Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 18 of 28
Found at i:2580560 original size:23 final size:22
Alignment explanation
Indices: 2580518--2580561 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
2580508 AGAAGCCTTA
2580518 TTTTTCTTCTTACTTTTTTCTT
1 TTTTTCTTCTTACTTTTTTCTT
*
2580540 TTTTATCTTTTTA-TTTCTTTCT
1 TTTT-TCTTCTTACTTT-TTTCT
2580562 CTGTTTCGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTCTTCTTACTTTTTTCTT
Found at i:2581209 original size:55 final size:56
Alignment explanation
Indices: 2581051--2581310 Score: 211
Period size: 56 Copynumber: 4.7 Consensus size: 56
2581041 CAAGCAAATG
* * ** *
2581051 GGATGAAACTTATCTGTTACT-TTGGGCTTTCACATTTTGGTGCCAATCTCAACTA
1 GGATGAAACCTATCAGTTACTCTTGGGCTTTCTTATTTTGGTGCCAATTTCAACTA
* ** * * * * * * *
2581106 GAACT-ATTCGTACCAGTTACTTTTAGTCTTTCTTATTTTGGTGCCAATTTCAATTG
1 GGA-TGAAACCTATCAGTTACTCTTGGGCTTTCTTATTTTGGTGCCAATTTCAACTA
* * *
2581162 GGATGAAACCTATCAGTTACTCTTGGG-TTTCTTATTTTGATGTCAATTTTAACTA
1 GGATGAAACCTATCAGTTACTCTTGGGCTTTCTTATTTTGGTGCCAATTTCAACTA
* * * * * *
2581217 GGATGCAGCTTATCGGTTACTCTTGGGCTTTCTCATTTTGGTGCCAATTTCAACAA
1 GGATGAAACCTATCAGTTACTCTTGGGCTTTCTTATTTTGGTGCCAATTTCAACTA
* ** * * * *
2581273 TGACAAAACCTATTAGCTATTCTTGGGCTTTCTCATTT
1 GGATGAAACCTATCAGTTACTCTTGGGCTTTCTTATTT
2581311 AAAGTTTGAT
Statistics
Matches: 156, Mismatches: 45, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
55 60 0.38
56 96 0.62
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (56 bp):
GGATGAAACCTATCAGTTACTCTTGGGCTTTCTTATTTTGGTGCCAATTTCAACTA
Found at i:2582762 original size:20 final size:21
Alignment explanation
Indices: 2582715--2582765 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
2582705 GCCAATGACC
**
2582715 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
2582736 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
2582756 TGTATCGATA
1 TGTATCGATA
2582766 TAATGTATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:2582815 original size:20 final size:20
Alignment explanation
Indices: 2582769--2582819 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2582759 ATCGATATAA
*
2582769 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * * *
2582789 TGGATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
2582809 TGTATCGATAC
1 TGTATCGATAC
2582820 TTTTCAGGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:2584778 original size:21 final size:21
Alignment explanation
Indices: 2584749--2584798 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2584739 TGCTAGTGTA
* *
2584749 GGGGCTGCCCGGTTGCAACCT
1 GGGGGTGCCCGGTCGCAACCT
*
2584770 GGGGGTG-CCGGTCGCGACCT
1 GGGGGTGCCCGGTCGCAACCT
2584790 GGTGGGTGC
1 GG-GGGTGC
2584799 TACCTAGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.06, C:0.28, G:0.48, T:0.18
Consensus pattern (21 bp):
GGGGGTGCCCGGTCGCAACCT
Found at i:2585255 original size:13 final size:13
Alignment explanation
Indices: 2585239--2585270 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2585229 CCTTGTATGA
2585239 ATACAGTGTATCG
1 ATACAGTGTATCG
*
2585252 ATACAATGTATCG
1 ATACAGTGTATCG
2585265 ATACAG
1 ATACAG
2585271 AGAATGCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (13 bp):
ATACAGTGTATCG
Found at i:2591553 original size:20 final size:21
Alignment explanation
Indices: 2591506--2591558 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2591496 GCCAATGACC
**
2591506 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
2591527 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
2591547 TGTATCGATACA
1 TGTATCGATACA
2591559 ATGCAATCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:2591570 original size:20 final size:20
Alignment explanation
Indices: 2591547--2591597 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2591537 CATTTGGTCA
*
2591547 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
2591567 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
2591587 TGTATCGATAC
1 TGTATCGATAC
2591598 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:2592746 original size:33 final size:32
Alignment explanation
Indices: 2592682--2592756 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
2592672 TAATAGCCAT
* *
2592682 TTGAGACAATGTATCGATACAATTCTTCATGTA
1 TTGATACAATATATCGATACAATTC-TCATGTA
2592715 TTGATACAATATATCGATACAATGTGC-CATGTA
1 TTGATACAATATATCGATACAAT-T-CTCATGTA
*
2592748 TCGATACAA
1 TTGATACAA
2592757 ACAGTGGTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 35 0.95
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (32 bp):
TTGATACAATATATCGATACAATTCTCATGTA
Found at i:2592824 original size:13 final size:13
Alignment explanation
Indices: 2592806--2592832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2592796 ACAATTGTGC
2592806 ATGTATTGATACA
1 ATGTATTGATACA
2592819 ATGTATTGATACA
1 ATGTATTGATACA
2592832 A
1 A
2592833 AGCATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:2602102 original size:79 final size:78
Alignment explanation
Indices: 2601944--2602453 Score: 637
Period size: 79 Copynumber: 6.4 Consensus size: 78
2601934 AATAAAATCG
* * **
2601944 GGGTTAGAGTATCCCCGATTATATAAAACAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGAGT
1 GGGTTGGAGTATCCCCGA-T-TAT-AAA-AATTGATGTTTTAGAAATAA-AACCGGGGTTGGAGT
*
2602009 ATCCCCGT-GAAAATAACG
61 ATCCCC-TCGAAAATAACA
* * * * *
2602027 GGGTTGGAGTATCCCCGATTATAAGAAATTAATATTTTACAAATAAAATCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTATAA-AAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
2602092 CCTCGAAAATAACA
65 CCTCGAAAATAACA
* * *
2602106 GGGTTAGAGTATCCCCGATTACGAAAAATTGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTA-TAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
2602171 CCTCGGAAATAACA
65 CCTCGAAAATAACA
* * * * * *
2602185 GGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACTGGGATTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTAT-AAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* *
2602250 CCTCGGAAATAACG
65 CCTCGAAAATAACA
*
2602264 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTAT-AAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* *
2602329 CTTCGGAAATAACA
65 CCTCGAAAATAACA
* *
2602343 GGGTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTA-TAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
2602408 CCTCGAAAATAAC-
65 CCTCGAAAATAACA
*
2602421 GGGATTGGAGTATCCCCGATTGTGAAAAATTGA
1 GGG-TTGGAGTATCCCCGATTAT-AAAAATTGA
2602454 GAAAAATAAA
Statistics
Matches: 375, Mismatches: 45, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
78 4 0.01
79 329 0.88
80 20 0.05
81 4 0.01
82 1 0.00
83 17 0.05
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCGATTATAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CTCGAAAATAACA
Found at i:2602269 original size:237 final size:237
Alignment explanation
Indices: 2602005--2602451 Score: 711
Period size: 237 Copynumber: 1.9 Consensus size: 237
2601995 GCCGGGGTTG
2602005 GAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTAT-AAGAAATTAATATTTTACAA
1 GAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAA-AAATTAATATTTTACAA
*
2602069 ATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTACGAAAAA
65 ATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTACGAAAAA
*
2602134 TTGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACAGGG-TTGGAGTATC
130 TTGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAC-GGGATTGGAGTATC
*
2602198 CCCGATTATGAGAAATTAATATTTTAGAAATAAAACTGGGATTA
194 CCCGATTATGAAAAATTAATATTTTAGAAATAAAACTGGGATTA
* * * * *
2602242 GAGTATCCCC-TCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAG
1 GAGTATCCCCGT-GAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTACAA
* * * *
2602306 ATAAAACCGGGGTTGGAGTATCCCTTCGGAAATAACAGGGTTGGAGTATCCCCGATTACGAAAAA
65 ATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTACGAAAAA
* *
2602371 TTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCC
130 TTGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCC
*
2602436 CCGATTGTGAAAAATT
195 CCGATTATGAAAAATT
2602452 GAGAAAAATA
Statistics
Matches: 192, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
236 4 0.02
237 186 0.97
238 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (237 bp):
GAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTACAAA
TAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTACGAAAAAT
TGATGTTTCAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCC
CGATTATGAAAAATTAATATTTTAGAAATAAAACTGGGATTA
Found at i:2602284 original size:158 final size:157
Alignment explanation
Indices: 2601942--2602453 Score: 731
Period size: 158 Copynumber: 3.2 Consensus size: 157
2601932 AAAATAAAAT
* **
2601942 CGGGGTTAGAGTATCCCCGATTATATAAAACAATTGATGCTTTAGAAATAAGGGCCGGGGTTGGA
1 CGGGGTTAGAGTATCCCCGA-T-TATGAAA-AATTGATG-TTTAGAAATAA-AACCGGGGTTGGA
* * * *
2602007 GTATCCCCGT-GAAAATAACGGGGTTGGAGTATCCCCGATTATAAGAAATTAATATTTTACAAAT
61 GTATCCCC-TCGGAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAAT
2602071 AAAATCGGGGTTAGAGTATCCCCTCGAAAATAA
125 AAAATCGGGGTTAGAGTATCCCCTCGAAAATAA
* *
2602104 CAGGGTTAGAGTATCCCCGATTACGAAAAATTGATGTTTCAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTT-AGAAATAAAACCGGGGTTGGAGTAT
2602169 CCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAA-
65 CCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAT
* *
2602233 CTGGGATTAGAGTATCCCCTCGGAAATAA
130 C-GGGGTTAGAGTATCCCCTCGAAAATAA
* *
2602262 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATG-TTTAGAAATAAAACCGGGGTTGGAGTAT
* * * * *
2602327 CCCTTCGGAAATAACAGGGTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAAT
65 CCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAT
*
2602392 CGGGGTTGGAGTATCCCCTCGAAAATAA
130 CGGGGTTAGAGTATCCCCTCGAAAATAA
* * *
2602420 CGGGATTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGA
2602454 GAAAAATAAA
Statistics
Matches: 320, Mismatches: 25, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
157 2 0.01
158 273 0.85
159 20 0.06
160 5 0.02
161 1 0.00
162 19 0.06
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (157 bp):
CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATC
GGGGTTAGAGTATCCCCTCGAAAATAA
Found at i:2603900 original size:35 final size:35
Alignment explanation
Indices: 2603826--2603959 Score: 261
