Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2105
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: 39545
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.39
Found at i:1181 original size:23 final size:23
Alignment explanation
Indices: 1155--1205 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1145 TTTCGTCTTT
*
1155 TTCTGCTTTGGGCTTCTTT-GTCC
1 TTCTGCTTTGCGCTT-TTTCGTCC
*
1178 TTCTGCTTTTCGCTTTTTCGTCC
1 TTCTGCTTTGCGCTTTTTCGTCC
1201 TTCTG
1 TTCTG
1206 TTCGGGCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.00, C:0.27, G:0.18, T:0.55
Consensus pattern (23 bp):
TTCTGCTTTGCGCTTTTTCGTCC
Found at i:1290 original size:24 final size:23
Alignment explanation
Indices: 1226--1290 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
1216 CTGCCCTTCG
* *
1226 TCTTTTCGGCTCTTTTCCTCTTTC
1 TCTTTTCGGGTC-TTTCGTCTTTC
* * *
1250 TCCTTTGGGGTCCTTCGTCTTTC
1 TCTTTTCGGGTCTTTCGTCTTTC
1273 TGCTTTTCGGGTCTTTCG
1 T-CTTTTCGGGTCTTTCG
1291 CCCCTTTGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.00, C:0.29, G:0.18, T:0.52
Consensus pattern (23 bp):
TCTTTTCGGGTCTTTCGTCTTTC
Found at i:1315 original size:28 final size:28
Alignment explanation
Indices: 1270--1329 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
1260 TCCTTCGTCT
* *
1270 TTCTGCTTTTCGGGTCTTTCGCCCCTTTG
1 TTCTGCTTCTCGGCTC-TTCGCCCCTTTG
* *
1299 TTCTG-TTCTCGGCTCTTCGCCCTTTTT
1 TTCTGCTTCTCGGCTCTTCGCCCCTTTG
1326 TTCT
1 TTCT
1330 TTTCGGTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 14 0.52
28 8 0.30
29 5 0.19
ACGTcount: A:0.00, C:0.32, G:0.17, T:0.52
Consensus pattern (28 bp):
TTCTGCTTCTCGGCTCTTCGCCCCTTTG
Found at i:1329 original size:27 final size:25
Alignment explanation
Indices: 1277--1340 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
1267 TCTTTCTGCT
*
1277 TTTCGGGTCTTTCGCCCCTTTGTTCTG
1 TTTC-GGTC-TTCGCCCCTTTTTTCTG
*
1304 TTCTCGGCTCTTCGCCCTTTTTTTCT-
1 TT-TCGG-TCTTCGCCCCTTTTTTCTG
1330 TTTCGGTCTTC
1 TTTCGGTCTTC
1341 TCTTTGTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 5 0.15
25 4 0.12
26 2 0.06
27 18 0.55
28 4 0.12
ACGTcount: A:0.00, C:0.31, G:0.17, T:0.52
Consensus pattern (25 bp):
TTTCGGTCTTCGCCCCTTTTTTCTG
Found at i:2830 original size:1 final size:1
Alignment explanation
Indices: 2826--2879 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
2816 TTTGCCTTTC
* * * * *
2826 TTTTTTTTTTTTTTTTTTCTTCTTTTTTGTTTTTTTTGTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2880 CCGCCCCGCC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.91
Consensus pattern (1 bp):
T
Found at i:2844 original size:19 final size:19
Alignment explanation
Indices: 2822--2879 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
2812 GTTTTTTGCC
2822 TTTCTTTTTTTTTTTTTTT
1 TTTCTTTTTTTTTTTTTTT
* *
2841 TTTCTTCTTTTTTGTTTTT
1 TTTCTTTTTTTTTTTTTTT
*
2860 TTTGTTTTTTTTTTGTTTTT
1 TTTCTTTTTTTTTT-TTTTT
