Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1860
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: 109387
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:4393 original size:23 final size:23
Alignment explanation
Indices: 4367--4422 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
4357 AGTTAAGTAT
*
4367 AAATGTTTTTTAAGCAACAAATC
1 AAATGTTTTCTAAGCAACAAATC
*
4390 AAATGTTTTCTAAGCAATAAATC
1 AAATGTTTTCTAAGCAACAAATC
4413 AAATGTTTTC
1 AAATGTTTTC
4423 AAGTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (23 bp):
AAATGTTTTCTAAGCAACAAATC
Found at i:19907 original size:17 final size:18
Alignment explanation
Indices: 19866--19907 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19856 AAAAAAACGG
19866 AAGAAAACCAAAAAAATA
1 AAGAAAACCAAAAAAATA
* *
19884 AA-AAAAACAAAAAACTA
1 AAGAAAACCAAAAAAATA
*
19901 AGGAAAA
1 AAGAAAA
19908 AATAACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.79, C:0.10, G:0.07, T:0.05
Consensus pattern (18 bp):
AAGAAAACCAAAAAAATA
Found at i:21704 original size:79 final size:79
Alignment explanation
Indices: 21541--21753 Score: 191
Period size: 79 Copynumber: 2.7 Consensus size: 79
21531 CGGTATTCCA
* * * * *
21541 AAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATAGGGTTAGAGTATCCCTGATTTTAGA
1 AAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGAGTTAGAGTATCCCCGATTTGAGA
* *
21606 AAATTGGCATTTTG
66 AAAATGGCATTTAG
* * * * *
21620 AAAATAAAATCGGGGTTTGAGTATCTCCTCGTAAATAACAGAGTTGGAGTATCCCCGATTGTGGG
1 AAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGAGTTAGAGTATCCCCGATT-TGAG
21685 AAACTAAT-GC-TTTAG
65 AAA--AATGGCATTTAG
*** * * * *
21700 -AAATAAGGCCGGGGTTAGAGTATCCCCGCAAAAATAATAG-GATTGGAGTATCCC
1 AAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGAG-TTAGAGTATCCC
21754 TGATGAAATA
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
78 1 0.01
79 96 0.87
80 9 0.08
81 2 0.02
82 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
AAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACAGAGTTAGAGTATCCCCGATTTGAGA
AAAATGGCATTTAG
Found at i:21835 original size:158 final size:158
Alignment explanation
Indices: 21661--21950 Score: 368
Period size: 158 Copynumber: 1.8 Consensus size: 158
21651 TAAATAACAG
* * * * ** *
21661 AGTTGGAGTATCCCCGATTGTGGGAAACTAATGCTTTAGAAATAAGGCCGGGGTTAGAGTATCCC
1 AGTTAGAGTATACCCGATTGTGGAAAACTAATACTTTAGAAATAAAACCGGGGTTAGAGTATACC
* *
21726 CGCAAAAATAATAGGATTGGAGTATC-CCTGATGAAATAACGGGGTTGGAGTA-TCCCGAATTAT
66 CGCAAAAATAACAGGATTGGAGTATCTCC-GATGAAATAACGGGGTTGGAGTACCCCCG-ATTAT
21789 GAAACATTGGTGTTTTGGAAATAAAATCGA
129 GAAACATTGGTGTTTTGGAAATAAAATCGA
* ** * * *
21819 AGTTAGAGTATACCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATACC
1 AGTTAGAGTATACCCGATTGTGGAAAACTAATACTTTAGAAATAAAACCGGGGTTAGAGTATACC
**** *
21884 CTTGGAAATAACGGGATTGGAGTATCTCCGATGAAATAACGGGGTTGGAGTACCCCCGATTATGA
66 CGCAAAAATAACAGGATTGGAGTATCTCCGATGAAATAACGGGGTTGGAGTACCCCCGATTATGA
21949 AA
131 AA
21951 GAAATCAATA
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
158 104 0.95
159 6 0.05
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (158 bp):
AGTTAGAGTATACCCGATTGTGGAAAACTAATACTTTAGAAATAAAACCGGGGTTAGAGTATACC
CGCAAAAATAACAGGATTGGAGTATCTCCGATGAAATAACGGGGTTGGAGTACCCCCGATTATGA
AACATTGGTGTTTTGGAAATAAAATCGA
Found at i:21849 original size:51 final size:52
Alignment explanation
Indices: 21773--21884 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 52
21763 AACGGGGTTG
* *
21773 GAGTAT-CCCGAATTATGAAACATTGGTGTTTTGGAAATAAAATCGAAGTTA
1 GAGTATACCCGAATTATGAAACATTGGTATTTTAGAAATAAAATCGAAGTTA
* ** *
21824 GAGTATACCCG-ATTGTGGAAA-ATTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATACCCGAATTAT-GAAACATTGGTATTTTAGAAATAAAATCGAAGTTA
21875 GAGTATACCC
1 GAGTATACCC
21885 TTGGAAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 45 0.85
52 8 0.15
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (52 bp):
GAGTATACCCGAATTATGAAACATTGGTATTTTAGAAATAAAATCGAAGTTA
Found at i:21898 original size:28 final size:28
Alignment explanation
Indices: 21867--21935 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
21857 GAAATAAAAT
*
21867 CGGGGTTGGAGTATAC-CC-TTGGAAATAA
1 CGGGGTTGGAGTAT-CTCCGAT-GAAATAA
*
21895 CGGGATTGGAGTATCTCCGATGAAATAA
1 CGGGGTTGGAGTATCTCCGATGAAATAA
21923 CGGGGTTGGAGTA
1 CGGGGTTGGAGTA
21936 CCCCCGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 34 0.94
29 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCTCCGATGAAATAA
Found at i:21942 original size:28 final size:28
Alignment explanation
Indices: 21888--21943 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
21878 TATACCCTTG
* *
21888 GAAATAACGGGATTGGAGTATCTCCGAT
1 GAAATAACGGGATTGGAGTACCCCCGAT
*
21916 GAAATAACGGGGTTGGAGTACCCCCGAT
1 GAAATAACGGGATTGGAGTACCCCCGAT
21944 TATGAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.21
Consensus pattern (28 bp):
GAAATAACGGGATTGGAGTACCCCCGAT
Found at i:22020 original size:28 final size:28
Alignment explanation
Indices: 21980--22050 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
21970 ATAAAGCCGG
21980 GGTTGGAGTATCCCCTCA-GAAATAACAA
1 GGTTGGAGTATCCCC-CATGAAATAACAA
* **
22008 GGTTGGAGTATCCCCGATGAAATAACGG
1 GGTTGGAGTATCCCCCATGAAATAACAA
*
22036 GGTTAGAGTATCCCC
1 GGTTGGAGTATCCCC
22051 AATTGTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCCATGAAATAACAA
Found at i:22111 original size:110 final size:106
Alignment explanation
Indices: 21820--22099 Score: 337
Period size: 110 Copynumber: 2.6 Consensus size: 106
21810 TAAAATCGAA
* * *
21820 GTTAGAGTATACCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATACCC
1 GTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTAT-CCC
* * *
21885 TTGGAAATAACGGGATTGGAGTATCTCCGATGAAATAACGGG
65 TTAGAAATAACAGGATTGGAGTATCCCCGATGAAATAACGGG
* * * * * * **
21927 GTTGGAGTACCCCCGATTATGAAAGAAATCAATATTTTTAGATATAAAGCCGGGGTTGGAGTATC
1 GTTAGAGTATCCCCGATTGTG-AA-AAATTAGTA-TTTTAGAAATAAAATCGGGGTTGGAGTAT-
*
21992 CCCTCAGAAATAACAAGG-TTGGAGTATCCCCGATGAAATAACGGG
62 CCCTTAGAAATAAC-AGGATTGGAGTATCCCCGATGAAATAACGGG
* * *
22037 GTTAGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCC
1 GTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCC
22100 TCGATTAAGA
Statistics
Matches: 142, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
106 2 0.01
107 42 0.30
108 7 0.05
109 8 0.06
110 81 0.57
111 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (106 bp):
GTTAGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
TAGAAATAACAGGATTGGAGTATCCCCGATGAAATAACGGG
Found at i:26103 original size:97 final size:97
Alignment explanation
Indices: 25959--26207 Score: 345
Period size: 97 Copynumber: 2.5 Consensus size: 97
25949 TTTTTGAATG
* * *
25959 AAAAACGGGGTTGGAGTATCCCTTCGGAGGAATGGGGGGTTGGAGTGTCCCCGATGATGACAATT
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAAT--GGGGTTGGAGTGTCCCCGATGATGACAATT
26024 TAAGTGAAAATAAAATTTAAAATTTGATGCGTTT
64 TAAGTGAAAATAAAATTTAAAATTTGATGCGTTT
* * * ** *
26058 AAAAGCGGAGTTGGAGTATCCCCTCAGAGAAATGGGGTTGAAGTGTCGACGATGATGATAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
* * * *
26123 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AGTGAAAATAAAATTTAAAATTTGATGCGTTT
* *
26155 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATAGGGTTGGAGTATCCCCGAT
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTGGAGTGTCCCCGAT
26208 AAATAAAATT
Statistics
Matches: 130, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
97 102 0.78
99 28 0.22
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
AGTGAAAATAAAATTTAAAATTTGATGCGTTT
Found at i:28375 original size:20 final size:20
Alignment explanation
Indices: 28350--28544 Score: 79
Period size: 20 Copynumber: 8.7 Consensus size: 20
28340 TTTTAATTAG
28350 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
28370 ATGTATCGATACATCTGAGAAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
28401 ATGTATCGATACATT-AAAGA
1 ATGTATCGATACATTGAAA-A
* * * * *
28421 ATATATCGCTACATTCATAC
1 ATGTATCGATACATTGAAAA
*
28441 ATGTATCGATACAATG-AAA
1 ATGTATCGATACATTGAAAA
28460 ATGTATCGATACATATGGGTAAAAAGATAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
28491 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
28511 ATGTATCGATACATTTATAC
1 ATGTATCGATACATTGAAAA
28531 ATGTATCGATACAT
1 ATGTATCGATACAT
28545 CTGGGTAAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 48
0.68 0.08 0.24
Matches are distributed among these distances:
19 14 0.10
20 74 0.55
21 4 0.03
22 3 0.02
23 2 0.01
28 2 0.01
29 2 0.01
30 4 0.03
31 30 0.22
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:28407 original size:51 final size:48
Alignment explanation
Indices: 28350--28525 Score: 156
Period size: 51 Copynumber: 3.7 Consensus size: 48
28340 TTTTAATTAG
28350 ATGTATCGATACATTGAAAAATGTATCGATACATCTGAGAAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACAT-TG-G-AAAAAGACAGA
* * * *
28401 ATGTATCGATACATT-AAAGAATATATCGCTACATT-----CATAC---