Period size: 35 Copynumber: 3.9 Consensus size: 35
2603816 TTTCATTTTT
2603826 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2603860 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2603895 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2603930 ATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
2603960 TATTATTTTT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
34 28 0.28
35 71 0.72
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.43
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:2603978 original size:6 final size:6
Alignment explanation
Indices: 2603969--2604008 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
2603959 TTATTATTTT
*
2603969 TTTTAA TTTTAA TTTTAA TTTTAA TTTTTGA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA TTT
2604009 ATTACTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:2603984 original size:13 final size:13
Alignment explanation
Indices: 2603968--2604008 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
2603958 ATTATTATTT
2603968 TTTTTAATTTTAA
1 TTTTTAATTTTAA
2603981 -TTTTAATTTTAA
1 TTTTTAATTTTAA
*
2603993 TTTTTGATTTTAA
1 TTTTTAATTTTAA
2604006 TTT
1 TTT
2604009 ATTACTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:2604949 original size:20 final size:20
Alignment explanation
Indices: 2604924--2605069 Score: 112
Period size: 20 Copynumber: 6.8 Consensus size: 20
2604914 TTTTACCCAG
2604924 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * **
2604944 ATGTATCGATACATGTATGG
1 ATGTATCGATACATTTTTCA
2604964 ATGTATCGATACATTCTATCTTTTTACCCA
1 ATGTATCGAT--A--C-A--TTTTT---CA
2604994 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
2605015 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2605035 CTGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2605055 ATGTATCGATACATT
1 ATGTATCGATACATT
2605070 CTGTGTTTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
20 72 0.73
21 2 0.02
22 1 0.01
24 6 0.06
25 1 0.01
26 1 0.01
27 4 0.04
29 1 0.01
31 10 0.10
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2605029 original size:71 final size:71
Alignment explanation
Indices: 2604913--2605051 Score: 262
Period size: 71 Copynumber: 2.0 Consensus size: 71
2604903 AAAAGTCACA
2604913 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGGA-TGTATCGATACA
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTAT-GACTGTATCGATACA
2604977 TTCTATC
65 TTCTATC
2604984 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGACTGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGACTGTATCGATACAT
2605049 TCT
66 TCT
2605052 TCAATGTATC
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 2 0.03
71 65 0.97
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGACTGTATCGATACAT
TCTATC
Found at i:2605079 original size:91 final size:92
Alignment explanation
Indices: 2604924--2605120 Score: 256
Period size: 91 Copynumber: 2.2 Consensus size: 92
2604914 TTTTACCCAG
* * **
2604924 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGGATGTATCGATACATTCTATC-TTTT
1 ATGTATCGATACATGTATCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCTTTTT
2604988 TACCC-AGATGTATCGATACATTTTTCA
66 TACCCGA-ATGTATCGATACATTTTTCA
* * * * *
2605015 ATGTATCGATACATGTATGACTGTATCGATACAT-TCTTCAATGTATCGATACATTCTGTGTTTT
1 ATGTATCGATACATGTATCAATGTATCGATACATGT-ATCAATGTATCGATACATTCTATCTTTT
* *
2605079 TTTCCCGAATGTATCGATATATTTTTCA
65 TTACCCGAATGTATCGATACATTTTTCA
2605107 ATGTATCGATACAT
1 ATGTATCGATACAT
2605121 CTAGTTAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 49 0.53
92 41 0.45
93 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (92 bp):
ATGTATCGATACATGTATCAATGTATCGATACATGTATCAATGTATCGATACATTCTATCTTTTT
TACCCGAATGTATCGATACATTTTTCA
Found at i:2614404 original size:21 final size:21
Alignment explanation
Indices: 2614380--2614419 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2614370 TACTAATTCT
2614380 TTATTTTCATTAGTTAGGATA
1 TTATTTTCATTAGTTAGGATA
2614401 TTATTTTCATTAGTTAGGA
1 TTATTTTCATTAGTTAGGA
2614420 CATATAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (21 bp):
TTATTTTCATTAGTTAGGATA
Found at i:2615032 original size:3 final size:3
Alignment explanation
Indices: 2615024--2615066 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2615014 TCCGAGTCAA
2615024 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
2615067 TTTAATGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:2616684 original size:62 final size:62
Alignment explanation
Indices: 2616588--2616727 Score: 212
Period size: 62 Copynumber: 2.3 Consensus size: 62
2616578 CCCCGTTGCT
* * *
2616588 ATGTATCG-TACAATTCATAATGTATCGGTACATGCATTTGAAATTATAG-CAATTTGAGACA
1 ATGTATCGATACAATTCACAATATATCGATACATGCATTTGAAATTATAGTC-ATTTGAGACA
* *
2616649 ATGTATCGACACAATTCACAATATATCGATACATGCATTTGAAATTATAGTCCTTTGAGACA
1 ATGTATCGATACAATTCACAATATATCGATACATGCATTTGAAATTATAGTCATTTGAGACA
2616711 ATGTATCGATACAATTC
1 ATGTATCGATACAATTC
2616728 TTCATTTATC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
61 8 0.11
62 62 0.87
63 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (62 bp):
ATGTATCGATACAATTCACAATATATCGATACATGCATTTGAAATTATAGTCATTTGAGACA
Found at i:2616738 original size:62 final size:61
Alignment explanation
Indices: 2616588--2616743 Score: 199
Period size: 62 Copynumber: 2.5 Consensus size: 61
2616578 CCCCGTTGCT
* * *
2616588 ATGTATCG-TACAATTCATAATGTATCGGTACATGCATTTGAAATTATAGCAATTTGAGACA
1 ATGTATCGATACAATTC-TCATATATCGATACATGCATTTGAAATTATAGCAATTTGAGACA
* * *
2616649 ATGTATCGACACAATTCACAATATATCGATACATGCATTTGAAATTATAGTC-CTTTGAGACA
1 ATGTATCGATACAATTCTC-ATATATCGATACATGCATTTGAAATTATAG-CAATTTGAGACA
*
2616711 ATGTATCGATACAATTCTTCATTTATCGATACA
1 ATGTATCGATACAATTC-TCATATATCGATACA
2616744 ATGTGCCATG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
61 8 0.10
62 72 0.88
63 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (61 bp):
ATGTATCGATACAATTCTCATATATCGATACATGCATTTGAAATTATAGCAATTTGAGACA
Found at i:2616757 original size:20 final size:19
Alignment explanation
Indices: 2616711--2616764 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
2616701 CTTTGAGACA
2616711 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTC-TC
*
2616731 ATTTATCGATACAATGTGC-C
1 ATGTATCGATACAAT-T-CTC
2616751 ATGTATCGATACAA
1 ATGTATCGATACAA
2616765 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACAATTCTC
Found at i:2616818 original size:20 final size:20
Alignment explanation
Indices: 2616792--2616847 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
2616782 ACTGCCAGTT
*
2616792 TCATGTATTGATACAATTG-
1 TCATGTATCGATACAATTGA
*
2616811 TGCATGTATCAATACAA-TGA
1 T-CATGTATCGATACAATTGA
2616831 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
2616848 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:2616851 original size:13 final size:13
Alignment explanation
Indices: 2616833--2616859 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2616823 TACAATGATC
2616833 ATGTATCGATACA
1 ATGTATCGATACA
2616846 ATGTATCGATACA
1 ATGTATCGATACA
2616859 A
1 A
2616860 AGCATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2625131 original size:81 final size:81
Alignment explanation
Indices: 2624739--2625201 Score: 342
Period size: 80 Copynumber: 5.8 Consensus size: 81
2624729 ATTTTTGGTG
* * * * * * *
2624739 AAAATTAGGATTGGAGTATCCTCTCAGAGATGGTGGGATTGGAGAATCCCTGAA--ATGAAAAAT
1 AAAATGAGG-TTGGAGTATCCTTTCAGAAATGATGGGGTTGGAGTATCCCT-AATGGTGAAAAAT
** *
2624802 TTAAT-ATTTTGTG-AGTA
64 TCGATGCTTTTG-GAAGTA
* * * * ** * *
2624819 AAAACGGGGTTGGTGTATTCC-TTCGGAAATGATACGGTTGGAGTAT-CCTCGATAGTGAAAAAT
1 AAAATGAGGTTGGAGTA-TCCTTTCAGAAATGATGGGGTTGGAGTATCCCT-AATGGTGAAAAAT
* *
2624882 T-GAT-ATTTTGGAAATA
64 TCGATGCTTTTGGAAGTA
* ** * * *
2624898 AAAATGAGGTTAGAGTATCCCCT-AAAAATGATGGGGTTGGAGTATCCTTGATGGTGAAAAATTC
1 AAAATGAGGTTGGAGTATCCTTTCAGAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTC
* *
2624962 GATGCTTTTAGAAATA
66 GATGCTTTTGGAAGTA
* ** * * *
2624978 TAAACAAGGTTGGAGTACCCTTTC-GAAAATAATGGGGTTGGAGTA--CCTCGATGGTGAAAAAT
1 AAAATGAGGTTGGAGTATCCTTTCAG-AAATGATGGGGTTGGAGTATCCCT-AATGGTGAAAAAT
*
2625040 TCGATGCTTTTGGAAGCA
64 TCGATGCTTTTGGAAGTA
* ** * * *
2625058 AAAATGACGTTAAATTATTCTTTCAGAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTA
1 AAAATGAGGTTGGAGTATCCTTTCAGAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTC
2625123 GATGCTTTTGGAAGTA
66 GATGCTTTTGGAAGTA
* * * * *
2625139 AAAATGGGGTTGGAGTATCCTCTCA-AAATTGATGGGGTTAGAGTATCTCTAA-GATGAAAAATT
1 AAAATGAGGTTGGAGTATCCTTTCAGAAA-TGATGGGGTTGGAGTATCCCTAATGGTGAAAAATT
2625202 TGGTGCTTGG
Statistics
Matches: 302, Mismatches: 66, Indels: 30
0.76 0.17 0.08
Matches are distributed among these distances:
78 39 0.13
79 56 0.19
80 118 0.39
81 86 0.28
82 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (81 bp):
AAAATGAGGTTGGAGTATCCTTTCAGAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTC
GATGCTTTTGGAAGTA
Found at i:2625152 original size:161 final size:158
Alignment explanation
Indices: 2624854--2625201 Score: 392
Period size: 161 Copynumber: 2.2 Consensus size: 158
2624844 GAAATGATAC
* * * *
2624854 GGTTGGAGTATCCTCGATAGTGAAAAATTGATATTTTGGAAATAAAAATGAGGTTAGAGTATCCC
1 GGTTGGAGTA-CCTCGATGGTGAAAAATTGATATTTTGGAAACAAAAATGACGTTAAAGTATCCC
* * * *
2624919 CTAAAAATGATGGGGTTGGAGTATCCTTGATGGTGAAAAATTCGATGCTTTTAGAAATATAAACA
65 CTAAAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTAGATGCTTTTAGAAATAAAAACA
*
2624984 AGGTTGGAGTACCCTTTCGAAAA-TAATGG
130 AGGTTGGAGTACCCTCTC-AAAATTAATGG
* * * *
2625013 GGTTGGAGTACCTCGATGGTGAAAAATTCGATGCTTTTGGAAGCAAAAATGACGTTAAATTATTC
1 GGTTGGAGTACCTCGATGGTGAAAAATT-GAT-ATTTTGGAAACAAAAATGACGTTAAAGTATCC
** * * *
2625078 TTTCAGAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTAGATGCTTTTGGAAGTAAAAA
64 CCT-AAAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTAGATGCTTTTAGAAATAAAAA
*** * *
2625143 TGGGGTTGGAGTATCCTCTCAAAATTGATGG
128 CAAGGTTGGAGTACCCTCTCAAAATTAATGG
* * * * *
2625174 GGTTAGAGTATCTCTAAGATGAAAAATT
1 GGTTGGAGTACCTCGATGGTGAAAAATT
2625202 TGGTGCTTGG
Statistics
Matches: 157, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
158 17 0.11
159 13 0.08
160 30 0.19
161 97 0.62
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (158 bp):
GGTTGGAGTACCTCGATGGTGAAAAATTGATATTTTGGAAACAAAAATGACGTTAAAGTATCCCC
TAAAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAAATTAGATGCTTTTAGAAATAAAAACAA
GGTTGGAGTACCCTCTCAAAATTAATGG
Found at i:2627703 original size:51 final size:52
Alignment explanation
Indices: 2627584--2627722 Score: 167
Period size: 51 Copynumber: 2.7 Consensus size: 52
2627574 AAAATAGCCC
* * *
2627584 ATGTATCGATACATTGAAGAATGTATTGATACATTTGGGTCAAAAACTCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACTCAGA
* * *
2627636 ATGTATTGATATAATGAAAAATGTATCGATACA-TTGAGG-CTAAAAC-CTAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTG-GGTCAAAAACTC-AGA
* *
2627687 ATGTATCGATACAATGAAAAATGTATCAAAACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
2627723 TCTTTCCAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 41 0.55
52 32 0.43
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACTCAGA
Found at i:2627801 original size:20 final size:20
Alignment explanation
Indices: 2627778--2627815 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2627768 ACATTTCAAA
*
2627778 CATGTATCGATATATTCACT
1 CATGTATCGATACATTCACT
2627798 CATGTATCGATACATTCA
1 CATGTATCGATACATTCA
2627816 TTATTTATAT
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:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
CATGTATCGATACATTCACT
Found at i:2628896 original size:33 final size:32
Alignment explanation
Indices: 2628854--2628915 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
2628844 TACAAGCCAA
*
2628854 TGTATCGATACATTTTGGGATGTATCGATATAT
1 TGTATCGATACATCTTGGG-TGTATCGATATAT
*
2628887 TGTATCGATACATCTTGTGTGTATCGATA
1 TGTATCGATACATCTTGGGTGTATCGATA
2628916 CAAATAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATATAT
Found at i:2629006 original size:20 final size:21
Alignment explanation
Indices: 2628959--2629013 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
2628949 GCTAATGACC
*
2628959 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
2628980 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
2629000 TGTATCGATACATT
1 TGTATCGATACATT
2629014 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:2629606 original size:22 final size:22
Alignment explanation
Indices: 2629579--2629623 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
2629569 TTTTCTTTTC
2629579 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
2629601 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
2629623 T
1 T
2629624 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:2631038 original size:20 final size:22
Alignment explanation
Indices: 2630999--2631043 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2630989 GCTGTTAGTG
*
2630999 TGGGGGCTGCTCGGTTGCGACC
1 TGGGGGCTGCTCGGTCGCGACC
2631021 TGGGGG-TGC-CGGTCGCGACC
1 TGGGGGCTGCTCGGTCGCGACC
2631041 TGG
1 TGG
2631044 TGAGTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 3 0.14
22 6 0.27
ACGTcount: A:0.04, C:0.27, G:0.49, T:0.20
Consensus pattern (22 bp):
TGGGGGCTGCTCGGTCGCGACC
Found at i:2631623 original size:20 final size:20
Alignment explanation
Indices: 2631592--2631648 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2631582 GTCAAAACCC
*
2631592 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
2631612 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
2631632 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
2631649 TTGTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:2631674 original size:33 final size:34
Alignment explanation
Indices: 2631637--2631715 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 34
2631627 CAGATTGCAT
* **
2631637 TGTATCGATACATTGTATCAATACATGACCAA-A
1 TGTATCGATACAATGTATCAATACATGAAAAAGA
* *
2631670 TGTATCGATA-AATGTATCGATACTTGAAAAAGA
1 TGTATCGATACAATGTATCAATACATGAAAAAGA
2631703 TGTATCGATACAA
1 TGTATCGATACAA
2631716 GTCATTGGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 16 0.41
33 21 0.54
34 2 0.05
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (34 bp):
TGTATCGATACAATGTATCAATACATGAAAAAGA
Found at i:2631684 original size:12 final size:12
Alignment explanation
Indices: 2631667--2631691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2631657 ATACATGACC
2631667 AAATGTATCGAT
1 AAATGTATCGAT
2631679 AAATGTATCGAT
1 AAATGTATCGAT
2631691 A
1 A
2631692 CTTGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AAATGTATCGAT
Found at i:2631814 original size:12 final size:12
Alignment explanation
Indices: 2631764--2631822 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
2631754 ATACACACAG
2631764 ATGTATCGATAC
1 ATGTATCGATAC
2631776 ATTGTATCGATAC
1 A-TGTATCGATAC
* *
2631789 AT-CAT--A-AA
1 ATGTATCGATAC
2631797 ATGTATCGATAC
1 ATGTATCGATAC
2631809 ATGTATCGATAC
1 ATGTATCGATAC
2631821 AT
1 AT
2631823 TGGCTTGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
11 3 0.08
12 17 0.45
13 12 0.32
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2638177 original size:22 final size:21
Alignment explanation
Indices: 2638134--2638174 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2638124 CAAAATTCTT
2638134 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
2638156 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
2638175 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:2639846 original size:22 final size:21
Alignment explanation
Indices: 2639825--2639864 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2639815 AGTGTTAAAT
*
2639825 TATTTTACTAAGGGGGAGAAA
1 TATTTGACTAAGGGGGAGAAA
* *
2639846 TGTTTGATTAAGGGGGAGA
1 TATTTGACTAAGGGGGAGA
2639865 GAAAAGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.35, T:0.30
Consensus pattern (21 bp):
TATTTGACTAAGGGGGAGAAA
Found at i:2640421 original size:20 final size:20
Alignment explanation
Indices: 2640373--2640429 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
2640363 GTCAAAACCC
*
2640373 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
2640393 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* * *
2640413 TGCATTGTATGGATACA
1 TGAAATGTATCGATACA
2640430 TTGTATCAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:2640553 original size:13 final size:13
Alignment explanation
Indices: 2640535--2640560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2640525 ACACACAGTA
2640535 TGTATCGATACAT
1 TGTATCGATACAT
2640548 TGTATCGATACAT
1 TGTATCGATACAT
2640561 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2641665 original size:8 final size:8
Alignment explanation
Indices: 2641647--2641677 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2641637 TTTTGAACAT
2641647 CAAACATCA
1 CAAA-ATCA
2641656 CAAAATCA
1 CAAAATCA
2641664 CAAAATCA
1 CAAAATCA
2641672 CAAAAT
1 CAAAAT
2641678 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:2647639 original size:13 final size:13
Alignment explanation
Indices: 2647621--2647646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2647611 CACTTTGGGA
2647621 TGTATCGATACAT
1 TGTATCGATACAT
2647634 TGTATCGATACAT
1 TGTATCGATACAT
2647647 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2647643 original size:33 final size:32
Alignment explanation
Indices: 2647601--2647662 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
2647591 TACAAGCCAA
2647601 TGTATCGATACA-CTTTGGGATGTATCGATACAT
1 TGTATCGATACATC-TTGGG-TGTATCGATACAT
*
2647634 TGTATCGATACATCTTGTGTGTATCGATA
1 TGTATCGATACATCTTGGGTGTATCGATA
2647663 TAAACAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 10 0.37
33 16 0.59
34 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:2647742 original size:20 final size:21
Alignment explanation
Indices: 2647695--2647749 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
2647685 GCCAATGACC
*
2647695 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
2647716 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
2647736 TGTATCGATACATT
1 TGTATCGATACATT
2647750 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:2647792 original size:20 final size:20
Alignment explanation
Indices: 2647769--2647809 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2647759 CTGTGCAATA
*
2647769 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
2647789 TGTATCGATACATTTCAAGG
1 TGTATCGATACATTTCAAGG
2647809 T
1 T
2647810 TTTGACCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:2648466 original size:63 final size:62
Alignment explanation
Indices: 2648389--2649009 Score: 499
Period size: 62 Copynumber: 9.9 Consensus size: 62
2648379 GCATCGTGCC
* *
2648389 CTTTGAGGACTAAAAGTTGCCACCAACTTGTGTGGGCTTTTAAAAAGGAAAAGGTGGCATACT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAAGGAAAAGGTGTCATACT
* * * **
2648452 CTTTGAGGACTAAAAGGTGCCACTAGCTTGTATGGGCTTTAAAAAGAAAAAAAAAGAAAAAATGC
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG---------GAAAAGGTG-
* *
2648517 ATCCTATT
56 -TCATACT
* * * * *
2648525 CTTTGAGGACTAAAAGGTGCTC-CCAACTTCTGTGGGCTTTGAAAA-GAAAAAGTGTCTTGCT
1 CTTTGAGGACTAAAAGGTGC-CACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTGTCATACT
* ** *
2648586 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAAGAAAA-GCATCCTAC
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTT--A-AAAAGGAAAAGGTGTCATAC
2648650 T
62 T
* * ** * * ** *
2648651 TTTTAAGGACTAAAAATTGCCACCAACTTGTGTGGGCTTT-AAAATGAAAATGGCGTTTTGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAA-GGTGTCATACT
* * * * ** * *
2648713 CTTTAAGGGCTAAAAGATGCCACCAACTTGTGTGGGCGTT-AAAAGGAAAAAGGCATCCTATT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG-AAAAGGTGTCATACT
* * ** * *
2648775 CTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTTAAAAAGAAAAAGGCATCTTGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAAGGAAAAGGTGTCATACT
* * *
2648838 CTTTGAGAACTAAAAGTTGCCACCAACTTGTGTGGGCTTT-AAAA--AAAA--TGTCATGCT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTGTCATACT
* * * * * *
2648895 CTTTGAGGACTAAAAGGTGCCACAAACTTGTATAGGCTTTAAAAA-GAAAAAGTCATCCTACT
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGT-GTCATACT
* * *
2648957 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTACAAAGAAAAAGG
1 CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGG
2649010 AAAGGAGTGC
Statistics
Matches: 457, Mismatches: 72, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
57 41 0.09
58 4 0.01
59 8 0.02
60 10 0.02
61 43 0.09
62 147 0.32
63 98 0.21
64 8 0.02
65 43 0.09
66 5 0.01
71 7 0.02
73 42 0.09
