
1 TTTTGAAAACACG-GAATTTTTTTGAAAACAAGAAAATTTTCGAAACATGAGAATTTTTTGACAC
* * **
909861 TAAAAATTTTGAAAACACGAAAATTTAGAAAACATGAATTTTTTTAAATACGAATTTTTTTAAAA
65 GAAAAATTTTGAAAACACGAAAATTTAGAAAACATGAATTTTTTTAAAAACGAATTTTTAAAAAA
909926 ACACGAGAAATTTTTTGAAAACACGAAAA
130 ACACGAGAAATTTTTTGAAAACACGAAAA
909955 TTTTTGAAAC
Statistics
Matches: 146, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
165 11 0.08
166 29 0.20
167 92 0.63
168 14 0.10
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (166 bp):
TTTTGAAAACACGGAATTTTTTTGAAAACAAGAAAATTTTCGAAACATGAGAATTTTTTGACACG
AAAAATTTTGAAAACACGAAAATTTAGAAAACATGAATTTTTTTAAAAACGAATTTTTAAAAAAA
CACGAGAAATTTTTTGAAAACACGAAAACATGAAAA
Found at i:910024 original size:167 final size:162
Alignment explanation
Indices: 909599--909990 Score: 486
Period size: 167 Copynumber: 2.4 Consensus size: 162
909589 ATAATTTTTG
*
909599 AAAACACGA-AGA-TTTTTG-AAACACG-AAA-ATTTTTTGAAAACACG-GAATTTTTTTGAAAA
1 AAAACACGAGA-ATTTTTTGAAAACACGAAAACATATTTTGAAAACACGAGAA-TTTTTTGAAAA
* * * * *
909658 CAAG-GAAATTTTCGATACATGAGAATTTTTTGACACGAAAAATTTTGAAAACACGAAAATTTCG
64 CACGAAAAATTTT-GAAACACGAGAATTTTTTGACACGAAAAATTTTGAAAACACGAAAATTTAG
909722 AAAACATGAATTTTTTAAAAACATGAATTTTTAAAA
128 AAAACATGAATTTTTTAAAAACA-GAATTTTTAAAA
909758 AAAACACGAGAATTTTTTGAAAACACGAAAACATGAAAATTTTGAAAACACGAGAATTTTTTGAA
1 AAAACACGAGAATTTTTTGAAAACACGAAAACAT----ATTTTGAAAACACGAGAATTTTTTGAA
* * *
909823 AACACGAAAATTTTTGAAACATGAGAATTTTTTGACACTAAAAATTTTGAAAACACGAAAATTTA
62 AACACGAAAAATTTTGAAACACGAGAATTTTTTGACACGAAAAATTTTGAAAACACGAAAATTTA
* **
909888 GAAAACATGAATTTTTTTAAATAC-GAATTTTT-TTA
127 GAAAACATGAA-TTTTTTAAAAACAGAATTTTTAAAA
*
909923 AAAACACGAGAAATTTTTTGAAAACACG-AAA-AT-TTTTG-AAACACGAGAATTTTTTGAGAAC
1 AAAACACGAG-AATTTTTTGAAAACACGAAAACATATTTTGAAAACACGAGAATTTTTTGAAAAC
909984 ACGAAAA
65 ACGAAAA
909991 CACGAAAAAA
Statistics
Matches: 209, Mismatches: 11, Indels: 27
0.85 0.04 0.11
Matches are distributed among these distances:
158 29 0.14
159 15 0.07
160 7 0.03
161 7 0.03
162 3 0.01
163 2 0.01
164 2 0.01
165 14 0.07
166 25 0.12
167 85 0.41
168 20 0.10
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (162 bp):
AAAACACGAGAATTTTTTGAAAACACGAAAACATATTTTGAAAACACGAGAATTTTTTGAAAACA
CGAAAAATTTTGAAACACGAGAATTTTTTGACACGAAAAATTTTGAAAACACGAAAATTTAGAAA
ACATGAATTTTTTAAAAACAGAATTTTTAAAA
Found at i:910074 original size:17 final size:16
Alignment explanation
Indices: 910003--910073 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
909993 CGAAAAAAAA
910003 TTTT-AAACACGGGAAT
1 TTTTGAAACAC-GGAAT
*
910019 TTTTGAAAACACGAAATT
1 TTTTG-AAACACGGAA-T
* **
910037 TTTTTATTCACGAGAAT
1 TTTTGAAACACG-GAAT
910054 TTTTGAAACACGGAAT
1 TTTTGAAACACGGAAT
910070 TTTT
1 TTTT
910074 TTTAAAGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
16 12 0.28
17 18 0.42
18 13 0.30
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.39
Consensus pattern (16 bp):
TTTTGAAACACGGAAT
Found at i:910077 original size:35 final size:35
Alignment explanation
Indices: 910010--910075 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
910000 AAATTTTAAA
*
910010 CACGGGAATTTTTGAAAACACGAAATTTTTTTATT
1 CACGAGAATTTTTGAAAACACGAAATTTTTTTATT
*
910045 CACGAGAATTTTTG-AAACACGGAATTTTTTT
1 CACGAGAATTTTTGAAAACACGAAATTTTTTT
910076 TAAAGAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (35 bp):
CACGAGAATTTTTGAAAACACGAAATTTTTTTATT
Found at i:910152 original size:17 final size:17
Alignment explanation
Indices: 910130--910168 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
910120 TATTATTATT
910130 ATTTTGAA-ACACGAGAA
1 ATTTTGAAGACACGA-AA
*
910147 ATTTTGAAGACATGAAA
1 ATTTTGAAGACACGAAA
910164 ATTTT
1 ATTTT
910169 NNNNNNNNNN
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (17 bp):
ATTTTGAAGACACGAAA
Found at i:911017 original size:7 final size:7
Alignment explanation
Indices: 911005--911084 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
910995 AAAAAAATTA
911005 TTTTCTT
1 TTTTCTT
911012 TTTTCTT
1 TTTTCTT
911019 TTTT-TT
1 TTTTCTT
911025 TTCTTCTT
1 TT-TTCTT
*
911033 TCTTC-T
1 TTTTCTT
**
911039 TCCTCTT
1 TTTTCTT
911046 TTCTTCTT
1 TT-TTCTT
911054 TCTTTCTT
1 T-TTTCTT
*
911062 CTTTCTT
1 TTTTCTT
*
911069 CTTCTTCCT
1 -TT-TTCTT
911078 TTTTCTT
1 TTTTCTT
911085 CTTCCTTCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 9 0.16
7 28 0.48
8 16 0.28
9 5 0.09
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCTT
Found at i:911026 original size:11 final size:12
Alignment explanation
Indices: 911005--911074 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 12
910995 AAAAAAATTA
911005 TTTTCTTTTTTC
1 TTTTCTTTTTTC
911017 TTTT-TTTTTTC
1 TTTTCTTTTTTC
*
911028 TTCTTTCTTCTTCCTC
1 -T-TTTCTT-TT-TTC
*
911044 TTTTCTTCTTTC
1 TTTTCTTTTTTC
*
911056 -TTTCTTCTTTC
1 TTTTCTTTTTTC
911067 TTCTTCTT
1 TT-TTCTT
911075 CCTTTTTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
11 18 0.38
12 8 0.17
13 9 0.19
14 8 0.17
15 3 0.06
16 2 0.04
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:911031 original size:3 final size:3
Alignment explanation
Indices: 911025--911098 Score: 69
Period size: 3 Copynumber: 23.0 Consensus size: 3
911015 TCTTTTTTTT
*
911025 TTC TTC TTTC TTC TTC CTC TT- TTC TTC TTTC TTTC TTC TTTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC -TTC TTC TTC
*
911073 TTCC TTT TTC TTC TTCC TTC TTC TTC
1 TT-C TTC TTC TTC TT-C TTC TTC TTC
911099 AAAGTTTAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 2 0.03
3 40 0.66
4 19 0.31
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:911031 original size:21 final size:21
Alignment explanation
Indices: 911007--911084 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
910997 AAAAATTATT
911007 TTCTTTTTTCTTTTTTTTTTC
1 TTCTTTTTTCTTTTTTTTTTC
* ** *
911028 TTCTTTCTTCTTCCTCTTTTC
1 TTCTTTTTTCTTTTTTTTTTC
*
911049 TTCTTTCTTTCTTCTTTCTTCTTC
1 TTCTTT-TTTCTT-TTT-TTTTTC
*
911073 TTCCTTTTTCTT
1 TTCTTTTTTCTT
911085 CTTCCTTCTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 23 0.52
22 5 0.11
23 7 0.16
24 9 0.20
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTTTTCTTTTTTTTTTC
Found at i:911048 original size:32 final size:32
Alignment explanation
Indices: 911012--911097 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
911002 TTATTTTCTT
* *
911012 TTTTCTTTTTTTTTTCTTCTTTCTTCTTCCTC
1 TTTTCTTCTTTCTTTCTTCTTTCTTCTTCCTC
*
911044 TTTTCTTCTTTCTTTCTTCTTTCTTCTTCTTCC
1 TTTTCTTCTTTCTTTCTTCTTTCTTCTTCCT-C
*
911077 TTTTTCTTC-TTCCTTCTTCTT
1 -TTTTCTTCTTTCTTTCTTCTT
911098 CAAAGTTTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
32 28 0.58
33 12 0.25
34 8 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (32 bp):
TTTTCTTCTTTCTTTCTTCTTTCTTCTTCCTC
Found at i:911093 original size:10 final size:10
Alignment explanation
Indices: 911025--911098 Score: 59
