Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_pilon, whole genome shotgun sequence
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: 1178067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 7
Found at i:1110309 original size:21 final size:21
Alignment explanation
Indices: 1110283--1110327 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1110273 GATTTCTGGG
*
1110283 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
*
1110304 CAAGGGGAATCGATACCCCTT
1 CAAGGGGAATCGATACCCATT
1110325 CAA
1 CAA
1110328 ACGAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:1112138 original size:104 final size:103
Alignment explanation
Indices: 1112010--1112223 Score: 340
Period size: 104 Copynumber: 2.1 Consensus size: 103
1112000 GGGTCTACGC
* *
1112010 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATATTTTGA
1 GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA-CTTG-
* *
1112075 ACCT-TGGCATATGTATATGATTCTTAAGGAATGATATGT
64 ACCTCTAGCATATATATATGATTCTTAAGGAATGATATGT
*
1112114 GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAC
*
1112179 CTCTAGTATATATATATGATTCTTAAGGAATGATATGT
66 CTCTAGCATATATATATGATTCTTAAGGAATGATATGT
*
1112217 AGTCCTT
1 GGTCCTT
1112224 ATGGACATTA
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
102 3 0.03
103 41 0.40
104 58 0.57
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAC
CTCTAGCATATATATATGATTCTTAAGGAATGATATGT
Found at i:1112274 original size:23 final size:23
Alignment explanation
Indices: 1112241--1112308 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
1112231 TTATTATATG
1112241 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1112264 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1112287 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1112309 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1114607 original size:20 final size:20
Alignment explanation
Indices: 1114582--1114619 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1114572 TTCCCCTTGA
1114582 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAT
*
1114602 AGTGCATCGATGTATTCT
1 AGTGCATCGATGCATTCT
1114620 TTAACATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAT
Found at i:1115757 original size:21 final size:21
Alignment explanation
Indices: 1115731--1115770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1115721 AAACAATTGG
1115731 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
1115752 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
1115771 CATAAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:1120054 original size:16 final size:16
Alignment explanation
Indices: 1120033--1120093 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
1120023 CGACAAAATT
1120033 TTTACTATTCACAAAA
1 TTTACTATTCACAAAA
1120049 TTTACTATTCACAAAA
1 TTTACTATTCACAAAA
*
1120065 TTTATTATTCACAAAA
1 TTTACTATTCACAAAA
1120081 TTTACTATTCACA
1 TTTACTATTCACA
1120094 TGAATAGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTACTATTCACAAAA
Found at i:1134260 original size:17 final size:18
Alignment explanation
Indices: 1134238--1134283 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1134228 ATCAAAATAG
*
1134238 AAATAAATATAATTTAA-
1 AAATAAATATAATTAAAT
1134255 AAAT-AATAATAATTAAAT
1 AAATAAAT-ATAATTAAAT
1134273 AAATAAA-ATAA
1 AAATAAATATAA
1134284 AAATAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 16 0.64
18 4 0.16
19 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAAATATAATTAAAT
Found at i:1134714 original size:30 final size:29
Alignment explanation
Indices: 1134680--1134751 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
1134670 AATTACCTAA
*
1134680 TTCATACATGAA-GTATATCAAATTCTCAAT
1 TTCATACAT-AATGT-TATAAAATTCTCAAT
* *
1134710 TTCATAACATAATGTTTTAAAATTCTCGAT
1 TTCAT-ACATAATGTTATAAAATTCTCAAT
1134740 TTCATACATAAT
1 TTCATACATAAT
1134752 ATTTTATGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 7 0.19
30 24 0.65
31 6 0.16
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (29 bp):
TTCATACATAATGTTATAAAATTCTCAAT
Found at i:1137617 original size:29 final size:30
Alignment explanation
Indices: 1137570--1137633 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
1137560 ATAAGTTGTG
*
1137570 CGGTCATTGGGATGTGAGCTAGTCAAAATA
1 CGGTAATTGGGATGTGAGCTAGTCAAAATA
* *
1137600 -GGTAATTGGGATGTGAGCTTGTTAAAATA
1 CGGTAATTGGGATGTGAGCTAGTCAAAATA
1137629 CGGTA
1 CGGTA
1137634 GCTCTTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (30 bp):
CGGTAATTGGGATGTGAGCTAGTCAAAATA
Found at i:1140215 original size:20 final size:21
Alignment explanation
Indices: 1140190--1140229 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1140180 AATTAGTAAA
1140190 ATTAAAATAT-TAATAATCAG
1 ATTAAAATATCTAATAATCAG
*
1140210 ATTAAAATATCTCATAATCA
1 ATTAAAATATCTAATAATCA
1140230 ATTGAATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTAAAATATCTAATAATCAG
Found at i:1142518 original size:13 final size:12
Alignment explanation
Indices: 1142502--1142559 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 12
1142492 GTCCGGGTTT
1142502 TTATATATATTTA
1 TTAT-TATATTTA
**
1142515 TTATTATCGTTA
1 TTATTATATTTA
*
1142527 TTTTTATTATTTA
1 TTATTA-TATTTA