74 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (62 bp):
CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTGTCATACT
Found at i:2648739 original size:62 final size:61
Alignment explanation
Indices: 2648503--2649009 Score: 542
Period size: 62 Copynumber: 8.2 Consensus size: 61
2648493 AAAAGAAAAA
* ** *
2648503 AAAAGAAAAAATGCATCCTATTCTTTGAGGACTAAAAGGTGCTC-CCAACTTCTGTGGGCTTT
1 AAAAG-AAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGC-CACCAACTTGTGTGGGCTTT
*
2648565 GAAAAGAAAAAGTG--TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAAG-GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * **
2648626 TAAAGAAAAAGAAAAGCATCCTACTTTTTAAGGACTAAAAATTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAG----GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * ** * * * *
2648691 AAAATGAAAATGGCGTTTTGCTCTTTAAGGGCTAAAAGATGCCACCAACTTGTGTGGGCGTT
1 AAAA-GAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
** *
2648753 AAAAGGAAAAAGGCATCCTATTCTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTT
1 AAAA-GAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTT
* * *
2648816 AAAAAGAAAAAGGCATCTTGCTCTTTGAGAACTAAAAGTTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
2648878 -AAA-AAAAATG--TCATGCTCTTTGAGGACTAAAAGGTGCCACAAACTTGTATAGGCTTT
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2648935 AAAAAGAAAAAGTCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTT
1 -AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
2648997 ACAAAGAAAAAGG
1 A-AAAGAAAAAGG
2649010 AAAGGAGTGC
Statistics
Matches: 372, Mismatches: 56, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
57 41 0.11
59 9 0.02
60 19 0.05
61 42 0.11
62 150 0.40
63 57 0.15
64 4 0.01
65 44 0.12
66 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (61 bp):
AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:2648963 original size:182 final size:184
Alignment explanation
Indices: 2648524--2649009 Score: 631
Period size: 182 Copynumber: 2.6 Consensus size: 184
2648514 TGCATCCTAT
* * * * *
2648524 TCTTTGAGGACTAAAAGGTGCTC-CCAACTTCTGTGGGCTTTGAAAAGAAAAAGT-GTCTTGCTC
1 TCTTTGAGGACTAAAAGGTGC-CACCAACTTGTGTGGGCTTTAAAAAGAAAAAGTCATCCTACTC
* * *
2648587 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAAGAAAAGCATCCTACTT
65 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAA-AAGAA-AAAGGCATCCTACTC
* **
2648652 TTTAAGGACTAAAAATTGCCACCAACTTGTGTGGGCTTTAAAATGAAAATGGCGTTTTGC
128 TTTAAGAACTAAAAATTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAT-G-GTCATGC
* * * * * * *
2648712 TCTTTAAGGGCTAAAAGATGCCACCAACTTGTGTGGGCGTTAAAAGGAAAAAGGCATCCTATTCT
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGTCATCCTACTCT
* * *
2648777 TTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTTAAAAAGAAAAAGGCATCTTGCTCTTT
66 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAAGGCATCCTACTCTTT
* *
2648842 GAGAACTAAAAGTTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAT-GTCATGC
131 AAGAACTAAAAATTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGGTCATGC
* * *
2648894 TCTTTGAGGACTAAAAGGTGCCACAAACTTGTATAGGCTTTAAAAAGAAAAAGTCATCCTACTCT
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGTCATCCTACTCT
* *
2648959 TTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGC-TTTACAAAGAAAAAGG
66 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAAGG
2649010 AAAGGAGTGC
Statistics
Matches: 260, Mismatches: 36, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
181 15 0.06
182 93 0.36
185 5 0.02
187 52 0.20
188 48 0.18
189 47 0.18
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (184 bp):
TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGTCATCCTACTCT
TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAAGGCATCCTACTCTTT
AAGAACTAAAAATTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGGTCATGC
Found at i:2649051 original size:31 final size:33
Alignment explanation
Indices: 2649010--2649078 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 33
2649000 AAGAAAAAGG
*
2649010 AAAGGAGTGCCACGGAGTTATGGACTTT-AGAA
1 AAAGGAGTGCCACGGAGTTATAGACTTTGAGAA
* * *
2649042 AAAGG-GTGCCACGTAGTTGTAGACTTTGGGAA
1 AAAGGAGTGCCACGGAGTTATAGACTTTGAGAA
2649074 AAAGG
1 AAAGG
2649079 TTTGGAGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (33 bp):
AAAGGAGTGCCACGGAGTTATAGACTTTGAGAA
Found at i:2650733 original size:20 final size:20
Alignment explanation
Indices: 2650708--2650746 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2650698 CTTGTGGCAT
2650708 AGGACTAAGGATCAAAAGAG
1 AGGACTAAGGATCAAAAGAG
*
2650728 AGGACTAGGGATCAAAAGA
1 AGGACTAAGGATCAAAAGA
2650747 TGATGACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.10, G:0.31, T:0.10
Consensus pattern (20 bp):
AGGACTAAGGATCAAAAGAG
Found at i:2653909 original size:43 final size:43
Alignment explanation
Indices: 2653759--2653896 Score: 204
Period size: 43 Copynumber: 3.2 Consensus size: 43
2653749 GTGGCTAAGA
* *
2653759 AGGGTGGCTAGAAATGAATGCTTGTCAGGGTTCAAAGCATAAT
1 AGGGTGGCTAGAAATGAATGCTTGCCAGGGTTCAAAGCAGAAT
* * * *
2653802 AGGGTAGCTGGAAATGAATGTTTACCAGGGTTCAAAGCAGAAT
1 AGGGTGGCTAGAAATGAATGCTTGCCAGGGTTCAAAGCAGAAT
* *
2653845 AGGGTGGCTAGAAATGAATGCTTGCCATGGTTCAAAGCCGAAT
1 AGGGTGGCTAGAAATGAATGCTTGCCAGGGTTCAAAGCAGAAT
2653888 AGGGTGGCT
1 AGGGTGGCT
2653897 GGAAGTGCAT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 83 1.00
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (43 bp):
AGGGTGGCTAGAAATGAATGCTTGCCAGGGTTCAAAGCAGAAT
Found at i:2654225 original size:22 final size:20
Alignment explanation
Indices: 2654174--2654229 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
2654164 AAAAACCCAG
2654174 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGAGA
*
2654194 AATGTGTCGATACAATTGTA-A
1 AATGTATCGATACAA-TG-AGA
2654215 ACATGTATCGATACA
1 A-ATGTATCGATACA
2654230 TTTTCTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.45
21 4 0.13
22 13 0.42
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:2664232 original size:20 final size:21
Alignment explanation
Indices: 2664184--2664241 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
2664174 TATAATGAGA
2664184 AATGTATCGATACAATTGTAAG
1 AATGTATCGATAC-ATTGTAAG
* **
2664206 CATGTATCGATACATTG-ACT
1 AATGTATCGATACATTGTAAG
*
2664226 AATGTATTGATACATT
1 AATGTATCGATACATT
2664242 TCCTTGGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 4 0.13
22 12 0.39
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTGTAAG
Found at i:2664334 original size:21 final size:20
Alignment explanation
Indices: 2664287--2664341 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
2664277 CATTTGAGAC
* *
2664287 ATGTATCGATACATTCACTT
1 ATGTATTGATACATTCACTA
2664307 ATGTATTGATACATTCACTA
1 ATGTATTGATACATTCACTA
2664327 ATTGTATTGATACAT
1 A-TGTATTGATACAT
2664342 ATTGTAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATTGATACATTCACTA
Found at i:2666110 original size:20 final size:21
Alignment explanation
Indices: 2666063--2666115 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2666053 GCCAATGACT
*
2666063 TGTATCGATACATTCTATTCA
1 TGTATCGATACATTCTAGTCA
* *
2666084 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTAGTCA
2666104 TGTATCGATACA
1 TGTATCGATACA
2666116 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTAGTCA
Found at i:2666121 original size:13 final size:13
Alignment explanation
Indices: 2666103--2666131 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2666093 ACATTTGGTC
2666103 ATGTATCGATACA
1 ATGTATCGATACA
2666116 ATGTATCGATACA
1 ATGTATCGATACA
2666129 ATG
1 ATG
2666132 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2666755 original size:58 final size:58
Alignment explanation
Indices: 2666683--2666813 Score: 253
Period size: 58 Copynumber: 2.3 Consensus size: 58
2666673 TTTTCTTTTC
2666683 TCTCCCCCTTAATCAAAAATTTCTCCCCCTTAATAAGGCAATTTTAACAAATTCGCAT
1 TCTCCCCCTTAATCAAAAATTTCTCCCCCTTAATAAGGCAATTTTAACAAATTCGCAT
2666741 TCTCCCCCTTAATCAAAAATTTCTCCCCCTTAATAAGGCAATTTTAACAAATTCGCAT
1 TCTCCCCCTTAATCAAAAATTTCTCCCCCTTAATAAGGCAATTTTAACAAATTCGCAT
*
2666799 TCTCCCCCGTAATCA
1 TCTCCCCCTTAATCA
2666814 TAAACACTTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 72 1.00
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.32
Consensus pattern (58 bp):
TCTCCCCCTTAATCAAAAATTTCTCCCCCTTAATAAGGCAATTTTAACAAATTCGCAT
Found at i:2668511 original size:20 final size:20
Alignment explanation
Indices: 2668482--2668522 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2668472 TGTTATTAAT
2668482 GATGATTTTG-GTGAAAAAC
1 GATGATTTTGAGTGAAAAAC
2668501 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTG-AGTGAAAAAC
2668523 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
22 9 0.47
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (20 bp):
GATGATTTTGAGTGAAAAAC
Found at i:2668530 original size:21 final size:22
Alignment explanation
Indices: 2668492--2668532 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2668482 GATGATTTTG
* *
2668492 GTGAAAAACGATGTATTTTGAA
1 GTGAAAAACGAAGAATTTTGAA
2668514 GTGAAAAAC-AAGAATTTTG
1 GTGAAAAACGAAGAATTTTG
2668533 CAAAAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (22 bp):
GTGAAAAACGAAGAATTTTGAA
Found at i:2674854 original size:33 final size:32
Alignment explanation
Indices: 2674817--2674884 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
2674807 CGTTACAAGC
**
2674817 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
2674850 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
2674882 CAA
1 CAA
2674885 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:2674857 original size:13 final size:13
Alignment explanation
Indices: 2674839--2674864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2674829 ACATTTTATG
2674839 ATGTATCGATACA
1 ATGTATCGATACA
2674852 ATGTATCGATACA
1 ATGTATCGATACA
2674865 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2674995 original size:20 final size:20
Alignment explanation
Indices: 2674970--2675020 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2674960 ATGGATACAA
*
2674970 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
2674990 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
2675010 TGTATCGATAC
1 TGTATCGATAC
2675021 TTTTTAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:2675596 original size:20 final size:20