Period size: 10 Copynumber: 7.6 Consensus size: 10
911015 TCTTTTTTTT
*
911025 TTCTTCTTTC
1 TTCTTCCTTC
911035 TTCTTCC-TC
1 TTCTTCCTTC
911044 TT-TT-CTTC
1 TTCTTCCTTC
*
911052 TTTCTTTCTTC
1 -TTCTTCCTTC
911063 TTTCTT-CTTC
1 -TTCTTCCTTC
*
911073 TTCCTT-TTTC
1 TT-CTTCCTTC
911083 TTCTTCCTTC
1 TTCTTCCTTC
911093 TTCTTC
1 TTCTTC
911099 AAAGTTTAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 11 0.20
10 29 0.53
11 10 0.18
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTCCTTC
Found at i:911094 original size:7 final size:7
Alignment explanation
Indices: 911027--911095 Score: 54
Period size: 7 Copynumber: 10.0 Consensus size: 7
911017 TTTTTTTTTT
*
911027 CTTCTTT
1 CTTCTTC
911034 CTTCTTC
1 CTTCTTC
*
911041 C-TCTTTT
1 CTTC-TTC
911048 CTTCTTTC
1 CTTC-TTC
*
911056 TTTCTTC
1 CTTCTTC
*
911063 TTTCTT-
1 CTTCTTC
911069 CTTCTTC
1 CTTCTTC
*
911076 CTT-TTT
1 CTTCTTC
911082 CTTCTTC
1 CTTCTTC
911089 CTTCTTC
1 CTTCTTC
911096 TTCAAAGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
6 12 0.24
7 31 0.61
8 8 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (7 bp):
CTTCTTC
Found at i:911240 original size:14 final size:14
Alignment explanation
Indices: 911216--911249 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
911206 TTTGGCAAAG
911216 TTTTTTCTCTTTTT
1 TTTTTTCTCTTTTT
911230 TTGTTTT-TCTTTTT
1 TT-TTTTCTCTTTTT
911244 TTTTTT
1 TTTTTT
911250 GAAATCTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTTCTCTTTTT
Found at i:911247 original size:16 final size:16
Alignment explanation
Indices: 911217--911246 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
911207 TTGGCAAAGT
911217 TTTTTCTCTTTTTTTG
1 TTTTTCTCTTTTTTTG
911233 TTTTTCT-TTTTTTT
1 TTTTTCTCTTTTTTT
911247 TTTGAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTCTCTTTTTTTG
Found at i:911448 original size:30 final size:30
Alignment explanation
Indices: 911412--911549 Score: 127
Period size: 30 Copynumber: 4.6 Consensus size: 30
911402 AAATACAGCA
* * *
911412 AAAGTTTTGGTGTCGAAACATAATTTAGAG
1 AAAGTTTAGGGGTCGAAATATAATTTAGAG
* *
911442 AAAGTTTAGGGGTC-AAAAAGTAATTTTGAG
1 AAAGTTTAGGGGTCGAAATA-TAATTTAGAG
* * *
911472 AAATTTTAGGGGTCAAAATGTAATTTAGA-
1 AAAGTTTAGGGGTCGAAATATAATTTAGAG
* * *
911501 AAAGTTTAGGGGTTGAAATGTAATTTCGAG
1 AAAGTTTAGGGGTCGAAATATAATTTAGAG
** *
911531 AAAGTACAGGGGTCAAAAT
1 AAAGTTTAGGGGTCGAAAT
911550 GAAAATTTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
29 29 0.33
30 57 0.64
31 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
AAAGTTTAGGGGTCGAAATATAATTTAGAG
Found at i:911509 original size:59 final size:60
Alignment explanation
Indices: 911432--911550 Score: 168
Period size: 59 Copynumber: 2.0 Consensus size: 60
911422 TGTCGAAACA
* * **
911432 TAATTTAGAGAAAGTTTAGGGGTCAAAAAGTAATTTTGAGAAATTTTAGGGGTCAAAATG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAAAGTAATTTCGAGAAAGTACAGGGGTCAAAATG
** *
911492 TAATTTAGA-AAAGTTTAGGGGTTGAAATGTAATTTCGAGAAAGTACAGGGGTCAAAATG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAAAGTAATTTCGAGAAAGTACAGGGGTCAAAATG
911551 AAAATTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
59 43 0.83
60 9 0.17
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.30
Consensus pattern (60 bp):
TAATTTAGAGAAAGTTTAGGGGTCAAAAAGTAATTTCGAGAAAGTACAGGGGTCAAAATG
Found at i:911550 original size:30 final size:30
Alignment explanation
Indices: 911432--911550 Score: 159
Period size: 30 Copynumber: 4.0 Consensus size: 30
911422 TGTCGAAACA
*
911432 TAATTTAGAGAAAGTTTAGGGGTCAAAAAG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAATG
* *
911462 TAATTTTGAGAAATTTTAGGGGTCAAAATG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAATG
**
911492 TAATTTAGA-AAAGTTTAGGGGTTGAAATG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAATG
* **
911521 TAATTTCGAGAAAGTACAGGGGTCAAAATG
1 TAATTTAGAGAAAGTTTAGGGGTCAAAATG
911551 AAAATTTTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
29 25 0.33
30 51 0.67
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.30
Consensus pattern (30 bp):
TAATTTAGAGAAAGTTTAGGGGTCAAAATG
Found at i:912004 original size:77 final size:75
Alignment explanation
Indices: 911742--912014 Score: 363
Period size: 77 Copynumber: 3.5 Consensus size: 75
911732 AGCTCGGCGT
* * * *
911742 GTGACCCAAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTG-AAAAACATG-AATTGAA
1 GTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACA-GAAATT-TA
911804 AAAATACCTCAGC
63 AAAATACCTCAGC
* *
911817 GTGACGCGAGGCTCAACTCACCTCTATATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATT
1 GTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-T---TT
911882 AAAAAAAATACCTCAGC
62 ---AAAAATACCTCAGC
911899 GTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAAGCAGAAATTTAA
1 GTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAA-CAGAAATTTAA
911964 AAATACCTCAGC
64 AAATACCTCAGC
911976 GTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
1 GTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
912015 NNNNNNNNNN
Statistics
Matches: 178, Mismatches: 8, Indels: 22
0.86 0.04 0.11
Matches are distributed among these distances:
74 11 0.06
75 30 0.17
76 9 0.05
77 54 0.30
80 3 0.02
82 51 0.29
83 14 0.08
84 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (75 bp):
GTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAA
ATACCTCAGC
Found at i:913502 original size:1 final size:1
Alignment explanation
Indices: 913496--913588 Score: 60
Period size: 1 Copynumber: 93.0 Consensus size: 1
913486 TTCATCTTGA
* * * * * * * * ** *
913496 TTTTTTTCTTTTTCTTTTCTTTGTTTTTTCTTTTTTCTTTTTTTGTTTTTTTTGTTCCTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
913561 TTTTTTTTGTTTTCTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
913589 CAAGCATAAT
Statistics
Matches: 66, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (1 bp):
T
Found at i:913516 original size:23 final size:23
Alignment explanation
Indices: 913490--913547 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
913480 CGGGTTTTCA
913490 TCTTGATTTTTTTC-TTTTTCTTT
1 TCTTG-TTTTTTTCTTTTTTCTTT
913513 TCTT-TGTTTTTTCTTTTTTCTTT
1 TCTTGT-TTTTTTCTTTTTTCTTT
*
913536 TTTTGTTTTTTT
1 TCTTGTTTTTTT
913548 TGTTCCTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 1 0.03
22 7 0.23
23 22 0.71
24 1 0.03
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (23 bp):
TCTTGTTTTTTTCTTTTTTCTTT
Found at i:913522 original size:22 final size:20
Alignment explanation
Indices: 913497--913588 Score: 98
Period size: 19 Copynumber: 4.5 Consensus size: 20
913487 TCATCTTGAT
913497 TTTTTTCTTTTTCTTTTCTTTG
1 TTTTTT-TTTTTCTTTT-TTTG
913519 TTTTTTCTTTTTTCTTTTTTTG
1 -TTTTT-TTTTTTCTTTTTTTG
* *
913541 TTTTTTTTGTTC-CTTTTTG
1 TTTTTTTTTTTCTTTTTTTG
* *
913560 TTTTTTTTTGT-TTTCTTTG