2880 CCGCCCCGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.90
Consensus pattern (19 bp):
TTTCTTTTTTTTTTTTTTT
Found at i:9119 original size:32 final size:34
Alignment explanation
Indices: 9059--9121 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
9049 TTCCCCTCCG
*
9059 CCCCTCCTTTTTCTTTTCTTTTTCTTTTCGTGCT
1 CCCCTCCTCTTTCTTTTCTTTTTCTTTTCGTGCT
9093 CCCCT-CTCTTTC-TTTCTTCTTT-TTTTCGT
1 CCCCTCCTCTTTCTTTTCTT-TTTCTTTTCGT
9122 TCTCTTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 13 0.48
33 9 0.33
34 5 0.19
ACGTcount: A:0.00, C:0.33, G:0.05, T:0.62
Consensus pattern (34 bp):
CCCCTCCTCTTTCTTTTCTTTTTCTTTTCGTGCT
Found at i:10224 original size:30 final size:30
Alignment explanation
Indices: 10188--10244 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10178 CCCTTCCGCT
10188 CCTCCTCTTTCTTTCTT-TTTCTTTCGTGCC
1 CCTCCTCTTTC-TTCTTCTTTCTTTCGTGCC
*
10218 CCTCCTCTTTCTTCTTCTTTTTTTCGT
1 CCTCCTCTTTCTTCTTCTTTCTTTCGT
10245 CTTTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.00, C:0.35, G:0.05, T:0.60
Consensus pattern (30 bp):
CCTCCTCTTTCTTCTTCTTTCTTTCGTGCC
Found at i:11418 original size:13 final size:13
Alignment explanation
Indices: 11387--11430 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
11377 TCTTTCTTTC
*
11387 TTTCTTTTTTCGTT
1 TTTCCTTTTTC-TT
*
11401 CTTCCTTTTTCTT
1 TTTCCTTTTTCTT
*
11414 TTTCCTCTTTCTT
1 TTTCCTTTTTCTT
11427 TTTC
1 TTTC
11431 TTCCTGGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTCCTTTTTCTT
Found at i:12769 original size:22 final size:22
Alignment explanation
Indices: 12744--12789 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12734 TCCTTCTCTG
*
12744 CCCCTTTCCTGCTCTCT-TCCCC
1 CCCCTTCCCT-CTCTCTCTCCCC
*
12766 CCCCTTCCCTCTGTCTCTCCCC
1 CCCCTTCCCTCTCTCTCTCCCC
12788 CC
1 CC
12790 TGGTGCCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.00, C:0.63, G:0.04, T:0.33
Consensus pattern (22 bp):
CCCCTTCCCTCTCTCTCTCCCC
Found at i:13938 original size:21 final size:21
Alignment explanation
Indices: 13914--13953 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13904 CTTCTCCCTC
13914 CGCCACCTCCCCCCCTTTTTT
1 CGCCACCTCCCCCCCTTTTTT
* * *
13935 CGCCGCGTCGCCCCCTTTT
1 CGCCACCTCCCCCCCTTTT
13954 CTTTGCCCCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.03, C:0.55, G:0.12, T:0.30
Consensus pattern (21 bp):
CGCCACCTCCCCCCCTTTTTT
Found at i:14041 original size:20 final size:20
Alignment explanation
Indices: 14013--14056 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
14003 CTCCCTGCCC
14013 CCCCTTCTTCCTCTGCCTTCT
1 CCCCTTCTT-CTCTGCCTTCT
* *
14034 CCCC-TCTTTTCTGCCTTTT
1 CCCCTTCTTCTCTGCCTTCT
14053 CCCC
1 CCCC
14057 CCCTTCCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 4 0.19
21 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.05, T:0.43
Consensus pattern (20 bp):
CCCCTTCTTCTCTGCCTTCT
Found at i:15895 original size:14 final size:15