1142540 TTATTATTATTTA
1 TTATTA-TATTTA
1142553 TTATTAT
1 TTATTAT
1142560 TATGTTTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
12 12 0.32
13 26 0.68
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTATATTTA
Found at i:1142520 original size:3 final size:3
Alignment explanation
Indices: 1142512--1142562 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
1142502 TTATATATAT
** *
1142512 TTA TTA TTA TCG TTA TTT TTA TTA TTTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA
1142559 TTA T
1 TTA T
1142563 GTTTATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1142545 original size:10 final size:9
Alignment explanation
Indices: 1142499--1142562 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 9
1142489 TTTGTCCGGG
1142499 TTTTTATATA
1 TTTTTAT-TA
*
1142509 TATTTATTA
1 TTTTTATTA
* **
1142518 TTATCGTTA
1 TTTTTATTA
1142527 TTTTTATTA
1 TTTTTATTA
1142536 TTTATTATTA
1 TTT-TTATTA
1142546 TTATTTATTA
1 TT-TTTATTA
*
1142556 TTATTAT
1 TTTTTAT
1142563 GTTTATTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
9 20 0.47
10 22 0.51
11 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTTATTA
Found at i:1142560 original size:13 final size:13
Alignment explanation
Indices: 1142512--1142562 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
1142502 TTATATATAT
1142512 TTATTATTATCGTTA
1 TTATTATTAT--TTA
*
1142527 TTTTTATTATTTA
1 TTATTATTATTTA
1142540 TTATTATTATTTA
1 TTATTATTATTTA
1142553 TTATTATTAT
1 TTATTATTAT
1142563 GTTTATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 25 0.74
15 9 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:1142574 original size:13 final size:13
Alignment explanation
Indices: 1142512--1142570 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
1142502 TTATATATAT
1142512 TTATTATTATCGTTA
1 TTATTATTAT-G-TA
* *
1142527 TTTTTATTATTTA
1 TTATTATTATGTA
*
1142540 TTATTATTATTTA
1 TTATTATTATGTA
1142553 TTATTATTATGT-
1 TTATTATTATGTA
1142565 TTATTA
1 TTATTA
1142571 ATTACATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
12 6 0.15
13 25 0.62
15 9 0.22
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTATTATGTA
Found at i:1142574 original size:16 final size:16
Alignment explanation
Indices: 1142509--1142560 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
1142499 TTTTTATATA
**
1142509 TATTTATTATTATCGT
1 TATTTATTATTATTAT
1142525 TATTT-TTATTATTTAT
1 TATTTATTATTA-TTAT
1142541 TA-TTATTATTTATTAT
1 TATTTATTA-TTATTAT
1142557 TATT
1 TATT
1142561 ATGTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 8 0.27
16 18 0.60
17 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTTATTATTATTAT
Found at i:1142659 original size:25 final size:25
Alignment explanation
Indices: 1142630--1142704 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
1142620 CAATCAACCC
1142630 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1142655 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1142680 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1142705 TCCCCTAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:1144623 original size:29 final size:29
Alignment explanation
Indices: 1144577--1144636 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
1144567 AGTCCCTACG
* * *
1144577 TTTCTGTTTTGCTATTTTAGTCTTTTAAT
1 TTTCTATTTTGCTATTTTAGCCCTTTAAT
* *
1144606 TTTCTATTTTTCTGTTTTAGCCCTTTAAT
1 TTTCTATTTTGCTATTTTAGCCCTTTAAT
1144635 TT
1 TT
1144637 ATTATTACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.65
Consensus pattern (29 bp):
TTTCTATTTTGCTATTTTAGCCCTTTAAT
Found at i:1147726 original size:22 final size:20
Alignment explanation
Indices: 1147711--1147786 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 20
1147701 TCTTTTTGAG
*
1147711 ACCTTGAAATATTCTTTTCA
1 ACCTTGAAACATTCTTTTCA
*
1147731 ACCTTGAAACATTCCCTCTCTTTA
1 ACCTTGAAACATT--CT-T-TTCA
*
1147755 AGGCCTTGAAACATTC-TTTCC
1 A--CCTTGAAACATTCTTTTCA
1147776 ACCTTGAAACA
1 ACCTTGAAACA
1147787 CTGCATTTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
19 10 0.22
20 12 0.26
21 3 0.07
22 3 0.07
23 1 0.02
24 5 0.11
26 12 0.26
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.36
Consensus pattern (20 bp):
ACCTTGAAACATTCTTTTCA
Found at i:1149645 original size:4 final size:4
Alignment explanation
Indices: 1149636--1149757 Score: 230
Period size: 4 Copynumber: 31.0 Consensus size: 4
1149626 AAAAGTATAC
1149636 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1149684 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1149732 ACAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1149758 GATACATAAA
Statistics
Matches: 116, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.02
4 114 0.98
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:1150404 original size:105 final size:101
Alignment explanation
Indices: 1150217--1150454 Score: 284
Period size: 105 Copynumber: 2.3 Consensus size: 101
1150207 TGAGAATTTT
** * *
1150217 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
1150282 TAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TAAAACAAAATTAATCTCA-CTTGAGA---TCGTTTC--TCA
* * *
1150322 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCAC-
* *
