Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1293
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: 240166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:5282 original size:33 final size:33
Alignment explanation
Indices: 5240--5303 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
5230 GTTACAAGCG
*
5240 ATGTATCGATACAATT-CATCATGTATCGATATA
1 ATGTATCGATAC-ATTGCACCATGTATCGATATA
*
5273 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCGATACATTGCACCATGTATCGATA
5304 CGAACAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGCACCATGTATCGATATA
Found at i:5379 original size:19 final size:18
Alignment explanation
Indices: 5329--5391 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 18
5319 TAGCTACTGC
*
5329 CAATTTCATGTATCGATA
1 CAATGTCATGTATCGATA
5347 CAATTGTCCATGTATCGATA
1 CAA-TGT-CATGTATCGATA
5367 CAATGATCATGTATCGATA
1 CAATG-TCATGTATCGATA
5386 CAATGT
1 CAATGT
5392 ATCGATACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
18 4 0.10
19 21 0.51
20 16 0.39
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (18 bp):
CAATGTCATGTATCGATA
Found at i:5393 original size:13 final size:13
Alignment explanation
Indices: 5375--5400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5365 TACAATGATC
5375 ATGTATCGATACA
1 ATGTATCGATACA
5388 ATGTATCGATACA
1 ATGTATCGATACA
5401 TCTGGGTGTG
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:6802 original size:32 final size:32
Alignment explanation
Indices: 6761--6831 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
6751 AAACAGTAAC
* *
6761 TGTATCGATACATAAGTGTTGTGTCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
6793 TGTATCGATATATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
6825 TGTATCG
1 TGTATCG
6832 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:0.08, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:6878 original size:21 final size:21
Alignment explanation
Indices: 6852--6910 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
6842 ACTGCCAAGG
6852 AAATGTATCGATACATTACTA
1 AAATGTATCGATACATTACTA
6873 AAATGTATCGATACATTACTA
1 AAATGTATCGATACATTACTA
6894 AAATGTATCGATACATT
1 AAATGTATCGATACATT
6911 GATCTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTA
Found at i:7727 original size:13 final size:13
Alignment explanation
Indices: 7709--7734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7699 CATTTTGGGA
7709 TGTATCGATACAT
1 TGTATCGATACAT
7722 TGTATCGATACAT
1 TGTATCGATACAT
7735 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:7733 original size:33 final size:32
Alignment explanation
Indices: 7689--7752 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
7679 TACAAGCCAA
*
7689 TGTATCAATACATTTTGGGATGTATCGATACAT
1 TGTATCAATACATCTTGGG-TGTATCGATACAT
* *
7722 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCAATACATCTTGGGTGTATCGATACA
7753 AATAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCAATACATCTTGGGTGTATCGATACAT
Found at i:12472 original size:13 final size:13
Alignment explanation
Indices: 12454--12480 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12444 ATAGTAATCC
12454 ATGTATCGATACA
1 ATGTATCGATACA
12467 ATGTATCGATACA
1 ATGTATCGATACA
12480 A
1 A
12481 GGAATGTTGT
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:18667 original size:33 final size:33
Alignment explanation
Indices: 18627--18695 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
18617 TCGTTACAAG
*
18627 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATA-AATTGCACCATGTATCGATA
* *
18660 CAATGTATCGATATATTGTACCATGTATCGATA
1 CAATGTATCGATAAATTGCACCATGTATCGATA
18693 CAA
1 CAA
18696 ACAGTGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATAAATTGCACCATGTATCGATA
Found at i:18679 original size:13 final size:13
Alignment explanation
Indices: 18627--18672 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
18617 TCGTTACAAG
18627 CAATGTATCGATA
1 CAATGTATCGATA
18640 CAA--T-TC-AT-
1 CAATGTATCGATA
18648 C-ATGTATCGATA
1 CAATGTATCGATA
18660 CAATGTATCGATA
1 CAATGTATCGATA
18673 TATTGTACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
7 1 0.04
8 1 0.04
9 3 0.11
10 4 0.15
11 3 0.11
12 1 0.04
13 14 0.52
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:18768 original size:19 final size:19
Alignment explanation
Indices: 18725--18780 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
18715 TGCCAATTTT
18725 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAA-TGTCC
18745 ATGTATCGATACAATGAT-C
1 ATGTATCGATACAATG-TCC
*
18764 ATGTATCAATACAATGT
1 ATGTATCGATACAATGT
18781 ATCGATACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACAATGTCC
Found at i:25568 original size:78 final size:78
Alignment explanation
Indices: 25467--25836 Score: 336
Period size: 78 Copynumber: 4.7 Consensus size: 78
25457 AAAAAGAAAC
* * * * *
25467 AGGTTAGAATATTCCCTCGAAAATAACGAGGTTGGAGTATCCCCGGTGGTGGAAAATCGATGTTT
1 AGGTTAGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTT
*
25532 AGAAATAAAATCG
66 AGAAATAAAACCG
* * * * * *
25545 AGGTTGGAGTATCCCCTTAAAAATAATGGGGTTGGAGTATCCTCAATTGTGG-AAATC-AGTGTT
1 AGGTTAGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGGAAAATCGA-TG-T
25608 TTAGAAATAAAACCG
64 TTAGAAATAAAACCG
* * * * * * *
25623 GGGTTGGAGTATCCCCTCAGAAATAA-CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTT
1 AGGTTAGAGTATCCCCTCAAAAATAATGA-GGTTGGAGTATCCCCGATGGTGGAAAATCGATGTT
25687 TAGAAATAAAACCG
65 TAGAAATAAAACCG
* * * * ** *** *
25701 AGGTTAAAGTATCCCCT-AAGAAATAATGAGATTGGTGCATCCTTGATGACAGAAAATCGGTGTT
1 AGGTTAGAGTATCCCCTCAA-AAATAATGAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTT
* ***
25765 TGAGAAGTAAAGTTG
65 T-AGAAATAAAACCG
* *
25780 -GAGTTAGAGTATCCCCTCAAAAATAATGGGGTTGGAGTGTCCCCGATGGTGGAAAAT
1 AG-GTTAGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGGAAAAT
25837 TATATTTTGG
Statistics
Matches: 229, Mismatches: 53, Indels: 19
0.76 0.18 0.06
Matches are distributed among these distances:
76 1 0.00
77 8 0.03
78 160 0.70
79 57 0.25
80 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (78 bp):
AGGTTAGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTT
AGAAATAAAACCG
Found at i:25836 original size:157 final size:156
Alignment explanation
Indices: 25469--25854 Score: 418
Period size: 156 Copynumber: 2.5 Consensus size: 156
25459 AAAGAAACAG
* * * * * *
25469 GTTAGAATATTCCCTCGAAAATAACGAGGTTGGAGTATCCCCGGTGGTGGAAAATCGATGTTTAG
1 GTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTAG
* ** * * * * *
25534 AAATAAAATCGAGGTTGGAGTATCCCCTTAAAAATAATGGGGTTGGAGTATCCTCAATTGTGGAA
66 AAATAAAACCGAGGTTAAAGTATCCCCTTAAAAATAATGAGATTGGAGCATCCTCAATTGAGAAA
* *
25599 ATCAGTGTTTTAGAAATAAAACCGGG
131 ATCAGTGTTTGAGAAATAAAACCGGA
* * * * *
25625 GTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTAG
1 GTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTAG
* **
25690 AAATAAAACCGAGGTTAAAGTATCCCC-TAAGAAATAATGAGATTGGTGCATCCTTGA-TGACAG
66 AAATAAAACCGAGGTTAAAGTATCCCCTTAA-AAATAATGAGATTGGAGCATCCTCAATTG--AG
* * ***
25753 AAAATCGGTGTTTGAGAAGTAAAGTTGGA
128 AAAATCAGTGTTTGAGAAATAAAACCGGA
* * * *
25782 GTTAGAGTATCCCCTCAAAAATAATGGGGTTGGAGTGTCCCCGATGGTGGAAAATT-ATATTTTG
1 GTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGAT-GTTTA
25846 GAAATAAAA
65 GAAATAAAA
25855 ACATCGATGA
Statistics
Matches: 188, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
155 5 0.03
156 100 0.53
157 83 0.44
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (156 bp):
GTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTAG
AAATAAAACCGAGGTTAAAGTATCCCCTTAAAAATAATGAGATTGGAGCATCCTCAATTGAGAAA
ATCAGTGTTTGAGAAATAAAACCGGA
Found at i:29198 original size:44 final size:44
Alignment explanation
Indices: 29084--29640 Score: 337
Period size: 44 Copynumber: 12.9 Consensus size: 44
29074 GCCTCAAGTG
* * * *
29084 TCTTTTCATTTTTG-TTTGACATATGGTTACCGCCCTGGTC-GAA
1 TCTTTCCA-TTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
* ** *
29127 TCTTTTCC-TTTCTG-TCTGATATATGGTTACCACCATGGTCAGAT
1 TC-TTTCCATTT-TGATTTGACGTATGGTTACCACCCTGGTCAGAT
* *
29171 TCTTTCCATTTTGATTTGACGTATGGTTACCATCCTGGTTTA-ATT
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGG-TCAGA-T
* * * * * * *
29216 TTTTTCC-TTTCGGTCTGATGTACGGTTGCCACCCTGGTCAGAT
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
* * * * *
29259 TCTTTCCATTCTAATTTGACGTATGGTTACCACCTTAGTCA-AA
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
** * * * *
29302 TCTTT-TTTTTTCTATCTGA-GTACGGTTAGCACCCTGGTCAGAT
1 TCTTTCCATTTT-GATTTGACGTATGGTTACCACCCTGGTCAGAT
*
29345 TCTTTCCATTTTGATTTGATGTATGGTTACCACCCTGGTC-GA-