1 TTTTTTTTTTTCTTTTTTTG
913579 TTTTTTTTTT
1 TTTTTTTTTT
913589 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
19 29 0.48
20 6 0.10
21 5 0.08
22 4 0.07
23 15 0.25
24 1 0.02
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTTCTTTTTTTG
Found at i:913529 original size:29 final size:28
Alignment explanation
Indices: 913496--913588 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 28
913486 TTCATCTTGA
*
913496 TTTTTTTCTTTTTCTTTTCTTTGTTTTT
1 TTTTTTTCTTTTTGTTTTCTTTGTTTTT
*
913524 TCTTTTTTCTTTTTTTGTTTTTTTTGTTCCTTT
1 T-TTTTTTC--TTTTTGTTTTCTTTGTT--TTT
*
913557 TTGTTTT-TTTTTGTTTTCTTTGTTTTT
1 TTTTTTTCTTTTTGTTTTCTTTGTTTTT
913584 TTTTT
1 TTTTT
913589 CAAGCATAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
27 7 0.13
28 1 0.02
29 23 0.42
31 15 0.27
32 5 0.09
33 4 0.07
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (28 bp):
TTTTTTTCTTTTTGTTTTCTTTGTTTTT
Found at i:913557 original size:19 final size:17
Alignment explanation
Indices: 913526--913586 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 17
913516 TTGTTTTTTC
*
913526 TTTTTTCTTTTTTTGTT
1 TTTTTTGTTTTTTTGTT
913543 TTTTTTGTTCCTTTTTGTTT
1 TTTTTTGTT--TTTTTG-TT
913563 TTTTTTGTTTTCTTTGTT
1 TTTTTTGTTTT-TTTGTT
913581 TTTTTT
1 TTTTTT
913587 TTCAAGCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 8 0.21
18 10 0.26
19 10 0.26
20 11 0.28
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.85
Consensus pattern (17 bp):
TTTTTTGTTTTTTTGTT
Found at i:919073 original size:21 final size:22
Alignment explanation
Indices: 919047--919087 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
919037 TTATTTTCAC
919047 TAAAACACAAA-CTAAAAAACG
1 TAAAACACAAAGCTAAAAAACG
**
919068 TAAAACTTAAAGCTAAAAAA
1 TAAAACACAAAGCTAAAAAA
919088 AAATAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.66, C:0.15, G:0.05, T:0.15
Consensus pattern (22 bp):
TAAAACACAAAGCTAAAAAACG
Found at i:919709 original size:18 final size:17
Alignment explanation
Indices: 919685--920005 Score: 124
Period size: 18 Copynumber: 17.6 Consensus size: 17
919675 ACACAATAAT
919685 AATTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
919702 AGATTTTTG-AAACACGA
1 A-ATTTTTGAAAACACGA
*
919719 GATTTTTTTG-AAACACGAA
1 -A-ATTTTTGAAAACACG-A
* *
919738 AATTTATG-AAACACGGTC
1 AATTTTTGAAAACAC-G-A
*
919756 AATTTTTTAAAACACGAA
1 AATTTTTGAAAACACG-A
*
919774 AATTTTTTAAAA-ACGGGA
1 AATTTTTGAAAACAC--GA
*
919792 ATTTTTTTTTGAAAACACGGA
1 A---ATTTTTGAAAACAC-GA
* *
919813 AATTTATG-AAACATGGA
1 AATTTTTGAAAACA-CGA
* *
919830 ATTTTTTTTTTGAAAACAAGAA
1 A----ATTTTTGAAAACACG-A
* *
919852 AATTTTCGATATACGA-GA
1 AATTTTTGA-AAAC-ACGA
* *
919870 ATTTTTTAAAAACACGGGA
1 AATTTTTGAAAACAC--GA
919889 AATTTTTTTGAAAACAC-A
1 AA--TTTTTGAAAACACGA
*
919907 AA-TTTTG-AAACACTGG
1 AATTTTTGAAAACAC-GA
919923 AATTTTT-AAAACACGA
1 AATTTTTGAAAACACGA
*
919939 AGATTTTTG-AAACATGAA
1 A-ATTTTTGAAAACACG-A
919957 AATTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
*
919974 AATTTTTTTTTAAAACACGGA
1 AA---TTTTTGAAAACAC-GA
919995 AATTTTTGAAA
1 AATTTTTGAAA
920006 CCCGGTCTCC
Statistics
Matches: 234, Mismatches: 33, Indels: 73
0.69 0.10 0.21
Matches are distributed among these distances:
14 6 0.03
15 5 0.02
16 5 0.02
17 65 0.28
18 81 0.35
19 15 0.06
20 13 0.06
21 35 0.15
22 9 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (17 bp):
AATTTTTGAAAACACGA
Found at i:919762 original size:36 final size:35
Alignment explanation
Indices: 919687--919885 Score: 152
Period size: 39 Copynumber: 5.4 Consensus size: 35
919677 ACAATAATAA
* * *
919687 TTTTTGAAAACACGAAGATTTTTGAAACACGAGATT
1 TTTTTGAAAACACGAAAATTTATGAAACACG-GAAT
919723 TTTTTG-AAACACGAAAATTTATGAAACACGGTCAAT
1 TTTTTGAAAACACGAAAATTTATGAAACACGG--AAT
* * *
919759 TTTTT-AAAACACGAAAATTTTTTAAAAACGGGAATTTT
1 TTTTTGAAAACACGAAAATTTATGAAACAC-GGAA---T
* *
919797 TTTTTGAAAACACGGAAATTTATGAAACATGGAATTTTT
1 TTTTTGAAAACACGAAAATTTATGAAACACGGAA----T
* * *
919836 TTTTTGAAAACAAGAAAATTT-TCGATATACGAGAAT
1 TTTTTGAAAACACGAAAATTTAT-GAAACACG-GAAT
*
919872 TTTTTAAAAACACG
1 TTTTTGAAAACACG
919886 GGAAATTTTT
Statistics
Matches: 134, Mismatches: 18, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
34 1 0.01
35 24 0.18
36 46 0.34
37 2 0.01
38 11 0.08
39 47 0.35
40 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTATGAAACACGGAAT
Found at i:919811 original size:22 final size:20
Alignment explanation
Indices: 919776--919817 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
919766 AACACGAAAA
*
919776 TTTTTTAAAAACGGGAATTT
1 TTTTTTAAAAACGGAAATTT
919796 TTTTTTGAAAACACGGAAATTT
1 TTTTTT-AAAA-ACGGAAATTT
919818 ATGAAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTTTTAAAAACGGAAATTT
Found at i:919988 original size:20 final size:21
Alignment explanation
Indices: 919959--920001 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
919949 AACATGAAAA
919959 TTTTTGAAAACAC-GAAATTT
1 TTTTTGAAAACACGGAAATTT
*
919979 TTTTTTAAAACACGGAAATTT
1 TTTTTGAAAACACGGAAATTT
920000 TT
1 TT
920002 GAAACCCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (21 bp):
TTTTTGAAAACACGGAAATTT
Found at i:920006 original size:17 final size:17
Alignment explanation
Indices: 919685--920006 Score: 127
Period size: 17 Copynumber: 17.7 Consensus size: 17
919675 ACACAATAAT
919685 AATTTTTGAAAACAC-GA
1 AATTTTTG-AAACACGGA
919702 AGATTTTTGAAACACGAGA
1 A-ATTTTTGAAACACG-GA
** *
919721 TTTTTTTGAAACACGAA
1 AATTTTTGAAACACGGA
*
919738 AATTTATGAAACACGGTCA
1 AATTTTTGAAACACGG--A
* * *
919757 ATTTTTTAAAACACGAA
1 AATTTTTGAAACACGGA
* *
919774 AATTTTTTAAAAACGGGA
1 AATTTTTGAAACAC-GGA
*
919792 ATTTTTTTTTGAAAACACGGA
1 A---ATTTTTG-AAACACGGA
* *
919813 AATTTATGAAACATGGA
1 AATTTTTGAAACACGGA
* * *
919830 ATTTTTTTTTTGAAAACAAGAA
1 A----ATTTTTG-AAACACGGA
* * *
919852 AATTTTCGATATACGAGA
1 AATTTTTGAAACACG-GA
* *
919870 ATTTTTTAAAAACACGGGA
1 AATTTTT-GAAACAC-GGA
919889 AATTTTTTTGAAAACAC--A
1 AA--TTTTTG-AAACACGGA
919907 AA-TTTTGAAACACTGG-
1 AATTTTTGAAACAC-GGA
*
919923 AATTTTTAAAACAC-GA
1 AATTTTTGAAACACGGA
* *
919939 AGATTTTTGAAACATGAA
1 A-ATTTTTGAAACACGGA
919957 AATTTTTGAAAACAC-GA
1 AATTTTTG-AAACACGGA
*
919974 AATTTTTTTTTAAAACACGGA
1 AA----TTTTTGAAACACGGA
919995 AATTTTTGAAAC
1 AATTTTTGAAAC
920007 CCGGTCTCCT
Statistics
Matches: 225, Mismatches: 46, Indels: 68
0.66 0.14 0.20
Matches are distributed among these distances:
14 6 0.03
15 6 0.03
16 3 0.01
17 85 0.38
18 49 0.22
19 22 0.10
20 7 0.03
21 34 0.15
22 13 0.06
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (17 bp):
AATTTTTGAAACACGGA
Found at i:920362 original size:59 final size:60
Alignment explanation
Indices: 920250--920394 Score: 193
Period size: 59 Copynumber: 2.4 Consensus size: 60
920240 AAATACAGTA
* * *
920250 AAAGTTTTGGGGCCAAAACGTAATTTAGAGAAAGTTTAGGGGTCAAAATGTAATTTTAAG
1 AAAGTTTAGGGGTCAAAATGTAATTTAGAGAAAGTTTAGGGGTCAAAATGTAATTTTAAG