Alignment explanation
Indices: 15872--15900 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15862 TGCTTTTTCG
15872 CCCCCTTCCCCCTTT
1 CCCCCTTCCCCCTTT
15887 CCCCC-TCCCCCTTT
1 CCCCCTTCCCCCTTT
15901 GTCTGCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (15 bp):
CCCCCTTCCCCCTTT
Found at i:16787 original size:21 final size:21
Alignment explanation
Indices: 16763--16804 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16753 CTCCCTCTCG
*
16763 CCCCCCCTGTGTCTTGGCTTT
1 CCCCCCCGGTGTCTTGGCTTT
* *
16784 CCCCCTCGGTGTCTTGTCTTT
1 CCCCCCCGGTGTCTTGGCTTT
16805 TTGTTCCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.40, G:0.19, T:0.40
Consensus pattern (21 bp):
CCCCCCCGGTGTCTTGGCTTT
Found at i:17077 original size:16 final size:16
Alignment explanation
Indices: 17057--17095 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
17047 TTTGCCCCCT
17057 TTTTTTTCTGCC-TTC
1 TTTTTTTCTGCCTTTC
*
17072 TGTTTTTTTTGCCTTTC
1 T-TTTTTTCTGCCTTTC
17089 TTTTTTT
1 TTTTTTT
17096 GCCCTCCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.76
17 4 0.19
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (16 bp):
TTTTTTTCTGCCTTTC
Found at i:17079 original size:17 final size:15
Alignment explanation
Indices: 17057--17095 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17047 TTTGCCCCCT
*
17057 TTTTTTTCTGCCTTCTG
1 TTTTTTT-TGCCTT-TC
17074 TTTTTTTTGCCTTTC
1 TTTTTTTTGCCTTTC
17089 TTTTTTT
1 TTTTTTT
17096 GCCCTCCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (15 bp):
TTTTTTTTGCCTTTC
Found at i:17926 original size:21 final size:20
Alignment explanation
Indices: 17894--17932 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17884 TGTTGCTTCC
* *
17894 TTGGGTTCCCTTTTCCGCCT
1 TTGGGGTCCCTTTGCCGCCT
17914 TTGGGGTCTCCTTTGCCGC
1 TTGGGGTC-CCTTTGCCGC
17933 GCTTGCGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.00, C:0.33, G:0.26, T:0.41
Consensus pattern (20 bp):
TTGGGGTCCCTTTGCCGCCT
Found at i:18214 original size:19 final size:20
Alignment explanation
Indices: 18192--18230 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
18182 GGGCTTTTTT
18192 TTCTTTTCCTTC-CTCCCTC
1 TTCTTTTCCTTCTCTCCCTC
18211 TTCTTTTCCTTCTCTCCCTC
1 TTCTTTTCCTTCTCTCCCTC
18231 GTTTCCCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (20 bp):
TTCTTTTCCTTCTCTCCCTC
Found at i:19785 original size:16 final size:16
Alignment explanation
Indices: 19761--19800 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
19751 AGCTTCCTGC
*
19761 CTCCCTCCCCTTTTCT
1 CTCCTTCCCCTTTTCT
19777 CTCCTTCCCCCTTTTCT
1 CTCCTT-CCCCTTTTCT
*
19794 CTTCTTC
1 CTCCTTC
19801 TTGCTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (16 bp):
CTCCTTCCCCTTTTCT
Found at i:19789 original size:17 final size:17
Alignment explanation
Indices: 19767--19800 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19757 CTGCCTCCCT