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
**** * * * *
29387 ---AAAGA-CTTG-TCTAACGTATTGTTACCACCCTGGTCAGAT
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
* * * * * * *
29426 TTTTTCCATTTTGATTTAATGTTTGGTTACCACCCTAGTTA-AA
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
* * ** *
29469 TCTTTTCC-TTTCTG-TCTGACATACAGTTACCACCTTGGTCAGAT
1 TC-TTTCCATTT-TGATTTGACGTATGGTTACCACCCTGGTCAGAT
* * * *
29513 TCTTTCCATTTTGATTTGACATATGGTTACCAACTTGGTC-GAA
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
* * *
29556 TCTTTTC-TTTTTAGTTTGACGTATGGTTACCACCTTGGTCAGAT
1 TCTTTCCATTTTGA-TTTGACGTATGGTTACCACCCTGGTCAGAT
* * * * *
29600 TCTTTTCATTCTGATTTGGCGTATGGTTATCACCTTGGTCA
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCA
29641 AATTTGCTTT
Statistics
Matches: 390, Mismatches: 96, Indels: 55
0.72 0.18 0.10
Matches are distributed among these distances:
37 22 0.06
38 5 0.01
39 1 0.00
42 29 0.07
43 130 0.33
44 190 0.49
45 13 0.03
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (44 bp):
TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAGAT
Found at i:29472 original size:167 final size:168
Alignment explanation
Indices: 29105--29555 Score: 472
Period size: 167 Copynumber: 2.6 Consensus size: 168
29095 TTGTTTGACA
* * * * * ** *
29105 TATGGTTACCGCCCTGGTCGAATCTTTTCCTTTCTGTCTGATATATGGTTACCACCATGGTCAGA
1 TATGGTTACCACCCTAGTCAAATCTTTTCCTTTCTATCTGACATACAGTTACCACCCTGGTCAGA
* * ** **** * *
29170 TTCTTTCCATTTTGATTTGACGTATGGTTACCATCCTGGTTTAATTTTTTTCCTTTCGGTCTGAT
66 TTCTTTCCATTTTGATTTGACATATGGTTACCAACCTGGTCGAA----AAGAC-TT--GTCTAAC
** * *
29235 GTACGGTTGCCACCCTGGTCAGATTCTTTCCATTCTAATTTGACG
124 GTATTGTTACCACCCTGGTCAGATTCTTTCCATTCTAATTTAACG
* ** * * *
29280 TATGGTTACCACCTTAGTCAAATCTTTTTTTTTCTATCTGA-GTACGGTTAGCACCCTGGTCAGA
1 TATGGTTACCACCCTAGTCAAATCTTTTCCTTTCTATCTGACATACAGTTACCACCCTGGTCAGA
** *
29344 TTCTTTCCATTTTGATTTGATGTATGGTTACCACCCTGGTCGAAAAGACTTGTCTAACGTATTGT
66 TTCTTTCCATTTTGATTTGACATATGGTTACCAACCTGGTCGAAAAGACTTGTCTAACGTATTGT
* * * *
29409 TACCACCCTGGTCAGATTTTTTCCATTTTGATTTAATG
131 TACCACCCTGGTCAGATTCTTTCCATTCTAATTTAACG
* * * *
29447 TTTGGTTACCACCCTAGTTAAATCTTTTCCTTTCTGTCTGACATACAGTTACCACCTTGGTCAGA
1 TATGGTTACCACCCTAGTCAAATCTTTTCCTTTCTATCTGACATACAGTTACCACCCTGGTCAGA
*
29512 TTCTTTCCATTTTGATTTGACATATGGTTACCAACTTGGTCGAA
66 TTCTTTCCATTTTGATTTGACATATGGTTACCAACCTGGTCGAA
29556 TCTTTTCTTT
Statistics
Matches: 232, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
167 77 0.33
168 59 0.25
169 2 0.01
170 1 0.00
174 59 0.25
175 34 0.15
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (168 bp):
TATGGTTACCACCCTAGTCAAATCTTTTCCTTTCTATCTGACATACAGTTACCACCCTGGTCAGA
TTCTTTCCATTTTGATTTGACATATGGTTACCAACCTGGTCGAAAAGACTTGTCTAACGTATTGT
TACCACCCTGGTCAGATTCTTTCCATTCTAATTTAACG
Found at i:29519 original size:43 final size:42
Alignment explanation
Indices: 29407--29684 Score: 175
Period size: 44 Copynumber: 6.4 Consensus size: 42
29397 CTAACGTATT
* * * ** *
29407 GTTACCACCCTGGTCAGATTTTTTCCATTTTGATTTAATGTTTG
1 GTTACCACCTTGGTCAGATTCTTTCC-TTTTG-TTTGACATATG
* * * * * **
29451 GTTACCACCCTAGTTA-AATCTTTTCCTTTCTGTCTGACATACA
1 GTTACCACCTTGGTCAGATTC-TTTCCTTT-TGTTTGACATATG
29494 GTTACCACCTTGGTCAGATTCTTTCCATTTTGATTTGACATATG
1 GTTACCACCTTGGTCAGATTCTTTCC-TTTTG-TTTGACATATG
* * * *
29538 GTTACCAACTTGGTC-GAATCTTTTCTTTTTAGTTTGACGTATG
1 GTTACCACCTTGGTCAGATTC-TTTCCTTTT-GTTTGACATATG
* * * *
29581 GTTACCACCTTGGTCAGATTCTTTTCATTCTGATTTGGCGTATG
1 GTTACCACCTTGGTCAGATTC-TTTCCTTTTG-TTTGACATATG
* * * *
29625 GTTATCACCTTGGTCAAATTTGCTTT-CTTCCTATTTGACATATG
1 GTTACCACCTTGGTCAGA-TT-CTTTCCTT-TTGTTTGACATATG
**
29669 GTTTTCACCTTGGTCA
1 GTTACCACCTTGGTCA
29685 AATGATTTGT
Statistics
Matches: 188, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
43 62 0.33
44 118 0.63
45 7 0.04
46 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (42 bp):
GTTACCACCTTGGTCAGATTCTTTCCTTTTGTTTGACATATG
Found at i:29519 original size:87 final size:87
Alignment explanation
Indices: 29084--29643 Score: 546
Period size: 87 Copynumber: 6.5 Consensus size: 87
29074 GCCTCAAGTG
* * * * **
29084 TCTTTTCATTTTTG-TTTGACATATGGTTACCGCCCTGGTCGAATCTTTTCCTTTCTGTCTGATA
1 TCTTTCCA-TTTTGATTTGACGTATGGTTACCACCCTGGTCAAATCTTTTCCTTTCTGTCTGACG
* *
29148 TATGGTTACCACCATGGTCAGAT
65 TACGGTTACCACCCTGGTCAGAT
* * * * * *
29171 TCTTTCCATTTTGATTTGACGTATGGTTACCATCCTGGTTTAATTTTTTTCCTTTCGGTCTGATG
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGG-TCAAATCTTTTCCTTTCTGTCTGACG
*
29236 TACGGTTGCCACCCTGGTCAGAT
65 TACGGTTACCACCCTGGTCAGAT
* * * * ** *
29259 TCTTTCCATTCTAATTTGACGTATGGTTACCACCTTAGTCAAATCTTTTTTTTTCTATCTGA-GT
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAAATCTTTTCCTTTCTGTCTGACGT
*
29323 ACGGTTAGCACCCTGGTCAGAT
66 ACGGTTACCACCCTGGTCAGAT
* *** *
29345 TCTTTCCATTTTGATTTGATGTATGGTTACCACCCTGGTCGAAA----AGAC--T-TGTCTAACG
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTC-AAATCTTTTCCTTTCTGTCTGACG
**
29403 TATTGTTACCACCCTGGTCAGAT
65 TACGGTTACCACCCTGGTCAGAT
* * * * * * *
29426 TTTTTCCATTTTGATTTAATGTTTGGTTACCACCCTAGTTAAATCTTTTCCTTTCTGTCTGACAT
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAAATCTTTTCCTTTCTGTCTGACGT
* *
29491 ACAGTTACCACCTTGGTCAGAT
66 ACGGTTACCACCCTGGTCAGAT
* * * * * *
29513 TCTTTCCATTTTGATTTGACATATGGTTACCAACTTGGTCGAATCTTTT-CTTTTTAGTTTGACG
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAAATCTTTTCCTTTCT-GTCTGACG
* *
29577 TATGGTTACCACCTTGGTCAGAT
65 TACGGTTACCACCCTGGTCAGAT
* * * * *
29600 TCTTTTCATTCTGATTTGGCGTATGGTTATCACCTTGGTCAAAT
1 TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAAAT
29644 TTGCTTTCTT
Statistics
Matches: 385, Mismatches: 76, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
80 8 0.02
81 57 0.15
84 1 0.00
86 68 0.18
87 178 0.46
88 73 0.19
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (87 bp):
TCTTTCCATTTTGATTTGACGTATGGTTACCACCCTGGTCAAATCTTTTCCTTTCTGTCTGACGT
ACGGTTACCACCCTGGTCAGAT
Found at i:29602 original size:255 final size:255
Alignment explanation
Indices: 29152--29639 Score: 656
Period size: 255 Copynumber: 1.9 Consensus size: 255
29142 CTGATATATG
* * * * *
29152 GTTACCACCATGGTCAGATTCTTTCCATTTTGATTTGACGTATGGTTACCATCCTGGTTTAATTT
1 GTTACCACCATGGTCAGATTCTTTCCATTTTGATTTAACGTATGGTTACCACCCTAGTTTAAATC
** * * *
29217 TTTTCCTTTCGGTCTGATGTACGGTTGCCACCCTGGTCAGATTCTTTCCATTCTAATTTGACGTA
66 TTTTCCTTTCGGTCTGACATACAGTTACCACCCTGGTCAGATTCTTTCCATTCTAATTTGACATA
* * *
29282 TGGTTACCACCTTAGTCAAATCTTTTTTTTTCTATCTGAGTACGGTTAGCACCCTGGTCAGATTC
131 TGGTTACCAACTTAGTCAAATCTTTTCTTTTCTATCTGAGTACGGTTACCACCCTGGTCAGATTC
* *
29347 TTTCCATTTTGATTTGATGTATGGTTACCACCCTGGTCGAAAAGACTTGTCTAACGTATT
196 TTTCCATTCTGATTTGACGTATGGTTACCACCCTGGTCGAAAAGACTTGTCTAACGTATT
* * * *
29407 GTTACCACCCTGGTCAGATTTTTTCCATTTTGATTTAATGTTTGGTTACCACCCTAG-TTAAATC
1 GTTACCACCATGGTCAGATTCTTTCCATTTTGATTTAACGTATGGTTACCACCCTAGTTTAAATC
* * * *
29471 TTTTCCTTTCTGTCTGACATACAGTTACCACCTTGGTCAGATTCTTTCCATTTTGATTTGACATA
66 TTTTCCTTTCGGTCTGACATACAGTTACCACCCTGGTCAGATTCTTTCCATTCTAATTTGACATA
* * * * *
29536 TGGTTACCAACTTGGTCGAATCTTTTCTTTT-TAGTTTGACGTATGGTTACCACCTTGGTCAGAT
131 TGGTTACCAACTTAGTCAAATCTTTTCTTTTCTA-TCTGA-GTACGGTTACCACCCTGGTCAGAT
* * * *
29600 TCTTTTCATTCTGATTTGGCGTATGGTTATCACCTTGGTC
194 TCTTTCCATTCTGATTTGACGTATGGTTACCACCCTGGTC
29640 AAATTTGCTT
Statistics
Matches: 199, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
253 2 0.01
254 92 0.46
255 105 0.53
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (255 bp):
GTTACCACCATGGTCAGATTCTTTCCATTTTGATTTAACGTATGGTTACCACCCTAGTTTAAATC
TTTTCCTTTCGGTCTGACATACAGTTACCACCCTGGTCAGATTCTTTCCATTCTAATTTGACATA
TGGTTACCAACTTAGTCAAATCTTTTCTTTTCTATCTGAGTACGGTTACCACCCTGGTCAGATTC
TTTCCATTCTGATTTGACGTATGGTTACCACCCTGGTCGAAAAGACTTGTCTAACGTATT
Found at i:32678 original size:28 final size:27
Alignment explanation
Indices: 32596--32701 Score: 72
Period size: 26 Copynumber: 3.8 Consensus size: 27
32586 ATTTAAAAGA
* *
32596 ATTTTTAATTTTGATTTTTGATGGTTTTGG
1 ATTTTT-ATTTT-ATTTTTGAT-TTTTTCG
**
32626 ATTTTTATTTGGTTTCCTTGA-TTTTTCG
1 ATTTTTATTTTATTT--TTGATTTTTTCG
* *
32654 ATTTTTATTTTATTTTTGAATTTTT-A
1 ATTTTTATTTTATTTTTGATTTTTTCG
* * *
32680 ATTTCTATATTATTTTTTATTT
1 ATTTTTATTTTATTTTTGATTT
32702 CTTGAATATT
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
26 22 0.35
27 5 0.08
28 21 0.34
29 4 0.06
30 10 0.16
ACGTcount: A:0.18, C:0.04, G:0.10, T:0.68
Consensus pattern (27 bp):
ATTTTTATTTTATTTTTGATTTTTTCG
Found at i:32727 original size:8 final size:8
Alignment explanation
Indices: 32714--32746 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
32704 TGAATATTTC
32714 ATTTTTTT
1 ATTTTTTT