Alignment explanation
Indices: 2675573--2675625 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2675563 ATTTTCAGAC
*
2675573 ATGTATTGATACATTCACTT
1 ATGTATCGATACATTCACTT
2675593 ATGTATCGATACATTCAC-T
1 ATGTATCGATACATTCACTT
*
2675612 ATTTTATCGATACA
1 A-TGTATCGATACA
2675626 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:2678468 original size:20 final size:20
Alignment explanation
Indices: 2678443--2678496 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2678433 GTTTTTCTAG
**
2678443 AATGTATCGATACAATGTAA
1 AATGTATCGATACAATACAA
2678463 AATGTATCGATACAATACAA
1 AATGTATCGATACAATACAA
*
2678483 AATGTATTGATACA
1 AATGTATCGATACA
2678497 TTTGAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATACAA
Found at i:2680922 original size:92 final size:93
Alignment explanation
Indices: 2680803--2680982 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 93
2680793 AGTTCAAGAT
* * * * *
2680803 TGAATGTATCGATACATATGGTTGGCAATAGGTACA-AAATACTAAAACCCTTATTTTTATTGAT
1 TGAATGTATCGATACATATGGTTGGCAATAGCTAAACAAATACTAAAACCCTCATTTGTACTGAT
2680867 ACA-AGTGAAAATATATCAATACATCATG
66 ACACA-TGAAAATATATCAATACATCATG
* * * * *
2680895 TGAATGTGTCGATACATCTTGTTGGCAATAGCTAAACAAATTCTGAAACCCTCATTTGTACTGAT
1 TGAATGTATCGATACATATGGTTGGCAATAGCTAAACAAATACTAAAACCCTCATTTGTACTGAT
*
2680960 ACACATGAAAATGTATCAATACA
66 ACACATGAAAATATATCAATACA
2680983 ATACAAAATG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
92 31 0.41
93 43 0.57
94 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (93 bp):
TGAATGTATCGATACATATGGTTGGCAATAGCTAAACAAATACTAAAACCCTCATTTGTACTGAT
ACACATGAAAATATATCAATACATCATG
Found at i:2682908 original size:19 final size:19
Alignment explanation
Indices: 2682884--2682963 Score: 100
Period size: 19 Copynumber: 4.5 Consensus size: 19
2682874 CAAACAGAAA
2682884 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2682903 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2682922 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2682936 TT-TATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2682954 TTGTATCGAT
1 TTGTATCGAT
2682964 CCAATGTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.15
14 2 0.04
15 2 0.04
17 2 0.04
18 2 0.04
19 37 0.70
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2682947 original size:32 final size:32
Alignment explanation
Indices: 2682904--2682974 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
2682894 ACATAAGTGT
*
2682904 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
2682936 TTTATCGATACATAAGTTTTGTATCGATCCAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2682968 TGTATCG
1 TGTATCG
2682975 CTACGAAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2683037 original size:13 final size:13
Alignment explanation
Indices: 2683019--2683043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2683009 ATTACTTAAA
2683019 TGTATCGATACAT
1 TGTATCGATACAT
2683032 TGTATCGATACA
1 TGTATCGATACA
2683044 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2683095 original size:52 final size:52
Alignment explanation
Indices: 2683052--2683180 Score: 197
Period size: 52 Copynumber: 2.5 Consensus size: 52
2683042 CACTGATCTT
*
2683052 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCAATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
2683104 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATATACTATGAAA
1 TGTATCAATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
2683156 TGTATCGAT-CTATGCAGGCAAATTT
1 TGTATCAATAC-ATACAGGCAAATTT
2683181 TCATATTTCG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 1 0.01
52 71 0.99
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCAATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2687555 original size:51 final size:50
Alignment explanation
Indices: 2687441--2687556 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 50
2687431 CTGCCAAGGA
*
2687441 AATGTATCGATACATCTGGATTTTTTACCAAATGTATCGATACATTGATC
1 AATGTATCGATACATCTGGATTTTTGACCAAATGTATCGATACATTGATC
* * * * *
2687491 ATTATATCGATACATCTGGGTATTTTGCCCAGATGTATCGATACATT-ATTC
1 AATGTATCGATACATCTGGAT-TTTTGACCAAATGTATCGATACATTGA-TC
*
2687542 AATGTATCAATACAT
1 AATGTATCGATACAT
2687557 GCAGGTAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
50 19 0.35
51 36 0.65
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (50 bp):
AATGTATCGATACATCTGGATTTTTGACCAAATGTATCGATACATTGATC
Found at i:2690853 original size:10 final size:10
Alignment explanation
Indices: 2690819--2690856 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
2690809 AGTTTTTCAA
2690819 TCTTCAAA-T
1 TCTTCAAATT
*
2690828 TCATCAAATCT
1 TCTTCAAAT-T
2690839 TCTTCAAATT
1 TCTTCAAATT
2690849 TCTTCAAA
1 TCTTCAAA
2690857 AACTCATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 7 0.28
10 9 0.36
11 9 0.36
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (10 bp):
TCTTCAAATT
Found at i:2692559 original size:13 final size:13
Alignment explanation
Indices: 2692541--2692565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2692531 GAAAATTGTT
2692541 GTTTATAAATTTG
1 GTTTATAAATTTG
2692554 GTTTATAAATTT
1 GTTTATAAATTT
2692566 AGGGGAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
GTTTATAAATTTG
Found at i:2696741 original size:13 final size:13
Alignment explanation
Indices: 2696723--2696747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2696713 ACAAAACTTA
2696723 TGTATCGATACAT
1 TGTATCGATACAT
2696736 TGTATCGATACA
1 TGTATCGATACA
2696748 AATTGTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2700566 original size:15 final size:15
Alignment explanation
Indices: 2700546--2700591 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
2700536 TTAAAATTTT
2700546 AATCAATCTGTTGTA
1 AATCAATCTGTTGTA
2700561 AATCAA--T-TT-T-
1 AATCAATCTGTTGTA
2700571 AATCAATCTGTTGTA
1 AATCAATCTGTTGTA
2700586 AATCAA
1 AATCAA
2700592 ACTACTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
10 6 0.23
11 1 0.04
12 3 0.12
13 3 0.12
14 1 0.04
15 12 0.46
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (15 bp):
AATCAATCTGTTGTA
Found at i:2700568 original size:25 final size:25
Alignment explanation
Indices: 2700540--2700591 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2700530 TAGGAATTAA
2700540 AATTTTAATCAATCTGTTGTAAATC
1 AATTTTAATCAATCTGTTGTAAATC
2700565 AATTTTAATCAATCTGTTGTAAATC
1 AATTTTAATCAATCTGTTGTAAATC
2700590 AA
1 AA
2700592 ACTACTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (25 bp):
AATTTTAATCAATCTGTTGTAAATC
Found at i:2701970 original size:19 final size:21
Alignment explanation
Indices: 2701924--2701977 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
2701914 TTTCAACAAT
2701924 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
2701945 ATGTATCGATACAAA-AGT-G
1 TTGTATCGATACAAACAGTAA
2701964 TTGTATCGATACAA
1 TTGTATCGATACAA
2701978 TGTATTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:2702048 original size:13 final size:13
Alignment explanation
Indices: 2702030--2702055 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2702020 TTATTCAATA
2702030 TATCGATACATTG
1 TATCGATACATTG
2702043 TATCGATACATTG
1 TATCGATACATTG
2702056 ATCTTTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2704277 original size:24 final size:26
Alignment explanation
Indices: 2704250--2704301 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
2704240 ATCAAAATTT
2704250 TATTCAT-C-GGGGACACTCCAACCC
1 TATTCATCCAGGGGACACTCCAACCC
* *
2704274 TATTCCTCCGAGGGGACACTCTAACCC
1 TATTCATCC-AGGGGACACTCCAACCC
2704301 T
1 T
2704302 GTTTTCAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
27 16 0.70
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (26 bp):
TATTCATCCAGGGGACACTCCAACCC
Found at i:2717482 original size:29 final size:29
Alignment explanation
Indices: 2717442--2717566 Score: 139
Period size: 29 Copynumber: 4.3 Consensus size: 29
2717432 CTCACCTTCC
* *
2717442 AAAGCCCATAAGTCAGTGGCATCTTTTCA
1 AAAGACCACAAGTCAGTGGCATCTTTTCA
* *
2717471 AAAGACCATAAGTCAGTGGCACCTTTTC-
1 AAAGACCACAAGTCAGTGGCATCTTTTCA
* *
2717499 AAAGCCCACAAGTCAGTGGCAAC-TTTCA
1 AAAGACCACAAGTCAGTGGCATCTTTTCA
*
2717527 AAA-ATCCCACAAGTCAGTGGCATCCTTTCA
1 AAAGA--CCACAAGTCAGTGGCATCTTTTCA
*
2717557 AAAGCCCACA
1 AAAGACCACA
2717567 CAAGTTGGTG
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.05
28 23 0.28
29 48 0.58
30 8 0.10
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAGACCACAAGTCAGTGGCATCTTTTCA
Found at i:2717541 original size:57 final size:57
Alignment explanation
Indices: 2717436--2717566 Score: 169
Period size: 57 Copynumber: 2.3 Consensus size: 57
2717426 ACATTCCTCA
* * * *
2717436 CCTTCCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAAGACCATAAGTCAGTGGCA-
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGACCACAAGTCAGTGGCAT
2717492 CCTTTTCAAAGCCCACAAGTCAGTGGCAAC-TTTCAAAA-ATCCCACAAGTCAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGA--CCACAAGTCAGTGGCAT
2717550 CCTTTCAAAAGCCCACA
1 CCTTTC-AAAGCCCACA
2717567 CAAGTTGGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
55 1 0.02
56 10 0.15
57 43 0.65
58 12 0.18
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (57 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGACCACAAGTCAGTGGCAT
Found at i:2717578 original size:31 final size:30
Alignment explanation
Indices: 2717446--2717581 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 30
2717436 CCTTCCAAAG
* *
2717446 CCCATAAGTCAGTGGCATCTTTTCAAAAGA-
1 CCCACAAGTCAGTGGCATCCTTTCAAAA-AC
* *
2717476 -CCATAAGTCAGTGGCA-CCTTTTC--AAAG
1 CCCACAAGTCAGTGGCATCC-TTTCAAAAAC
* *
2717503 CCCACAAGTCAGTGGCA-ACTTTCAAAAAT
1 CCCACAAGTCAGTGGCATCCTTTCAAAAAC
*
2717532 CCCACAAGTCAGTGGCATCCTTTCAAAAGC
1 CCCACAAGTCAGTGGCATCCTTTCAAAAAC
**
2717562 CCACACAAGTTGGTGGCATC
1 CC-CACAAGTCAGTGGCATC
2717582 TTCTTCTAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
26 1 0.01
27 6 0.07
28 17 0.19
29 40 0.44
30 11 0.12
31 15 0.17
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (30 bp):
CCCACAAGTCAGTGGCATCCTTTCAAAAAC
Found at i:2717630 original size:21 final size:21
Alignment explanation
Indices: 2717606--2717674 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
2717596 ATATCGCTGG
2717606 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* ** *
2717627 CCTTTAAGTCCAATATCGTTGG--
1 CCTTGAA-T-CAGCAT-ATTGGCA