19767 CCCCTTTTCTCTCCTTC
1 CCCCTTTTCTCTCCTTC
*
19784 CCCCTTTTCTCTTCTTC
1 CCCCTTTTCTCTCCTTC
19801 TTGCTTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (17 bp):
CCCCTTTTCTCTCCTTC
Found at i:20127 original size:1 final size:1
Alignment explanation
Indices: 20121--20154 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
20111 CTTCTCTTCT
* *
20121 CCCCCCCCCCCTCCCCCGCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
20155 TTCCCTCCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.94, G:0.03, T:0.03
Consensus pattern (1 bp):
C
Found at i:21008 original size:153 final size:153
Alignment explanation
Indices: 20768--21054 Score: 391
Period size: 153 Copynumber: 1.9 Consensus size: 153
20758 GCTTATGCTG
* **
20768 GAAGGTGGGTATTTCTAGGATAGGTTCATCCCATCTATAATCCTTTTAAGTCTTTTAAGGGTATC
1 GAAGGTGGGTATTTCTAGGATAGGTTCATCCCATCTACAATCCTTTTAAGTCCCTTAAGGGTATC
* * * *
20833 GGCACTTCTAAGTCGAATGTATCCCTTAAGGGCA-TTTCATAATTTTCATAATCGAGTCCTAGGT
66 GGCACTTCTAAGTCGAAGGTATCCCCTAAGGGCATTTTCATAATTTT-AGAATCGAATCCTAGGT
*
20897 TATCATCGGGTTCGCTTTTATGCC
130 CATCATCGGGTTCGCTTTTATGCC
* * *
20921 GAAGGTGGGTA-TT-TAGGATAGGTTGATCCCATCTACCATCCTTTTTAAGTCCCTTAGGGGTAT
1 GAAGGTGGGTATTTCTAGGATAGGTTCATCCCATCTACAATCC-TTTTAAGTCCCTTAAGGGTAT
* * * *
20984 CGGTCACTTCTAAGTTGAAGGTATCCCCTAAGGTCATTTTCGTAATTTTAGAATCGAATCTTAGG
65 CGG-CACTTCTAAGTCGAAGGTATCCCCTAAGGGCATTTTCATAATTTTAGAATCGAATCCTAGG
21049 TCATCA
129 TCATCA
21055 CTCTTACACC
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
151 25 0.22
152 23 0.20
153 57 0.49
154 11 0.09
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (153 bp):
GAAGGTGGGTATTTCTAGGATAGGTTCATCCCATCTACAATCCTTTTAAGTCCCTTAAGGGTATC
GGCACTTCTAAGTCGAAGGTATCCCCTAAGGGCATTTTCATAATTTTAGAATCGAATCCTAGGTC
ATCATCGGGTTCGCTTTTATGCC
Found at i:22470 original size:139 final size:137
Alignment explanation
Indices: 22192--22461 Score: 305
Period size: 139 Copynumber: 1.9 Consensus size: 137
22182 TTTAGGATAT
* *
22192 GTTCATCCCATCTATAATCCTTTTTAAGTCTTTTAAGGGTATCAGGCACTTCTAAGTCGAATGTA
1 GTTCATCCCATCTACAATCCTTTTTAAGTCTTTTAAGGGTATCAGGCACTTCTAAGTCGAAGGTA
* * * * ****
22257 TCCCTTAAGGCATTTTCATAATTTTTCATAATCGAGTCCTAGGTTATCATCAGGTTCGCTTTTAT
66 TCCCCTAAGGCATTTTCATAATTTTTCAGAATCGAATCCTAGGTTATCATC--GTTCCCAAAGAT
22322 GCCGAATAG
129 GCCGAATAG
* * *
22331 GTTCATCCCATCTACCATCCTTTTTAAGTCTTTTAGGGGTATC-GGTCACTTCTAAGTTGAAGGT
1 GTTCATCCCATCTACAATCCTTTTTAAGTCTTTTAAGGGTATCAGG-CACTTCTAAGTCGAAGGT
** *
22395 ATCCCCTAAGGTCATTTTTGTAA-TTTT-AGAATCGAATCTTAGGTTATCACTC-TTACACCAAA
65 ATCCCCTAAGG-CATTTTCATAATTTTTCAGAATCGAATCCTAGGTTATCA-TCGTT-C-CCAAA
22457 GATGC
126 GATGC
22462 ACATATAGGA
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
136 2 0.02
137 1 0.01
138 26 0.24
139 72 0.65
140 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (137 bp):
GTTCATCCCATCTACAATCCTTTTTAAGTCTTTTAAGGGTATCAGGCACTTCTAAGTCGAAGGTA