** *
920310 AAAGTTTAGGGGTCAAAATGTAATTTAGA-AAAGTTTAGGGGTTGAAATGTAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTAGAGAAAGTTTAGGGGTCAAAATGTAATTTTAAG
** * *
920369 AAAGTACAAGGGTCAAAATGCAATTT
1 AAAGTTTAGGGGTCAAAATGTAATTT
920395 TTTTAATTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 49 0.65
60 26 0.35
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (60 bp):
AAAGTTTAGGGGTCAAAATGTAATTTAGAGAAAGTTTAGGGGTCAAAATGTAATTTTAAG
Found at i:920395 original size:30 final size:30
Alignment explanation
Indices: 920250--920395 Score: 177
Period size: 30 Copynumber: 4.9 Consensus size: 30
920240 AAATACAGTA
* * * *
920250 AAAGTTTTGGGGCCAAAACGTAATTTAGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
920280 AAAGTTTAGGGGTCAAAATGTAATTTTAAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
920310 AAAGTTTAGGGGTCAAAATGTAATTTAGA-
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
**
920339 AAAGTTTAGGGGTTGAAATGTAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
** * *
920369 AAAGTACAAGGGTCAAAATGCAATTTT
1 AAAGTTTAGGGGTCAAAATGTAATTTT
920396 TTTAATTTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
29 26 0.26
30 73 0.74
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTGAG
Found at i:920507 original size:22 final size:22
Alignment explanation
Indices: 920473--920524 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
920463 TCGTTAGGTA
*
920473 TCAATATCGCGATACCCAAACT
1 TCAATATCACGATACCCAAACT
* *
920495 TCGATATCACGATACCCAATCT
1 TCAATATCACGATACCCAAACT
920517 TCAATATC
1 TCAATATC
920525 GCAATTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.27
Consensus pattern (22 bp):
TCAATATCACGATACCCAAACT
Found at i:921375 original size:95 final size:96
Alignment explanation
Indices: 921261--921456 Score: 376
Period size: 95 Copynumber: 2.1 Consensus size: 96
921251 AATAATAACT
921261 TAATTATAAAATTATTAAAATACTCTCTAATATATAATTTAAGTTATATTTTTCTCAAGGTGTTT
1 TAATTATAAAATTATTAAAATACTCTCTAATATATAATTTAAGTTATATTTTTCTCAAGGTGTTT
921326 TTATCTTCTTTTATATAATTAAAAAAAATAA
66 TTATCTTCTTTTATATAATTAAAAAAAATAA
921357 TAATTAT-AAATTATTAAAATACTCTCTAATATATAATTTAAGTTATATTTTTCTCAAGGTGTTT
1 TAATTATAAAATTATTAAAATACTCTCTAATATATAATTTAAGTTATATTTTTCTCAAGGTGTTT
921421 TTATCTTCTTTTATATAATTAAAAAAAATAA
66 TTATCTTCTTTTATATAATTAAAAAAAATAA
*
921452 AAATT
1 TAATT
921457 TAACCATAAT
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 92 0.93
96 7 0.07
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (96 bp):
TAATTATAAAATTATTAAAATACTCTCTAATATATAATTTAAGTTATATTTTTCTCAAGGTGTTT
TTATCTTCTTTTATATAATTAAAAAAAATAA
Found at i:923514 original size:43 final size:43
Alignment explanation
Indices: 923366--923522 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
923356 TGTGATTAAG
* * *
923366 TGTAAGACCACATCTAGGAC-GTTTGCATCGAT-TTGTGATTTACA
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-TGATTT-CA
* ** * *
923410 TGTAAGACCATGTCTGGGACA-TCGGCATCG-TATACGAGTTCG
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGATATTTGATTTCA
*
923452 TGTAAGACC-CTGTCAGGGACAGTGGCATCGATATTTGATTTCA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTTCA
*
923495 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACAGTGGCAT
923523 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 26 0.29
43 39 0.43
44 25 0.28
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTTCA
Found at i:926894 original size:11 final size:12
Alignment explanation
Indices: 926863--926896 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
926853 GTTTACGAGG
926863 ATATTATATATT
1 ATATTATATATT
926875 ATATATATATATT
1 ATAT-TATATATT
926888 A-ATTATATA
1 ATATTATATA
926897 GTAACATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 6 0.29
13 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTATATATT
Found at i:927659 original size:10 final size:9
Alignment explanation
Indices: 927621--927704 Score: 76
Period size: 8 Copynumber: 10.1 Consensus size: 9
927611 GATTTTTATG
*
927621 TTATGTATA
1 TTATATATA
*
927630 TTAT-TTTA
1 TTATATATA
927638 TTATATA-A
1 TTATATATA
927646 -TATACTATA
1 TTATA-TATA
*
927655 TTATATTTA
1 TTATATATA
927664 TTATAT-TA
1 TTATATATA
927672 -TAT-TATA
1 TTATATATA
927679 TTATAT-TA
1 TTATATATA
927687 TTATAT-TA
1 TTATATATA
927695 TTATATATA
1 TTATATATA
927704 T
1 T
927705 ATGACAAAGA
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
6 1 0.02
7 9 0.14
8 31 0.48
9 19 0.30
10 4 0.06
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (9 bp):
TTATATATA
Found at i:927660 original size:5 final size:5
Alignment explanation
Indices: 927626--927706 Score: 80
Period size: 5 Copynumber: 16.0 Consensus size: 5
927616 TTATGTTATG
*
927626 TATAT TAT-T T-TAT TATAT AATATAC TATAT TATAT T-TAT TATAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
927675 TATAT TATAT TAT-T ATATTAT TATAT ATATAT
1 TATAT TATAT TATAT -TA-TAT TATAT -TATAT
927707 GACAAAGAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 17
0.77 0.02 0.20
Matches are distributed among these distances:
3 1 0.02
4 9 0.14
5 42 0.65
6 8 0.12
7 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:927772 original size:40 final size:40
Alignment explanation
Indices: 927715--927810 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
927705 ATGACAAAGA
927715 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
927756 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
927796 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
927811 GAAAGAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:928889 original size:25 final size:24
Alignment explanation
Indices: 928839--928903 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
928829 ACTTTAGCGC
***
928839 GCTCTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGGCAGT
928863 GCTCTCTGATATTTAGCACGGCAGT
1 GCTCTCTGATA-TTAGCACGGCAGT
928888 GCTCTCTG-T-TTAGCAC
1 GCTCTCTGATATTAGCAC
928904 ATTTGTGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 7 0.19
24 12 0.32
25 18 0.49
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGGCAGT
Found at i:930001 original size:20 final size:19
Alignment explanation
Indices: 929970--930020 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
929960 TTAATTGAGG
*
929970 TGAATGTGATATGGAATTA
1 TGAATATGATATGGAATTA
* *
929989 TGAAATATGATATTGAATTG
1 TG-AATATGATATGGAATTA
*
930009 TGTATATGATAT
1 TGAATATGATAT
930021 TATGGATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (19 bp):
TGAATATGATATGGAATTA
Found at i:930128 original size:35 final size:34
Alignment explanation
Indices: 930068--930248 Score: 175
Period size: 34 Copynumber: 5.3 Consensus size: 34
930058 CGGCTAGTGT
*
930068 TGGGCACAACCATCGTCAGTTATCTGACTAGCGC
1 TGGGCGCAACCATCGTCAGTTATCTGACTAGCGC
* * *
930102 TAGGCGCAA-CTTCTGTCAGTTTATCTGACTAGCGT