2717649 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
2717670 CCTTG
1 CCTTG
2717675 CCTTTAAGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 12 0.34
22 7 0.20
23 4 0.11
24 4 0.11
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:2717750 original size:49 final size:49
Alignment explanation
Indices: 2717583--2718001 Score: 338
Period size: 49 Copynumber: 8.7 Consensus size: 49
2717573 GGTGGCATCT
* *
2717583 TCTTCTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA----C-
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
2717628 -CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGC-
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-CA
* * * ** *
2717676 -CTTTAAGACCAATGTCGCTGACCTTGAATCAGCGTATTGGAACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
2717724 TCTTTAAGACCAATGTCGTTGGCCTTGAATTAGTACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
2717773 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCACGTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
2717822 TCTTTAAGTCCGATATTGCTAGCCTTGAATCAGTACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* ** * * *
2717871 TCTTTAAGTCCGATATCATTGACCTTGAATCAGCATATTGGCATCTTTAACA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT--CA
* * * * ** * *
2717923 TTCCTT-AGCCCAATGTTGCTGGCCTTGTCTCAACACATTGGCA--TTCT
1 -TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
2717970 TCTTCAATTCTAATGTCGCTGGCCTTGAATCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCA
2718002 ACAGATTGTC
Statistics
Matches: 303, Mismatches: 59, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
43 37 0.12
44 3 0.01
46 3 0.01
47 22 0.07
48 41 0.14
49 162 0.53
50 3 0.01
52 28 0.09
53 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:2717825 original size:98 final size:98
Alignment explanation
Indices: 2717583--2717913 Score: 372
Period size: 98 Copynumber: 3.4 Consensus size: 98
2717573 GGTGGCATCT
* * * *
2717583 TCTTCTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATA
1 TCTT-TAAGTCCAATGTCACTGACCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATA
* *
2717642 TCGTTGGCCTTGAATCAGCATATTGGCACCTTGC-
65 TCGTTGGCCTTGAATCAGTACATTGGCACCTT-CA
* * * * * *
2717676 -CTTTAAGACCAATGTCGCTGACCTTGAATCAGCGTATTGGAACCTTCATCTTTAAGACCAATGT
1 TCTTTAAGTCCAATGTCACTGACCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
*
2717740 CGTTGGCCTTGAATTAGTACATTGGCACCTTCA
66 CGTTGGCCTTGAATCAGTACATTGGCACCTTCA
* * * * *
2717773 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCACGTTCATCTTTAAGTCCGATAT
1 TCTTTAAGTCCAATGTCACTGACCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
* * *
2717838 TGCTAGCCTTGAATCAGTACATTGGCACCTTCA
66 CGTTGGCCTTGAATCAGTACATTGGCACCTTCA
* * *
2717871 TCTTTAAGTCCGATATCATTGACCTTGAATCAGCATATTGGCA
1 TCTTTAAGTCCAATGTCACTGACCTTGAATCAGCATATTGGCA
2717914 TCTTTAACAT
Statistics
Matches: 198, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
91 33 0.17
92 3 0.02
95 1 0.01
96 1 0.01
97 41 0.21
98 119 0.60
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (98 bp):
TCTTTAAGTCCAATGTCACTGACCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
CGTTGGCCTTGAATCAGTACATTGGCACCTTCA
Found at i:2722708 original size:26 final size:26
Alignment explanation
Indices: 2722656--2722713 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2722646 CTATGCACTA
* * *
2722656 TTTGAACTTGGGGATATTGCCTTGAT
1 TTTGAACTTGGGGATACTACCTCGAT
*
2722682 TTTGAACTTGGGGATACTATCTCGAT
1 TTTGAACTTGGGGATACTACCTCGAT
2722708 TCTTGA
1 T-TTGA
2722714 TAATTTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (26 bp):
TTTGAACTTGGGGATACTACCTCGAT
Found at i:2724572 original size:34 final size:33
Alignment explanation
Indices: 2724519--2724593 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 33
2724509 CTACAAGTAA
*
2724519 TTTTGAAATTTTGATTAAAATAACTTTAAAAAG
1 TTTTAAAATTTTGATTAAAATAACTTTAAAAAG
*
2724552 TTTTAAAATTTTTTATTAAAATAACTTTAAAAAG
1 TTTTAAAA-TTTTGATTAAAATAACTTTAAAAAG
2724586 TTTTAAAA
1 TTTTAAAA
2724594 AAAATTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 7 0.18
34 32 0.82
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (33 bp):
TTTTAAAATTTTGATTAAAATAACTTTAAAAAG
Found at i:2726346 original size:10 final size:10
Alignment explanation
Indices: 2726331--2726369 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
2726321 GCATGAATTG
2726331 AAATAAGAAT
1 AAATAAGAAT
*
2726341 AAATAAAAAT
1 AAATAAGAAT
2726351 AAATGAA-AAT
1 AAAT-AAGAAT
2726361 AAATAAGAA
1 AAATAAGAA
2726370 AATCCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (10 bp):
AAATAAGAAT
Found at i:2727428 original size:31 final size:30
Alignment explanation
Indices: 2727335--2727535 Score: 129
Period size: 31 Copynumber: 6.5 Consensus size: 30
2727325 CCTTAAGCCT
* * *
2727335 AAAAAGGTGAATAGGGTGAAAC-CTTAGTC
1 AAAAAGATGACTAGGGTGAAACTTTTAGTC
* * * * *
2727364 GAGAAGATGATTAAGG-CAAACTTATTAGTC
1 AAAAAGATGACTAGGGTGAAACTT-TTAGTC
2727394 AAAAAGATGACTAGGGTGAAACTTTTAGTC
1 AAAAAGATGACTAGGGTGAAACTTTTAGTC
* * * **
2727424 CAAAAGATTGACAACGGTGAAACCATAGTAGTC
1 AAAAAGA-TGACTAGGGTGAAA-C-TTTTAGTC
* * * *
2727457 AAAAAAGACGATTAGGGTGAAACCTATTAGTT
1 -AAAAAGATGACTAGGGTGAAA-CTTTTAGTC
* * *
2727489 AAAAAGATGACGAGGGTGAAACCTTTAGTT
1 AAAAAGATGACTAGGGTGAAACTTTTAGTC
2727519 AGAAAA-ATTGACTAGGG
1 A-AAAAGA-TGACTAGGG
2727536 CAAAACCATA
Statistics
Matches: 133, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
28 4 0.03
29 11 0.08
30 39 0.29
31 48 0.36
32 7 0.05
33 18 0.14
34 6 0.05
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (30 bp):
AAAAAGATGACTAGGGTGAAACTTTTAGTC
Found at i:2727473 original size:64 final size:63
Alignment explanation
Indices: 2727389--2727511 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 63
2727379 GCAAACTTAT
* * *
2727389 TAGTCAAAAAGATGACTAGGGTGAAA-CTTTTAGTCCAAAAGATTGACAACGGTGAAACCATAG
1 TAGTCAAAAAGACGACTAGGGTGAAACCTATTAGTCAAAAAGA-TGACAACGGTGAAACCATAG
* * * *
2727452 TAGTCAAAAAAGACGATTAGGGTGAAACCTATTAGTTAAAAAGATGACGAGGGTGAAACC
1 TAGTC-AAAAAGACGACTAGGGTGAAACCTATTAGTCAAAAAGATGACAACGGTGAAACC
2727512 TTTAGTTAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 5 0.10
64 33 0.65
65 13 0.25
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (63 bp):
TAGTCAAAAAGACGACTAGGGTGAAACCTATTAGTCAAAAAGATGACAACGGTGAAACCATAG
Found at i:2727542 original size:31 final size:31
Alignment explanation
Indices: 2727476--2727542 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
2727466 GATTAGGGTG
**
2727476 AAACCTATTAGTTAAAAAGATGACGAGGGTG
1 AAACCTATTAGTTAAAAAGATGACGAGGGCA
*
2727507 AAACCT-TTAGTTAGAAAA-ATTGACTAGGGCA
1 AAACCTATTAGTTA-AAAAGA-TGACGAGGGCA
2727538 AAACC
1 AAACC
2727543 ATAATAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.22
Consensus pattern (31 bp):
AAACCTATTAGTTAAAAAGATGACGAGGGCA
Found at i:2727560 original size:95 final size:95
Alignment explanation
Indices: 2727375--2727589 Score: 236
Period size: 95 Copynumber: 2.3 Consensus size: 95
2727365 AGAAGATGAT
* * * *
2727375 TAAGGC-AAACTTATTAGTCAAAAAGATGACTAGGGTGAAACTTTTAGTCCAAAAGATTGACAAC
1 TAAGGCAAAACCTATTAGTCAAAAAGATGACGAGGGTGAAACCTTTAGTCCAAAAAATTGACAAC
** * ** *
2727439 GGTGAAACCATAGTAGTCAAAAAAGACGAT
66 GGCAAAACCATAATAACCAAAAAAGACGAC
* ** * * *
2727469 TAGGGTGAAACCTATTAGTTAAAAAGATGACGAGGGTGAAACCTTTAGT-TAGAAAAATTGACTA
1 TAAGGCAAAACCTATTAGTCAAAAAGATGACGAGGGTGAAACCTTTAGTCCA-AAAAATTGACAA
* *
2727533 GGGCAAAACCATAATAACCAAAGAAGACGAC
65 CGGCAAAACCATAATAACCAAAAAAGACGAC
*
2727564 TAAGGCAAAACCTATTAGTCGAAAAG
1 TAAGGCAAAACCTATTAGTCAAAAAG
2727590 GATTTTAGGA
Statistics
Matches: 97, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
94 5 0.05
95 92 0.95
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (95 bp):
TAAGGCAAAACCTATTAGTCAAAAAGATGACGAGGGTGAAACCTTTAGTCCAAAAAATTGACAAC
GGCAAAACCATAATAACCAAAAAAGACGAC
Found at i:2728622 original size:10 final size:10
Alignment explanation
Indices: 2728607--2728652 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
2728597 TTGATTTTCC
2728607 TTTTTTCTTA
1 TTTTTTCTTA
*
2728617 TTTTTTTCTTG
1 -TTTTTTCTTA
2728628 TTTTTTC-T-
1 TTTTTTCTTA
2728636 TTTTTTCTCTA
1 TTTTTTCT-TA
2728647 TTTTTT
1 TTTTTT
2728653 TCTCTCCCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 7 0.23
9 1 0.03
10 8 0.26
11 15 0.48
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTA
Found at i:2728623 original size:11 final size:10
Alignment explanation
Indices: 2728607--2728655 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
2728597 TTGATTTTCC
2728607 TTTTTTCTTAT
1 TTTTTTCTT-T
*
2728618 TTTTTTCTTG
1 TTTTTTCTTT
2728628 TTTTTTCTTT
1 TTTTTTCTTT
* *
2728638 TTTTCTCTAT
1 TTTTTTCTTT
2728648 TTTTTTCT
1 TTTTTTCT
2728656 CTCCCCTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:2729384 original size:167 final size:165
Alignment explanation
Indices: 2729297--2729719 Score: 450
Period size: 167 Copynumber: 2.5 Consensus size: 165
2729287 AAATAGTGGC
* * *
2729297 ATTTCAAGG-AAAAAATAAAAAATTTATGAAAATAAAT-ACATTTTTCAGAAAA-ATTTAATATG
1 ATTTCAAGGAAAAAAATAAAAAACTCATGAAAATAAATGA-ATGTTT-A-AAAACATTTAATATG
* * *
2729359 CATTAAATGATAATATTTGATGAATTTTAAAAATTAAAAAACTAAGAAAAATCCTCTCAAAAATA
63 AATTAAATGATAATATTTGATGAATTTTAAAAATT-AAAAACCAAGAAAAATCCTCCCAAAAATA
2729424 TTTACGGAGTAGAAAACTCCGTATTTCGAAAACAAGAGA
127 TTTACGGAGTAGAAAACTCCGTATTTCGAAAACAAGAGA
*
2729463 ATTTCAAGGAAAAAAATAAAAAACTCATGAGAATAAATGAATGTTTAAAAACTGATTTAATATGA
1 ATTTCAAGGAAAAAAATAAAAAACTCATGAAAATAAATGAATGTTTAAAAAC--ATTTAATATGA
* * * *
2729528 ATTAAATAATAATAGTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CTCATCGAAAATAT
64 ATTAAATGATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTC-CCAAAAATAT
* * * *
2729592 TTACGGAGTAGAAAACTCTGTATTTTGTAAACAGGAAGA
128 TTACGGAGTAGAAAACTCCGTATTTCGAAAACAAG-AGA
* * * * * * * *
2729631 ATTTCAA--AAGAAAATCAATAACGCAT-AAAATAAAAGAAAT-TTTTAAAACTGAGTTAATGGT
1 ATTTCAAGGAAAAAAATAAAAAACTCATGAAAATAAATG-AATGTTTAAAAAC--ATTTAAT-AT
* *
2729692 G-ATTAAATGATAATATTTAAAGAATTTT
62 GAATTAAATGATAATATTTGATGAATTTT
2729720 GATGCTTAAA
Statistics
Matches: 222, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
165 51 0.23
166 33 0.15
167 85 0.38
168 53 0.24
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (165 bp):
ATTTCAAGGAAAAAAATAAAAAACTCATGAAAATAAATGAATGTTTAAAAACATTTAATATGAAT
TAAATGATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAATATTTA
CGGAGTAGAAAACTCCGTATTTCGAAAACAAGAGA
Found at i:2729549 original size:168 final size:166
Alignment explanation
Indices: 2729297--2729637 Score: 467
Period size: 167 Copynumber: 2.0 Consensus size: 166
2729287 AAATAGTGGC
* * * *
2729297 ATTTCAAGGAAAAAATAAAAAATTTATGAAAATAAATACATTTTTCAGAAAAATTTAATATGCAT
1 ATTTCAAGGAAAAAATAAAAAACTCATGAAAATAAATACATGTTTCAGAAAAATTTAATATGAAT
* * *
2729362 TAAATGATAATATTTGATGAATTTTAAAAATTAAAAAACTAAGAAAAATCCTC-TCAAAAATATT
66 TAAATAATAATAGTTGATGAATTTTAAAAATT-AAAAACCAAGAAAAAT-CTCATCAAAAATATT
2729426 TACGGAGTAGAAAACTCCGTATTTCGAAAACAAG-AGA
129 TACGGAGTAGAAAACTCCGTATTTCGAAAACAAGAAGA
*
2729463 ATTTCAAGGAAAAAAATAAAAAACTCATGAGAATAAATGA-ATGTTT-A-AAAACTGATTTAATA
1 ATTTCAAGG-AAAAAATAAAAAACTCATGAAAATAAAT-ACATGTTTCAGAAAA---ATTTAATA
*
2729525 TGAATTAAATAATAATAGTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCATCGAAAAT
61 TGAATTAAATAATAATAGTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCATCAAAAAT
* * * *
2729590 ATTTACGGAGTAGAAAACTCTGTATTTTGTAAACAGGAAGA
126 ATTTACGGAGTAGAAAACTCCGTATTTCGAAAACAAGAAGA
2729631 ATTTCAA
1 ATTTCAA
2729638 AAGAAAATCA
Statistics
Matches: 155, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
165 4 0.03
166 13 0.08
167 85 0.55
168 53 0.34
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (166 bp):
ATTTCAAGGAAAAAATAAAAAACTCATGAAAATAAATACATGTTTCAGAAAAATTTAATATGAAT
TAAATAATAATAGTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCATCAAAAATATTTA
CGGAGTAGAAAACTCCGTATTTCGAAAACAAGAAGA
Found at i:2735043 original size:20 final size:20
Alignment explanation
Indices: 2735006--2735061 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 20
2734996 TACTATCAGT
*
2735006 TTCATGTATCAATGCAATTC
1 TTCATGTATCAATACAATTC
* * *
2735026 TTCATGTGTCGATACAA-TA
1 TTCATGTATCAATACAATTC
**
2735045 GACATGTATCAATACAA
1 TTCATGTATCAATACAA
2735062 GGTATCTATA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
TTCATGTATCAATACAATTC
Found at i:2735741 original size:21 final size:22
Alignment explanation
Indices: 2735701--2735742 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2735691 AAAATATAGC
* *
2735701 TCCCCTTTAATTAAACATTTTT
1 TCCCCCTTAATTAAAAATTTTT
2735723 TCCCCCTTAA-TAAAAATTTT
1 TCCCCCTTAATTAAAAATTTT
2735743 CCCTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (22 bp):
TCCCCCTTAATTAAAAATTTTT
Found at i:2740402 original size:20 final size:20
Alignment explanation
Indices: 2740358--2740402 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2740348 GTTAACAGCC
2740358 CATG-TTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
2740377 CTATGTTTCATGCATTTAT-AG
1 C-ATGTTTCATGCATTT-TGAG
2740398 CATGT
1 CATGT
2740403 CCAGCACCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 7 0.30
21 14 0.61
22 1 0.04
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:2747465 original size:20 final size:20
Alignment explanation
Indices: 2747440--2747477 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2747430 TATTGCCAGT
2747440 TTCATGCATCGATACAATTC
1 TTCATGCATCGATACAATTC
*
2747460 TTCATGTATCGATACAAT
1 TTCATGCATCGATACAAT
2747478 AAACATGTAT
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:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
TTCATGCATCGATACAATTC
Found at i:2747524 original size:33 final size:32
Alignment explanation
Indices: 2747463--2747525 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
2747453 ACAATTCTTC
2747463 ATGTATCGATACAATAAACATGTATCGATATA
1 ATGTATCGATACAATAAACATGTATCGATATA
*
2747495 ATGTATCGATACAA-AGCAATATGTATCGATA
1 ATGTATCGATACAATA--AACATGTATCGATA
2747526 CTTCTAGGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.04
32 14 0.50
33 13 0.46
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAATAAACATGTATCGATATA
Found at i:2747539 original size:20 final size:21
Alignment explanation
Indices: 2747516--2747554 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2747506 CAAAGCAATA
2747516 TGTATCGATAC-TTCTAGGCT
1 TGTATCGATACTTTCTAGGCT
2747536 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
2747555 GTTCTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCT
Found at i:2748375 original size:52 final size:49
Alignment explanation
Indices: 2748327--2748446 Score: 145
Period size: 52 Copynumber: 2.4 Consensus size: 49
2748317 CAATACATTA
2748327 AAAAATGTATTGATACATTTAGG-TCAAAAACCCAGAATGTATAGATACAAT
1 AAAAATGTATTGATACATTT-GGATC-AAAA-CCAGAATGTATAGATACAAT
* * * *
2748378 GAAGAATGTATCGATACATTTGGATCAAAACCAGAATGTATTGATATAAT
1 -AAAAATGTATTGATACATTTGGATCAAAACCAGAATGTATAGATACAAT
*
2748428 GAAAATGT-TTGATACATTT
1 AAAAATGTATTGATACATTT
2748447 TCTTTTCAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
48 10 0.17
49 6 0.10
50 18 0.30
51 6 0.10
52 20 0.33
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (49 bp):
AAAAATGTATTGATACATTTGGATCAAAACCAGAATGTATAGATACAAT
Found at i:2748457 original size:50 final size:51
Alignment explanation
Indices: 2748330--2748446 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 51
2748320 TACATTAAAA
*
2748330 AATGTATTGATACATTTAGG-TCAAAAACCCAGAATGTATAGATACAATGAAG
1 AATGTATCGATACATTT-GGATC-AAAACCCAGAATGTATAGATACAATGAAG
* *
2748382 AATGTATCGATACATTTGGATCAAAA-CCAGAATGTATTGATATAATGAA-
1 AATGTATCGATACATTTGGATCAAAACCCAGAATGTATAGATACAATGAAG
*
2748431 AATGT-TTGATACATTT
1 AATGTATCGATACATTT
2748447 TCTTTTCAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
48 10 0.17
49 5 0.08
50 21 0.35
51 6 0.10
52 18 0.30
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (51 bp):
AATGTATCGATACATTTGGATCAAAACCCAGAATGTATAGATACAATGAAG
Found at i:2748513 original size:21 final size:21
Alignment explanation
Indices: 2748483--2748537 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
2748473 GACAAGGTCC
*
2748483 TGTATTGATACATTTCAAACA
1 TGTATCGATACATTTCAAACA
***
2748504 TGTATCGATACA-TTCACTTA
1 TGTATCGATACATTTCAAACA
2748524 TGTATCGATACATT
1 TGTATCGATACATT
2748538 CACTTGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTCAAACA
Found at i:2748526 original size:20 final size:21
Alignment explanation
Indices: 2748503--2748556 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 21
2748493 CATTTCAAAC
2748503 ATGTATCGATACATTCACTT-
1 ATGTATCGATACATTCACTTG
2748523 ATGTATCGATACATTCACTTG
1 ATGTATCGATACATTCACTTG
*
2748544 TTGTATCGATACA
1 ATGTATCGATACA
2748557 AATTGTAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTTG
Found at i:2749021 original size:79 final size:79
Alignment explanation
Indices: 2748911--2749174 Score: 178
Period size: 79 Copynumber: 3.3 Consensus size: 79
2748901 ACATGTATGA
* * * * * *
2748911 ATATGAAAATGCAAACATGAC-CCTAAAAACTCAGTTTAAATACAAG-AATCACTCAAATAACCC
1 ATATGAAAATACCAACATG-CTCTTAAGAACTCAATTTAAAT-CAAGAAATCACTAAAATAACCC
*
2748974 TAAAGACCATGCATTG
64 TAAAGACCATGCATCG
* * * * * ** **
2748990 ATATGAAACTACCAATATGCTCTTAAGAACTCAATTTAGATGAGGAAATTGCTAAAATAACTTTA
1 ATATGAAAATACCAACATGCTCTTAAGAACTCAATTTAAATCAAGAAATCACTAAAATAACCCTA
2749055 AAGACCATGCATCG
66 AAGACCATGCATCG
* * ** * *
2749069 ATATGAAAATGCCAACATGCTTTTAA-AGACTCGGCTTT-AA-CATGAAAATAACTAAAATAACC
1 ATATGAAAATACCAACATGCTCTTAAGA-ACTC-AATTTAAATCAAG-AAATCACTAAAATAACC
* * *
2749131 TTAATGACCATTCATCG
63 CTAAAGACCATGCATCG
* * * * *
2749148 AAACGAAAATGCCAACGTGTTCTTAAG
1 ATATGAAAATACCAACATGCTCTTAAG
2749175 TTCTTGTTTT
Statistics
Matches: 144, Mismatches: 35, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
78 6 0.04
79 135 0.94
80 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (79 bp):
ATATGAAAATACCAACATGCTCTTAAGAACTCAATTTAAATCAAGAAATCACTAAAATAACCCTA
AAGACCATGCATCG
Found at i:2749187 original size:79 final size:79
Alignment explanation
Indices: 2749041--2749212 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
2749031 GAGGAAATTG
* * *
2749041 CTAAAATAACTTTAAAGACCATGCATCGATATGAAAATGCCAACATGCTTTTAAAGACTCGGCTT
1 CTAAAATAACCTTAAAGACCATGCATCGAAACGAAAATGCCAACATGCTTTTAAAGACTCGGCTT
2749106 TAACATGA-AAATAA
66 TAACATGAGAAAT-A
* * * * * **
2749120 CTAAAATAACCTTAATGACCATTCATCGAAACGAAAATGCCAACGTG-TTCTT-AAGTTCTTGTT
1 CTAAAATAACCTTAAAGACCATGCATCGAAACGAAAATGCCAACATGCTT-TTAAAG-ACTCGGC
2749183 TTTAACATGAGAAATA
64 TTTAACATGAGAAATA
*
2749199 CTAAAATGACCTTA
1 CTAAAATAACCTTA
2749213 GTGGGTACAT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
78 5 0.06
79 70 0.89
80 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (79 bp):
CTAAAATAACCTTAAAGACCATGCATCGAAACGAAAATGCCAACATGCTTTTAAAGACTCGGCTT
TAACATGAGAAATA
Found at i:2753223 original size:220 final size:220
Alignment explanation
Indices: 2752841--2753276 Score: 863
Period size: 220 Copynumber: 2.0 Consensus size: 220
2752831 CTCTAAAACT
2752841 GTGTTCAAGTAATTTTCAATATCAATAAATGTTTTAGAGTTATGAACAAATGTTTTCGAGCTTTA
1 GTGTTCAAGTAATTTTCAATATCAATAAATGTTTTAGAGTTATGAACAAATGTTTTCGAGCTTTA
2752906 AATCGAATGTTTTTGAGTAAAAATATTTCAAAGTATCGATACATAGGTATTTGTATTGATACATT
66 AATCGAATGTTTTTGAGTAAAAATATTTCAAAGTATCGATACATAGGTATTTGTATTGATACATT
2752971 AAGGTTAACTTAAGCTACAAGGTTAAAAGCCTTGTATGTATCGATACACATCCAGATGTATTGAT
131 AAGGTTAACTTAAGCTACAAGGTTAAAAGCCTTGTATGTATCGATACACATCCAGATGTATTGAT
2753036 ACATTATGCTTTGTATCGATAAAGC
196 ACATTATGCTTTGTATCGATAAAGC
2753061 GTGTTCAAGTAATTTTCAATATCAATAAATGTTTTAGAGTTATGAACAAATGTTTTCGAGCTTTA
1 GTGTTCAAGTAATTTTCAATATCAATAAATGTTTTAGAGTTATGAACAAATGTTTTCGAGCTTTA
2753126 AATCGAATGTTTTTGAGTAAAAATATTTCAAAGTATCGATACATAGGTATTTGTATTGATACATT
66 AATCGAATGTTTTTGAGTAAAAATATTTCAAAGTATCGATACATAGGTATTTGTATTGATACATT
*
2753191 AAGGTTGACTTAAGCTACAAGGTTAAAAGCCTTGTATGTATCGATACACATCCAGATGTATTGAT
131 AAGGTTAACTTAAGCTACAAGGTTAAAAGCCTTGTATGTATCGATACACATCCAGATGTATTGAT
2753256 ACATTATGCTTTGTATCGATA
196 ACATTATGCTTTGTATCGATA
2753277 CATTGTATCG
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 215 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (220 bp):
GTGTTCAAGTAATTTTCAATATCAATAAATGTTTTAGAGTTATGAACAAATGTTTTCGAGCTTTA
AATCGAATGTTTTTGAGTAAAAATATTTCAAAGTATCGATACATAGGTATTTGTATTGATACATT
AAGGTTAACTTAAGCTACAAGGTTAAAAGCCTTGTATGTATCGATACACATCCAGATGTATTGAT
ACATTATGCTTTGTATCGATAAAGC
Found at i:2753284 original size:13 final size:13
Alignment explanation
Indices: 2753266--2753292 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2753256 ACATTATGCT
2753266 TTGTATCGATACA
1 TTGTATCGATACA
2753279 TTGTATCGATACA
1 TTGTATCGATACA