TCCCCTAAGGCATTTTCATAATTTTTCAGAATCGAATCCTAGGTTATCATCGTTCCCAAAGATGC
CGAATAG
Found at i:23589 original size:150 final size:149
Alignment explanation
Indices: 23217--23805 Score: 539
Period size: 155 Copynumber: 3.9 Consensus size: 149
23207 CTTCTAGAAC
* * * * *
23217 TGAGTCCTAAGTTGTCATCGGGTCCGCTTTATGCCGAGGGTGGGTATTTAGGATAGGTTTATTCC
1 TGAGTCCTAGGTTGTCATCGGGTCCGTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCC
** * * *
23282 ATCTATAAT-CTTTTTAAGTCCTTTAAGTTTACCGGGATACGTT-TAAGTCGAAGGTATCCCT-A
66 ATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGA-A-TTTCTAAGTCGAAGGTATCCCTAA
*
23344 GGGGCATTTTTGTAATATTTTTAGAA
129 GGGGC-TTTTT-T-ATAATTTT--AA
* * * * * *
23370 CCGAGTCTTAGGTTGTCA-CTGGGTCTGGTTTTATGCTGAAGGTGGGTATTTAGGACAGGCTCAT
1 -TGAGTCCTAGGTTGTCATC-GGGTC-CGTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCAT
* * * * * *
23434 CCCATCTATAATCCTTTTTAATTCCTTTAGGGGTATCAGGCATTTCAAAGTCAAAGGTATCTCTA
63 CCCATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGAATTTCTAAGTCGAAGGTATCCCTA
23499 AGGGGCTTTTTTATAATTTTAA
128 AGGGGCTTTTTTATAATTTTAA
* * * *
23521 TGAGTCCTAGGTTGTTA-CTGGGTCCGTTTCTATGCTGAAGGTGAGTATTTAGGATAGGTTCATT
1 TGAGTCCTAGGTTGTCATC-GGGTCCGTTT-TATGCCGAAGGTGGGTATTTAGGATAGGTTCATC
* * * *
23585 CCATCTATAATCCTTTTTAAGTCTTTTAAGGGTATCGGGAACTTCTAAGTCGAATGTATCCCTTA
64 CCATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGAATTTCTAAGTCGAAGGTATCCC-TA
* *
23650 A-GGGCATTTTCATAATTTTTCATAA
128 AGGGGCTTTTTTATAA--TTT--TAA
* *
23675 TCGAGTCCTAGGTTATCATCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATC
1 T-GAGTCCTAGGTTGTCATCGGGTCCG-TTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATC
** * * * * *
23740 CCA--TACCATCCTTTTTTAAGTCCATTAAGGGTGTC-GGTCACTTCTAAGTTGAAGGTATCCCC
64 CCATCTATAATCC-TTTTTAAGTCCTTTAAGGGTATCAGG-AATTTCTAAGTCGAAGGTAT-CCC
23802 TAAG
126 TAAG
23806 CTCATTTTCG
Statistics
Matches: 360, Mismatches: 57, Indels: 35
0.80 0.13 0.08
Matches are distributed among these distances:
149 4 0.01
150 115 0.32
151 5 0.01
152 3 0.01
153 16 0.04
154 66 0.18
155 120 0.33
156 31 0.09
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (149 bp):
TGAGTCCTAGGTTGTCATCGGGTCCGTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCC
ATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGAATTTCTAAGTCGAAGGTATCCCTAAGG
GGCTTTTTTATAATTTTAA
Found at i:24966 original size:150 final size:153
Alignment explanation
Indices: 24624--25245 Score: 511
Period size: 150 Copynumber: 4.1 Consensus size: 153
24614 CTTCTAGAAC
* * * * * * *
24624 CGAGTCCTAAGTTGTCA-TCGGGTCCGCTT-TATGCCGAGGGTGGGTAATTAGGATAGGTTTATT
1 CGAGTCCTAGGTTGTCACT-GGGTCCGTTTCTATGCTGAAGGTGGGTATTTAGGATAGGTTCATC
** * * * *
24687 CCATCTATAAT-C-TTTTAAGTCCTTTAAGTTTACCGGGATACGTT-TAAGTCGAAGGTATCCC-
65 CCATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGA-AC-TTCAAAGTCAAAGGTATCCCT
* * * * *
24748 TAGGGGCATTTTTGTAATATTTTTAGAAC