1 TGGGCGCAACCATC-GTCAG-TTATCTGACTAGCGC
** * * * *
930137 TGGGTACAATCATCGTCTGTTATCCGATTAGCGC
1 TGGGCGCAACCATCGTCAGTTATCTGACTAGCGC
** * *
930171 TGGGCGCAACTTTCGTCAATTTATCTGACTAGTGC
1 TGGGCGCAACCATCGTC-AGTTATCTGACTAGCGC
* *
930206 TGGGCACAACCATCGTCGGTTATCTGACTAGCGC
1 TGGGCGCAACCATCGTCAGTTATCTGACTAGCGC
*
930240 TAGGCGCAA
1 TGGGCGCAA
930249 AACATTGTCA
Statistics
Matches: 113, Mismatches: 30, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
33 3 0.03
34 57 0.50
35 50 0.44
36 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (34 bp):
TGGGCGCAACCATCGTCAGTTATCTGACTAGCGC
Found at i:930177 original size:69 final size:69
Alignment explanation
Indices: 930061--930283 Score: 274
Period size: 69 Copynumber: 3.2 Consensus size: 69
930051 ATTCGTTCGG
*
930061 CTAGTGTTGGGCACAACCATCGTCAGTTATCTGACTAGCGCTAGGCGCAAC-TTCTGTCAGTTTA
1 CTAGTGTTGGGCACAACCATCGTCAGTTATCTGACTAGCGCTAGGCGCAACTTTC-GTCAATTTA
930125 TCTGA
65 TCTGA
* * * * * * *
930130 CTAGCGTTGGGTACAATCATCGTCTGTTATCCGATTAGCGCTGGGCGCAACTTTCGTCAATTTAT
1 CTAGTGTTGGGCACAACCATCGTCAGTTATCTGACTAGCGCTAGGCGCAACTTTCGTCAATTTAT
930195 CTGA
66 CTGA
* * *
930199 CTAGTGCTGGGCACAACCATCGTCGGTTATCTGACTAGCGCTAGGCGCAAAACATT-GTCAACTT
1 CTAGTGTTGGGCACAACCATCGTCAGTTATCTGACTAGCGCTAGGCGC--AACTTTCGTCAA-TT
930263 GT-TC-GA
63 -TATCTGA
930269 CTAGTGTTGGGCACA
1 CTAGTGTTGGGCACA
930284 CAAATGATCT
Statistics
Matches: 131, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
69 97 0.74
70 24 0.18
71 9 0.07
72 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (69 bp):
CTAGTGTTGGGCACAACCATCGTCAGTTATCTGACTAGCGCTAGGCGCAACTTTCGTCAATTTAT
CTGA
Found at i:934256 original size:27 final size:26
Alignment explanation
Indices: 934217--934273 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
934207 AAATCCTAAA
* * *
934217 TTTTCTTTGTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTT-CTCCCCTGTTTTCG
934243 TTTTCTTTCCTTTCTCCCCTGTTTTCG
1 TTTTCTTT-CTTTCTCCCCTGTTTTCG
934270 TTTT
1 TTTT
934274 GCTATTCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTTCTTTCTTTCTCCCCTGTTTTCG
Found at i:935264 original size:21 final size:21
Alignment explanation
Indices: 935214--935266 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
935204 GATTAGGCAT
*
935214 TTAAGATGGTTGTTTTGAGAATG
1 TTAA-ATGG-TGTTTTGAGAAGG
*
935237 TTTAATGGTGTTTTGA-ATAGG
1 TTAAATGGTGTTTTGAGA-AGG
935258 TTAAATGGT
1 TTAAATGGT
935267 TGATGAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 18 0.69
22 4 0.15
23 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.45
Consensus pattern (21 bp):
TTAAATGGTGTTTTGAGAAGG
Found at i:940763 original size:20 final size:20
Alignment explanation
Indices: 940738--940779 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
940728 ATATTTCATT
940738 AAAATAT-TCATAAAAATAAA
1 AAAATATATCA-AAAAATAAA
*
940758 AAAATATATTAAAAAATAAA
1 AAAATATATCAAAAAATAAA
940778 AA
1 AA
940780 TTAGTGTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATATATCAAAAAATAAA
Found at i:943407 original size:29 final size:27
Alignment explanation
Indices: 943374--943452 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 27
943364 AGAAATCTCA
* *
943374 AATTTTATATGAATTTTGGTTTAATGTAT
1 AATTTTATATAAATTTTGATTT--TGTAT
943403 AATTTTACATATAAATTTTGATTTTGTAT
1 AATTTT--ATATAAATTTTGATTTTGTAT
* *
943432 AATTTTAT-GAAATTTAGATTT
1 AATTTTATATAAATTTTGATTT
943453 GATTCAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
26 11 0.25
27 2 0.05
29 17 0.39
31 14 0.32
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.54
Consensus pattern (27 bp):
AATTTTATATAAATTTTGATTTTGTAT
Found at i:943422 original size:31 final size:29
Alignment explanation
Indices: 943380--943438 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
943370 CTCAAATTTT
* *
943380 ATATGAATTTTGGTTTAATGTATAATTTTAC
1 ATATAAATTTTGATTT--TGTATAATTTTAC
943411 ATATAAATTTTGATTTTGTATAATTTTA
1 ATATAAATTTTGATTTTGTATAATTTTA
943439 TGAAATTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
31 14 0.54
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (29 bp):
ATATAAATTTTGATTTTGTATAATTTTAC
Found at i:944869 original size:20 final size:20
Alignment explanation
Indices: 944833--944881 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
944823 TTAGTGTTAT
944833 TTTATATTTATTGTTATAAA
1 TTTATATTTATTGTTATAAA
*
944853 TTTA-ATTTATCTTTTATAGAA
1 TTTATATTTAT-TGTTATA-AA
*
944874 TGTATATT
1 TTTATATT
944882 CATATAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 10 0.42
21 5 0.21
22 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTATATTTATTGTTATAAA
Found at i:951056 original size:43 final size:43
Alignment explanation
Indices: 950986--951068 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
950976 ATATTCTAGA
* * *
950986 AAGGAAAGAAATCATCTAAAGTGAAATCGCAATAGAGAAACCT
1 AAGGAAAGAAATCATCTAAAATAAAATCACAATAGAGAAACCT
*
951029 AAGGAAAGAAATCAAT-TAAAATAAAATCACAATCGAGAAA
1 AAGGAAAGAAATC-ATCTAAAATAAAATCACAATAGAGAAA
951069 TCTACTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 33 0.94
44 2 0.06
ACGTcount: A:0.57, C:0.12, G:0.16, T:0.16
Consensus pattern (43 bp):
AAGGAAAGAAATCATCTAAAATAAAATCACAATAGAGAAACCT
Found at i:951377 original size:32 final size:32
Alignment explanation
Indices: 951339--951403 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
951329 TCAATTGTCT
951339 TCCCCTTATCTAGATTTTGGAATGACCTGTTG
1 TCCCCTTATCTAGATTTTGGAATGACCTGTTG
951371 TCCCCTTATCTAGATTTTGGAATGACCTGTTG
1 TCCCCTTATCTAGATTTTGGAATGACCTGTTG
951403 T
1 T
951404 GGTTGGCAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (32 bp):
TCCCCTTATCTAGATTTTGGAATGACCTGTTG
Found at i:956858 original size:78 final size:79
Alignment explanation
Indices: 956693--956860 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
956683 GGCTCTCATG
* * * * * * *
956693 ACTTTTTGCACAAGGTTTAAAGTTGGTAGGTTGCCAATGAGGTACATTGGTGCTCCTTTTGTTTC
1 ACTTCTTGCACAAGGTTTAAAGTTGGTAAGCTACCAATGAGATACATTGGTGCACCTCTTGTTTC
*
956758 TCAGAAGCAATTTC
66 TCAGAAGCAATCTC
956772 ACTTCTTGCACAAGGTTTAAAGTTGGTAAGCTACCAATGAGATAC-TTGGTGCACCTCTTGTTTC
1 ACTTCTTGCACAAGGTTTAAAGTTGGTAAGCTACCAATGAGATACATTGGTGCACCTCTTGTTTC
** **
956836 TTGGAAGCTGTCTC
66 TCAGAAGCAATCTC
956850 ACTTCTTGCAC
1 ACTTCTTGCAC
956861 GTCTCACTTC
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 37 0.48
79 40 0.52
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (79 bp):
ACTTCTTGCACAAGGTTTAAAGTTGGTAAGCTACCAATGAGATACATTGGTGCACCTCTTGTTTC
TCAGAAGCAATCTC
Found at i:956866 original size:16 final size:16
Alignment explanation
Indices: 956845--956876 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
956835 CTTGGAAGCT
956845 GTCTCACTTCTTGCAC
1 GTCTCACTTCTTGCAC
956861 GTCTCACTTCTTGCAC
1 GTCTCACTTCTTGCAC
956877 AAGGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (16 bp):