1150387 TT-AAACAAAGTTGATCTCACTTGAGATCGTTTCTCA
65 TTAAAACAAAATTAATCTCACTTGAGATCGTTTCTCA
* *
1150423 AAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTC
1150455 TCTAAAAACA
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
100 2 0.02
101 29 0.25
102 6 0.05
104 3 0.03
105 75 0.64
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (101 bp):
AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
TAAAACAAAATTAATCTCACTTGAGATCGTTTCTCA
Found at i:1150428 original size:35 final size:33
Alignment explanation
Indices: 1150401--1150518 Score: 137
Period size: 33 Copynumber: 3.4 Consensus size: 33
1150391 ACAAAGTTGA
1150401 TCTCACTTGAGATCGTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTCTCAAAAACAAACTTTG
* *
1150436 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC--TTTCTC-AAAAACAAACTTTG
* * *
1150472 TCTCATTTGAGACTATATCAAAAACAAACTTTG
1 TCTCACTTGAGACTTTCTCAAAAACAAACTTTG
*
1150505 TCTCATTTGAGACT
1 TCTCACTTGAGACT
1150519 ATATCTTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
33 27 0.37
34 5 0.07
35 17 0.23
36 24 0.33
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (33 bp):
TCTCACTTGAGACTTTCTCAAAAACAAACTTTG
Found at i:1150506 original size:69 final size:67
Alignment explanation
Indices: 1150401--1150551 Score: 176
Period size: 69 Copynumber: 2.2 Consensus size: 67
1150391 ACAAAGTTGA
* * * *
1150401 TCTCACTTGAGATCGTTTCTCAAAAACAAACTTTGTCTCGCTTGAGACAATTTCTCTAAAAACAA
1 TCTCACTTGAGA-C-TATATCAAAAACAAACTTTGTCTCACTTGAGACAATATCT-T-AAAACAA
*
1150466 ATTTTG
62 ATTTCG
* * * *
1150472 TCTCATTTGAGACTATATCAAAAACAAACTTTGTCTCATTTGAGACTATATCTTAAAGCAAATTT
1 TCTCACTTGAGACTATATCAAAAACAAACTTTGTCTCACTTGAGACAATATCTTAAAACAAATTT
1150537 CG
66 CG
*
1150539 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
1150552 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
67 22 0.32
68 1 0.01
69 34 0.49
70 1 0.01
71 11 0.16
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (67 bp):
TCTCACTTGAGACTATATCAAAAACAAACTTTGTCTCACTTGAGACAATATCTTAAAACAAATTT
CG
Found at i:1150549 original size:34 final size:34
Alignment explanation
Indices: 1150423--1150551 Score: 136
Period size: 33 Copynumber: 3.8 Consensus size: 34
1150413 TCGTTTCTCA
* * *
1150423 AAAACAAACTTTGTCTCGCTTGAGACAATTTCTCT
1 AAAACAAACTTTGTCTCACTTGAGACTATATCT-T
* * *
1150458 AAAAACAAATTTTGTCTCATTTGAGACTATATC-A
1 -AAAACAAACTTTGTCTCACTTGAGACTATATCTT
*
1150492 AAAACAAACTTTGTCTCATTTGAGACTATATCTT
1 AAAACAAACTTTGTCTCACTTGAGACTATATCTT
* *
1150526 AAAGCAAA-TTTCGTCTCGCTTGAGAC
1 AAAACAAACTTT-GTCTCACTTGAGAC
1150552 ATCATTTTCT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
33 34 0.43
34 19 0.24
36 27 0.34
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAACAAACTTTGTCTCACTTGAGACTATATCTT
Found at i:1150843 original size:29 final size:29
Alignment explanation
Indices: 1150801--1150902 Score: 133
Period size: 29 Copynumber: 3.7 Consensus size: 29
1150791 ACAGTTTCTC
1150801 TTGAA-AAAAATCTTTGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* *
1150829 TAGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* *
1150858 TTGAATAAATATCTTTGAG-TTGTTTCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
1150886 TTG---AAAAATCTTTGAGT
1 TTGAATAAAAATCTTTGAGT
1150903 CTACTTATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
25 12 0.18
28 15 0.23
29 38 0.58
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (29 bp):
TTGAATAAAAATCTTTGAGTTTGTTCCTT
Found at i:1151036 original size:32 final size:31
Alignment explanation
Indices: 1151003--1151136 Score: 87
Period size: 28 Copynumber: 4.3 Consensus size: 31
1150993 AATTTTGTGA
1151003 AAAAAAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAAAAAATCTTTGAGATTGTTTCTTTTG
* *
1151034 ---AAAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAAAAAATCTTTGAGATTGTTTCTTTTG
*** * *
1151062 AAACAAAATTTTGTCTCTCTCAAGATAGTTTCTTTT-
1 AAA-AAAA--AAATCT-T-T-GAGATTGTTTCTTTTG
* * *
1151098 AAAACAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAAAAAATCTTTGAGATTGTTTCTTTTG
*
1151129 AAACAAAA
1 AAAAAAAA
1151137 TTTTGTATCT
Statistics
Matches: 74, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
28 26 0.35
30 11 0.15
31 7 0.09
32 5 0.07
33 3 0.04
34 3 0.04
35 4 0.05
36 4 0.05
37 11 0.15
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (31 bp):
AAAAAAAAAATCTTTGAGATTGTTTCTTTTG
Found at i:1151045 original size:28 final size:28
Alignment explanation
Indices: 1151006--1151074 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
1150996 TTTGTGAAAA
*
1151006 AAAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
*
1151034 AAAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
1151062 AAACAAAAT-TTTG
1 AAA-AAAATCTTTG
1151075 TCTCTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.43
Consensus pattern (28 bp):
AAAAAAATCTTTGAGATTGTTTCTTTGG
Found at i:1151130 original size:67 final size:65
Alignment explanation
Indices: 1151019--1151148 Score: 215
Period size: 67 Copynumber: 2.0 Consensus size: 65
1151009 AAAATCTTTG
* * *
1151019 AGATTGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTCA
1 AGATAGTTTCTTTTAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTCA
1151084 AGATAGTTTCTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCT
1 AGATAGTTTCTTTT-AAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCT
1151149 TGAGACAGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 13 0.22
66 2 0.03
67 45 0.75
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (65 bp):
AGATAGTTTCTTTTAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTCA
Found at i:1151159 original size:67 final size:65
Alignment explanation
Indices: 1151024--1151179 Score: 213
Period size: 67 Copynumber: 2.4 Consensus size: 65
1151014 CTTTGAGATT
* * *
1151024 GTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTCAAGATA
1 GTTTCTTTTAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTCAAGACA
**
1151089 GTTTCTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTTGAGA
1 GTTTCTTTT-AAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTCAAGA
1151154 CA
64 CA
* * **
1151156 GTTTCTCTTGAATTAAATCTTTGA
1 GTTTCTTTTAAAAAAAATCTTTGA
1151180 ATATGTTCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 19 0.24
66 4 0.05
67 57 0.71
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.45
Consensus pattern (65 bp):
GTTTCTTTTAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTATCTCTCAAGACA
Found at i:1151394 original size:120 final size:119
Alignment explanation
Indices: 1151226--1151449 Score: 267
Period size: 120 Copynumber: 1.9 Consensus size: 119
1151216 TTAACAAAAT
* * *
1151226 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTCTCTCTTGAGACAGTTTCTAATGAAAAAC
1 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATGAAAAA-
1151291 TAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGGGATC
65 -AATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGGGATC
* ** ** *
1151346 CATCTTTGAGTCTGTTTCTTTTGAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTTTTGGAAA
1 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTATCTCTT-AAGACAATTTCTAATGAAAA
* * *
1151409 AAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
64 AAATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
1151450 TCGAGACAAC
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 23 0.26
119 19 0.22
120 42 0.48
121 4 0.05
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (119 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATGAAAAAA
ATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGGGATC
Found at i:1151426 original size:64 final size:62
Alignment explanation
Indices: 1151347--1151471 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 62
1151337 GATGGGATCC
* *
1151347 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGGAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTT-GAAAAA
* * **
1151411 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
1151472 TACCCACATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 5 0.09
63 14 0.25
64 36 0.65
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (62 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAA
Found at i:1151516 original size:40 final size:40
Alignment explanation
Indices: 1151453--1151532 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
1151443 TTGTCTCTCG
1151453 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
* * *
1151493 AGACAATTTCTTTT-AAAACTACCCACCTTTGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTTGAGATCGTTT
1151533 TTATTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
Found at i:1151609 original size:31 final size:30
Alignment explanation
Indices: 1151574--1151639 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
1151564 AGATTCTCTA
*
1151574 GAAATACAAA-ATCTTTGAGTTTGTTTCACTT
1 GAAATA-AAACATCTTTGAG-TCGTTTCACTT
*
1151605 GAAATAAAACCATTTTTGAGTCGTTTCACTT
1 GAAATAAAA-CATCTTTGAGTCGTTTCACTT
1151636 GAAA
1 GAAA
1151640 CATTTTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 3 0.10
31 20 0.65
32 8 0.26
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (30 bp):
GAAATAAAACATCTTTGAGTCGTTTCACTT
Found at i:1151651 original size:15 final size:15
Alignment explanation
Indices: 1151628--1151671 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
1151618 TTTTGAGTCG
*
1151628 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
1151643 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
1151658 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
1151672 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:1151825 original size:100 final size:98
Alignment explanation
Indices: 1151694--1151874 Score: 211
Period size: 100 Copynumber: 1.8 Consensus size: 98
1151684 AGTTGGTTTC
* ** * * *
1151694 TCTGAAAACAATGTTTTATCCCTTAAAACAATTTCTTTTGAAGAAAAATC-TGAGTCTGTTTCTT
1 TCTGAAAACAAAGTTTTATCCCTTAAAACAA--TCTTTAAAAAAAAAATCATGAATCTCTTTCTT
1151758 TGGAAACAAAATTTTGTCTCACTAAGATACAATTT
64 TGGAAACAAAATTTTGTCTCACTAAGATACAATTT
* * ** *
1151793 TCTGAAAAACAAAGTTTTGTCTCTTATGACAATGTTTAAAAAAAAAATCATTGAATCTCTTTCTT
1 TCTG-AAAACAAAGTTTTATCCCTTAAAACAATCTTTAAAAAAAAAATCA-TGAATCTCTTTCTT
*
1151858 TGGAAACAAAGTTTTGT
64 TGGAAACAAAATTTTGT
1151875 TTCTCTCGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
98 13 0.19
99 4 0.06
100 50 0.75
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (98 bp):