32722 A-TTTTTT
1 ATTTTTTT
32729 ATTTTTTT
1 ATTTTTTT
32737 ATTTTTTT
1 ATTTTTTT
32745 AT
1 AT
32747 CAAATGTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:32734 original size:15 final size:15
Alignment explanation
Indices: 32661--32743 Score: 67
Period size: 15 Copynumber: 5.3 Consensus size: 15
32651 TCGATTTTTA
**
32661 TTTTATTTTTGAATT
1 TTTTATTTTTTTATT
*
32676 TTTAATTTCTATATTATT
1 TTTTATTT-T-T-TTATT
** *
32694 TTTTATTTCTTGAATA
1 TTTTATTT-TTTTATT
*
32710 TTTCATTTTTTTATT
1 TTTTATTTTTTTATT
32725 TTTTATTTTTTTATT
1 TTTTATTTTTTTATT
32740 TTTT
1 TTTT
32744 TATCAAATGT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
15 29 0.55
16 10 0.19
17 2 0.04
18 12 0.23
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTATTTTTTTATT
Found at i:33617 original size:20 final size:20
Alignment explanation
Indices: 33591--33645 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
33581 CTGTCAGTTT
**
33591 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
* *
33611 TATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGAA
33630 CATGTATCGATACAAT
1 CATGTATCGATACAAT
33646 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:33649 original size:13 final size:13
Alignment explanation
Indices: 33631--33657 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33621 TACAATGAAC
33631 ATGTATCGATACA
1 ATGTATCGATACA
33644 ATGTATCGATACA
1 ATGTATCGATACA
33657 A
1 A
33658 GGCATAATGT
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:34375 original size:17 final size:17
Alignment explanation
Indices: 34353--34387 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34343 GTAGAGATTT
34353 ATTTCATCTCCTTTATC
1 ATTTCATCTCCTTTATC
*
34370 ATTTCATCTCTTTTATC
1 ATTTCATCTCCTTTATC
34387 A
1 A
34388 AATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTCATCTCCTTTATC
Found at i:36252 original size:13 final size:13
Alignment explanation
Indices: 36220--36259 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
36210 ATAGTAACCT
36220 ATGTATCAATACA
1 ATGTATCAATACA
* * *
36233 TTATATCGATACA
1 ATGTATCAATACA
36246 ATGTATCAATACA
1 ATGTATCAATACA
36259 A
1 A
36260 AGAACATTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:37630 original size:39 final size:39
Alignment explanation
Indices: 37587--37664 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
37577 GTAGCACCAA
37587 AAACAATATCATTAACATATATTTGTACAAGTAAAATGT
1 AAACAATATCATTAACATATATTTGTACAAGTAAAATGT
37626 AAACAATATCATTAACATATATTTGTACAAGTAAAATGT
1 AAACAATATCATTAACATATATTTGTACAAGTAAAATGT
37665 CTTTTCCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (39 bp):
AAACAATATCATTAACATATATTTGTACAAGTAAAATGT
Found at i:38743 original size:25 final size:25
Alignment explanation
Indices: 38709--38767 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
38699 GTTAGGCCTT
38709 TTTCCTTTATAAAGTTCATATGAAG
1 TTTCCTTTATAAAGTTCATATGAAG
38734 TTTCCTTTATAAAGTTCATATGAAG
1 TTTCCTTTATAAAGTTCATATGAAG
*
38759 TTTTCTTTA
1 TTTCCTTTA
38768 AAATTGGCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (25 bp):
TTTCCTTTATAAAGTTCATATGAAG
Found at i:42480 original size:20 final size:20
Alignment explanation
Indices: 42455--42508 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
42445 GTAAAAAGAC
*
42455 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
42475 AGAATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
42495 AAAATGTATCGATA
1 AGAATGTATCGATA
42509 TATCTAGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:43334 original size:28 final size:28
Alignment explanation
Indices: 43308--43923 Score: 703
Period size: 28 Copynumber: 21.8 Consensus size: 28
43298 TAGAGAAAGT
* *
43308 TGCCATTGACATTGTGGACTTTGAAAGGA
1 TGCCACTGAC-TTGTGGGCTTTGAAAGGA
* *
43337 TGCCACTGACTTGTGGGCTTTGGAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
43365 TGCCGCTGAATTGTAGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
43393 TGCCACTGATTTGTGGGCTTGGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* *
43422 TGCCACTGACTTGTGGACTTTGGAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
43450 TGCCACTGACTTGTGAGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
43478 TGCCACTAACTTGTGGGCTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
43506 TGTCATTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
43534 TGCCACCGACTTGTGGGCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* * *
43563 TGCCACTGACTTATGGACTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
43591 TGCCACTGACTTGTGGGTTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
43619 TGCCACTGACTTGTGGGCTATGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
43647 TACCATTGATTTGCGGGCTTGGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
*
43676 TGCCACTGACTTGTGGACTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
43704 TGCCACTGACTTGTAGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
43732 TGCCACTGACTTGTGGGCTTTGAAAGTG-
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* * * *
43760 TGCCATTGATTTGTGGGCTTAGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
43788 TGACACCGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
43816 TGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
43844 TGCCACCGACTTGTGGACTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* * *
43873 TGCCACCGACTTGTGGGGTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
43901 TTCCACTGACTTGTGGGCTTTGA
1 TGCCACTGACTTGTGGGCTTTGA
43924 TGATTTGTGG
Statistics
Matches: 497, Mismatches: 84, Indels: 13
0.84 0.14 0.02
Matches are distributed among these distances:
27 1 0.00
28 391 0.79
29 105 0.21
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:43442 original size:113 final size:113
Alignment explanation
Indices: 43308--43923 Score: 718
Period size: 113 Copynumber: 5.5 Consensus size: 113
43298 TAGAGAAAGT
* * * * *
43308 TGCCATTGACATTGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGGAAGGGTGCCGCTG
1 TGCCACTGAC-TTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* * * *
43373 AATTGTAGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTGGAAAAGGA
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGA
* * * * *
43422 TGCCACTGACTTGTGGACTTTGGAAGGATGCCACTGACTTGTGAGCTTTGAAAGGGTGCCACTAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * *
43487 CTTGTGGGCTTGGAAAAGATGTCATTGACTTGTGGGCTTTGAAAA-GA
66 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGA
* * * *
43534 TGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTATGGACTTTGAAAAGATGCCACTG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* * *
43599 ACTTGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTATG-AAAGGG
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGA
* * * * * *
43647 TACCATTGATTTGCGGGCTTGGAAAAGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG
* *
43712 ACTTGTAGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGTG-
65 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GA
* * * * * * *
43760 TGCCATTGATTTGTGGGCTTAGAAAAGATGACACCGACTTGTGGGCTTTGAAAAGATGCCACTGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
* * * * *
43825 CTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGACTTTGAAAAAGA
66 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGA
* * * *
43873 TGCCACCGACTTGTGGGGTTTGAAAGGGTTCCACTGACTTGTGGGCTTTGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA
43924 TGATTTGTGG
Statistics
Matches: 428, Mismatches: 69, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
112 99 0.23
113 319 0.75
114 10 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (113 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGA
Found at i:43573 original size:141 final size:141
Alignment explanation
Indices: 43303--43920 Score: 762
Period size: 141 Copynumber: 4.4 Consensus size: 141
43293 GGTTTTAGAG
* * * * * *
43303 AAAGTTGCCATTGACATTGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGG-AAGGGTG
1 AAAGATGCCACTGAC-TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-TTGGAAAAGATG
* * * * * * *
43367 CCGCTGAATTGTAGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTGGAAAAGGATGCCACTGAC
64 CCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGAC
*
43432 TTGTGGACTTTGG
129 TTGTGGACTTTGA
* * * *
43445 AAGGATGCCACTGACTTGTGAGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTGGAAAAGATGTC
1 AAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTGGAAAAGATGCC
* *
43510 ATTGACTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACTGACTT
66 ACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTT
*
43575 ATGGACTTTGA
131 GTGGACTTTGA
* * * *
43586 AAAGATGCCACTGACTTGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTAT-GAAAGGGTAC
1 AAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT-TGGAAAAGATGC
* * * * *
43650 CATTGATTTGCGGGCTTGGAAAAGGATGCCACTGACTTGTGGACTTTG-AAAGGATGCCACTGAC
65 CACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGAC
43714 TTGTAGG-CTTT-A
129 TTGT-GGACTTTGA
* * * * * *
43726 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGTGTGCCATTGATTTGTGGGCTTAGAAAAGATGA
1 AAA-GATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTGGAAAAGATGC
* *
43791 CACCGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACCGACT
65 CACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACT
43855 TGTGGACTTTGAA
130 TGTGGACTTTG-A
* * *
43868 AAAGATGCCACCGACTTGTGGGGTTTGAAAGGGTTCCACTGACTTGTGGGCTT
1 AAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
43921 TGATGATTTG
Statistics
Matches: 408, Mismatches: 58, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
139 2 0.00
140 51 0.12
141 314 0.77
142 41 0.10
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (141 bp):
AAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTGGAAAAGATGCC
ACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTT
GTGGACTTTGA
Found at i:43972 original size:27 final size:27
Alignment explanation
Indices: 43940--44079 Score: 190
Period size: 27 Copynumber: 5.1 Consensus size: 27
43930 GTGGGCTTTG
*
43940 AAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* *
43967 AAAAGGATGCCATGGAGTGGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGAC-TT
43995 AAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
** *
44022 ATGAGGTTGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* * *
44049 AAAAGGTTCCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
44076 AAAA
1 AAAA
44080 AGGAATTCCA
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
27 75 0.75
28 25 0.25
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (27 bp):
AAAAGGATGCCACGGAGTTGTGGACTT
Found at i:44006 original size:55 final size:55
Alignment explanation
Indices: 43930--44079 Score: 203
Period size: 55 Copynumber: 2.7 Consensus size: 55
43920 TTGATGATTT
* *
43930 GTGGGCTTTGAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCATGGAGTG
1 GTGGACTTT-AAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTG
* ** * *
43986 GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTATGAGGTTGCCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTG
* *
44041 GTGGAC-TTAAAAGGTTCCCACAGAGTTGTGGACTTAAAA
1 GTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAA
44080 AGGAATTCCA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
54 28 0.34
55 46 0.56
56 8 0.10
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (55 bp):
GTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTG
Found at i:44017 original size:101 final size:102
Alignment explanation
Indices: 43826--44017 Score: 235
Period size: 101 Copynumber: 1.9 Consensus size: 102
43816 TGCCACTGAC
* * **
43826 TTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGG
1 TTGTGGGCTTTGAAAAGATGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTGGTGGAC
* * * *
43891 TTTGAAAGGGTTCCACTGACTTGTGGGCTTTGATGAT
66 TTTAAAAGGATGCCACGGACTTGTGGGCTTTGATGAT
* * ** *
43928 TTGTGGGCTTTGAAAAGGATGCCACAGAGTTGTGGAC-TT-AAAAGGATGCCATGGAGTGGTGGA
1 TTGTGGGCTTTGAAAA-GATGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTGGTGGA
*
43991 CTTTAAAAGGATGCCACGGAGTTGTGG
65 CTTTAAAAGGATGCCACGGACTTGTGG
44018 ACTTATGAGG
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
101 39 0.52
102 18 0.24
103 18 0.24
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (102 bp):
TTGTGGGCTTTGAAAAGATGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTGGTGGAC
TTTAAAAGGATGCCACGGACTTGTGGGCTTTGATGAT
Found at i:45859 original size:13 final size:13
Alignment explanation
Indices: 45841--45865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45831 CATTTTATGG
45841 TGTATCGATACAA
1 TGTATCGATACAA
45854 TGTATCGATACA
1 TGTATCGATACA
45866 TACTTTGTGT
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:45881 original size:32 final size:33
Alignment explanation
Indices: 45819--45885 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
45809 GTTACAAGCT
*
45819 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATCTTATGGTGTATCGATAC
45852 AATGTATCGATACATACTT-T-GTGTATCGATAC
1 AATGTATCGATACAT-CTTATGGTGTATCGATAC
45884 AA
1 AA
45886 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACATCTTATGGTGTATCGATAC
Found at i:48431 original size:20 final size:20
Alignment explanation
Indices: 48406--48457 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
48396 TATAATCCCC
**
48406 TGTATCGATACAAAGAATGA
1 TGTATCGATACAAAGAAACA
*
48426 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAACA
48446 TGTATCGATACA
1 TGTATCGATACA
48458 TTTTGGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (20 bp):
TGTATCGATACAAAGAAACA
Found at i:56397 original size:13 final size:13
Alignment explanation
Indices: 56379--56409 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
56369 ACAATTCATC
56379 ATGTATCGATACA
1 ATGTATCGATACA
56392 ATGTATCGATACA
1 ATGTATCGATACA
*
56405 TTGTA
1 ATGTA
56410 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:56397 original size:33 final size:33
Alignment explanation
Indices: 56359--56425 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
56349 GTTACAAGCT
*
56359 ATGTATCGATACAATT-CATCATGTATCGATACA
1 ATGTATCGATAC-ATTGCACCATGTATCGATACA
*
56392 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
56425 A
1 A
56426 ATAGCGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACATTGCACCATGTATCGATACA
Found at i:56498 original size:19 final size:20
Alignment explanation
Indices: 56454--56507 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
56444 CTGTCAATCT
* **
56454 CATGCATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
56474 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
*
56493 CATGTACCGATACAA
1 CATGTATCGATACAA
56508 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:59030 original size:20 final size:20
Alignment explanation
Indices: 59005--59069 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
58995 ATCAATATAG
59005 TGTATCGATACAAGGAATAT
1 TGTATCGATACAAGGAATAT
59025 TGTATCGATAC-A-G-----
1 TGTATCGATACAAGGAATAT
59038 TGTATCGATACAAGGAATAT
1 TGTATCGATACAAGGAATAT
*
59058 TGTACCGATACA
1 TGTATCGATACA
59070 TCTGGGTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 22 0.59
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAGGAATAT
Found at i:59040 original size:33 final size:33
Alignment explanation
Indices: 58992--59069 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
58982 TAGTACCCTA
* *
58992 TGTATCAATATAGTGTATCGATACAAGGAATAT
1 TGTATCGATACAGTGTATCGATACAAGGAATAT
59025 TGTATCGATACAGTGTATCGATACAAGGAATAT
1 TGTATCGATACAGTGTATCGATACAAGGAATAT
*
59058 TGTACCGATACA
1 TGTATCGATACA
59070 TCTGGGTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAGTGTATCGATACAAGGAATAT
Found at i:59043 original size:13 final size:13
Alignment explanation
Indices: 59025--59049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59015 CAAGGAATAT
59025 TGTATCGATACAG
1 TGTATCGATACAG
59038 TGTATCGATACA
1 TGTATCGATACA
59050 AGGAATATTG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:72477 original size:20 final size:20
Alignment explanation
Indices: 72442--72518 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
72432 GTAAAAGGAC
*
72442 AGAATGTATC-AGTACATTGA
1 AGAATGTATCGA-TACATTAA
*
72462 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATT-AA
* *
72483 A-CATGTGTCGATACATTAA
1 AGAATGTATCGATACATTAA
* *
72502 AAAATGTATTGATACAT
1 AGAATGTATCGATACAT
72519 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 42 0.91
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:73203 original size:81 final size:81
Alignment explanation
Indices: 73068--73226 Score: 282
Period size: 81 Copynumber: 2.0 Consensus size: 81
73058 ACGTTTTGGA
*
73068 AACTTAAAGCATCTAAATGTACAAAACAAATGTTCCCTTCCCTATGGCCTAGAAAAACTGTTTTA
1 AACTTAAAGCATCTAAATGTACAAAACAAATGTTCCATTCCCTATGGCCTAGAAAAACTGTTTTA
73133 TTATTACAAATATGGG
66 TTATTACAAATATGGG
* * *
73149 AACTTAAAGCATCTAAATGTACAACATAAATGTTCCATTCCCTATGGCCTAGAAAAATTGTTTTA
1 AACTTAAAGCATCTAAATGTACAAAACAAATGTTCCATTCCCTATGGCCTAGAAAAACTGTTTTA
73214 TTATTACAAATAT
66 TTATTACAAATAT
73227 CAATTATGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (81 bp):
AACTTAAAGCATCTAAATGTACAAAACAAATGTTCCATTCCCTATGGCCTAGAAAAACTGTTTTA
TTATTACAAATATGGG
Found at i:74596 original size:3 final size:3