1 ATGTATCGATACATTGAAA-AATGTATCGATACATTGGAAAAAGACAGA
* *
28441 ATGTATCGATACAATG-AAAATGTATCGATACATATGGGTAAAAAGATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACAT-T-GG-AAAAAGACAGA
*
28491 ATGTATCGATACATTGAAGAATGTATCGATACATT
1 ATGTATCGATACATTGAAAAATGTATCGATACATT
28526 TATACATGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 29
0.71 0.09 0.21
Matches are distributed among these distances:
39 13 0.13
40 17 0.17
43 3 0.03
47 2 0.02
50 20 0.20
51 44 0.44
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (48 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATTGGAAAAAGACAGA
Found at i:28504 original size:90 final size:91
Alignment explanation
Indices: 28350--28543 Score: 300
Period size: 90 Copynumber: 2.1 Consensus size: 91
28340 TTTTAATTAG
* *
28350 ATGTATCGATACATTGAAAAATGTATCGATACATCTGAGAAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACAATGAAAAATGTATCGATACATATGAGAAAAAAGACAGAATGTATCGATACAT
*
28415 TAAAGAATATATCGCTACATTCATAC
66 TAAAGAATATATCGATACATTCATAC
* * *
28441 ATGTATCGATACAATG-AAAATGTATCGATACATATGGGTAAAAAGATAGAATGTATCGATACAT
1 ATGTATCGATACAATGAAAAATGTATCGATACATATGAGAAAAAAGACAGAATGTATCGATACAT
* * *
28505 TGAAGAATGTATCGATACATTTATAC
66 TAAAGAATATATCGATACATTCATAC
28531 ATGTATCGATACA
1 ATGTATCGATACA
28544 TCTGGGTAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 79 0.84
91 15 0.16
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (91 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATATGAGAAAAAAGACAGAATGTATCGATACAT
TAAAGAATATATCGATACATTCATAC
Found at i:34699 original size:13 final size:13
Alignment explanation
Indices: 34681--34705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34671 ATATTGCTTA
34681 GTATCGATACATT
1 GTATCGATACATT
34694 GTATCGATACAT
1 GTATCGATACAT
34706 ATTCTTGGTA
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):
GTATCGATACATT
Found at i:34718 original size:19 final size:18
Alignment explanation
Indices: 34660--34727 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
34650 CACAGCCAGA
34660 TGTATCGATACATATTGCT
1 TGTATCGATACATATT-CT
34679 TAGTATCGATAC--A---T
1 T-GTATCGATACATATTCT
34693 TGTATCGATACATATTCT
1 TGTATCGATACATATTCT
34711 TGGTATCGATACATATT
1 T-GTATCGATACATATT
34728 GATTATATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.24
14 2 0.05
15 1 0.02
18 3 0.07
19 16 0.38
20 10 0.24
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTATCGATACATATTCT
Found at i:34722 original size:32 final size:33
Alignment explanation
Indices: 34660--34724 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
34650 CACAGCCAGA
34660 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
*
34693 TGTATCGATACATATT-CTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
34725 ATTGATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:39244 original size:18 final size:19
Alignment explanation
Indices: 39200--39249 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
39190 CACACCCAGA
39200 TGTATCGATACATATTGCTT
1 TGTATCGATACATATT-CTT
* *
39220 GGTATCGATACATGTT-TT
1 TGTATCGATACATATTCTT
39238 TGTATCGATACA
1 TGTATCGATACA
39250 CCATAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 13 0.48
20 14 0.52
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATATTCTT
Found at i:39975 original size:20 final size:20
Alignment explanation
Indices: 39952--40025 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
39942 ACAATTCAAA
39952 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
39972 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
39993 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
40013 GTATCGATACATG
1 GTATCGATACATG
40026 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:39996 original size:21 final size:21
Alignment explanation
Indices: 39970--40045 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
39960 ACATGTTGCA
39970 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
39991 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
40011 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
40032 ATGTATCGATACAT
1 ATGTATCGATACAT
40046 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:40003 original size:41 final size:41
Alignment explanation
Indices: 39952--40045 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
39942 ACAATTCAAA
39952 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
39993 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
40034 GTATCGATACAT
1 GTATCGATACAT
40046 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:40102 original size:13 final size:13
Alignment explanation
Indices: 40084--40109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40074 TACAGCAAGT
40084 ATGTATCGATACA
1 ATGTATCGATACA
40097 ATGTATCGATACA
1 ATGTATCGATACA
40110 CAAAAAATTG
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:40624 original size:34 final size:35
Alignment explanation
Indices: 40561--40627 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
40551 CTAAGTGATT
40561 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
40597 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
40628 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:42320 original size:84 final size:84
Alignment explanation
Indices: 42147--42307 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
42137 ACTCAAAGAA
* * * *
42147 GAAAATAAATCAATGAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATGAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
* *
42212 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
*
42231 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATGAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
42292 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
42308 GCAAGTCGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
82 11 0.17
83 6 0.09
84 49 0.74
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATGAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:43763 original size:13 final size:13
Alignment explanation
Indices: 43745--43769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43735 TTTTCCAGAT
43745 TGTATCGATACAA
1 TGTATCGATACAA
43758 TGTATCGATACA
1 TGTATCGATACA
43770 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:45366 original size:20 final size:20
Alignment explanation
Indices: 45343--45416 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
45333 ACAATTCAAA
45343 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
45363 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
45384 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
45404 GTATCGATACATG
1 GTATCGATACATG
45417 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:45387 original size:21 final size:21
Alignment explanation
Indices: 45361--45436 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
45351 ACATGTTGCA
45361 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
45382 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
45402 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
45423 ATGTATCGATACAT
1 ATGTATCGATACAT
45437 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:45394 original size:41 final size:41
Alignment explanation
Indices: 45343--45436 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
45333 ACAATTCAAA
45343 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
45384 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
45425 GTATCGATACAT
1 GTATCGATACAT
45437 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:45493 original size:13 final size:13
Alignment explanation
Indices: 45475--45500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45465 TACAGCAAGT
45475 ATGTATCGATACA
1 ATGTATCGATACA
45488 ATGTATCGATACA
1 ATGTATCGATACA
45501 CAAAAAATTG
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:46015 original size:34 final size:35
Alignment explanation
Indices: 45952--46018 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
45942 CTAAGTGATT
45952 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
45988 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
46019 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:48698 original size:8 final size:8
Alignment explanation
Indices: 48685--48711 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
48675 TATTTTGTTG
48685 TTTATATC
1 TTTATATC
48693 TTTATATC
1 TTTATATC
48701 TTTATATC
1 TTTATATC
48709 TTT
1 TTT
48712 TAACAACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATATC
Found at i:49947 original size:79 final size:79
Alignment explanation
Indices: 49836--50423 Score: 516
Period size: 79 Copynumber: 7.5 Consensus size: 79
49826 TGGAGTATAT
* * * * * * *
49836 TCCCCGATGGTGGAAAACTAATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATA
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTCGGGTTGGAGTATCCCCTTAAAAATA
*
49901 ACGATGTTGGAGTA
66 ACGAGGTTGGAGTA
* * * **
49915 TCCCCGATTGTGAAAAATTGATGTCTTAGAAATAAAACTGGGGTTAGAGTAGT--TTTTCAAAAA