TCTGAAAACAAAGTTTTATCCCTTAAAACAATCTTTAAAAAAAAAATCATGAATCTCTTTCTTTG
GAAACAAAATTTTGTCTCACTAAGATACAATTT
Found at i:1152138 original size:28 final size:28
Alignment explanation
Indices: 1152105--1152162 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1152095 TAAAAATATC
1152105 ATCTTTGAGTTT-ATTCTTCTTGAAACAA
1 ATCTTTGAGTTTGATTCTT-TTGAAACAA
* *
1152133 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAGTTTGATTCTTTTGAAACAA
1152161 AT
1 AT
1152163 ATTTAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (28 bp):
ATCTTTGAGTTTGATTCTTTTGAAACAA
Found at i:1152176 original size:28 final size:28
Alignment explanation
Indices: 1152118--1152186 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
1152108 TTTGAGTTTA
* **
1152118 TTCTTCTTGAAACAAATCTTTGGGTTTGT
1 TTCTT-TTGAAACAAATATTTGAATTTGT
1152147 TTCTTTTGAAACAAATATTT-AATTTGGT
1 TTCTTTTGAAACAAATATTTGAATTT-GT
*
1152175 TTCTCTTGAAAC
1 TTCTTTTGAAAC
1152187 CATAACTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.09
28 27 0.77
29 5 0.14
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (28 bp):
TTCTTTTGAAACAAATATTTGAATTTGT
Found at i:1152273 original size:40 final size:41
Alignment explanation
Indices: 1152212--1152664 Score: 253
Period size: 40 Copynumber: 10.7 Consensus size: 41
1152202 TGGCCAGCCG
* * *
1152212 TCCTCATCATGTAGGAACCGTGTCATCCCCG-GACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCAGAGACCAGATC
* * * * * *
1152252 TCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCC-CAGA-GACCAGATC
* * * *
1152294 GTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC---AGA-GACCAGATC
* *
1152341 TCTTCATCACGTATGAGCCGTGTCATTCCC--AGACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCA-TCCCAGAGACCAGATC
* * * * *
1152381 TCCTTATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATCC-CAGA-GACCAGATC
* * *
1152423 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAG-TC
1 -TCCTCATCACGTAGGAGCCGTGTCATC-CC---AGA-GACCAGATC
* * *
1152469 GTCCTCATCATGTAGGAACCGTGTCATCCC-CAGACCAGATC
1 -TCCTCATCACGTAGGAGCCGTGTCATCCCAGAGACCAGATC
* * *
1152510 TCTTCATCACGTAGGAGCCGTGTCAACCATAGATGACCAG--C
1 TCCTCATCACGTAGGAGCCGTGTCATCC-CAGA-GACCAGATC
* * * * *
1152551 -CGTCCTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATC-CC---AGA-GACCAGATC
* *
1152596 TCCTCATCACGTATGAGCCGTGTCATCCC-CAGACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATCCCAGAGACCAGATC
* * *
1152636 TCCTCATCACGTATGAGCAGTGTCGTCCC
1 TCCTCATCACGTAGGAGCCGTGTCATCCC
1152665 CAACAACCAA
Statistics
Matches: 318, Mismatches: 65, Indels: 60
0.72 0.15 0.14
Matches are distributed among these distances:
39 2 0.01
40 137 0.43
41 8 0.03
42 4 0.01
43 70 0.22
44 2 0.01
45 5 0.02
46 87 0.27
47 3 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (41 bp):
TCCTCATCACGTAGGAGCCGTGTCATCCCAGAGACCAGATC
Found at i:1152428 original size:129 final size:129
Alignment explanation
Indices: 1152198--1152659 Score: 693
Period size: 129 Copynumber: 3.6 Consensus size: 129
1152188 ATAACTCCTA
* * *
1152198 AAGATGGCCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCGGACCAGATCTCTTCATCACG
1 AAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACG
*
1152263 TATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
66 TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
* * * * *
1152327 AAGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTT-ATCA
1 AAGATGGCCAG-TCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATCT-CTTCATCA
1152390 CGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCT
64 CGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCT
1152455 T
129 T
* *
1152456 TAGATGGCCAGTCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACG
1 AAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACG
*
1152521 TAGGAGCCGTGTCAACCATAGATGACCAGCCGT-C-C-TCACGTAGGAACCGTGTTATCACCTT
66 TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
* * * *
1152582 TAGATGGCCAGATC-TCCTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAG-TCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCAC
* *
1152646 GTATGAGCAGTGTC
65 GTAGGAGCCGTGTC
1152660 GTCCCCAACA
Statistics
Matches: 306, Mismatches: 22, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
126 95 0.31
127 3 0.01
128 5 0.02
129 199 0.65
130 4 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (129 bp):
AAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
Found at i:1152593 original size:86 final size:87
Alignment explanation
Indices: 1152199--1152621 Score: 330
Period size: 83 Copynumber: 4.9 Consensus size: 87
1152189 TAACTCCTAA
* * * *
1152199 AGATGGCCAGCCGTCCTCATCATGTAGGAACCGTGTCATC-CC--CG--GACCAGATCTCTTCAT
1 AGATGACCAGCCGT-C-CATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATCTCTTCAT
1152259 CACGTATGAGCCGTGTCA-ACCAT
64 CACGTATGAGCCGTGTCATACCAT
* * *
1152282 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAGAACTCTTCA
1 AGATGACCAGCCGT-C-CATCACGTAGGAACCGTGTCATCACCTT-AGATGGCCAGATCTCTTCA
*
1152347 TCACGTATGAGCCGTGTCATTCC--
63 TCACGTATGAGCCGTGTCATACCAT
* * * * ** * *
1152370 -CA-GACCAGATC-TCCTTATCACGTAGGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCCTC
1 AGATGACCAG-CCGTCC--ATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATC-TCTTC
* * * *
1152429 ATCACGTAGGAACCGTGTTATCACCTTT
62 ATCACGTATGAGCCGTGTCAT-ACC-AT
* * * *
1152457 AGATGGCCAGTCGTCCTCATCATGTAGGAACCGTGTCATC-CC-CAGA---CCAGATCTCTTCAT
1 AGATGACCAGCCGT-C-CATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATCTCTTCAT
*
1152517 CACGTAGGAGCCGTGTCA-ACCAT
64 CACGTATGAGCCGTGTCATACCAT
* *
1152540 AGATGACCAGCCGTCC-TCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCCTCATC
1 AGATGACCAGCCGTCCATCACGTAGGAACCGTGTCATCACC-TTAGATGGCCAGATCTCTTCATC
1152604 ACGTATGAGCCGTGTCAT
65 ACGTATGAGCCGTGTCAT
1152622 CCCCAGACCA
Statistics
Matches: 271, Mismatches: 39, Indels: 56
0.74 0.11 0.15
Matches are distributed among these distances:
80 19 0.07
81 3 0.01
82 2 0.01
83 82 0.30
84 12 0.04
85 1 0.00
86 80 0.30
87 4 0.01
88 3 0.01
89 59 0.22
90 5 0.02
91 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (87 bp):
AGATGACCAGCCGTCCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATCTCTTCATCA
CGTATGAGCCGTGTCATACCAT
Found at i:1152646 original size:86 final size:84
Alignment explanation
Indices: 1152212--1152648 Score: 319
Period size: 86 Copynumber: 5.2 Consensus size: 84
1152202 TGGCCAGCCG
* * *
1152212 TCCTCATCATGTAGGAACCGTGTCATC-CC--CG--GACCAGATCTCTTCATCACGTATGAGCCG
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATCTCTTCATCACGTATGAGCCG
* ** *
1152272 TGTCAACCATAGATAACCAGCC
66 TGTCATCCCCAG---ACCAGTC
* *
1152294 GTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAGAACTCTTCATCACGTATGAGC
1 -TCCTCATCACGTAGGAACCGTGTCATCACCTT-AGATGGCCAGATCTCTTCATCACGTATGAGC
*
1152359 CGTGTCATTCCCAGACCAGATC
64 CGTGTCATCCCCAGACCAG-TC
* * * ** * * * *
1152381 TCCTTATCACGTAGGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCCTCATCACGTAGGAACC
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATC-TCTTCATCACGTATGAGCC
* *
1152443 GTGTTATCACCTTTAGATGGCCAGTC
65 GTGTCATC-CC--CAGA---CCAGTC
* * *
1152469 GTCCTCATCATGTAGGAACCGTGTCATC-CC-CAGA---CCAGATCTCTTCATCACGTAGGAGCC
1 -TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATCTCTTCATCACGTATGAGCC
* **
1152529 GTGTCAACCATAGATGACCAG-C
65 GTGTCATCC--CCA-GACCAGTC
* * * *
1152551 -CGTCCTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGATCTCCTCATCACGTATGAGCC
1 TCCTCATCACGTAGGAACCGTGTCATCACC-TTAGATGGCCAGATCTCTTCATCACGTATGAGCC
1152615 GTGTCATCCCCAGACCAGATC
65 GTGTCATCCCCAGACCAG-TC
1152636 TCCTCATCACGTA
1 TCCTCATCACGTA
1152649 TGAGCAGTGT
Statistics
Matches: 278, Mismatches: 46, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
80 22 0.08
81 2 0.01
82 2 0.01
83 68 0.24
84 9 0.03
85 3 0.01
86 101 0.36
87 3 0.01
88 2 0.01
89 64 0.23
90 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (84 bp):
TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGATCTCTTCATCACGTATGAGCCG
TGTCATCCCCAGACCAGTC
Found at i:1152841 original size:22 final size:22
Alignment explanation
Indices: 1152816--1152868 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
1152806 TTTTTATATA
* *
1152816 TATTTATTATTATCGTTATTTT
1 TATTTATTATTATCATTATGTT
*
1152838 TA-TTATTTATTATTATTATGTT
1 TATTTA-TTATTATCATTATGTT
*
1152860 TATTAATTA
1 TATTTATTA
1152869 CATATTACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 20 0.80
23 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (22 bp):
TATTTATTATTATCATTATGTT
Found at i:1152953 original size:25 final size:25
Alignment explanation
Indices: 1152924--1153048 Score: 250
Period size: 25 Copynumber: 5.0 Consensus size: 25
1152914 CAATCAACCC
1152924 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1152949 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1152974 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1152999 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1153024 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1153049 TCCCCTAAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 100 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:1154943 original size:28 final size:29
Alignment explanation
Indices: 1154912--1154970 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
1154902 AGTCCCTACG
* *
1154912 TTTCTGTTTTGCTATTTTAG-TCTTTAAT
1 TTTCTATTTTGCTATTTTAGCCCTTTAAT
* *
1154940 TTTCTATTTTTCTGTTTTAGCCCTTTAAT
1 TTTCTATTTTGCTATTTTAGCCCTTTAAT
1154969 TT
1 TT
1154971 ATTATTACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (29 bp):
TTTCTATTTTGCTATTTTAGCCCTTTAAT
Found at i:1157774 original size:2 final size:2
Alignment explanation
Indices: 1157767--1157795 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1157757 AATATTTTAA
1157767 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1157796 CGAGTAGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1160032 original size:22 final size:24
Alignment explanation
Indices: 1159999--1160043 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1159989 TAATTAGAAT
1159999 GATTTAAGG-TTTCATGAGTTTTG
1 GATTTAAGGTTTTCATGAGTTTTG
*
1160022 GATTT-AGGTTTTCATGGGTTTT
1 GATTTAAGGTTTTCATGAGTTTT
1160044 AAGGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (24 bp):
GATTTAAGGTTTTCATGAGTTTTG
Found at i:1160978 original size:2 final size:2
Alignment explanation