Alignment explanation
Indices: 74582--74616 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
74572 CGAGTCAACT
* *
74582 TCA TCA TTA TCA TCA TCA TCA TTA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
74617 TTTGATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:74600 original size:15 final size:15
Alignment explanation
Indices: 74582--74616 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
74572 CGAGTCAACT
74582 TCATCATTATCATCA
1 TCATCATTATCATCA
74597 TCATCATTATCATCA
1 TCATCATTATCATCA
74612 TCATC
1 TCATC
74617 TTTGATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:76245 original size:33 final size:33
Alignment explanation
Indices: 76203--76265 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
76193 TGAGACAATG
76203 TATCGATACAAT-TCCTCATGTATCGATACATTA
1 TATCGATACAATGTCC-CATGTATCGATACATTA
*
76236 TATCGATACAATGTGCCATGTATCGATACA
1 TATCGATACAATGTCCCATGTATCGATACA
76266 AACAACGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (33 bp):
TATCGATACAATGTCCCATGTATCGATACATTA
Found at i:77899 original size:165 final size:163
Alignment explanation
Indices: 77333--78006 Score: 788
Period size: 161 Copynumber: 4.1 Consensus size: 163
77323 AGGTCTAAAC
* * * * *
77333 TTTTTTAAATTCATCAAATATTATTATTTATTTCATATTAATCCAGTTTTCAAAAATTTATTCAT
1 TTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCAT
* * *
77398 TT-CATCAATTTT-AAATTTTTCCTTGAAATTTTCTTTTTTCAAAATACGAAGTTTTGTACTCCA
66 TTCCATAAATTTTGAATTTTTTCCTTGAAATTTTCTTTTTTCAAAATACGAAGTTTTCTACTCCA
* * *
77461 TAAATTTTTTC-GAAGGATTTTTCTTTTTTTTTA
131 TAAATTTTTTCAGGAGAATTTTTC-TATTTTTTA
* * * * *
77494 TTTTTAAAATTCATCAAATCTTATTATTTATTTCATATTAATTCAGTTTCTAAGAATTTATTCAT
1 TTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCAT
* ** * *
77559 TTCCATAAATTTTGAATTTTTTCCTTGAAATTTCCCTTTTTTTGAGATACGGAGTTTTCTACTCC
66 TTCCATAAATTTTGAATTTTTTCCTTGAAATTT-TCTTTTTTCAAAATACGAAGTTTTCTACTCC
*
77624 GTAAATTTTTTCAAGGA-AATTTTTCT-TTTTTTA
130 ATAAATTTTTTC-AGGAGAATTTTTCTATTTTTTA
*** * *
77657 --AAAAAAATTTATCAAATATTATTATTTATTTCATAGTAATTC-ATTTTTGAAAAATTCATTCA
1 TTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTTT-AAAAATTCATTCA
* * * * *
77719 TTTCCATAAATTTTGAATTTGTTCCTTGAAATTTTTCATTTTTCGAAATATGGAGTTTTCTACTC
65 TTTCCATAAATTTTGAATTTTTTCCTTGAAA-TTTTCTTTTTTCAAAATACGAAGTTTTCTACTC
* *
77784 CGTAAATTTTTTCGGGAGAATTTTTCTAATTTTTTA
129 CATAAATTTTTTCAGGAGAATTTTTCT-ATTTTTTA
* *
77820 TTTTTAAAATTCATTAAATATTATTATTTATTTCATTTTAATTCAATTTTTAAAAATTCATTCAT
1 TTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCAT
* * * * * * *
77885 TTCCATGAATTTTGAATTTTTTCCTTGAAATCTTCTTTATCCAAAAAACTAAGTTTTCTACACCA
66 TTCCATAAATTTTGAATTTTTTCCTTGAAATTTTCTTTTTTCAAAATACGAAGTTTTCTACTCCA
* ***
77950 TAAATTTTTTCAAGAGAATTTTTCTCGATTTAAAA
131 TAAATTTTTTCAGGAGAATTTTTCT--ATTTTTTA
*
77985 TTTTTAAAATTCATCTAATATT
1 TTTTTAAAATTCATCAAATATT
78007 GTCATTGAAC
Statistics
Matches: 437, Mismatches: 62, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
160 7 0.02
161 185 0.42
162 12 0.03
163 32 0.07
164 84 0.19
165 109 0.25
166 8 0.02
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (163 bp):
TTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTTTAAAAATTCATTCAT
TTCCATAAATTTTGAATTTTTTCCTTGAAATTTTCTTTTTTCAAAATACGAAGTTTTCTACTCCA
TAAATTTTTTCAGGAGAATTTTTCTATTTTTTA
Found at i:78153 original size:2 final size:2
Alignment explanation
Indices: 78146--78178 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
78136 ACCAAATATT
78146 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
78179 TAGAAACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:79730 original size:160 final size:162
Alignment explanation
Indices: 79517--79818 Score: 414
Period size: 160 Copynumber: 1.9 Consensus size: 162
79507 TAAAATTAAA
* * **
79517 TAATATTTATTTTTTCTAATATTTTATATTCCTATGGGCATCTGTTAGGGTATAAAAAATTTCAA
1 TAATATTTATTTTTTCGAATATTTTATATTCCTATGGCCATCTCATAGGGTATAAAAAATTTCAA
* * *
79582 AAACCTTTTATATTCTTT-CGGGCTTTAATTAGGGTACAAAATGATATTTTT-AAATTAAATAAA
66 AAACCTTTCATATT-TTTCCGGGCTTCAATTAAGGTACAAAATGATATTTTTAAAATTAAATAAA
79645 ATTAAATTAAATTGGTATTATTGGGATAAATTC
130 ATTAAATTAAATTGGTATTATTGGGATAAATTC
* ** *
79678 TAATATTTA-TTTTTCGAATCTTTTATATTGTTATGGCCATC-CATAGGGGTATAAAAGATTTCA
1 TAATATTTATTTTTTCGAATATTTTATATTCCTATGGCCATCTCATA-GGGTATAAAAAATTTCA
* * * *
79741 AAAACCTTTCGTATTTTTCCGGGCTTCCATTAAGGTACGAAATGGTATTTTTAAAATTAAATAAA
65 AAAACCTTTCATATTTTTCCGGGCTTCAATTAAGGTACAAAATGATATTTTTAAAATTAAATAAA
*
79806 ATTAAATTGAATT
130 ATTAAATTAAATT
79819 AATACTTTCG
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
159 5 0.04
160 84 0.69
161 33 0.27
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (162 bp):
TAATATTTATTTTTTCGAATATTTTATATTCCTATGGCCATCTCATAGGGTATAAAAAATTTCAA
AAACCTTTCATATTTTTCCGGGCTTCAATTAAGGTACAAAATGATATTTTTAAAATTAAATAAAA
TTAAATTAAATTGGTATTATTGGGATAAATTC
Found at i:81838 original size:13 final size:13
Alignment explanation
Indices: 81820--81845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81810 TACACAAAGT
81820 ATGTATCGATACA
1 ATGTATCGATACA
81833 ATGTATCGATACA
1 ATGTATCGATACA
81846 CCAAAAAAAT
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:81863 original size:34 final size:32
Alignment explanation
Indices: 81804--81866 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
81794 GCCAAACTTA
**
81804 TATCGATACACAAAGTATGTATCGATACAATG
1 TATCGATACACAAAAAATGTATCGATACAATG
81836 TATCGATACACCAAAAAAATGTATCGATACA
1 TATCGATACA-C-AAAAAATGTATCGATACA
81867 TTAGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 10 0.37
33 1 0.04
34 16 0.59
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (32 bp):
TATCGATACACAAAAAATGTATCGATACAATG
Found at i:87588 original size:34 final size:34
Alignment explanation
Indices: 87549--87618 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
87539 AAATGTTTTC
* * *
87549 CTTTTTGTGGTGTACCAATTTTATGTTTGATGAA
1 CTTTTTATGGTGTACCAATTTTATGTTAGATAAA
* *
87583 CTTTTTATGGTGTACTAGTTTTATGTTAGATAAA
1 CTTTTTATGGTGTACCAATTTTATGTTAGATAAA
87617 CT
1 CT
87619 ATATGTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.50
Consensus pattern (34 bp):
CTTTTTATGGTGTACCAATTTTATGTTAGATAAA
Found at i:89676 original size:21 final size:21
Alignment explanation
Indices: 89652--89695 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
89642 TTAAGGAGTA
*
89652 AAATTATTTGTATTTATTT-TT
1 AAATT-TTTATATTTATTTATT
*
89673 AAATTTTTATTTTTATTTATT
1 AAATTTTTATATTTATTTATT
89694 AA
1 AA
89696 TGAAATCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
AAATTTTTATATTTATTTATT
Found at i:101325 original size:5 final size:5
Alignment explanation
Indices: 101317--101341 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
101307 TTTTTCCTCC
101317 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
101342 TTTGTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:107056 original size:20 final size:21
Alignment explanation
Indices: 107031--107084 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
107021 TTTAATAATT
*
107031 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAACTGAAA
**
107051 TGTATCGATACATGTCTGAAA
1 TGTATCGATACATAACTGAAA
107072 TGTATCGATACAT
1 TGTATCGATACAT
107085 GACCATGTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATAACTGAAA
Found at i:107075 original size:21 final size:20
Alignment explanation
Indices: 107031--107087 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
107021 TTTAATAATT
* *
107031 TGTATCGATACATAAGTGAA
1 TGTATCGATACATGACTGAA
*
107051 TGTATCGATACATGTCTGAAA
1 TGTATCGATACATGACTG-AA
107072 TGTATCGATACATGAC
1 TGTATCGATACATGAC
107088 CATGTCGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGACTGAA
Found at i:110595 original size:13 final size:13
Alignment explanation
Indices: 110577--110601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110567 AGAATGCACA
110577 GTATCGATACATT
1 GTATCGATACATT
110590 GTATCGATACAT
1 GTATCGATACAT
110602 GACCAAATGT
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:110719 original size:13 final size:13
Alignment explanation
Indices: 110701--110726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110691 TACCCACAAG
110701 ATGTATCGATACA
1 ATGTATCGATACA
110714 ATGTATCGATACA
1 ATGTATCGATACA
110727 TGACCAAATT
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:112534 original size:15 final size:15
Alignment explanation
Indices: 112514--112546 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
112504 CCATCAAGGA
112514 TGATGAAGATGATGG
1 TGATGAAGATGATGG
*
112529 TGATGATGATGATGG
1 TGATGAAGATGATGG
112544 TGA
1 TGA
112547 CTCAGACGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.39, T:0.30