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTCGGGTTGGAGTA-TCCCCTT-AAAAA
* *
49978 TAATGAGGTTAGAGTA
64 TAACGAGGTTGGAGTA
* * * * * * * * *
49994 TCCCCGATTATGGAAAATCGGTATTTTGGAAATAAAACTAGGGTTCGAGTATTCCCTTAAAAATA
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTCGGGTTGGAGTATCCCCTTAAAAATA
*
50059 ACGGGGTTGGAGTA
66 ACGAGGTTGGAGTA
* * * * *
50073 TCCCTGATTGTGGAAAA-TCAGTGTTTTAGAAA-AAAAATCGAGGTTGTAGTAT-CCCTTAAAAA
1 TCCCCGATTGTGAAAAATTGA-TGTTTTAGAAATAAAACTCG-GGTTGGAGTATCCCCTTAAAAA
*
50135 TAAC-AGGATTAGAGTA
64 TAACGAGG-TTGGAGTA
* * * * **
50151 ACCCCGATTGTGAAAAATAGATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTTGGAAATA
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTCGGGTTGGAGTATCCCCTTAAAAATA
50216 ACGAGGTTGGAGTA
66 ACGAGGTTGGAGTA
* * * * *
50230 TCCCCGATTATGAAAAA-TCAGTGTTTTGGAAATAAAA-TCGAGGTTGGAGTATCCCCTTGAAAG
1 TCCCCGATTGTGAAAAATTGA-TGTTTTAGAAATAAAACTCG-GGTTGGAGTATCCCCTTAAAAA
50293 TAAC-AGGGTTGGA-TA
64 TAACGA-GGTTGGAGTA
* * * * * *
50308 TCCCCGATTATGAAAAATCGATGTTCT-GAAAATAAAAC-CGAGGTTGGAGTATCCCCTCAGACA
1 TCCCCGATTGTGAAAAATTGATGTTTTAG-AAATAAAACTCG-GGTTGGAGTATCCCCTTAAAAA
* * *
50371 TAATGGGGTTAGAGTA
64 TAACGAGGTTGGAGTA
* * *
50387 TCCCCGATGGTGGAAAATTGATATTTTAGAAATAAAA
1 TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAA
50424 ACATAAATGA
Statistics
Matches: 412, Mismatches: 77, Indels: 40
0.78 0.15 0.08
Matches are distributed among these distances:
77 3 0.01
78 128 0.31
79 274 0.67
80 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
TCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTCGGGTTGGAGTATCCCCTTAAAAATA
ACGAGGTTGGAGTA
Found at i:50201 original size:157 final size:155
Alignment explanation
Indices: 49848--50423 Score: 599
Period size: 157 Copynumber: 3.7 Consensus size: 155
49838 CCCGATGGTG
* *
49848 GAAAACTA-ATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACGATGTTGGA
1 GAAAAATAGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGA
* * * **
49912 GTATCCCCGATTGTGAAAAAT-TGATGTCTTAGAAATAAAA-CTGGGGTTAGAGTAGT-TTTTCA
66 GTATCCCCGATTGTGAAAAATCAG-TGTTTTAGAAATAAAATC-GAGGTT-GAGTA-TCCCTT-A
*
49974 AAAATAATGAGGTTAGAGTATCCCCGATTAT
126 AAAATAA-CAGGTTAGAGTATCCCCGATTAT
* * * * * * * *
50005 GGAAAATCGGTATTTTGGAAATAAAACTAGGGTTCGAGTATTCCCTTAAAAATAACGGGGTTGGA
1 GAAAAATAGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGA
* * *
50070 GTATCCCTGATTGTGGAAAATCAGTGTTTTAGAAAAAAAATCGAGGTTGTAGTATCCCTTAAAAA
66 GTATCCCCGATTGTGAAAAATCAGTGTTTTAGAAATAAAATCGAGGTTG-AGTATCCCTTAAAAA
* *
50135 TAACAGGATTAGAGTAACCCCGATTGT
130 TAACAGG-TTAGAGTATCCCCGATTAT
* ***
50162 GAAAAATAGATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTTGGAAATAACGAGGTTGGA
1 GAAAAATAGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGA
* * *
50227 GTATCCCCGATTATGAAAAATCAGTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTTGAAA
66 GTATCCCCGATTGTGAAAAATCAGTGTTTTAGAAATAAAATCGAGGTT-GAGTAT-CCCTTAAAA
* *
50292 GTAACAGGGTTGGA-TATCCCCGATTAT
129 ATAACA-GGTTAGAGTATCCCCGATTAT
* * * * * * * * *
50319 GAAAAATCGATGTTCTGAAAATAAAAC-CGAGGTTGGAGTATCCCCTCAGACATAATGGGGTTAG
1 GAAAAATAGATGTTTTGGAAATAAAACTAG-GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGG
* * * *
50383 AGTATCCCCGATGGTGGAAAAT-TGATATTTTAGAAATAAAA
65 AGTATCCCCGATTGTGAAAAATCAG-TGTTTTAGAAATAAAA
50424 ACATAAATGA
Statistics
Matches: 351, Mismatches: 57, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
156 5 0.01
157 231 0.66
158 111 0.32
159 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (155 bp):
GAAAAATAGATGTTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGA
GTATCCCCGATTGTGAAAAATCAGTGTTTTAGAAATAAAATCGAGGTTGAGTATCCCTTAAAAAT
AACAGGTTAGAGTATCCCCGATTAT
Found at i:50385 original size:236 final size:237
Alignment explanation
Indices: 49877--50423 Score: 658
Period size: 236 Copynumber: 2.3 Consensus size: 237
49867 ATAAAACTAG
** * *
49877 GGTTGGAGTATCCCCTCAAAAATAACGATGTTGGAGTATCCCCGATTGTGAAAAATTGATGTCTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
** * *
49942 AGAAATAAAACTGGGGTTAGAGTAGTTTTTCAAAAATAATGAGGTTAGAGTATCCCCGATTATGG
66 AGAAATAAAACTGGGGTTAGAGTAGTCCTTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGA
* * * *
50007 AAAATCGGTATTTTGGAAATAAAACTAGGGTTCGAGTATTCCCTTAAAAATAACGGGGTTGGAGT
131 AAAATCAGTATTTTGGAAATAAAACGAGGGTTCGAGTATCCCCTTAAAAATAACAGGGTTGGAGT
* * * * *
50072 ATCCCTGATTGTGGAAAATCAGTGTTTTAGAAAAAAAATCGA
196 ATCCCCGATTATGAAAAATCAGTGTTCTAGAAAAAAAACCGA
* * * * * *
50114 GGTTGTAGTAT-CCCTTAAAAATAACAGGATTAGAGTAACCCCGATTGTGAAAAATAGATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
* * ** *
50178 GGAAATAAAACTGGGGTTGGAGTA-TCCCCTT-GGAAATAACGAGGTTGGAGTATCCCCGATTAT
66 AGAAATAAAACTGGGGTTAGAGTAGT--CCTTCAAAAATAACGAGGTTAGAGTATCCCCGATTAT
* * * *
50241 GAAAAATCAGTGTTTTGGAAATAAAATCGA-GGTTGGAGTATCCCCTTGAAAGTAACAGGGTTGG
129 GAAAAATCAGTATTTTGGAAATAAAA-CGAGGGTTCGAGTATCCCCTTAAAAATAACAGGGTTGG
50305 A-TATCCCCGATTATGAAAAATC-GATGTTCT-GAAAATAAAACCGA
193 AGTATCCCCGATTATGAAAAATCAG-TGTTCTAGAAAA-AAAACCGA
* * * * * *
50349 GGTTGGAGTATCCCCTCAGACATAATGGGGTTAGAGTATCCCCGATGGTGGAAAATTGATATTTT
1 GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
50414 AGAAATAAAA
66 AGAAATAAAA
50424 ACATAAATGA
Statistics
Matches: 259, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
234 6 0.02
235 41 0.16
236 198 0.76
237 14 0.05
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (237 bp):
GGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTT
AGAAATAAAACTGGGGTTAGAGTAGTCCTTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGA
AAAATCAGTATTTTGGAAATAAAACGAGGGTTCGAGTATCCCCTTAAAAATAACAGGGTTGGAGT
ATCCCCGATTATGAAAAATCAGTGTTCTAGAAAAAAAACCGA
Found at i:52838 original size:51 final size:49
Alignment explanation
Indices: 52778--52911 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 49
52768 AAAAATGCTT
* * * *
52778 GAATGTATCGATACATTGAGAAATGTATCGATATATCTGGGTTAAAACCCA
1 GAATGTATCGATACAATGA-AAATGTATCGATAAATCT-AGCTAAAACCCA
* * *
52829 GAATGTATCGATACAATGAAAAATCTATCAAAAAATCTAGCTAAAACCCA
1 GAATGTATCGATACAATG-AAAATGTATCGATAAATCTAGCTAAAACCCA
* *
52879 TAATGTATCAATACAATGAAAGATGTATCGATA
1 GAATGTATCGATACAATGAAA-ATGTATCGATA
52912 CAAATTGTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.04
50 34 0.49
51 31 0.45
52 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (49 bp):
GAATGTATCGATACAATGAAAATGTATCGATAAATCTAGCTAAAACCCA
Found at i:52885 original size:50 final size:51
Alignment explanation
Indices: 52778--52899 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
52768 AAAAATGCTT
* * * * * * * *
52778 GAATGTATCGATACATTGAGAAATGTATCGATATATCTGGGTTAAAACCCA
1 GAATGTATCGATACAATGAAAAATCTATCAAAAAATCTGAGCTAAAACCCA
52829 GAATGTATCGATACAATGAAAAATCTATCAAAAAATCT-AGCTAAAACCCA
1 GAATGTATCGATACAATGAAAAATCTATCAAAAAATCTGAGCTAAAACCCA
* *
52879 TAATGTATCAATACAATGAAA
1 GAATGTATCGATACAATGAAA
52900 GATGTATCGA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 29 0.48
51 32 0.52
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (51 bp):
GAATGTATCGATACAATGAAAAATCTATCAAAAAATCTGAGCTAAAACCCA
Found at i:59572 original size:13 final size:13
Alignment explanation
Indices: 59554--59579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59544 TACACCAAGT
59554 ATGTATCGATACA
1 ATGTATCGATACA
59567 ATGTATCGATACA
1 ATGTATCGATACA
59580 CAAAAAAATT
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:62469 original size:20 final size:20
Alignment explanation
Indices: 62425--62482 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
62415 ATTTCAACGA
***
62425 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
62445 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
62465 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
62483 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:62634 original size:52 final size:52
Alignment explanation
Indices: 62520--62664 Score: 208
Period size: 52 Copynumber: 2.8 Consensus size: 52
62510 CATTACTCAA
*
62520 ATGTATCGATACACTGATCT--TTGTATCGATACATGCAGGC-AATTTGCCCAG
1 ATGTATCGATACACT-AT-TAAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
62571 ATGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATT-AAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
62623 ATGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
62665 CTTTTCATAT
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 32 0.38
52 47 0.55
53 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:70957 original size:30 final size:31
Alignment explanation
Indices: 70920--71004 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 31
70910 CAAATACCTT
70920 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
*
70951 -TCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * * *
70981 TTTAAAGCCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
71005 CACTTTTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 29 0.60
31 19 0.40
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:71096 original size:34 final size:34