Indices: 1160971--1160999 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1160961 AAGTGAATCC
1160971 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 T
1161000 GAATGCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1161046 original size:14 final size:14
Alignment explanation
Indices: 1161029--1161060 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1161019 TGTTCCGTTG
1161029 GATGAGTGAAAATA
1 GATGAGTGAAAATA
1161043 GATGAGTGAAAATA
1 GATGAGTGAAAATA
1161057 GATG
1 GATG
1161061 GATGAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (14 bp):
GATGAGTGAAAATA
Found at i:1161209 original size:2 final size:2
Alignment explanation
Indices: 1161202--1161273 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
1161192 ACTAACCCTA
1161202 AT AT AT 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 AT AT AT AT
1161243 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 A
1161274 CAATAAGTTG
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1161209 original size:226 final size:223
Alignment explanation
Indices: 1160815--1161227 Score: 507
Period size: 226 Copynumber: 1.8 Consensus size: 223
1160805 TTAGTACCGC
* *
1160815 TAGATGAGAGATAATAGATAATTGAGATTAAAAGTAGAAAATGTAAAGATATTTACTGGGGAAAA
1 TAGATGAGAGAAAATAGATAATTGAGATTAAAAGTAGAAAATGTAAAGATATTTAC-GCGGAAAA
* * * * *
1160880 ATAAGAAGTCAATCTTAGTCATCTATTTCACTCATCTAACGTTTCTAAATCTATGTAAAACTAAA
65 AAAAGAAGTCAATCTCAATCATATATTTCACTCATCTAACGTCTCTAAATCTATGTAAAACTAAA
* * *
1160945 GATTTTTATATTGTGTAAGTGAATCCTATATATATATATATATATATATATATATGAATGCAATA
130 AATTTTTATAATGTGT-A-TGAATACTATATATATATATATATATATATATATATGAATGCAATA
1161010 AGTTGTCAATGTTCCGTTGGATGAGTGAAAA
193 AGTTGTCAATGTTCCGTTGGATGAGTGAAAA
* * *
1161041 TAGATGAGTGAAAATAGATGGA-TGAGATTAAAAGTA-AGAAATGTGAAGATATTTAC-CGGAAA
1 TAGATGAGAGAAAATAGAT-AATTGAGATTAAAAGTAGA-AAATGTAAAGATATTTACGCGGAAA
* *
1161103 AAAAATGAA-TCAATCTCAATCATATATTTTTACTCATCTAATGGTCT-TAAATCTATGTAAAAC
64 AAAAA-GAAGTCAATCTCAATCATATA-TTTCACTCATCTAA-CGTCTCTAAATCTATGTAAAAC
1161166 TAAAAATATATTTATAATGT-T-TGAATACTAACCCTAATATATATATATATATATATATATAT
126 TAAAAAT-T-TTTATAATGTGTATGAATACT-A---T-ATATATATATATATATATATATATAT
1161228 ATATATATAT
Statistics
Matches: 160, Mismatches: 15, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
223 7 0.04
224 24 0.15
225 39 0.24
226 53 0.33
227 11 0.07
228 26 0.16
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (223 bp):
TAGATGAGAGAAAATAGATAATTGAGATTAAAAGTAGAAAATGTAAAGATATTTACGCGGAAAAA
AAAGAAGTCAATCTCAATCATATATTTCACTCATCTAACGTCTCTAAATCTATGTAAAACTAAAA
ATTTTTATAATGTGTATGAATACTATATATATATATATATATATATATATATGAATGCAATAAGT
TGTCAATGTTCCGTTGGATGAGTGAAAA
Found at i:1163800 original size:22 final size:22
Alignment explanation
Indices: 1163772--1163818 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1163762 ATAATTTTTC
*
1163772 GTTCCATTTTTAGGTGTCTACA
1 GTTCCATTTTTAGGTGTCTAAA
1163794 GTTCCATTTTTAGGTGTCTAAA
1 GTTCCATTTTTAGGTGTCTAAA
1163816 GTT
1 GTT
1163819 TTAATGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (22 bp):
GTTCCATTTTTAGGTGTCTAAA
Found at i:1167186 original size:16 final size:16
Alignment explanation
Indices: 1167131--1167189 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
1167121 GAGCTATAAG
1167131 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
* *
1167147 CTTTTTGCTCACTTCGACGAA
1 -TTCTT-CTCA-TT--ATGAA
1167168 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
1167184 TTCTTC
1 TTCTTC
1167190 CACTGGGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
16 10 0.29
17 4 0.12
18 6 0.18
19 6 0.18
20 4 0.12
21 4 0.12
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.47
Consensus pattern (16 bp):
TTCTTCTCATTATGAA
Found at i:1167584 original size:111 final size:112
Alignment explanation
Indices: 1167263--1167680 Score: 709
Period size: 111 Copynumber: 3.8 Consensus size: 112
1167253 AGAGTCATGC
1167263 AAAGGTTGAACAAGTTCTTCTCATTATGAAC-TCTTC-TCC-TCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
1167325 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGAAGAATTCAAGCA
66 ATGAACTC-TCCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
*
1167373 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGTGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1167438 ATGAACTCTTCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTCTCCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
* *
1167485 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CATCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1167549 ATGAACTCTTCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTCTCCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
*
1167596 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1167661 ATGAACTCTACCTGGAAATG
66 ATGAACTCT-CCTGGAAATG
1167681 TTTTAAGAAA
Statistics
Matches: 293, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
110 31 0.11
111 114 0.39
112 109 0.37
113 39 0.13
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (112 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTCCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
Found at i:1167595 original size:223 final size:223
Alignment explanation
Indices: 1167263--1167680 Score: 723