GTCTCACTTCTTGCAC
Found at i:956944 original size:95 final size:94
Alignment explanation
Indices: 956770--956944 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 94
956760 AGAAGCAATT
*
956770 TCACTTCTTGCACAAGGTTTAAAGTTGGTAAGCTACCAATGAGATACTTGGTGCACCTCTTGTTT
1 TCACTTCTTGCACAAGGTTTAAAGTCGGTAAGCTACCAATGAGATACTTGGTGCACCTCTTGTTT
*
956835 CTTGGAAGCTGTCTCACTTCTTGCACGTC
66 CTCGGAAGCTGTCTCACTTCTTGCACGTC
* *** * * **
956864 TCACTTCTTGCACAAGGTTTAAAGTCGGTAGGCTGTTAGTGAGGTACTTTGGTGTTCCTCTTGTT
1 TCACTTCTTGCACAAGGTTTAAAGTCGGTAAGCTACCAATGAGATAC-TTGGTGCACCTCTTGTT
956929 TCTCGGAAGCTGTCTC
65 TCTCGGAAGCTGTCTC
956945 GATCTAACTG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
94 40 0.57
95 30 0.43
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (94 bp):
TCACTTCTTGCACAAGGTTTAAAGTCGGTAAGCTACCAATGAGATACTTGGTGCACCTCTTGTTT
CTCGGAAGCTGTCTCACTTCTTGCACGTC
Found at i:957266 original size:76 final size:76
Alignment explanation
Indices: 957140--957288 Score: 246
Period size: 76 Copynumber: 2.0 Consensus size: 76
957130 TTCATATCAT
957140 AAACCAAACAAAATCAATCATATGGTCCCTTATATGAACCCTCAAGGCCCAAAATACACATTAGA
1 AAACCAAACAAAATCAATCATATGGTCCCTTATATGAACCCTCAAGGCCCAAAATACACATTAGA
*
957205 AACAAGTCGGG
66 AAAAAGTCGGG
* * *
957216 AAACCAAA-AACAATCAATCATGTGGTCCCTTATATGAACTCTCGAGGCCCAAAATACACATTAG
1 AAACCAAACAA-AATCAATCATATGGTCCCTTATATGAACCCTCAAGGCCCAAAATACACATTAG
957280 AAAAAAGTC
65 AAAAAAGTC
957289 AAGACTAAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 2 0.03
76 66 0.97
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (76 bp):
AAACCAAACAAAATCAATCATATGGTCCCTTATATGAACCCTCAAGGCCCAAAATACACATTAGA
AAAAAGTCGGG
Found at i:957421 original size:11 final size:12
Alignment explanation
Indices: 957405--957433 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
957395 GGACACACGG
957405 CCGTGTCCA-AC
1 CCGTGTCCATAC
957416 CCGTGTCCATAC
1 CCGTGTCCATAC
957428 CCGTGT
1 CCGTGT
957434 AACTTCTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.14, C:0.41, G:0.21, T:0.24
Consensus pattern (12 bp):
CCGTGTCCATAC
Found at i:959855 original size:50 final size:50
Alignment explanation
Indices: 959733--959944 Score: 316
Period size: 50 Copynumber: 4.2 Consensus size: 50
959723 ATATGGGTAA
* * * *
959733 AGAGATCCCATGTAAGACCATGTCTGGTACATGGCATTGGCATCATTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAGATG
* *
959786 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTCGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
959836 AGAGGTCCCATGTAAGACCATGTATGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
959886 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
959936 AGAGGTCCC
1 AGAGGTCCC
959945 CNNNNNNNNN
Statistics
Matches: 145, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
50 107 0.74
53 38 0.26
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:961308 original size:25 final size:25
Alignment explanation
Indices: 961267--961346 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
961257 GGAAATTCAA
961267 GAGAGCC-AATATCGGGAAGCTCGT
1 GAGAGCCAAATATCGGGAAGCTCGT
* *
961291 GAGAGCCAAATATCGGGATGCTCAT
1 GAGAGCCAAATATCGGGAAGCTCGT
* ** *
961316 AAGAGATAAATAACGGGAAGCTCGT
1 GAGAGCCAAATATCGGGAAGCTCGT
961341 GAGAGC
1 GAGAGC
961347 TATGGTGTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 7 0.16
25 38 0.84
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.16
Consensus pattern (25 bp):
GAGAGCCAAATATCGGGAAGCTCGT
Found at i:963540 original size:2 final size:2
Alignment explanation
Indices: 963533--963573 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
963523 TTACTTTAAA
963533 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
963574 AATATTTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:975368 original size:26 final size:25
Alignment explanation
Indices: 975316--975369 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
975306 TTATTATTAT
* *
975316 TATATTTTCTATACATATACATTCA
1 TATATTTTATATACATATACATGCA
975341 TATATTTTATATATCATAT-CTATGCA
1 TATATTTTATATA-CATATAC-ATGCA
975367 TAT
1 TAT
975370 TTAATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (25 bp):
TATATTTTATATACATATACATGCA
Found at i:976297 original size:16 final size:17
Alignment explanation
Indices: 976276--976307 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
976266 TAATAACAAT
976276 AATTTAATCAT-AAAAA
1 AATTTAATCATCAAAAA
976292 AATTTAATCATCAAAA
1 AATTTAATCATCAAAA
976308 TACCATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTTAATCATCAAAAA
Found at i:980951 original size:76 final size:74
Alignment explanation
Indices: 980907--981063 Score: 215
Period size: 76 Copynumber: 2.1 Consensus size: 74
980897 AATTTTTTCT
*
980907 AAGTTTTTATATACCTTTATATATATATTATTTTTGAGATATTTTTGGGTATTATATATATTTAA
1 AAGTTTTTATATA-CTTTATATATATATTATTTTTGAGATATTTTT--GTATAATATATATTTAA
* *
980972 TTAGGTGGTGAA
63 ATAAGTGGTGAA
* *
980984 AAGTTTTTATATACTTTATATATATATTATTTTTGAGATATTTTTGGGTATTATATATATTTAAT
1 AAGTTTTTATATACTTTATATATATATTATTTTTGAGATATTTTT--GTATAATATATATTTAAA
*
981049 TAGGTGGTGAA
64 TAAGTGGTGAA
981060 AAGT
1 AAGT
981064 CGCTTTATCC
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 67 0.84
77 13 0.16
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.52
Consensus pattern (74 bp):
AAGTTTTTATATACTTTATATATATATTATTTTTGAGATATTTTTGTATAATATATATTTAAATA
AGTGGTGAA
Found at i:980965 original size:37 final size:37
Alignment explanation
Indices: 980924--981043 Score: 118
Period size: 37 Copynumber: 3.2 Consensus size: 37
980914 TATATACCTT
980924 TATATATATATTATTTTTGAGATATTTTTGGGTATTA
1 TATATATATATTATTTTTGAGATATTTTTGGGTATTA
* * ** * ***
980961 TATATATTTAATTAGGTGGTGA-AAAGTTTTTATATACTT-
1 TATATATAT-ATTA-TTTTTGAGATA-TTTTTGGGTA-TTA
981000 TATATATATATTATTTTTGAGATATTTTTGGGTATTA
1 TATATATATATTATTTTTGAGATATTTTTGGGTATTA
981037 TATATAT
1 TATATAT
981044 TTAATTAGGT
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
36 2 0.03
37 26 0.43
38 12 0.20
39 19 0.31
40 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (37 bp):
TATATATATATTATTTTTGAGATATTTTTGGGTATTA
Found at i:980991 original size:39 final size:39
Alignment explanation
Indices: 980948--981063 Score: 114
Period size: 39 Copynumber: 3.0 Consensus size: 39
980938 TTTTGAGATA
980948 TTTTTGGGTATTATATATATTTAATTAGGTGGTGAAAAG
1 TTTTTGGGTATTATATATATTTAATTAGGTGGTGAAAAG
*** * * ** *
980987 TTTTTATATACTT-TATATATAT-ATTA-TTTTTGAGATA-
1 TTTTTGGGTA-TTATATATATTTAATTAGGTGGTGA-AAAG
981024 TTTTTGGGTATTATATATATTTAATTAGGTGGTGAAAAG
1 TTTTTGGGTATTATATATATTTAATTAGGTGGTGAAAAG
981063 T
1 T
981064 CGCTTTATCC
Statistics
Matches: 55, Mismatches: 16, Indels: 12
0.66 0.19 0.14
Matches are distributed among these distances:
36 2 0.04
37 19 0.35
38 12 0.22
39 20 0.36
40 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (39 bp):