Alignment explanation
Indices: 70958--71380 Score: 453
Period size: 34 Copynumber: 12.6 Consensus size: 34
70948 GTCTCAAAGT
* * *
70958 CCACGACTCAGTGGCA-T-TTTTT-CTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
70989 CCACAACTCTGTGGCACACTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
**
71024 CCACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTT-CCTTTT--AAGC
* *
71061 CCACAACTCTGTGGCAC-CTTTTTCTTTTTACAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTA-AGC
*
71095 CCACAACTCCGTGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
71122 CCACGACTACGTGGCACTC-TTTTCCTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
** *
71155 CCACAACTATGTGGCACTC-TTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
71188 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
71222 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
71256 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
71290 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGC
1 CCACAACTCCGTGGCACTC-TTTTT-CCTTTT-AAGC
* * *
71327 CCACAACTCCGTGGCAC-CTTGTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
71360 CCACAACTTCGTGGCA-TCTTT
1 CCACAACTCCGTGGCACTCTTT
71381 CACCCTTTCT
Statistics
Matches: 345, Mismatches: 29, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
27 16 0.05
28 6 0.02
29 1 0.00
31 14 0.04
33 82 0.24
34 127 0.37
35 40 0.12
36 17 0.05
37 42 0.12
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:71134 original size:27 final size:28
Alignment explanation
Indices: 71086--71144 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
71076 ACCTTTTTCT
*
71086 TTTTACAGCCCACAACTCCGTGGCACCC
1 TTTTACAGCCCACAACTACGTGGCACCC
* * *
71114 TTTTA-AGTCCACGACTACGTGGCACTC
1 TTTTACAGCCCACAACTACGTGGCACCC
71141 TTTT
1 TTTT
71145 CCTTTAAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (28 bp):
TTTTACAGCCCACAACTACGTGGCACCC
Found at i:71461 original size:33 final size:32
Alignment explanation
Indices: 71391--71552 Score: 229
Period size: 33 Copynumber: 4.9 Consensus size: 32
71381 CACCCTTTCT
*
71391 AAAG-CCACACAAGTCGGTGGCAAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGC-AA-CCTTCTCC
71424 AAAGCCCACACAAGTCGGTGGCAACCTTCCTCC
1 AAAGCCCACACAAGTCGGTGGCAACCTT-CTCC
71457 AAAGCCCACACAAGTCGGTGGCAACCCTTC-CC
1 AAAGCCCACACAAGTCGGTGGCAA-CCTTCTCC
* *
71489 AAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACC-TTCTCC
71522 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAA-CCTTCT
71553 AAGCCCAATA
Statistics
Matches: 119, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
31 2 0.02
32 32 0.27
33 62 0.52
34 23 0.19
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.17
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCTTCTCC
Found at i:71509 original size:65 final size:66
Alignment explanation
Indices: 71391--71552 Score: 258
Period size: 65 Copynumber: 2.5 Consensus size: 66
71381 CACCCTTTCT
*
71391 AAAG-CCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC-TTCC
1 AAAGCCCACACAAGTCGGTGGC-AACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCATT-C
71454 TCC
64 TCC
*
71457 AAAGCCCACACAAGTCGGTGGCAACCCTTC-CCAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTC
*
71521 T
66 C
71522 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
71553 AAGCCCAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
65 59 0.66
66 14 0.16
67 17 0.19
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.17
Consensus pattern (66 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTC
C
Found at i:71610 original size:49 final size:49
Alignment explanation
Indices: 71552--72167 Score: 801
Period size: 49 Copynumber: 12.7 Consensus size: 49
71542 GCAACCCTTC
* * * * * *
71552 TAAGCCCAATATAGTTGGCCCTAAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
71601 TAAGTCCAATATAGCTGGCCTTGAATTAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
71649 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
71692 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * *
71744 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
71793 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
71842 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
71891 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
71940 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
71989 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
72037 TAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
72080 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
72132 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
72168 ACATCCTTTT
Statistics
Matches: 499, Mismatches: 50, Indels: 33
0.86 0.09 0.06
Matches are distributed among these distances:
43 79 0.16
45 2 0.00
48 87 0.17
49 250 0.50
50 4 0.01
52 77 0.15
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:72206 original size:55 final size:51
Alignment explanation
Indices: 72077--72214 Score: 145
Period size: 52 Copynumber: 2.6 Consensus size: 51
72067 ACATTGGCAC
* *
72077 CTTTAAGTCCAATATAGC-TGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCC-A-ATAGCGTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
*
72129 CTTTAAGTTCAATGTAGC-TGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAA--TAGCGTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CAT
* *
72184 CTTTAAGCCCAATAGCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATAGCG-TGGCCTTGAATCA
72215 ACATATTGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 35 0.48
53 6 0.08
54 5 0.07
55 25 0.34
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (51 bp):
CTTTAAGTCCAATAGCGTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:73075 original size:33 final size:33
Alignment explanation
Indices: 73038--73104 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
73028 TTCAACGATT
73038 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
73071 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
73104 T
1 T
73105 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:73076 original size:13 final size:13
Alignment explanation
Indices: 73058--73082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73048 CATAAAATGT
73058 TGTATCGATACAA
1 TGTATCGATACAA
73071 TGTATCGATACA
1 TGTATCGATACA
73083 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:73258 original size:52 final size:52
Alignment explanation
Indices: 73144--73288 Score: 208
Period size: 52 Copynumber: 2.8 Consensus size: 52
73134 CATTACTCAA
*
73144 ATGTATCGATACACTGATCT--CTGTATCGATACATGCAGGC-AATTTGCCCAG
1 ATGTATCGATACACT-AT-TAAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
73195 ATGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATT-AAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
73247 ATGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
73289 CTTTTCATAT
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 32 0.38
52 47 0.55
53 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:79949 original size:13 final size:13
Alignment explanation
Indices: 79931--79956 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79921 ACATTTTTCT
79931 TTGTATCGATACA
1 TTGTATCGATACA
79944 TTGTATCGATACA
1 TTGTATCGATACA
79957 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:80119 original size:20 final size:20
Alignment explanation
Indices: 80076--80121 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
80066 AAATCTTTTG
80076 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
80097 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
80117 CAAAA
1 CAAAA
80122 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:81857 original size:67 final size:68
Alignment explanation
Indices: 81749--81890 Score: 268
Period size: 67 Copynumber: 2.1 Consensus size: 68
81739 CATGTGCAAA
81749 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGA-TTTTTTTAATATAAGGGGAGAAT
1 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTTAATATAAGGGGAGAAT
81813 GCG
66 GCG
81816 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTTTAATATAAGGGGAGAA
1 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGA-TTTTTTTTAATATAAGGGGAGAA
81881 TGCG
65 TGCG
81885 TAAATT
1 TAAATT
81891 GCTACAATTA
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 41 0.56
69 32 0.44
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (68 bp):
TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTTAATATAAGGGGAGAAT
GCG
Found at i:82591 original size:13 final size:13
Alignment explanation
Indices: 82573--82598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82563 TACACCAAGT
82573 ATGTATCGATACA
1 ATGTATCGATACA
82586 ATGTATCGATACA
1 ATGTATCGATACA
82599 CAAAAAAATT
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:87013 original size:103 final size:105
Alignment explanation
Indices: 86674--87127 Score: 289
Period size: 105 Copynumber: 4.3 Consensus size: 105
86664 GATTGGAATA
* *** * * *