Period size: 223 Copynumber: 1.9 Consensus size: 223
1167253 AGAGTCATGC
*
1167263 AAAGGTTGAACAAGTTCTTCTCATTATGAACTCTTCTCCTCTTCAGATGAGTTCTTCTCATTATG
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTCTTCTCATCTTCAGATGAGTTCTTCTCATTATG
*
1167328 AACTCGACCTGGCAATGCTGATCCATCGAATGAAGAATTCAAGCAAAAGGTTGAACAAGTTCTTC
66 AACTCGACCTGGAAATGCTGATCCATCGAATGAAGAATTCAAGCAAAAGGTTGAACAAGTTCTTC
* *
1167393 TCATTATGAACTTCTTCTTCCTTCTTCAGATGTGTTCTTCTCATTATGAACTCT-TCTGGAAATG
131 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATG
1167457 CTGATCCATCGAATGATGAATTCAAGCA
196 CTGATCCATCGAATGATGAATTCAAGCA
*
1167485 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTA
1 AAAGGTTGAACAAGTTCTTCTCATTATGAAC-TCTTC-TCATCTTCAGATGAGTTCTTCTCATTA
** *
1167550 TGAACTC-TTCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAGTTCT
64 TGAACTCGACCTGGAAATGCTGATCCATCGAATGAAGAATTCAAGCAAAAGGTTGAACAAGTTCT
*
1167614 TCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAA
129 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAA
1167679 TG
194 TG
1167681 TTTTAAGAAA
Statistics
Matches: 184, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
222 30 0.16
223 112 0.61
224 42 0.23
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (223 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTCTTCTCATCTTCAGATGAGTTCTTCTCATTATG
AACTCGACCTGGAAATGCTGATCCATCGAATGAAGAATTCAAGCAAAAGGTTGAACAAGTTCTTC
TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATG
CTGATCCATCGAATGATGAATTCAAGCA
Found at i:1167845 original size:75 final size:76
Alignment explanation
Indices: 1167691--1167871 Score: 283
Period size: 75 Copynumber: 2.4 Consensus size: 76
1167681 TTTTAAGAAA
* * * * *
1167691 AAACATTATGCACTGTAGGGCTTATAGCTGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGA
1167756 AGGCTTTTTAG
66 AGGCTTTTTAG
*
1167767 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTG-AAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGA
*
1167831 AGGCTTTTTGG
66 AGGCTTTTTAG
*
1167842 AAACATCATGCATTGTAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
1167872 TGGGAAATAG
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
75 59 0.61
76 38 0.39
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGA
AGGCTTTTTAG
Found at i:1168574 original size:22 final size:22
Alignment explanation
Indices: 1168542--1168719 Score: 242
Period size: 22 Copynumber: 8.4 Consensus size: 22
1168532 AAAGCTTTCG
*
1168542 TCTTTG-AAAGAGAATCTGTCA
1 TCTTTGAAAAGAGAATCTATCA
* *
1168563 TCTTTAAAAAGAGAATTTATCA
1 TCTTTGAAAAGAGAATCTATCA
* *
1168585 TCTTTGAAGAGAGAATATATC-
1 TCTTTGAAAAGAGAATCTATCA
1168606 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
1168628 TCTTTAAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
1168650 TCTTTGAAGAGAGAA--TATCA
1 TCTTTGAAAAGAGAATCTATCA
1168670 TCTTTGAAAAGAGAATC--TCA
1 TCTTTGAAAAGAGAATCTATCA
*
1168690 TCTTTAAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
1168712 TCTTTGAA
1 TCTTTGAA
1168720 GAATGTAGAT
Statistics
Matches: 137, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
20 38 0.28
21 24 0.18
22 75 0.55
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATCTATCA
Found at i:1168621 original size:65 final size:63
Alignment explanation
Indices: 1168542--1168721 Score: 294
Period size: 65 Copynumber: 2.8 Consensus size: 63
1168532 AAAGCTTTCG
*
1168542 TCTTTG-AAAGAGAATCTGTCATCTTTAAAAAGAGAATTTATCATCTTTGAAGAGAGAATAT-A
1 TCTTTGAAAAGAGAATCT-TCATCTTTAAAAAGAGAATCTATCATCTTTGAAGAGAGAATATCA
1168604 TCTCTTTGAAAAGAGAATCTATCATCTTTAAAAAGAGAATCTATCATCTTTGAAGAGAGAATATC
1 --TCTTTGAAAAGAGAATCT-TCATCTTTAAAAAGAGAATCTATCATCTTTGAAGAGAGAATATC
1168669 A
63 A
1168670 TCTTTGAAAAGAGAATC-TCATCTTTAAAAAGAGAATCTATCATCTTTGAAGA
1 TCTTTGAAAAGAGAATCTTCATCTTTAAAAAGAGAATCTATCATCTTTGAAGA
1168722 ATGTAGATGT
Statistics
Matches: 112, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
62 35 0.31
64 23 0.21
65 53 0.47
66 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (63 bp):
TCTTTGAAAAGAGAATCTTCATCTTTAAAAAGAGAATCTATCATCTTTGAAGAGAGAATATCA
Found at i:1170287 original size:36 final size:39
Alignment explanation
Indices: 1170219--1170318 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 39
1170209 TATTTCTGAT
* *
1170219 TGAAATGGGCCTTCAAGATGTCCCACAGGG-A-A-CTGTC
1 TGAAATGGGCTTTCGAGATG-CCCACAGGGAACATCTGTC
* *
1170256 TGAACTGGGCTTTCGAGATGCCCACATGGAACATTCTGTC
1 TGAAATGGGCTTTCGAGATGCCCACAGGGAACA-TCTGTC
1170296 TGAAATGGGCTTTCGAGATGCCC
1 TGAAATGGGCTTTCGAGATGCCC
1170319 CAATATTTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
36 8 0.15
37 18 0.33
38 1 0.02
40 27 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TGAAATGGGCTTTCGAGATGCCCACAGGGAACATCTGTC
Found at i:1173651 original size:17 final size:17
Alignment explanation
Indices: 1173631--1173679 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1173621 TTGATTTAAT
1173631 TTTTTTCTTTTCTTTTC
1 TTTTTTCTTTTCTTTTC
*
1173648 TTTTTTCCTCTT-TTTTC
1 TTTTTT-CTTTTCTTTTC
*
1173665 TTTTTTCCTTTCTTT
1 TTTTTTCTTTTCTTT
1173680 GTTGGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.11
17 20 0.74
18 4 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTCTTTTCTTTTC
Done.