Consensus pattern (15 bp):
TGATGAAGATGATGG
Found at i:117608 original size:21 final size:21
Alignment explanation
Indices: 117574--117614 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
117564 GCACTCATCA
*
117574 GGTCGCGACTGGCA-CCCCCG
1 GGTCGCAACTGGCAGCCCCCG
117594 GGTCGCAACTGGGCAGCCCCC
1 GGTCGCAACT-GGCAGCCCCC
117615 ACACTCACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.12, C:0.44, G:0.34, T:0.10
Consensus pattern (21 bp):
GGTCGCAACTGGCAGCCCCCG
Found at i:119015 original size:21 final size:22
Alignment explanation
Indices: 118986--119029 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
118976 GATTAAAGAA
118986 AATTGTTTT-ATTAAGGGGGAG
1 AATTGTTTTGATTAAGGGGGAG
*
119007 AATTTTTTTGATTAAGGGGGAG
1 AATTGTTTTGATTAAGGGGGAG
119029 A
1 A
119030 GAAAAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.32, T:0.39
Consensus pattern (22 bp):
AATTGTTTTGATTAAGGGGGAG
Found at i:119601 original size:13 final size:13
Alignment explanation
Indices: 119583--119607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119573 AGAATGCACA
119583 GTATCGATACATT
1 GTATCGATACATT
119596 GTATCGATACAT
1 GTATCGATACAT
119608 GACCAAATGT
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:119620 original size:20 final size:21
Alignment explanation
Indices: 119595--119647 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
119585 ATCGATACAT
*
119595 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
119615 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
119636 TGTATCGATACA
1 TGTATCGATACA
119648 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:119725 original size:13 final size:13
Alignment explanation
Indices: 119707--119732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119697 TACACACAAG
119707 ATGTATCGATACA
1 ATGTATCGATACA
119720 ATGTATCGATACA
1 ATGTATCGATACA
119733 TGACCAAATT
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:122685 original size:20 final size:19
Alignment explanation
Indices: 122652--122710 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
122642 ACTGCCAAGG
**
122652 AAATGTATTGATACATTAAT
1 AAATGTATCAATACATT-AT
*
122672 AAATGTATCAATACATGTTT
1 AAATGTATCAATACAT-TAT
122692 ACAATTGTATCAATACATT
1 A-AA-TGTATCAATACATT
122711 TCTTATTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 16 0.48
21 4 0.12
22 13 0.39
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (19 bp):
AAATGTATCAATACATTAT
Found at i:129100 original size:154 final size:154
Alignment explanation
Indices: 128904--129279 Score: 492
Period size: 154 Copynumber: 2.4 Consensus size: 154
128894 CGGTTTTGTA
* * *
128904 AAAAAATTATGAAAATGCCCCTAGGGAATACTTTTGGCGTAAAAGTACTC-GATACCCCTAAAGG
1 AAAAAATTATGAAAATACCCCTAGGGGATACTTTTGACGTAAAAGTACTCAG-TACCCCTAAAGG
* * *
128968 ACTTAAAAAGG-T-TTGAAATGGGATGAACCTATCTTAAATGA-CCACCTTTGATATAAAAGCAG
65 ACTTAAAAAGGATAAT-AAATGGGATGAACCTATCCTAAAT-ATCCACCTTTG-TAGAAAAGCAG
* * * *
129030 ACTCGGTGACAACCTAAGAGTTTGTTCT
127 ACCCGATGACAACCTAAGACTTGGTTCT
* * *
129058 AAAAAATTATGAAAATACCCCTAGGGGATACCTTTAACGTAAAAGTACCCAGTACCCCTAAAGGA
1 AAAAAATTATGAAAATACCCCTAGGGGATACTTTTGACGTAAAAGTACTCAGTACCCCTAAAGGA
* *
129123 CTTAAAAAGGATAATAGATGGGATGAACCTATCCTAAATATCTACCTTTGTAGAAAAGCAGACCC
66 CTTAAAAAGGATAATAAATGGGATGAACCTATCCTAAATATCCACCTTTGTAGAAAAGCAGACCC
* *
129188 GATGACAACCTATGACTTGGTTTT
131 GATGACAACCTAAGACTTGGTTCT
* * * *
129212 GAAAAATTA-CAAAATACCCCTAAGGGATATTTTTGACGTAAAAGTACTCAGTACCCCTAAAGGA
1 AAAAAATTATGAAAATACCCCTAGGGGATACTTTTGACGTAAAAGTACTCAGTACCCCTAAAGGA
129276 CTTA
66 CTTA
129280 GGATAATGCT
Statistics
Matches: 194, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
153 53 0.27
154 108 0.56
155 32 0.16
156 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (154 bp):
AAAAAATTATGAAAATACCCCTAGGGGATACTTTTGACGTAAAAGTACTCAGTACCCCTAAAGGA
CTTAAAAAGGATAATAAATGGGATGAACCTATCCTAAATATCCACCTTTGTAGAAAAGCAGACCC
GATGACAACCTAAGACTTGGTTCT
Found at i:134744 original size:20 final size:20
Alignment explanation
Indices: 134719--134757 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
134709 TAAAAAAAAC
134719 AAAATGTATCGATACATTTA
1 AAAATGTATCGATACATTTA
* *
134739 AAAATGTATTGATATATTT
1 AAAATGTATCGATACATTT
134758 GGGTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAATGTATCGATACATTTA
Found at i:135248 original size:11 final size:11
Alignment explanation
Indices: 135228--135261 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
135218 TTTGCACCCC
*
135228 TTCTTGTTTTT
1 TTCTTTTTTTT
135239 TTC-TTTTTTT
1 TTCTTTTTTTT
135249 TTCTTTTTTTT
1 TTCTTTTTTTT
135260 TT
1 TT
135262 AAATTAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:135249 original size:10 final size:10
Alignment explanation
Indices: 135228--135260 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
135218 TTTGCACCCC
135228 TTCTTGTTTTT
1 TTCTT-TTTTT
135239 TTCTTTTTTT
1 TTCTTTTTTT
135249 TTCTTTTTTT
1 TTCTTTTTTT
135259 TT
1 TT
135261 TAAATTAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:136456 original size:21 final size:21
Alignment explanation
Indices: 136432--136485 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
136422 TAATATTCAT
* *
136432 GAAAAGAAAGTAAATGAGTTG
1 GAAAAGAAAATAAATGAGTTA
* *
136453 GAAAACAAAATAAGTGAGTTA
1 GAAAAGAAAATAAATGAGTTA
136474 GAAAATGAAAAT
1 GAAAA-GAAAAT
136486 GATGTGTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.22, T:0.19
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAGTTA
Found at i:137888 original size:20 final size:20
Alignment explanation
Indices: 137865--137914 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
137855 CATCTAGATA
137865 TATCGATACATATTGCTTTC
1 TATCGATACATATTGCTTTC
* * *
137885 TATCGATGCATGTTGCTTTG
1 TATCGATACATATTGCTTTC
*
137905 TATTGATACA
1 TATCGATACA
137915 CCATAAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
TATCGATACATATTGCTTTC
Found at i:138554 original size:34 final size:34
Alignment explanation
Indices: 138468--138629 Score: 169
Period size: 31 Copynumber: 4.9 Consensus size: 34
138458 AAAGTGATTG
* *
138468 AGAGGTGCTATCTTAG-CGGTTGAAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTG-TG-AAAAGATAGGGA
*
138503 GAAAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA
1 -AGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA
*
138538 AGAGGTTCTATGTTAGCCTGTGAAAAGATA-GG-
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA
* *
138570 -GAGGTTCTATCTTATCTTGTGAAAAGATAGGG-
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA
* *
138602 A-A-GTTCTATCTTAG-CTTTTAAAAGATAG
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAG
138630 TGTTGTAAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
30 11 0.10
31 37 0.33
32 3 0.03
33 2 0.02
34 28 0.25
35 12 0.11
36 16 0.14
37 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA
Found at i:139885 original size:13 final size:13
Alignment explanation
Indices: 139867--139892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139857 TACAGCAAGT
139867 ATGTATCGATACA
1 ATGTATCGATACA
139880 ATGTATCGATACA
1 ATGTATCGATACA
139893 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:142150 original size:21 final size:21
Alignment explanation
Indices: 142112--142156 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
142102 TTGCAAGTTG
*
142112 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
142134 AAATAATGAA-TTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
142154 AAA
1 AAA
142157 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 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:143980 original size:15 final size:15
Alignment explanation
Indices: 143960--143990 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
143950 TAAAAATGTC
*
143960 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
143975 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
143990 C
1 C
143991 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:146065 original size:20 final size:20
Alignment explanation
Indices: 145986--146065 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
145976 AATGTCCAAA
*
145986 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
146006 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
146031 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
146051 TTGTATCGATACATT
1 ATGTATCGATACATT
146066 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:146069 original size:13 final size:13
Alignment explanation
Indices: 146051--146089 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
146041 ACATTTTTCT
146051 TTGTATCGATACA
1 TTGTATCGATACA