86674 GGGAATATATAATGTTTAAAA-TATAATTGCTTTTTAAGATGGTTAATAGCAATTAATGTGATTC
1 GGGAATATATAAGGTTTAAAATTA-AATAATTTTTTAAGATGGTTAATAGTAATTAATCTAATTC
* *** * * * * * **
86738 GAAAAGTTTATAAAGATATGATTGAAGATT-TTAAGACAATG
65 CAAAAAACTACAAAAATATGATAGAA-CTTGTCACTACAATG
* *
86779 GGGAATATATAAGGTTTAAAATT-AATAAGGTTTTTT-AGATGGTTAATAGTAGTTAATGTAATT
1 GGGAATATATAAGGTTTAAAATTAAATAA--TTTTTTAAGATGGTTAATAGTAATTAATCTAATT
* *
86842 CCAAAAAACTACAAAAATATGATAGAACTTTTGACTACAATG
64 CCAAAAAACTACAAAAATATGATAGAACTTGTCACTACAATG
* * * * * ** *
86884 GGAAATACATAGGGTTTAAAATTAAATCATTTTTTAATATGGTTCGTAG-AATTAATCTAGTTTT
1 GGGAATATATAAGGTTTAAAATTAAATAATTTTTTAAGATGGTTAATAGTAATTAATCTA--ATT
** * *
86948 TTAAAAAA-TAC-AAGATATGATA-CACTTGTCACTACAATG
64 CCAAAAAACTACAAAAATATGATAGAACTTGTCACTACAATG
* * * ** * * *
86987 GGGAATATATAAGGTTTAAAATTAAATTATTTTTTAAAATAGTTAATAACAGTTAATCTAACTCT
1 GGGAATATATAAGGTTTAAAATTAAATAATTTTTTAAGATGGTTAATAGTAATTAATCTAATTCC
* * * * * * ** **
87052 AAAAAGAATAC-AAGATAAGATAAAAGTTATGGCTGTAATG
66 AAAAA-ACTACAAAAATATGATAGAACTTGTCACTACAATG
*
87092 GGGAATATATAAGGTTTAAAATAAAACT-ATTTTTTA
1 GGGAATATATAAGGTTTAAAATTAAA-TAATTTTTTA
87128 TAAGGTAGTG
Statistics
Matches: 280, Mismatches: 56, Indels: 26
0.77 0.15 0.07
Matches are distributed among these distances:
102 7 0.03
103 55 0.20
104 51 0.18
105 148 0.53
106 19 0.07
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (105 bp):
GGGAATATATAAGGTTTAAAATTAAATAATTTTTTAAGATGGTTAATAGTAATTAATCTAATTCC
AAAAAACTACAAAAATATGATAGAACTTGTCACTACAATG
Found at i:87066 original size:104 final size:102
Alignment explanation
Indices: 86773--87127 Score: 329
Period size: 105 Copynumber: 3.4 Consensus size: 102
86763 AGATTTTAAG
* * *
86773 ACAATGGGGAATATATAAGGTTTAAAATT-AATAAGGTTTTTT-AGATGGTTAATAGTAGTTAAT
1 ACAATGGGGAATATATAAGGTTTAAAATTAAATTA--TTTTTTAAAATGGTTAATA-AAGTTAAT
* * * * *
86836 GTAATTCCAAAAAACTACAAAAATATGATAGAACTTTTGACT
63 CTAATTCTAAAAAAATAC-AAGATATGATA-AACTTATGACT
* * * * * **
86878 ACAATGGGAAATACATAGGGTTTAAAATTAAATCATTTTTTAATATGGTTCGTAGAA-TTAATCT
1 ACAATGGGGAATATATAAGGTTTAAAATTAAATTATTTTTTAAAATGGTTAATA-AAGTTAATCT
* * * * * *
86942 AGTTTTTTAAAAAATACAAGATATGATACACTTGTCACT
65 A-ATTCTAAAAAAATACAAGATATGATAAACTTATGACT
*
86981 ACAATGGGGAATATATAAGGTTTAAAATTAAATTATTTTTTAAAATAGTTAATAACAGTTAATCT
1 ACAATGGGGAATATATAAGGTTTAAAATTAAATTATTTTTTAAAATGGTTAATAA-AGTTAATCT
* * * *
87046 AACTCTAAAAAGAATACAAGATAAGATAAAAGTTATGGCT
65 AATTCTAAAAA-AATACAAGATATGAT-AAACTTATGACT
** * *
87086 GTAATGGGGAATATATAAGGTTTAAAATAAAACTATTTTTTA
1 ACAATGGGGAATATATAAGGTTTAAAATTAAATTATTTTTTA
87128 TAAGGTAGTG
Statistics
Matches: 203, Mismatches: 40, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
102 1 0.00
103 61 0.30
104 45 0.22
105 92 0.45
106 4 0.02
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (102 bp):
ACAATGGGGAATATATAAGGTTTAAAATTAAATTATTTTTTAAAATGGTTAATAAAGTTAATCTA
ATTCTAAAAAAATACAAGATATGATAAACTTATGACT
Found at i:94201 original size:52 final size:52
Alignment explanation
Indices: 94053--94181 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
94043 CGAAATATGA
*
94053 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
94105 AAATTTTCCTGTATGTATCGATACATTTCATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
94157 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
94182 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:94208 original size:13 final size:13
Alignment explanation
Indices: 94190--94214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94180 CAAAGATCAG
94190 TGTATCGATACAA
1 TGTATCGATACAA
94203 TGTATCGATACA
1 TGTATCGATACA
94215 TTTTCTTGAC
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:94274 original size:19 final size:18
Alignment explanation
Indices: 94250--94312 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
94240 ATACATACAT
94250 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
94269 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
94284 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
94301 TGTATCGATACA
1 TGTATCGATACA
94313 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
16 2 0.05
17 3 0.08
19 21 0.55
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:94288 original size:32 final size:32
Alignment explanation
Indices: 94244--94327 Score: 150
Period size: 32 Copynumber: 2.6 Consensus size: 32
94234 GTAGCGATAC
94244 ATACATTGTATCGATACAAAACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCG
* *
94276 ATACATTATATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCG
94308 ATACATTGTATCGATACAAA
1 ATACATTGTATCGATACAAA
94328 TCGTTGAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCG
Found at i:95561 original size:169 final size:168
Alignment explanation
Indices: 95385--95853 Score: 606
Period size: 168 Copynumber: 2.8 Consensus size: 168
95375 TTCAAGGAAA
* * *
95385 AAATGAATGAATTTTTGAAAATTGAATTAATATAAAATAAATACTAATATTTGATGAATTTTGAA
1 AAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATACTAATATTTGATGAATTTTGAA
* *
95450 AATTAAAAGCAAGAAAAATCCCCCTGAAAAAATTTGCGGAGTAAAAAACTCCGTATTTTGAAAAA
66 AATTAAAAACAAGAAAAATCCCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTTTGAAAAA
* *
95515 AAAAAAGGAAATTTCAA-GAAAAATATTCAAAATTTATGG
131 AAAAAA-G-AATTTCAAGGAAAAAAATTCAAAATTCATGG
* * * *
95554 AAATGAATGAATTTTTGAAAACTAAATTAACATGAAATAAATAAC-AATATTTAATAAATTTTAA
1 AAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAAT-ACTAATATTTGATGAATTTTGA
* * *
95618 AAATTAAAAAACAAGAAAAATCTCCCCT-AAAAAAATTACGGAGTAGAAAACTCCGTGTTTCT--
65 AAATT-AAAAACAAGAAAAATC-CCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTT-TGA
* *
95680 AAAAAAAAGAGAATTTCAAGGAAAAAAATTTAAAATTCATGG
127 AAAAAAAAAAGAATTTCAAGGAAAAAAATTCAAAATTCATGG
* * * * *
95722 AAATGAATGAATTTTTTAAAACTAAATTACTGTGAAATAAATAATAATATTTGGTGAATTTTGAA
1 AAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATACTAATATTTGATGAATTTTGAA
* * ** *
95787 AATCAAAATACAAGAAAAATCCCCCCGAAAAAATTTACGGAGTAAAAAACTCTATATTTCGAAAA
66 AATTAAAA-ACAAGAAAAATCCCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTTTGAAAA
95852 AA
130 AA
95854 GAAGAATTCC
Statistics
Matches: 257, Mismatches: 33, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
167 17 0.07
168 116 0.45
169 73 0.28
170 45 0.18
171 6 0.02
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (168 bp):
AAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATACTAATATTTGATGAATTTTGAA
AATTAAAAACAAGAAAAATCCCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTTTGAAAAA
AAAAAAGAATTTCAAGGAAAAAAATTCAAAATTCATGG
Found at i:97104 original size:44 final size:43
Alignment explanation
Indices: 97056--97952 Score: 432
Period size: 44 Copynumber: 20.5 Consensus size: 43
97046 AAGGAAGCGG
**
97056 ATTTGACTAGGGTGGTAACCACGCATCCAATTAGAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACAT-CAATTAGAATGAAAAGA
* * * *
97100 ATTTGACTAGGCTAGTAACCATACGTCAGATCTA-AACGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCA-AT-TAGAATGAAAAGA
* ** **
97144 GTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTA-GAATGAAAAGA
** * * * * * *
97188 ACCTAACTATGGTGGTAACCATACGTTAAGTAGGATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTAGAATGAAAAGA
* * * ** * *
97231 ATTTGACTAGAGTGTTAACCATA-AGTTAGACCAAAATGAGAAGA
1 ATTTGACTAGGGTGGTAACCATACA-TCA-ATTAGAATGAAAAGA
* * ** ** * * * *
97275 GTTTGACCAAAGTGGTAACCATATGTCAAATTGGAAGGAAGTATA
1 ATTTGACTAGGGTGGTAACCATACATC-AATTAGAATGAA-AAGA
* * * *
97320 A-TTGACCAAGGTGGTTACCATGCATCCAATTAGAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACAT-CAATTAGAATGAAAAGA
* * * * ** *
97363 ATCTGACAAGGGTGGTAACCATACGTTAGACAAAAATGAGAAA-A
1 ATTTGACTAGGGTGGTAACCATACATCA-ATTAGAATGA-AAAGA
* *** **
97407 GTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTA-GAATGAAAAGA
* * * * * * *
97451 ACTTGACCATGGTAGTAACCATACGTCAAGTAGGATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTAGAATGAAAAGA
* * * * * *
97494 ATCTGACCAGGGTGTTAACCATACGTTAGACT-GAAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCA-ATTAG-AATGAAAAGA
* * *
97538 GTTTGACTAGGGTGGTAACCATGCATCCAATTAGAATGAAGAGA
1 ATTTGACTAGGGTGGTAACCATACAT-CAATTAGAATGAAAAGA
* * *
97582 ATTTGACTAGAGTGGTAACCATACATCAGA-TCGAAATGAGAAG-
1 ATTTGACTAGGGTGGTAACCATACATCA-ATTAG-AATGAAAAGA
* * ** * **
97625 AGTT-ACCAGGGTGGTAACCATATGTTAAACATGAATGAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTA-GAATGAAAAGA
* * * *
97668 ACTTGACTAGGGTGGTAACCATACATCAAGTAGGATAAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTAGAATGAAAAGA
* * * **
97711 ATCTGACTCGGGTGTTAACCATATGTCCAATT-GAAATGAGAAA-A
1 ATTTGACTAGGGTGGTAACCATACAT-CAATTAG-AATGA-AAAGA
* * * * * *
97755 GTTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAAGCAG-
1 ATTTGACTAGGGTGGTAACCATACATCAATTA-GAATGAA-AAGA
* * ** * * * *
97799 ATTTGACCAGGGTGGTAATCATATGTCAAATCAAAATGAGAGGA
1 ATTTGACTAGGGTGGTAACCATACATC-AATTAGAATGAAAAGA
* * * * ** *
97843 GTTTGACCAGGGCGGTAACAATACATCAAACATGAATAAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTA-GAATGAAAAGA