2753292 T
1 T
2753293 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2753307 original size:32 final size:33
Alignment explanation
Indices: 2753247--2753311 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2753237 CACATCCAGA
* * *
2753247 TGTATTGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
2753280 TGTATCGATACATGAT-CATTGTATCGATACAT
1 TGTATCGATACATGATGCATTGTATCGATACAT
2753312 GCACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGATGCATTGTATCGATACAT
Found at i:2753322 original size:20 final size:19
Alignment explanation
Indices: 2753277--2753333 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 19
2753267 TGTATCGATA
2753277 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
2753296 CATTGTATCGATACATGCA-
1 CATTGTATCGATACATG-AT
2753315 CAATTGTATCGATACATGA
1 C-ATTGTATCGATACATGA
2753334 AACTGGCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:2760366 original size:20 final size:20
Alignment explanation
Indices: 2760329--2760366 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2760319 TAAACCTTGA
*
2760329 TCATGCATTTTTACCATGCT
1 TCATGCATTTATACCATGCT
*
2760349 TCATGCATTTATAGCATG
1 TCATGCATTTATACCATG
2760367 TCCAACACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (20 bp):
TCATGCATTTATACCATGCT
Found at i:2765871 original size:153 final size:153
Alignment explanation
Indices: 2765593--2765901 Score: 600
Period size: 153 Copynumber: 2.0 Consensus size: 153
2765583 TGGTGAACCC
2765593 CCTATCAAATTATGTTAAGCCAGCAAACCCTCAACCTTGAAGCAAGAGAATCCATTTCCATCCAT
1 CCTATCAAATTATGTTAAGCCAGCAAACCCTCAACCTTGAAGCAAGAGAATCCATTTCCATCCAT
2765658 CAAAGTCGGTTTTTGATGATGGAGTCATTATTGGAAATCCTTGCACTCTCCTTGCCCGCTTTATG
66 CAAAGTCGGTTTTTGATGATGGAGTCATTATTGGAAATCCTTGCACTCTCCTTGCCCGCTTTATG
2765723 TAAATATCAAGAAAACCTACTTG
131 TAAATATCAAGAAAACCTACTTG
*
2765746 CCTATCAAATTATGTTGAGCCAGCAAACCCTCAACCTTGAAGCAAGAGAATCCATTTCCATCCAT
1 CCTATCAAATTATGTTAAGCCAGCAAACCCTCAACCTTGAAGCAAGAGAATCCATTTCCATCCAT
*
2765811 CAGAGTCGGTTTTTGATGATGGAGTCATTATTGGAAATCCTTGCACTCTCCTTGCCCGCTTTATG
66 CAAAGTCGGTTTTTGATGATGGAGTCATTATTGGAAATCCTTGCACTCTCCTTGCCCGCTTTATG
2765876 TAAATATCAAGAAAACCTACTTG
131 TAAATATCAAGAAAACCTACTTG
2765899 CCT
1 CCT
2765902 TTGCCCGACG
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (153 bp):
CCTATCAAATTATGTTAAGCCAGCAAACCCTCAACCTTGAAGCAAGAGAATCCATTTCCATCCAT
CAAAGTCGGTTTTTGATGATGGAGTCATTATTGGAAATCCTTGCACTCTCCTTGCCCGCTTTATG
TAAATATCAAGAAAACCTACTTG
Found at i:2766589 original size:13 final size:13
Alignment explanation
Indices: 2766573--2766625 Score: 74
Period size: 12 Copynumber: 4.2 Consensus size: 13
2766563 AGTTAAAGGT
2766573 AAAAACACAAAAA
1 AAAAACACAAAAA
2766586 AAAAACA-AAAAA
1 AAAAACACAAAAA
*
2766598 CAAAA-ACAAAAA
1 AAAAACACAAAAA
*
2766610 AAACACACAAAAA
1 AAAAACACAAAAA
2766623 AAA
1 AAA
2766626 GAGTGCAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.03
12 17 0.49
13 17 0.49
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACACAAAAA
Found at i:2766602 original size:26 final size:26
Alignment explanation
Indices: 2766573--2766623 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2766563 AGTTAAAGGT
2766573 AAAAACACAAAAAAA-AAACAAAAAAC
1 AAAAACA-AAAAAAACAAACAAAAAAC
*
2766599 AAAAACAAAAAAAACACACAAAAAA
1 AAAAACAAAAAAAACAAACAAAAAA
2766624 AAGAGTGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAACAAAAAAAACAAACAAAAAAC
Found at i:2767933 original size:30 final size:30
Alignment explanation
Indices: 2767898--2768637 Score: 750
Period size: 30 Copynumber: 24.0 Consensus size: 30
2767888 TCTTCAAATC
2767898 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
2767928 TCTCTTCTCAAAGTCCACAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
2767958 TCTCTTTTCTCAAAGTCCACAACTCAGTGGCC
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
*
2767990 TCTCTTTTCTCAAAGTCTACGACTCAGTGGCA
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
* * ** *
2768022 T-TTTTTTCTTAGTCCACAACTCAGTGGCAA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGC-A
2768052 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
2768082 TCT-TATCCCAAAGTCCACAACTCAGTGGCA
1 TCTCT-TCTCAAAGTCCACGACTCAGTGGCA
* *
2768112 TCTCTTTTCAAAGTCCACAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
2768142 TCACTTTTTTCAAAGTCCACAACTCAGTGGCA
1 T--CTCTTCTCAAAGTCCACGACTCAGTGGCA
*
2768174 TCTCTTTTCTCAAAGTCCACGACTCAATGGCA
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
* * * ** *
2768206 TTTTTTTTCTTAGTCCATGACTCAGTGGCAA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGC-A
* *
2768237 TCTCTTCTCAAAGTCCATGACTCGGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
2768267 TCT-TGTC-CTAAAGTCCACGACTCAGTAGCA
1 TCTCT-TCTC-AAAGTCCACGACTCAGTGGCA
* *
2768297 TCTTTTCTTCAAAGTCCACAACTCAGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* * * *
2768328 TCTCTTTTCTAAGTCCACTACCCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
2768358 TCCTTTTCTTCCAAGTCCACAACTCAGTGGCA
1 T-CTCTTC-TCAAAGTCCACGACTCAGTGGCA
* * * *
2768390 TCTTTTCTTTAAAGTTCACAACTCAGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
2768421 TCTCTTTTCTAAGTCCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
2768451 TCCTTTTCTTCCAAGTCCACGACTCAGTGGCA
1 T-CTCTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
2768483 TCTTTTTTCTTCAAAGTCCATGACTTAGTGGCA
1 TC--TCTTC-TCAAAGTCCACGACTCAGTGGCA
*
2768516 TCTCTTCCCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
2768546 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
*
2768578 TCTCTTCTCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
2768608 TCTTTTCCCAAAGTCCATGACTCTGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
2768638 CTTTTTTCTT
Statistics
Matches: 603, Mismatches: 83, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
29 23 0.04
30 232 0.38
31 160 0.27
32 160 0.27
33 28 0.05
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:2767994 original size:62 final size:62
Alignment explanation
Indices: 2767895--2768646 Score: 768
Period size: 62 Copynumber: 12.2 Consensus size: 62
2767885 AATTCTTCAA
* *
2767895 ATCTCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * *
2767957 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCCTCTCTTTTCTCAAAGTCTACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTC--TTCTCAAAGTCCACGACTCAGTGGC
** *
2768021 AT-T-TTTT-TCTTAGTCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * * * *
2768081 A--TCTTATCCCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * * *
2768141 ATCACTTTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAATGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTC--TTCTCAAAGTCCACGACTCAGTGGC
* ** * * *
2768205 AT-T-TTTTTTCTTAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCGGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * * * *
2768266 ATCT-TGTCCT-AAAGTCCACGACTCAGTAGCATCTTTTCTTCAAAGTCCACAACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTC-TCAAAGTCCACGACTCAGTGGC
* * * * *
2768327 ATCTCTTTTCT--AAGTCCACTACCCAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCAT-CTCTTC-TCAAAGTCCACGACTCAGTGGC
* * * * * *
2768389 A--TCTTTTCTTTAAAGTTCACAACTCAGTGGCATCTCTTTTCTAAGTCCATGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * * *
2768450 ATC-CTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCATGACTTAGTGG
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGCATC--TCTTC-TCAAAGTCCACGACTCAGTGG
2768514 C
62 C
* *
2768515 ATCTC--TTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTC-TCAAAGTCCACGACTCAGTGGC
* * * * *
2768576 AATCTC--TTCTCAAAGTCCACGACTTAGTGGCATCTTTTCCCAAAGTCCATGACTCTGTGGC
1 -ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGC
*
2768637 A-CTTTTTTCT
1 ATCTCTTTTCT
2768647 TTTTAAAGCC
Statistics
Matches: 591, Mismatches: 73, Indels: 53
0.82 0.10 0.07
Matches are distributed among these distances:
59 3 0.01
60 72 0.12
61 190 0.32
62 200 0.34
63 47 0.08
64 55 0.09
65 23 0.04
66 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (62 bp):
ATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGC
Found at i:2768097 original size:61 final size:60
Alignment explanation
Indices: 2767902--2768642 Score: 779
Period size: 61 Copynumber: 12.0 Consensus size: 60
2767892 CAAATCTCTC
*
2767902 TTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGCATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCA--TCTT
* * *
2767964 TTCTCAAAGTCCACAACTCAGTGGCCTCTCTTTTCTCAAAGTCTACGACTCAGTGGCAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTC--TTCTCAAAGTCCACGACTCAGTGGCATCTT
* ** *
2768025 TTTTCTTAGTCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * * *
2768086 ATCCCAAAGTCCACAACTCAGTGGCATCTCTTTTCAAAGTCCACAACTCAGTGGCATCACTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCAT--CTT
* * * *
2768148 TTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAATGGCATTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTC--TTCTCAAAGTCCACGACTCAGTGGCATCTT
* ** * * *
2768210 TTTTCTTAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCGGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
2768271 GTC-CTAAAGTCCACGACTCAGTAGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTC-AAAGTCCACGACTCAGTGGCATCTCTTC-TCAAAGTCCACGACTCAGTGGCATCT-T
* * * * * *
2768333 TT-TCTAAGTCCACTACCCAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTCTTC-TCAAAGTCCACGACTCAGTGGCATCTT
* * * * * *
2768394 TTCTTTAAAGTTCACAACTCAGTGGCATCTCTTTTCTAAGTCCATGACTCAGTGGCATCCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTT
* * * * *
2768456 TTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCATGACTTAGTGGCATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGCATC--TCTTC-TCAAAGTCCACGACTCAGTGGCATCTT
* * *
2768520 TTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGCATCTCTTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
* * * * *
2768582 TTCTCAAAGTCCACGACTTAGTGGCATCTTTTCCCAAAGTCCATGACTCTGTGGCA-CTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTT
2768641 TT
1 TT
2768643 TTCTTTTTAA
Statistics
Matches: 582, Mismatches: 76, Indels: 45
0.83 0.11 0.06
Matches are distributed among these distances:
59 4 0.01
60 65 0.11
61 199 0.34
62 189 0.32
63 47 0.08
64 56 0.10
65 22 0.04
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (60 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTT
Done.