146064 TTGTATCGATACA
1 TTGTATCGATACA
*
146077 CTGTATCGATACA
1 TTGTATCGATACA
146090 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:146234 original size:21 final size:21
Alignment explanation
Indices: 146210--146256 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
146200 AAATCTTTTG
146210 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
146231 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
146251 CAAAAT
1 CAAAAT
146257 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:146253 original size:20 final size:19
Alignment explanation
Indices: 146212--146254 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
146202 ATCTTTTGCA
146212 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
146232 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
146252 AAA
1 AAA
146255 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:148626 original size:13 final size:13
Alignment explanation
Indices: 148608--148633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148598 TACAGCAAGT
148608 ATGTATCGATACA
1 ATGTATCGATACA
148621 ATGTATCGATACA
1 ATGTATCGATACA
148634 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:150464 original size:27 final size:26
Alignment explanation
Indices: 150429--150494 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
150419 TAGACCCCAA
* * *
150429 TTGATGTTGACCATTGATCATTGACT
1 TTGACGTTGACCATTCATAATTGACT
* *
150455 TTGAACGTTGATCGTTCATAATTGACT
1 TTG-ACGTTGACCATTCATAATTGACT
*
150482 TTGACTTTGACCA
1 TTGACGTTGACCA
150495 AAAATAGGCT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (26 bp):
TTGACGTTGACCATTCATAATTGACT
Found at i:151559 original size:13 final size:13
Alignment explanation
Indices: 151541--151566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
151531 CAATTTTTTG
151541 TGTATCGATACAT
1 TGTATCGATACAT
151554 TGTATCGATACAT
1 TGTATCGATACAT
151567 ACTTGCTGTA
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:151631 original size:21 final size:21
Alignment explanation
Indices: 151605--151680 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
151595 CTGCCAAGAA
*
151605 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
151626 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
151646 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
151667 ATGTATCGATACAT
1 ATGTATCGATACAT
151681 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:151651 original size:20 final size:20
Alignment explanation
Indices: 151626--151698 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
151616 CATCTTTTTT
151626 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
151646 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
151667 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
151687 ATGTATCGATAC
1 ATGTATCGATAC
151699 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:151662 original size:41 final size:41
Alignment explanation
Indices: 151605--151698 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
151595 CTGCCAAGAA
*
151605 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
151646 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
151687 ATGTATCGATAC
1 ATGTATCGATAC
151699 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:153188 original size:13 final size:13
Alignment explanation
Indices: 153169--153207 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
153159 AATAATCACC
153169 CTGTATCGATACA
1 CTGTATCGATACA
*
153182 GTGTATCGATACA
1 CTGTATCGATACA
153195 CTGTATCGATACA
1 CTGTATCGATACA
153208 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:153221 original size:20 final size:20
Alignment explanation
Indices: 153196--153272 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
153186 ATCGATACAC
153196 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
153216 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
*
153241 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
153261 TGTATCGATACA
1 TGTATCGATACA
153273 TTTTGGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:155308 original size:15 final size:15
Alignment explanation
Indices: 155288--155318 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
155278 ATTTCGTTTG
*
155288 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
155303 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
155318 G
1 G
155319 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:159398 original size:13 final size:13
Alignment explanation
Indices: 159380--159405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
159370 CAATTTTTTG
159380 TGTATCGATACAT
1 TGTATCGATACAT
159393 TGTATCGATACAT
1 TGTATCGATACAT
159406 ACTTGCTGTA
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:159470 original size:21 final size:21
Alignment explanation
Indices: 159444--159519 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
159434 CTGCCAAGAA
*
159444 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
159465 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
159485 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
159506 ATGTATCGATACAT
1 ATGTATCGATACAT
159520 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:159490 original size:20 final size:20
Alignment explanation
Indices: 159465--159537 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
159455 CATCTTTTTT
159465 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
159485 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
159506 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
159526 ATGTATCGATAC
1 ATGTATCGATAC
159538 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:159501 original size:41 final size:41
Alignment explanation
Indices: 159444--159537 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
159434 CTGCCAAGAA
*
159444 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
159485 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
159526 ATGTATCGATAC
1 ATGTATCGATAC
159538 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:160046 original size:32 final size:33
Alignment explanation
Indices: 159985--160046 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
159975 ACACATCCAG
*
159985 ATGTATTGATACATTATGCTTTGTATCGATTCA
1 ATGTATTGATACATTATGCATTGTATCGATTCA
160018 ATGTATTGATACATGT-T-CATTGTATCGAT
1 ATGTATTGATACAT-TATGCATTGTATCGAT
160047 ACACACTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 11 0.41
33 15 0.56
34 1 0.04
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (33 bp):
ATGTATTGATACATTATGCATTGTATCGATTCA
Found at i:161721 original size:3 final size:3
Alignment explanation
Indices: 161713--161739 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
161703 AACCATTAAA
161713 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
161740 AAAGTTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:168879 original size:21 final size:21
Alignment explanation
Indices: 168831--168886 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
168821 CCTTTGGGCA
** *
168831 CAATGTATCGATACTTTTTAC
1 CAATGTATCGATACAATGTAC
*
168852 C-ATGTATCGATACAATGTCC
1 CAATGTATCGATACAATGTAC
*
168872 CAATGTATCAATACA
1 CAATGTATCGATACA
168887 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (21 bp):
CAATGTATCGATACAATGTAC
Found at i:169517 original size:21 final size:21
Alignment explanation
Indices: 169492--169533 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
169482 TTTCAATAAA
169492 CTCCCCCTTAATAAAATAATT
1 CTCCCCCTTAATAAAATAATT
* *
169513 CTCCCCCTTGATAGAATAATT
1 CTCCCCCTTAATAAAATAATT
169534 AAAGCTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (21 bp):
CTCCCCCTTAATAAAATAATT
Found at i:169576 original size:19 final size:20
Alignment explanation
Indices: 169554--169594 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
169544 TTTTAAAATG
169554 ATTTTCTCC-CCTTTGTCAA
1 ATTTTCTCCTCCTTTGTCAA
169573 ATTTTCTCCTCCTTTGTCAA
1 ATTTTCTCCTCCTTTGTCAA
169593 AT
1 AT
169595 GCCAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.17, C:0.29, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTTCTCCTCCTTTGTCAA
Found at i:169673 original size:23 final size:22
Alignment explanation
Indices: 169643--169686 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
169633 TTATAGCAAA
*
169643 GAACGAGATCAAGAGAGATATAG
1 GAACGAGATCAACA-AGATATAG
169666 GAACGAGATCAACAAGATATA
1 GAACGAGATCAACAAGATATA
169687 TTGCATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.50, C:0.11, G:0.25, T:0.14
Consensus pattern (22 bp):
GAACGAGATCAACAAGATATAG
Found at i:177387 original size:13 final size:13
Alignment explanation