* * * ** *
97887 ACTTGACCAGGGTGGTAACCATACGTCAAGCA-AGATAAAAAGA
1 ATTTGACTAGGGTGGTAACCATACATCAATTAGA-ATGAAAAGA
*
97930 ATCTGACTAGGGTGGTAACCATA
1 ATTTGACTAGGGTGGTAACCATA
97953 TGTCAGACCG
Statistics
Matches: 640, Mismatches: 177, Indels: 73
0.72 0.20 0.08
Matches are distributed among these distances:
41 1 0.00
42 28 0.04
43 155 0.24
44 438 0.68
45 18 0.03
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (43 bp):
ATTTGACTAGGGTGGTAACCATACATCAATTAGAATGAAAAGA
Found at i:97290 original size:131 final size:131
Alignment explanation
Indices: 97012--97559 Score: 555
Period size: 131 Copynumber: 4.2 Consensus size: 131
97002 AATGCAAATC
* * * * * ** * * * *
97012 GTTTGACCAGGGTGGTAACCATATTTTAAACAAGAAGGAAGCGGATTTGACTAGGGTGGTAACCA
1 GTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCA
** * * * * * * * * *
97077 CGCATCCAATTAGAATGAAAAGAATTTGACTAGGCTAG-TAACCATACGTCAGATCTAAACGAAA
66 TACGT-CAAGTAGGATGAAAAGAATCTGACTAGGGT-GTTAACCATACGTTAGACCAAAATGAAA
97141 AGA
129 AGA
* * *
97144 GTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAACCTAACTATGGTGGTAACCA
1 GTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCA
* * * * *
97209 TACGTTAAGTAGGATGAAAAGAATTTGACTAGAGTGTTAACCATAAGTTAGACCAAAATGAGAAG
66 TACGTCAAGTAGGATGAAAAGAATCTGACTAGGGTGTTAACCATACGTTAGACCAAAATGAAAAG
97274 A
131 A
* ** * * * * * *
97275 GTTTGACCAAAGTGGTAACCATATGTCAAA-TTGGAAGGAAGTATAA-TTGACCAAGGTGGTTAC
1 GTTTGACTAGGGTGGTAACCATATGTCAAACAT-GAATGAA-AAGAACTTGACCATGGTGGTAAC
* * * * * * *
97338 CATGCATCCAATTAGAATGAAAAGAATCTGACAAGGGTGGTAACCATACGTTAGACAAAAATGAG
64 CATACGT-CAAGTAGGATGAAAAGAATCTGACTAGGGTGTTAACCATACGTTAGACCAAAATGA-
97403 AAA-A
127 AAAGA
* *
97407 GTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGAACTTGACCATGGTAGTAACCA
1 GTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCA
* **
97472 TACGTCAAGTAGGATGAAAAGAATCTGACCAGGGTGTTAACCATACGTTAGACTGAAATGAAAAG
66 TACGTCAAGTAGGATGAAAAGAATCTGACTAGGGTGTTAACCATACGTTAGACCAAAATGAAAAG
97537 A
131 A
97538 GTTTGACTAGGGTGGTAACCAT
1 GTTTGACTAGGGTGGTAACCAT
97560 GCATCCAATT
Statistics
Matches: 339, Mismatches: 69, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
130 5 0.01
131 174 0.51
132 157 0.46
133 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (131 bp):
GTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCA
TACGTCAAGTAGGATGAAAAGAATCTGACTAGGGTGTTAACCATACGTTAGACCAAAATGAAAAG
A
Found at i:97484 original size:263 final size:263
Alignment explanation
Indices: 97066--97559 Score: 731
Period size: 263 Copynumber: 1.9 Consensus size: 263
97056 ATTTGACTAG
* *
97066 GGTGGTAACCACGCATCCAATTAGAATGAAAAGAATTTGACTAGGCTAGTAACCATACGTCAGAT
1 GGTGGTAACCACGCATCCAATTAGAATGAAAAGAATCTGACAAGGCTAGTAACCATACGTCAGAT
* * *
97131 CTAAACGAAAAGAGTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAACCTAACT
66 CAAAACGAAAAGAGTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGAACCTAACC
* * * *
97196 ATGGTGGTAACCATACGTTAAGTAGGATGAAAAGAATTTGACTAGAGTGTTAACCATAAGTTAGA
131 ATGGTAGTAACCATACGTCAAGTAGGATGAAAAGAATCTGACCAGAGTGTTAACCATAAGTTAGA
*
97261 CCAAAATGAGAAGAGTTTGACCAAAGTGGTAACCATATGTCAAATTGGAAGGAAGTATAATTGAC
196 CCAAAATGAAAAGAGTTTGACCAAAGTGGTAACCATATGTCAAATTGGAAGGAAGTATAATTGAC
97326 CAA
261 CAA
* * * * *
97329 GGTGGTTACCATGCATCCAATTAGAATGAAAAGAATCTGACAAGGGTGGTAACCATACGTTAGA-
1 GGTGGTAACCACGCATCCAATTAGAATGAAAAGAATCTGACAAGGCTAGTAACCATACGTCAGAT
* * *
97393 CAAAAATGAGAAA-AGTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGAACTTGA
66 C-AAAACGA-AAAGAGTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGAACCTAA
* *
97457 CCATGGTAGTAACCATACGTCAAGTAGGATGAAAAGAATCTGACCAGGGTGTTAACCATACGTTA
129 CCATGGTAGTAACCATACGTCAAGTAGGATGAAAAGAATCTGACCAGAGTGTTAACCATAAGTTA
** * **
97522 GACTGAAATGAAAAGAGTTTGACTAGGGTGGTAACCAT
194 GACCAAAATGAAAAGAGTTTGACCAAAGTGGTAACCAT
97560 GCATCCAATT
Statistics
Matches: 204, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
262 1 0.00
263 200 0.98
264 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (263 bp):
GGTGGTAACCACGCATCCAATTAGAATGAAAAGAATCTGACAAGGCTAGTAACCATACGTCAGAT
CAAAACGAAAAGAGTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGAACCTAACC
ATGGTAGTAACCATACGTCAAGTAGGATGAAAAGAATCTGACCAGAGTGTTAACCATAAGTTAGA
CCAAAATGAAAAGAGTTTGACCAAAGTGGTAACCATATGTCAAATTGGAAGGAAGTATAATTGAC
CAA
Found at i:97561 original size:219 final size:218
Alignment explanation
Indices: 97321--98029 Score: 847
Period size: 219 Copynumber: 3.2 Consensus size: 218
97311 GGAAGTATAA
* * * *
97321 TTGACCAAGGTGGTTACCATGCATCCAATTAGAATGAAAAGAATCTGACAAGGGTGGTAACCATA
1 TTGACCAGGGTGGTAACCATACATCCAATTAGAATGAAAAGAATTTGACAAGGGTGGTAACCATA
* * * *
97386 CGTTAGA-CAAAAATGAGAAAAGTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAG
66 CGTCAGATC-AAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCAAACATGAATGAAAAG
* * *
97450 AACTTGACCATGGTAGTAACCATACGTCAAGTAGGATGAAAAGAATCTGACCAGGGTGTTAACCA
130 AACTTGACCAGGGTGGTAACCATACGTCAAGTAGGATAAAAAGAATCTGACCAGGGTGTTAACCA
* *
97515 TACGTTAGACTGAAATGAAAAGAGT
195 TATGTCAGACTGAAATGAAAA-AGT
* * * * *
97540 TTGACTAGGGTGGTAACCATGCATCCAATTAGAATGAAGAGAATTTGACTAGAGTGGTAACCATA
1 TTGACCAGGGTGGTAACCATACATCCAATTAGAATGAAAAGAATTTGACAAGGGTGGTAACCATA
* * *
97605 CATCAGATCGAAATGAGAAGAG-TT-ACCAGGGTGGTAACCATATGTTAAACATGAATGAAAAGA
66 CGTCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCAAACATGAATGAAAAGA
* *
97668 ACTTGACTAGGGTGGTAACCATACATCAAGTAGGATAAAAAGAATCTGACTC-GGGTGTTAACCA
131 ACTTGACCAGGGTGGTAACCATACGTCAAGTAGGATAAAAAGAATCTGAC-CAGGGTGTTAACCA
*
97732 TATGTCCA-ATTGAAATGAGAAAAGT
195 TATGT-CAGACTGAAATGA-AAAAGT
* * * * * *
97757 TTGACCAGGGTGGTAACCATACGT-CAAATAGGAAGGAAGCAG-ATTTGACCAGGGTGGTAATCA
1 TTGACCAGGGTGGTAACCATACATCCAATTA-GAATGAA-AAGAATTTGACAAGGGTGGTAACCA
* * * * * ** *
97820 TATGTCAAATCAAAATGAGAGGAGTTTGACCAGGGCGGTAACAATACATCAAACATGAATAAAAA
64 TACGTCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCAAACATGAATGAAAA
* * * *
97885 GAACTTGACCAGGGTGGTAACCATACGTCAAGCAAGATAAAAAGAATCTGACTAGGGTGGTAACC
129 GAACTTGACCAGGGTGGTAACCATACGTCAAGTAGGATAAAAAGAATCTGACCAGGGTGTTAACC
* *
97950 ATATGTCAGACCGAAATAAGAAAAGT
194 ATATGTCAGACTGAAATGA-AAAAGT
* ** * *
97976 TTGACCAGGGTGGTAACCATACATCAAACAAGAATGAAAAAAACTTGACCAAGG
1 TTGACCAGGGTGGTAACCATACATCCAATTAGAATGAAAAGAATTTGA-CAAGG
98030 TTGTAGACAC
Statistics
Matches: 417, Mismatches: 60, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
216 5 0.01
217 173 0.41
218 14 0.03
219 217 0.52
220 8 0.02
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (218 bp):
TTGACCAGGGTGGTAACCATACATCCAATTAGAATGAAAAGAATTTGACAAGGGTGGTAACCATA
CGTCAGATCAAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCAAACATGAATGAAAAGA
ACTTGACCAGGGTGGTAACCATACGTCAAGTAGGATAAAAAGAATCTGACCAGGGTGTTAACCAT
ATGTCAGACTGAAATGAAAAAGT
Found at i:97588 original size:131 final size:130
Alignment explanation
Indices: 97012--97953 Score: 551
Period size: 131 Copynumber: 7.2 Consensus size: 130
97002 AATGCAAATC
* ** * * ** * * * *
97012 GTTTGACCAGGGTGGTAACCATATTTTAAACAAGAAGGAAGCGGATTTGACTAGGGTGGTAACCA
1 GTTTGACTAGGGTGGTAACCATA-TCCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCA
** * * * * * * *
97077 CGCATCCAATTAGAATGAAAAGAATTTGACTAGGCTAGTAACCATACGTCAGATCT-AAACGAAA
65 TACAT-CAAGTAGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTTAGA-CTAAAATGAAA
97141 AGA
128 AGA
* * * *
97144 GTTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAACCTAACTATGGTGGTAACCA
1 GTTTGACTAGGGTGGTAACCATAT-CCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCA
* * * * * * * * * *
97209 TACGTTAAGTAGGATGAAAAGAATTTGACTAGAGTGTTAACCATAAGTTAGACCAAAATGAGAAG
65 TACATCAAGTAGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTAAAATGAAAAG
97274 A
130 A
* ** * * * * * * *
97275 GTTTGACCAAAGTGGTAACCATATGTCAAA-TTGGAAGGAAGTATAA-TTGACCAAGGTGGTTAC
1 GTTTGACTAGGGTGGTAACCATAT-CCAAACAT-GAATGAA-AAGAACTTGACCATGGTGGTAAC
* * * *
97338 CATGCATCCAATTAGAATGAAAAGAATCTGACAAGGGTGGTAACCATACGTTAGACAAAAATGAG
63 CATACAT-CAAGTAGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTAAAATGA-
97403 AAA-A
126 AAAGA
*
97407 GTTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGAACTTGACCATGGTAGTAACCA
1 GTTTGACTAGGGTGGTAACCATAT-CCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCA
* * * *
97472 TACGTCAAGTAGGATGAAAAGAATCTGACCAGGGTGTTAACCATACGTTAGACTGAAATGAAAAG
65 TACATCAAGTAGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTAAAATGAAAAG
97537 A
130 A
** * * *
97538 GTTTGACTAGGGTGGTAACCATGCATCCAATTA-GAATGAAGAGAATTTGACTA-GAGTGGTAAC
1 GTTTGACTAGGGTGGTAACCAT--ATCCAAACATGAATGAAAAGAACTTGACCATG-GTGGTAAC
* * * * * *
97601 CATACATC-AGATCGAAATGAGAAGAGT-T-ACCAGGGTGGTAACCATATGTTAAAC-ATGAATG
63 CATACATCAAG-TAG-AATGAAAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTA-AAATG
97662 AAAAGA
125 AAAAGA
** ** * * * *
97668 ACTTGACTAGGGTGGTAACCATA-CATCAAGTA-GGATAAAAAGAA-TCTGACTC-GGGTGTTAA
1 GTTTGACTAGGGTGGTAACCATATC--CAAACATGAATGAAAAGAACT-TGAC-CATGGTGGTAA