TTTTTGGGTATTATATATATTTAATTAGGTGGTGAAAAG
Found at i:983387 original size:24 final size:26
Alignment explanation
Indices: 983360--983417 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
983350 TTTATTAGTT
983360 TATCAAAAATCA-ACTAC-TC-AAAAC
1 TATCAAAAATCACA-TACATCAAAAAC
983384 TATCAAAAA-CACATACATCAAAAAC
1 TATCAAAAATCACATACATCAAAAAC
983409 T-TCAAAAAT
1 TATCAAAAAT
983418 TATTCTCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 5 0.17
24 19 0.63
25 6 0.20
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.21
Consensus pattern (26 bp):
TATCAAAAATCACATACATCAAAAAC
Found at i:984351 original size:14 final size:14
Alignment explanation
Indices: 984332--984358 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
984322 CATGATAAAA
984332 TAAAATACAAGTGG
1 TAAAATACAAGTGG
984346 TAAAATACAAGTG
1 TAAAATACAAGTG
984359 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:986029 original size:43 final size:43
Alignment explanation
Indices: 985973--986056 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
985963 CTTCCTTGTT
* * * *
985973 ATACCTTGTGTAATATGCTTCGCGAACTTTATAGTGCACCTTG
1 ATACCTTATGTAATAGGCTTCACGAACCTTATAGTGCACCTTG
* * *
986016 ATACCTTATGTAATGGGCTTCACGGACCTTATAGTGTACCT
1 ATACCTTATGTAATAGGCTTCACGAACCTTATAGTGCACCT
986057 CACGAACTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (43 bp):
ATACCTTATGTAATAGGCTTCACGAACCTTATAGTGCACCTTG
Found at i:988340 original size:2 final size:2
Alignment explanation
Indices: 988333--988364 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
988323 TTCCAGTTTC
988333 AT AT 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
988365 GTCTATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:989198 original size:14 final size:14
Alignment explanation
Indices: 989179--989214 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
989169 TTGTTTCACT
* *
989179 GAAAATTATTTTTG
1 GAAAATGATTTCTG
989193 GAAAATGATTTCTG
1 GAAAATGATTTCTG
989207 GAAAATGA
1 GAAAATGA
989215 CTTACTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:989817 original size:18 final size:18
Alignment explanation
Indices: 989794--989833 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
989784 TTATTATTTT
*
989794 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATT-AAA
989812 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
989830 TAAA
1 TAAA
989834 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:989840 original size:19 final size:19
Alignment explanation
Indices: 989804--989854 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
989794 TAAAATTTAC
*
989804 TATTAAAATAAAAT-TTAAA
1 TATT-AAATAAATTATTAAA
989823 TATTAAATAAATTATTAAA
1 TATTAAATAAATTATTAAA
*
989842 -AAT-AATAAATTAT
1 TATTAAATAAATTAT
989855 ATTAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.34
18 10 0.34
19 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAATAAATTATTAAA
Found at i:992620 original size:20 final size:21
Alignment explanation
Indices: 992597--992643 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
992587 AAAAAAATGT
992597 AAAAGTTTATAAAAAT-CAT-A
1 AAAAGTTTAT-AAAATGCATCA
*
992617 AAAAATTTATAAAATGCATCA
1 AAAAGTTTATAAAATGCATCA
992638 AAAAGT
1 AAAAGT
992644 CCCTTTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 12 0.52
21 6 0.26
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (21 bp):
AAAAGTTTATAAAATGCATCA
Found at i:993040 original size:10 final size:10
Alignment explanation
Indices: 993027--993125 Score: 59
Period size: 9 Copynumber: 10.4 Consensus size: 10
993017 CTTTATAAAA
993027 TTTTATATA-
1 TTTTATATAT
*
993036 TTTT-TACAT
1 TTTTATATAT
*
993045 TTCTATATA-
1 TTTTATATAT
993054 TTTTATA-AT
1 TTTTATATAT
* *
993063 TTTTTTACGAT
1 TTTTATA-TAT
*
993074 TTTTATAAAT
1 TTTTATATAT
*
993084 TTTTACA-AT
1 TTTTATATAT
993093 TTTT-TATAT
1 TTTTATATAT
* *
993102 TTTTTTACGAT
1 TTTTATA-TAT
993113 TTTTATAT-T
1 TTTTATATAT
993122 TTTT
1 TTTT
993126 TGTAATTTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
8 5 0.07
9 36 0.51
10 13 0.19
11 16 0.23
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATATAT
Found at i:993079 original size:20 final size:20
Alignment explanation
Indices: 992957--993126 Score: 101
Period size: 20 Copynumber: 8.8 Consensus size: 20
992947 TGGTACGATA
992957 ATTTTTATAATTTTTTTTACG
1 ATTTTTATAA-TTTTTTTACG
**
992978 AAATTTAT-A-TTTTTTAC-
1 ATTTTTATAATTTTTTTACG
* *
992995 ATTTTGTATAATTTTCTTATG
1 ATTTT-TATAATTTTTTTACG
* * * *
993016 A-CTTTATAAAATTTTATA-T
1 ATTTTTAT-AATTTTTTTACG
* * * *
993035 ATTTTTA-CATTTCTATA-T
1 ATTTTTATAATTTTTTTACG
993053 A-TTTTATAATTTTTTTACG
1 ATTTTTATAATTTTTTTACG
* *
993072 ATTTTTATAA-ATTTTTACA
1 ATTTTTATAATTTTTTTACG
993091 ATTTTT-TATATTTTTTTACG
1 ATTTTTATA-ATTTTTTTACG
993111 ATTTTTAT-ATTTTTTT
1 ATTTTTATAATTTTTTT
993127 GTAATTTTCG
Statistics
Matches: 114, Mismatches: 23, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
17 8 0.07
18 29 0.25
19 28 0.25
20 41 0.36
21 8 0.07
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTATAATTTTTTTACG
Found at i:993126 original size:19 final size:19
Alignment explanation
Indices: 993054--993126 Score: 101
Period size: 19 Copynumber: 3.7 Consensus size: 19
993044 TTTCTATATA
993054 TTTTATAATTTTTTTACGAT
1 TTTTAT-ATTTTTTTACGAT
** *
993074 TTTTATAAATTTTTACAATT
1 TTTTATATTTTTTTACGA-T
993094 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACGAT
993113 TTTTATATTTTTTT
1 TTTTATATTTTTTT
993127 GTAATTTTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 24 0.52
20 22 0.48
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAT
Found at i:993342 original size:88 final size:87
Alignment explanation
Indices: 993243--993427 Score: 219
Period size: 87 Copynumber: 2.1 Consensus size: 87
993233 AGCAGGGGTA
*
993243 TAATTGCTTTTTTGGAAAAAGTTTGAAGGTATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAT
1 TAATTGCTTTTTT-GAAAAAGTTTGAAGGTATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAA
993308 TGAGTGCAAAACAAATATGGGCT
65 TGAGTGCAAAACAAATATGGGCT
* ** * * * * * * *
993331 TAATTGTTTTTTTTTAAAGGTTTGAGGGTTTTTTTGGTGTATTTTGAAAGTTTAAGTACCTAAAT
1 TAATTGCTTTTTTGAAAAAGTTTGAAGGTATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAAT
* *
993396 GAGTGCAAAAGAAAACAAT-GGCT
66 GAGTGCAAAA-CAAA-TATGGGCT
993419 TAATTGCTT
1 TAATTGCTT
993428 CTTCTTCTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
87 52 0.64
88 27 0.33
89 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (87 bp):
TAATTGCTTTTTTGAAAAAGTTTGAAGGTATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAAT
GAGTGCAAAACAAATATGGGCT
Found at i:1015852 original size:30 final size:30
Alignment explanation
Indices: 1015809--1015867 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1015799 CTTAACAAGC
1015809 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