Indices: 177369--177398 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
177359 ACTTTTTACC
177369 ATGTATCGACACA
1 ATGTATCGACACA
*
177382 ATGTATCGATACA
1 ATGTATCGACACA
177395 ATGT
1 ATGT
177399 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTATCGACACA
Found at i:177404 original size:33 final size:33
Alignment explanation
Indices: 177345--177410 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
177335 TGCCGTTGGG
** *
177345 CACAATGTATCGATACTTTTTACCATGTATCGA
1 CACAATGTATCGATACAATGTACCATGTATCGA
*
177378 CACAATGTATCGATACAATGTCCCATGTATCGA
1 CACAATGTATCGATACAATGTACCATGTATCGA
177411 TACATTTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (33 bp):
CACAATGTATCGATACAATGTACCATGTATCGA
Found at i:177481 original size:19 final size:19
Alignment explanation
Indices: 177443--177497 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
177433 CTGTCAGTTT
177443 CATGTATCGATACAAATGAG
1 CATGTATCGATAC-AATGAG
* *
177463 TATGTATCGATGCAATGAG
1 CATGTATCGATACAATGAG
177482 CATGTATCGATACAAT
1 CATGTATCGATACAAT
177498 ATATCGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:177870 original size:40 final size:40
Alignment explanation
Indices: 177826--177926 Score: 175
Period size: 40 Copynumber: 2.5 Consensus size: 40
177816 TAACAAAAAG
177826 GGGGAGAAATTTTTGAAAATAAATTTGACATTTGACAAAC
1 GGGGAGAAATTTTTGAAAATAAATTTGACATTTGACAAAC
*
177866 GGGGAGAAATTTTTGAAAATAAATTTGACATTTGACAAAG
1 GGGGAGAAATTTTTGAAAATAAATTTGACATTTGACAAAC
*
177906 GGGGAGAAATTATTGAGAAAT
1 GGGGAGAAATTTTTGA-AAAT
177927 TATTTTATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 54 0.93
41 4 0.07
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.29
Consensus pattern (40 bp):
GGGGAGAAATTTTTGAAAATAAATTTGACATTTGACAAAC
Found at i:180748 original size:20 final size:20
Alignment explanation
Indices: 180723--180775 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
180713 GTTACAAGCT
*
180723 ATGTATCGATACATT-TCTTC
1 ATGTATCGATACATTGTC-CC
180743 ATGTATCGATACATTGTCCC
1 ATGTATCGATACATTGTCCC
180763 ATGTATCGATACA
1 ATGTATCGATACA
180776 AATAGTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTCCC
Found at i:181448 original size:19 final size:19
Alignment explanation
Indices: 181377--181448 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 19
181367 GTTTTCGTTT
181377 TTCTCCCCCTTAAAAAAAATA
1 TTCTCCCCCTT-AAAAAAA-A
*
181398 TTCTCCCCCTT--AAACAA
1 TTCTCCCCCTTAAAAAAAA
* *
181415 TTATCTCCTCTTAAAAAAAA
1 TTCTC-CCCCTTAAAAAAAA
181435 TTCTCCCCCTTAAA
1 TTCTCCCCCTTAAA
181449 TGATTATCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
19 8 0.19
20 9 0.21
21 11 0.26
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (19 bp):
TTCTCCCCCTTAAAAAAAA
Found at i:181476 original size:18 final size:19
Alignment explanation
Indices: 181453--181491 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
181443 CTTAAATGAT
181453 TATCTTCTCCCC-TTTTTA
1 TATCTTCTCCCCATTTTTA
181471 TATCTTCTCCCCATTTTTA
1 TATCTTCTCCCCATTTTTA
181490 TA
1 TA
181492 AAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (19 bp):
TATCTTCTCCCCATTTTTA
Found at i:183355 original size:13 final size:13
Alignment explanation
Indices: 183337--183365 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
183327 AAATAATACC
183337 CAATGTATCGATA
1 CAATGTATCGATA
183350 CAATGTATCGATA
1 CAATGTATCGATA
183363 CAA
1 CAA
183366 GGAATGTTGT
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:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:190091 original size:52 final size:51
Alignment explanation
Indices: 190006--190129 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
189996 ATATGAAAAG
* * * *
190006 TTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAA
190057 TTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAA
190109 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
190130 AAGATCACTG
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 21 0.31
52 47 0.69
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAA
Found at i:190142 original size:51 final size:52
Alignment explanation
Indices: 190006--190149 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
189996 ATATGAAAAG
* *** * *
190006 TTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACAAGATAAAATGTATCGATACATCTGGGCAAAT
**
190058 TTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACAAGATAAAATGTATCGATACATCTGGGCAAAT
* *
190109 TTGCCTGCATGTATCGATACAAAGAT-CACTGTATCGATACA
1 TTGCCTGCATGTATCGATAC-AAGATAAAATGTATCGATACA
190150 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 33 0.40
52 50 0.60
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACAAGATAAAATGTATCGATACATCTGGGCAAAT
Found at i:190156 original size:13 final size:13
Alignment explanation
Indices: 190138--190162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190128 CAAAGATCAC
190138 TGTATCGATACAA
1 TGTATCGATACAA
190151 TGTATCGATACA
1 TGTATCGATACA
190163 TTTGAGTAAT
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:190240 original size:33 final size:33
Alignment explanation
Indices: 190203--190269 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
190193 AGTAGCTTAA
190203 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
190236 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
190269 A
1 A
190270 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:190243 original size:13 final size:13
Alignment explanation
Indices: 190225--190249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190215 CAAAAAAATA
190225 TGTATCGATACAT
1 TGTATCGATACAT
190238 TGTATCGATACA
1 TGTATCGATACA
190250 ACATTTTATG
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:192817 original size:20 final size:20
Alignment explanation
Indices: 192792--192844 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
192782 GTTACAAGCT
192792 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
192812 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
192832 ATGTATCGATACA
1 ATGTATCGATACA
192845 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:192916 original size:32 final size:33
Alignment explanation
Indices: 192875--192939 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
192865 TGCCAGTTTC
*
192875 ATGTATCGATACAATG-AACATGGATCGATACA
1 ATGTATCGATACAAAGCAACATGGATCGATACA
* *
192907 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGGATCGATACA
192940 TCTGGGTGTG
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:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGGATCGATACA
Found at i:194330 original size:27 final size:27
Alignment explanation
Indices: 194300--194357 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
194290 CATTTGCACT
* *
194300 TTTAAAGATGTCCGATTAAGGTAAGGC
1 TTTAAAGATGTCCAATTAAGGCAAGGC
* *
194327 TTTAAAGATGTCTAATTGAGGCAAGGC
1 TTTAAAGATGTCCAATTAAGGCAAGGC
194354 TTTA
1 TTTA
194358 TATGTCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (27 bp):
TTTAAAGATGTCCAATTAAGGCAAGGC
Found at i:197213 original size:16 final size:16
Alignment explanation
Indices: 197192--197225 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
197182 TTAAGTAAAA
197192 AATTTTTCTCCCCCTT
1 AATTTTTCTCCCCCTT
*
197208 AATTTTTCTCTCCCTT
1 AATTTTTCTCCCCCTT
197224 AA
1 AA
197226 AAAATATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTTTCTCCCCCTT
Found at i:202315 original size:13 final size:13
Alignment explanation
Indices: 202297--202322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
202287 CAATTTTTTG
202297 TGTATCGATACAT
1 TGTATCGATACAT
202310 TGTATCGATACAT
1 TGTATCGATACAT
202323 ACTTGCTGTA
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:207526 original size:32 final size:34
Alignment explanation
Indices: 207485--207571 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 34
207475 ACTATCTTTC
207485 AAGGCTAAGATAGAAACCTC-C-CTATCTTTT-CA
1 AAGGCTAAGATAG-AACCTCTCTCTATCTTTTACA
**
207517 CGGGCTAAGATAGAACCTTTCTCTCTATCTTTTACA
1 AAGGCTAAGATAGAACC--TCTCTCTATCTTTTACA
207553 AAGGCTAAGATAGAACCTC
1 AAGGCTAAGATAGAACCTC
207572 AAAATCACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 4 0.09
32 11 0.24
33 2 0.04
34 3 0.07
35 9 0.20
36 17 0.37
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (34 bp):
AAGGCTAAGATAGAACCTCTCTCTATCTTTTACA
Found at i:210038 original size:13 final size:13
Alignment explanation
Indices: 210020--210045 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
210010 ACATTAAAAT
210020 TATATCGATATAA
1 TATATCGATATAA
210033 TATATCGATATAA
1 TATATCGATATAA
210046 ATTTGATTGT
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TATATCGATATAA
Done.