** * * * * * *
97729 CCATATGTCCAA-TTGAAATGAGAAA-AGTTTGACCAGGGTGGTAACCATACGTCA-AATAGGAA
62 CCATACAT-CAAGTAG-AATGA-AAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTA-AAA
* *
97791 GGAAGCAGA
123 TGAA-AAGA
* * * * * * ** * * *
97800 -TTTGACCAGGGTGGTAATCATATGTCAAATCA-AAATGAGAGGAGTTTGACCAGGGCGGTAACA
1 GTTTGACTAGGGTGGTAACCATAT-CCAAA-CATGAATGAAAAGAACTTGACCATGGTGGTAACC
** * * * *
97863 ATACATCAAACATGAATAAAAAGAA-CTTGACCAGGGTGGTAACCATACGTCA-AGC-AAGATAA
64 ATACATCAAGTA-GAATGAAAAGAATC-TGACCAGGGTGGTAACCATACGTTAGA-CTAAAATGA
97925 AAAGA
126 AAAGA
* *
97930 ATCTGACTAGGGTGGTAACCATAT
1 GTTTGACTAGGGTGGTAACCATAT
97954 GTCAGACCGA
Statistics
Matches: 638, Mismatches: 134, Indels: 77
0.75 0.16 0.09
Matches are distributed among these distances:
127 1 0.00
128 2 0.00
129 41 0.06
130 70 0.11
131 289 0.45
132 228 0.36
133 7 0.01
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (130 bp):
GTTTGACTAGGGTGGTAACCATATCCAAACATGAATGAAAAGAACTTGACCATGGTGGTAACCAT
ACATCAAGTAGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTAAAATGAAAAGA
Found at i:97687 original size:130 final size:131
Alignment explanation
Indices: 97497--97780 Score: 351
Period size: 130 Copynumber: 2.2 Consensus size: 131
97487 GAAAAGAATC
* * ** *
97497 TGACCAGGGTGTTAACCATACGTTAGACTGAAATGAAAAGAGTTTGACTAGGGTGGTAACCATGC
1 TGACCAGGGTGGTAACCATACGTTAAACTGAAATGAAAAGAACTTGACTAGGGTGGTAACCATAC
* * * * *
97562 ATCCAATTAGAATGAAGAGAATTTGACTAGAGTGGTAACCATACAT-CAGATCGAAATGAGAAGA
66 AT-CAAGTAGAATAAAAAGAATCTGACTAGAGTGGTAACCATACATCCA-ATCGAAATGAGAAAA
97626 G-T
129 GTT
*
97628 T-ACCAGGGTGGTAACCATATGTTAAACATG-AATGAAAAGAACTTGACTAGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACGTTAAAC-TGAAATGAAAAGAACTTGACTAGGGTGGTAACCATA
* * * * ** *
97691 CATCAAGTAGGATAAAAAGAATCTGACTCGGGTGTTAACCATATGTCCAATTGAAATGAGAAAAG
65 CATCAAGTAGAATAAAAAGAATCTGACTAGAGTGGTAACCATACATCCAATCGAAATGAGAAAAG
97756 TT
130 TT
97758 TGACCAGGGTGGTAACCATACGT
1 TGACCAGGGTGGTAACCATACGT
97781 CAAATAGGAA
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
129 47 0.36
130 60 0.46
131 23 0.18
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (131 bp):
TGACCAGGGTGGTAACCATACGTTAAACTGAAATGAAAAGAACTTGACTAGGGTGGTAACCATAC
ATCAAGTAGAATAAAAAGAATCTGACTAGAGTGGTAACCATACATCCAATCGAAATGAGAAAAGT
T
Found at i:97992 original size:131 final size:132
Alignment explanation
Indices: 97757--98026 Score: 348
Period size: 131 Copynumber: 2.1 Consensus size: 132
97747 TGAGAAAAGT
* * ** * *
97757 TTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAAGCAGATTTGACCAGGGTGGTAATCATA
1 TTGACCAGGGTGGTAACCATACGTCAAACAAGAAAAAAGCAGATCTGACCAGGGTGGTAACCATA
* * ** *
97822 TGTCAAATCAAAATGAGAGGAGTTTGACCAGGGCGGTAACAATACATCAAACATGAAT-AAAAAG
66 TGTCAAACCAAAATAAGAAAAGTTTGACCAGGGCGGTAACAATACATCAAACAAGAATGAAAAA-
97886 AAC
130 AAC
* *
97889 TTGACCAGGGTGGTAACCATACGTCAAGCAAGATAAAAAG-A-ATCTGACTAGGGTGGTAACCAT
1 TTGACCAGGGTGGTAACCATACGTCAAACAAGA-AAAAAGCAGATCTGACCAGGGTGGTAACCAT
* * * *
97952 ATGTCAGACCGAAATAAGAAAAGTTTGACCAGGGTGGTAACCATACATCAAACAAGAATGAAAAA
65 ATGTCAAACCAAAATAAGAAAAGTTTGACCAGGGCGGTAACAATACATCAAACAAGAATGAAAAA
98017 AAC
130 AAC
98020 TTGACCA
1 TTGACCA
98027 AGGTTGTAGA
Statistics
Matches: 119, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
131 79 0.66
132 36 0.30
133 4 0.03
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.19
Consensus pattern (132 bp):
TTGACCAGGGTGGTAACCATACGTCAAACAAGAAAAAAGCAGATCTGACCAGGGTGGTAACCATA
TGTCAAACCAAAATAAGAAAAGTTTGACCAGGGCGGTAACAATACATCAAACAAGAATGAAAAAA
AC
Found at i:98024 original size:44 final size:44
Alignment explanation
Indices: 97013--98026 Score: 428
Period size: 44 Copynumber: 23.2 Consensus size: 44
97003 ATGCAAATCG
** * * ****
97013 TTTGACCAGGGTGGTAACCATATTTTAAACAAGAAGGAAGCGGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* ** * * ** *
97057 TTTGACTAGGGTGGTAACCACGCATCCAATTAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * * * * * *
97101 TTTGACTAGGCTAGTAACCATACGTCAGATCTA-AACGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACGTCA-AACAAGAATGAAAAAAA
* * * *
97145 TTTGACTAGGGTGGTAACCATATGTCAAACATGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
** * * * * ** * *
97189 CCTAACTATGGTGGTAACCATACGT-TAAGTAGGATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * * * * * * *
97232 TTTGACTAGAGTGTTAACCATAAGTTAGACCAA-AATGAGAAGAG
1 TTTGACCAGGGTGGTAACCATACGTCA-AACAAGAATGAAAAAAA
** * *** * * *
97276 TTTGACCAAAGTGGTAACCATATGTCAAATTGGAAGGAAGTATAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAA-AAAAA
* * * * * ** *
97321 -TTGACCAAGGTGGTTACCATGCATCCAATTAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * * * * *
97364 TCTGACAAGGGTGGTAACCATACGTTAGACAAAAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * * *
97408 TTTGACTAGGGTGGTAACCATATGCCAAACATGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * ** * *
97452 CTTGACCATGGTAGTAACCATACGTC-AAGTAGGATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * * * * *
97495 TCTGACCAGGGTGTTAACCATACGTTAGAC-TGAAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAG-AATGAAAAAAA
* * * * ** * *
97539 TTTGACTAGGGTGGTAACCATGCATCCAATTAGAATGAAGAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * * * * *
97583 TTTGACTAGAGTGGTAACCATACATCAGATCGA-AATG-AGAAGA
1 TTTGACCAGGGTGGTAACCATACGTCA-AACAAGAATGAAAAAAA
* * * * *
97626 GTT-ACCAGGGTGGTAACCATATGTTAAACATGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * ** *
97669 CTTGACTAGGGTGGTAACCATACATC-AAGTAGGAT-AAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAA-AA
* * * * ** * *
97712 TCTGACTC-GGGTGTTAACCATATGTCCAA-TTGAAATGAGAAAAG
1 TTTGAC-CAGGGTGGTAACCATACGTCAAACAAG-AATGAAAAAAA
* * * ** *
97756 TTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAAGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
* * * ** *
97800 TTTGACCAGGGTGGTAATCATATGTCAAATCAA-AATGAGAGGAG
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAAGAATGAAAAAAA
* * * *
97844 TTTGACCAGGGCGGTAACAATACATCAAACATGAAT-AAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAA-AA
* *
97888 CTTGACCAGGGTGGTAACCATACGTCAAGCAAG-AT-AAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAA-AA
* * * * * *
97931 TCTGACTAGGGTGGTAACCATATGTCAGAC-CGAAAT-AAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAG-AATGAA-AAAAA
*
97975 TTTGACCAGGGTGGTAACCATACATCAAACAAGAATGAAAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
*
98019 CTTGACCA
1 TTTGACCA
98027 AGGTTGTAGA
Statistics
Matches: 708, Mismatches: 233, Indels: 58
0.71 0.23 0.06
Matches are distributed among these distances:
41 2 0.00
42 27 0.04
43 149 0.21
44 508 0.72
45 22 0.03
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACGTCAAACAAGAATGAAAAAAA
Found at i:98449 original size:21 final size:20
Alignment explanation
Indices: 98425--98479 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
98415 GCTAAGGAAA
**
98425 TGTATCGATACATTTACTGTT
1 TGTATCGATACATTT-CTCAT
* *
98446 TGTATTGATACATTTTTCAT
1 TGTATCGATACATTTCTCAT
98466 TGTATCGATACATT
1 TGTATCGATACATT
98480 GTGGGTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:99025 original size:79 final size:79
Alignment explanation
Indices: 98858--99429 Score: 580
Period size: 79 Copynumber: 7.3 Consensus size: 79
98848 TGGGAGATAC
* * * *
98858 TCCAAAATATTAAATTTTTCATCTCGGGGATACTCC-A-GCCATCAATTT-TGAGGGGATACTCC
1 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAACCCCAT-TATTTCTGAGGGGATACTCC
98920 AACCCCATTTTTATT
65 AACCCCATTTTTATT
* * * *
98935 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAAACCTATTATTTCTGAGGGGACACTTCA
1 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCA
99000 ACCCCATTTTTATT
66 ACCCCATTTTTATT
* * * * * * * *
99014 TTCAAAATATTAAAATTCTCATATTGGGGATACTCTAACCCCATCAATTCCGAAGGGATACTCCA
1 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCA
*
99079 ACCCCATTTTTCTT
66 ACCCCATTTTTATT
* * * * * * * * *
99093 TTCAAAATATTAAACTTTTCATGTTGGGAATACTCCAACCCTATTATTTTTTA-TGGATATTCCA
1 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCA
* *
99157 ACCCCGTTTTTGTT
66 ACCCCATTTTTATT
* * * **
99171 TCCAAAATATTTAAATTTTCATCTCGGGGATACTCCAACCCCATTAATTCCAAGGGGATACTCCA
1 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCA
* *
99236 ACCTCACTTTTATT
66 ACCCCATTTTTATT
** * * * * * *
99250 TCCAAAATATTAATTTTTTTCATCTTAGGGATACTCTAACCCCGTTGTTT-TCGA-TGGATATTC
1 TCCAAAATATTAA-AATTTTCATCTTGGGGATACTCCAACCCCATTATTTCT-GAGGGGATACTC
*
99313 CAACCCCGTTTTTATT
64 CAACCCCATTTTTATT
* * * **
99329 TCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCATCAATTCCAAGGGGATACTCCA
1 TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCA
* * *
99394 ACCCCACTCTTACT
66 ACCCCATTTTTATT
** *
99408 TCCAAAATGCTAAATTTTTCAT
1 TCCAAAATATTAAAATTTTCAT
99430 TTCTGGATAC
Statistics
Matches: 402, Mismatches: 85, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
77 34 0.08
78 98 0.24
79 241 0.60
80 29 0.07
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
TCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCA
ACCCCATTTTTATT
Found at i:99185 original size:158 final size:156
Alignment explanation
Indices: 98858--99429 Score: 693
Period size: 158 Copynumber: 3.6 Consensus size: 156
98848 TGGGAGATAC
* * ***
98858 TCCAAAATATTAAATTTTTCATCTCGGGGATACTCC-A-GCCATCAATTTTGAGGGGATACTCCA
1 TCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATCAATTCCAAGGGGATACTCCA
* *
98921 ACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAAACCTATTATTTCT
66 ACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTT-GGGATACTCCAACCCTATTATTTTT
* * *
98986 GAGGGGACACTT-CAACCCCATTTTTATT
130 GA-TGGATA-TTCCAACCCCGTTTTTATT
* * * * *
99014 TTCAAAATATTAAAATTCTCATATTGGGGATACTCTAACCCCATCAATTCCGAA-GGGATACTCC
1 TCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATCAATTCC-AAGGGGATACTCC
* * * *
99078 AACCCCATTTTTCTTTTCAAAATATTAAACTTTTCATGTTGGGAATACTCCAACCCTATTATTTT
65 AACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTTGGG-ATACTCCAACCCTATTATTTT
* *
99143 TTATGGATATTCCAACCCCGTTTTTGTT
129 TGATGGATATTCCAACCCCGTTTTTATT
* *
99171 TCCAAAATATTTAAATTTTCATCTCGGGGATACTCCAACCCCATTAATTCCAAGGGGATACTCCA
1 TCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATCAATTCCAAGGGGATACTCCA
* * ** * ** *
99236 ACCTCACTTTTATTTCCAAAATATTAATTTTTTTCATCTTAGGGATACTCTAACCCCGTTGTTTT
66 ACCCCATTTTTATTTCCAAAATATTAA-AATTTTCATCTT-GGGATACTCCAACCCTATTATTTT
*
99301 CGATGGATATTCCAACCCCGTTTTTATT
129 TGATGGATATTCCAACCCCGTTTTTATT
* *
99329 TCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCATCAATTCCAAGGGGATACTCCA
1 TCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATCAATTCCAAGGGGATACTCCA
* * * ** *
99394 ACCCCACTCTTACTTCCAAAATGCTAAATTTTTCAT
66 ACCCCATTTTTATTTCCAAAATATTAAAATTTTCAT
99430 TTCTGGATAC
Statistics
Matches: 356, Mismatches: 52, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
156 34 0.10
157 108 0.30
158 210 0.59
159 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (156 bp):
TCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATCAATTCCAAGGGGATACTCCA
ACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTTGGGATACTCCAACCCTATTATTTTTG
ATGGATATTCCAACCCCGTTTTTATT
Found at i:99424 original size:236 final size:236
Alignment explanation
Indices: 98858--99425 Score: 658
Period size: 236 Copynumber: 2.4 Consensus size: 236
98848 TGGGAGATAC
* * *
98858 TCCAAAATATTAAATTTTTCATCTCGGGGATACTCC-A-GCCATCAATTTTGAGGGGATACTCCA
1 TCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCATCAATTTTAAGGGGATACTCCA
* * * *
98921 ACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCTTGGGGATACTCCAAACCTATTATTTCT
66 ACCCCATTTTTATTTCCAAAATATT-AAATTTTCATCTCGGGGATACTCCAAACCCATTAATTCC
* * * * *
98986 GAGGGGACACTTCAACCCCATTTTTATTTTCAAAATATTAAAATTCTCATATTGGGGATACTCTA
130 AAGGGGACACTCCAACCCCACTTTTATTTCCAAAATATTAAAATTCTCATATTAGGGATACTCTA
*
99051 ACCCCATCAATTCCGAAGGGATACTCCAACCCCATTTTTCTT
195 ACCCCATCAATTCCGAAGGGATACTCCAACCCCATTTTTATT
* * * * * * * * * *
99093 TTCAAAATATTAAACTTTTCATGTTGGGAATACTCCAACCCTATTATTTTTTA-TGGATATTCCA
1 TCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCATCAATTTTAAGGGGATACTCCA
* * *
99157 ACCCCGTTTTTGTTTCCAAAATATTTAAATTTTCATCTCGGGGATACTCCAACCCCATTAATTCC
66 ACCCCATTTTTATTTCCAAAATA-TTAAATTTTCATCTCGGGGATACTCCAAACCCATTAATTCC
* * ** * *
99222 AAGGGGATACTCCAACCTCACTTTTATTTCCAAAATATTAATTTTTTTCATCTTAGGGATACTCT
130 AAGGGGACACTCCAACCCCACTTTTATTTCCAAAATATTAA-AATTCTCATATTAGGGATACTCT
* *** * * * *
99287 AACCCCGTTGTTTTCG-ATGGATATTCCAACCCCGTTTTTATT
194 AACCCCATCAATTCCGAAGGGATACTCCAACCCCATTTTTATT
**
99329 TCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCATCAATTCCAAGGGGATACTCCA
1 TCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCATCAATTTTAAGGGGATACTCCA
* * * **
99394 ACCCCACTCTTACTTCCAAAATGCTAAATTTT
66 ACCCCATTTTTATTTCCAAAATATTAAATTTT
99426 TCATTTCTGG
Statistics
Matches: 270, Mismatches: 58, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
235 31 0.11
236 173 0.64
237 66 0.24
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (236 bp):
TCCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCATCAATTTTAAGGGGATACTCCA
ACCCCATTTTTATTTCCAAAATATTAAATTTTCATCTCGGGGATACTCCAAACCCATTAATTCCA
AGGGGACACTCCAACCCCACTTTTATTTCCAAAATATTAAAATTCTCATATTAGGGATACTCTAA
CCCCATCAATTCCGAAGGGATACTCCAACCCCATTTTTATT
Found at i:100605 original size:60 final size:60
Alignment explanation
Indices: 100508--100819 Score: 201
Period size: 60 Copynumber: 5.2 Consensus size: 60
100498 CTGACACCAA
* * * * *
100508 TACAGTCAAACGAGGAAGGT-CTTGACCAAAGATAGTCAAG-AGGGATAAGATTTGATCAAG
1 TACAGTCAAATGAGGAA-ATACTTGACTAAATAAAGTCAAGAAGGG-TAAGATTTGATCAAG
* ** *
100568 TATAGGT-AAATGAGGAAATACTTGACTAAATAAAGTCAAGTGGGGCT-GGAATTTGATCGAA-
1 TACA-GTCAAATGAGGAAATACTTGACTAAATAAAGTCAAGAAGGG-TAAG-ATTTGATC-AAG
* * * * * *
100629 TACAGTCAAATAAAGATAGT-CTTAACTGAATACAA-TCAAGAAGGGTGAGATTTGATCAAG
1 TACAGTCAAATGAGGA-AATACTTGACTAAATA-AAGTCAAGAAGGGTAAGATTTGATCAAG
* * * ** * * * *
100689 TATAGTGAAATGAGGATAGGCTTGACTGAATATAGTCAAGAAGGGTAAGATTTGA-CTGAT
1 TACAGTCAAATGAGGAAATACTTGACTAAATAAAGTCAAGAAGGGTAAGATTTGATC-AAG
* * * * * *
100749 TACAGTCAAATGAGGAAAAACTTGAC-AGAATATAGTTAAGAGGGGTAGGATTTGATCGAG
1 TACAGTCAAATGAGGAAATACTTGACTA-AATAAAGTCAAGAAGGGTAAGATTTGATCAAG
100809 TACAGTCAAAT
1 TACAGTCAAAT
100820 AATGATGGAA
Statistics
Matches: 197, Mismatches: 40, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
59 5 0.03
60 142 0.72
61 44 0.22
62 6 0.03
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (60 bp):
TACAGTCAAATGAGGAAATACTTGACTAAATAAAGTCAAGAAGGGTAAGATTTGATCAAG
Found at i:100744 original size:30 final size:30
Alignment explanation
Indices: 100710--100803 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 30
100700 GAGGATAGGC
100710 TTGACTGAATATAGTCAAGAAGGGTAAGAT
1 TTGACTGAATATAGTCAAGAAGGGTAAGAT
* * * * * *
100740 TTGACTGATTACAGTCAA-ATGAGGAAAAAC
1 TTGACTGAATATAGTCAAGAAG-GGTAAGAT
* * * *
100770 TTGACAGAATATAGTTAAGAGGGGTAGGAT
1 TTGACTGAATATAGTCAAGAAGGGTAAGAT
100800 TTGA
1 TTGA
100804 TCGAGTACAG
Statistics
Matches: 47, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (30 bp):
TTGACTGAATATAGTCAAGAAGGGTAAGAT
Found at i:100848 original size:35 final size:35
Alignment explanation
Indices: 100809--101043 Score: 326
Period size: 35 Copynumber: 6.7 Consensus size: 35
100799 TTTGATCGAG
*
100809 TACAGTCAAATAATGATGGAAAGAGTTTGACCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* * * *
100844 TACAGCCAAAAGATGATGGAAAGTGTTTGACTAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* * * *
100879 TATAGTCTAACGATGATGGTAAGAGTTTGACCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* *
100914 TACAATCAAATAATGATGGAAAGAGTTTGACCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
*
100949 TACAATCAAATGATGATGGAAAGAGTTTGACCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
* * *
100984 TACAGTAAAACGATGATGGAAAGAGTTTGCCCAGA
1 TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
*
101019 TACAGTCAAATGATGTTGGAAAGAG
1 TACAGTCAAATGATGATGGAAAGAG
101044 CTTAAGAGAA
Statistics
Matches: 174, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 174 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (35 bp):
TACAGTCAAATGATGATGGAAAGAGTTTGACCAGA
Found at i:101741 original size:23 final size:23
Alignment explanation
Indices: 101710--101755 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
101700 TAAGAACCTT
*
101710 TCAATTTCTCCAAGA-ATTATACC
1 TCAAATTCT-CAAGAGATTATACC
*
101733 TCAAATTCTTAAGAGATTATACC
1 TCAAATTCTCAAGAGATTATACC
101756 CTAAGGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (23 bp):
TCAAATTCTCAAGAGATTATACC
Found at i:102504 original size:13 final size:13
Alignment explanation
Indices: 102486--102511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102476 TACAGCAAGT
102486 ATGTATCGATACA
1 ATGTATCGATACA
102499 ATGTATCGATACA
1 ATGTATCGATACA
102512 CAAAAAATTG
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:104752 original size:21 final size:21
Alignment explanation
Indices: 104719--104763 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
104709 TTGCAAGTTG
*
104719 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
104741 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
104761 AAA
1 AAA
104764 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:106586 original size:15 final size:15
Alignment explanation
Indices: 106566--106596 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
106556 TAAAAATGTC
*
106566 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
106581 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
106596 C
1 C
106597 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:108692 original size:13 final size:13
Alignment explanation
Indices: 108674--108699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108664 TACATGTTCT
108674 TTGTATCGATACA
1 TTGTATCGATACA
108687 TTGTATCGATACA
1 TTGTATCGATACA
108700 GGGTGATTAT
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):
TTGTATCGATACA
Done.