* *
1015839 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
1015868 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:1021591 original size:32 final size:32
Alignment explanation
Indices: 1021550--1021654 Score: 210
Period size: 32 Copynumber: 3.3 Consensus size: 32
1021540 AATGATATTA
1021550 GATATTGAATTTATTATGTTTTAAGCTTGTTG
1 GATATTGAATTTATTATGTTTTAAGCTTGTTG
1021582 GATATTGAATTTATTATGTTTTAAGCTTGTTG
1 GATATTGAATTTATTATGTTTTAAGCTTGTTG
1021614 GATATTGAATTTATTATGTTTTAAGCTTGTTG
1 GATATTGAATTTATTATGTTTTAAGCTTGTTG
1021646 GATATTGAA
1 GATATTGAA
1021655 ATGATTGACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.51
Consensus pattern (32 bp):
GATATTGAATTTATTATGTTTTAAGCTTGTTG
Found at i:1021822 original size:48 final size:48
Alignment explanation
Indices: 1021754--1021846 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
1021744 CATCTTTTTC
1021754 TTGAAATTCTAGCAGAGGAGGCCAAGAGAGGAAATAAGCCTTCTATTT
1 TTGAAATTCTAGCAGAGGAGGCCAAGAGAGGAAATAAGCCTTCTATTT
* *
1021802 TTGAAATTCTAGTAGAGGAGGCCAAGAGAGGAGATAAGCCTTCTA
1 TTGAAATTCTAGCAGAGGAGGCCAAGAGAGGAAATAAGCCTTCTA
1021847 ATACTTTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (48 bp):
TTGAAATTCTAGCAGAGGAGGCCAAGAGAGGAAATAAGCCTTCTATTT
Found at i:1022952 original size:14 final size:14
Alignment explanation
Indices: 1022933--1022972 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1022923 TTTTAAAAAA
1022933 ATAAATTATTTTTC
1 ATAAATTATTTTTC
1022947 ATAAATTATTTTTC
1 ATAAATTATTTTTC
* *
1022961 AGAAAATATTTT
1 ATAAATTATTTT
1022973 AGTTACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (14 bp):
ATAAATTATTTTTC
Found at i:1039359 original size:21 final size:21
Alignment explanation
Indices: 1039333--1039381 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1039323 CAGTGGGGGA
*
1039333 GAGATTAGTTACTGA-AGCGGT
1 GAGATTAGATACT-ATAGCGGT
*
1039354 GAGATTGGATACTATAGCGGT
1 GAGATTAGATACTATAGCGGT
1039375 GAGATTA
1 GAGATTA
1039382 AAAACAATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.29
Consensus pattern (21 bp):
GAGATTAGATACTATAGCGGT
Found at i:1042067 original size:23 final size:22
Alignment explanation
Indices: 1042016--1042072 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
1042006 GGTCTTCATA
*
1042016 TTTTTCGTTTTAAGTAATTTAAT
1 TTTTTC-TTTTAAGTAATTTAAC
1042039 TGTTTTCTTTTATA-TAATTTTAAC
1 T-TTTTCTTTTA-AGTAA-TTTAAC
*
1042063 TTTTTTTTTT
1 TTTTTCTTTT
1042073 CATTCTCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTCTTTTAAGTAATTTAAC
Found at i:1042068 original size:24 final size:22
Alignment explanation
Indices: 1042016--1042072 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
1042006 GGTCTTCATA
1042016 TTTTTCGTTTTAAGTAATTTAAT
1 TTTTTC-TTTTAAGTAATTTAAT
1042039 TGTTTTCTTTTATA-TAATTTTAACT
1 T-TTTTCTTTTA-AGTAA-TTTAA-T
1042064 TTTTT-TTTT
1 TTTTTCTTTT
1042073 CATTCTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 13 0.43
24 15 0.50
25 2 0.07
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTCTTTTAAGTAATTTAAT
Found at i:1043583 original size:23 final size:23
Alignment explanation
Indices: 1043553--1043600 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1043543 CAAAACGATG
* *
1043553 AAATCTTAGTA-ACATTTTATTTT
1 AAATCTTAATATA-ATTATATTTT
1043576 AAATCTTAATATAATTATATTTT
1 AAATCTTAATATAATTATATTTT
1043599 AA
1 AA
1043601 TAGTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATCTTAATATAATTATATTTT
Found at i:1045745 original size:23 final size:22
Alignment explanation
Indices: 1045694--1045750 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
1045684 GGTCTTCATA
*
1045694 TTTTTCGTTTTAAGTAATTTAAT
1 TTTTTC-TTTTAAGTAATTTAAC
1045717 TGTTTTCTTTTATA-TAATTTTAAC
1 T-TTTTCTTTTA-AGTAA-TTTAAC
*
1045741 TTTTTTTTTT
1 TTTTTCTTTT
1045751 CATTCTCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTCTTTTAAGTAATTTAAC
Found at i:1045746 original size:24 final size:22
Alignment explanation
Indices: 1045694--1045750 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
1045684 GGTCTTCATA
1045694 TTTTTCGTTTTAAGTAATTTAAT
1 TTTTTC-TTTTAAGTAATTTAAT
1045717 TGTTTTCTTTTATA-TAATTTTAACT
1 T-TTTTCTTTTA-AGTAA-TTTAA-T
1045742 TTTTT-TTTT
1 TTTTTCTTTT
1045751 CATTCTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 13 0.43
24 15 0.50
25 2 0.07
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTCTTTTAAGTAATTTAAT
Found at i:1047261 original size:23 final size:23
Alignment explanation
Indices: 1047231--1047278 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1047221 CAAAACGATG
* *
1047231 AAATCTTAGTA-ACATTTTATTTT
1 AAATCTTAATATA-ATTATATTTT
1047254 AAATCTTAATATAATTATATTTT
1 AAATCTTAATATAATTATATTTT
1047277 AA
1 AA
1047279 TAGTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATCTTAATATAATTATATTTT
Found at i:1047781 original size:219 final size:219
Alignment explanation
Indices: 1047402--1047839 Score: 876
Period size: 219 Copynumber: 2.0 Consensus size: 219
1047392 TATTTATCAC
1047402 TTTTTTAAAAAATGTTTATGGGTATAATTAAAATTTTAATACTTAACCAAAAATCATATGACTGT
1 TTTTTTAAAAAATGTTTATGGGTATAATTAAAATTTTAATACTTAACCAAAAATCATATGACTGT
1047467 CACATAAAACTGTTAATTTTGAACGCCACACAAATTGGACAAATTAGAATTGGCCTACCACATAG
66 CACATAAAACTGTTAATTTTGAACGCCACACAAATTGGACAAATTAGAATTGGCCTACCACATAG
1047532 TGAAAAGAAATATATTCATATCTATTAAGAATGATCTAAATAAAAGAATTTATTGGTAATTATTA
131 TGAAAAGAAATATATTCATATCTATTAAGAATGATCTAAATAAAAGAATTTATTGGTAATTATTA
1047597 AAAAGTGTTATTAGTTTTATTTAA
196 AAAAGTGTTATTAGTTTTATTTAA
1047621 TTTTTTAAAAAATGTTTATGGGTATAATTAAAATTTTAATACTTAACCAAAAATCATATGACTGT
1 TTTTTTAAAAAATGTTTATGGGTATAATTAAAATTTTAATACTTAACCAAAAATCATATGACTGT
1047686 CACATAAAACTGTTAATTTTGAACGCCACACAAATTGGACAAATTAGAATTGGCCTACCACATAG
66 CACATAAAACTGTTAATTTTGAACGCCACACAAATTGGACAAATTAGAATTGGCCTACCACATAG
1047751 TGAAAAGAAATATATTCATATCTATTAAGAATGATCTAAATAAAAGAATTTATTGGTAATTATTA
131 TGAAAAGAAATATATTCATATCTATTAAGAATGATCTAAATAAAAGAATTTATTGGTAATTATTA
1047816 AAAAGTGTTATTAGTTTTATTTAA
196 AAAAGTGTTATTAGTTTTATTTAA
1047840 AAAGTAAAAG
Statistics
Matches: 219, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 219 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (219 bp):
TTTTTTAAAAAATGTTTATGGGTATAATTAAAATTTTAATACTTAACCAAAAATCATATGACTGT
CACATAAAACTGTTAATTTTGAACGCCACACAAATTGGACAAATTAGAATTGGCCTACCACATAG
TGAAAAGAAATATATTCATATCTATTAAGAATGATCTAAATAAAAGAATTTATTGGTAATTATTA
AAAAGTGTTATTAGTTTTATTTAA
Found at i:1047826 original size:23 final size:23
Alignment explanation
Indices: 1047800--1047844 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1047790 ATAAAAGAAT
*
1047800 TTATTGGTAATTA-TTAAAAAGTG
1 TTATTAGT-ATTATTTAAAAAGTG
*
1047823 TTATTAGTTTTATTTAAAAAGT
1 TTATTAGTATTATTTAAAAAGT
1047845 AAAAGACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
TTATTAGTATTATTTAAAAAGTG
Done.