128 TAAGGGCA--TTT-TCATAATTTTATAAT
* * * *
24777 CGAGTCTTAGGTTGTCACTGGGTCTGGTTT-TATGCTGAAGGTGGGTATTTAGGACAGGCTCATC
1 CGAGTCCTAGGTTGTCACTGGGTC-CGTTTCTATGCTGAAGGTGGGTATTTAGGATAGGTTCATC
* * * * *
24841 CCATCTATAATCCTTTTTAATTCCTTTAGGGGTATCAGGCATTTCAAAGTCAAAGGTATCTC-TA
65 CCATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGAACTTCAAAGTCAAAGGTATCCCTTA
* *
24905 AGGGGCTTTTTTATAA-TTT-TAAT
130 A-GGGCATTTTCATAATTTTATAAT
* * *
24928 -GAGTCCTAGGTTGTTACTGGGTCCGTTTCTATGCTGAAGGTGAGTATTTAGGATAGGTTCATTC
1 CGAGTCCTAGGTTGTCACTGGGTCCGTTTCTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCC
* * * * *
24992 CATCTATAATCCTTTTTAAGTCTTTTAAGGGTATCGGGAACTTCTAAGTCGAATGTATCCCTTAA
66 CATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGAACTTCAAAGTCAAAGGTATCCCTTAA
25057 GGGCATTTTCATAATTTTTCATAAT
131 GGGCATTTTCATAA-TTTT-ATAAT
* * *
25082 CGAGTCCTAGGTTATCA-TCGGGTTCGCTTTC-ATGCCGAAGGTGGGTATTTAGGATAGGTTCAT
1 CGAGTCCTAGGTTGTCACT-GGGTCCG-TTTCTATGCTGAAGGTGGGTATTTAGGATAGGTTCAT
** * * * * **
25145 CCCA--TACCATCCTTTTTTAAGTCCATTAAGGGTGTC-GGTCACTTCTAAGTTGAAGGTATCCC
64 CCCATCTATAATCC-TTTTTAAGTCCTTTAAGGGTATCAGG-AACTTCAAAGTCAAAGGTATCCC
* ** * *
25207 CTAAGCTCATTTTCGTAATTTTAGAAT
127 TTAAGGGCATTTTCATAATTTTATAAT
* *
25234 CGAATCTTAGGT
1 CGAGTCCTAGGT
25246 CATCACTCTT
Statistics
Matches: 384, Mismatches: 68, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
149 4 0.01
150 115 0.30
151 5 0.01
152 20 0.05
153 36 0.09
154 106 0.28
155 71 0.18
156 27 0.07
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (153 bp):
CGAGTCCTAGGTTGTCACTGGGTCCGTTTCTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCC
CATCTATAATCCTTTTTAAGTCCTTTAAGGGTATCAGGAACTTCAAAGTCAAAGGTATCCCTTAA
GGGCATTTTCATAATTTTATAAT
Found at i:25218 original size:154 final size:153
Alignment explanation
Indices: 24572--25228 Score: 462
Period size: 154 Copynumber: 4.3 Consensus size: 153
24562 GGCGCCGAGT
* * * ** * * * *
24572 ACTTCTATGTCGAAGGTATCCCCTATGAGTTTTTTCATAATTCTTCTAGAACCGAGTCCTAAGTT
1 ACTTCTAAGTCGAAGGTATCCCCTAAGCGCATTTTCATAATTTTTC-ATAA-TGAGTCCTAGGTT
* * * * * * * *
24637 GTCA-TCGGGTCCGCTT-TATGCCGAGGGTGGGTAATTAGGATAGGTTTATTCCATCTATAAT-C
64 ATCACT-GGGTCCGTTTCTATGCCGAAGGTGAGTATTTAGGATAGGTTCATCCCA-CTACAATCC
* ** *
24699 -TTTTAAGTCCTTTAAGTTTACCGGGA
127 TTTTTAAGTCCATTAAGGGTATCGGGA
* * ** * * * *
24725 TACGTT-TAAGTCGAAGGTAT-CCCTAGGGGCATTTTTGTAATATTTTTAGAACCGAGTCTTAGG
1 -AC-TTCTAAGTCGAAGGTATCCCCTAAGCGCATTTTCATAAT-TTTTCATAA-TGAGTCCTAGG
* * * * * * *
24788 TTGTCACTGGGTCTGGTTT-TATGCTGAAGGTGGGTATTTAGGACAGGCTCATCCCATCTATAAT
62 TTATCACTGGGTC-CGTTTCTATGCCGAAGGTGAGTATTTAGGATAGGTTCATCCCA-CTACAAT
* * * * *
24852 CCTTTTTAATTCCTTTAGGGGTATCAGGC
125 CCTTTTTAAGTCCATTAAGGGTATCGGGA
* * * * * * * *
24881 ATTTCAAAGTCAAAGGTAT-CTCTAAGGGGCTTTTTTATAA--TTT--TAATGAGTCCTAGGTTG
1 ACTTCTAAGTCGAAGGTATCCCCTAA-GCGCATTTTCATAATTTTTCATAATGAGTCCTAGGTTA
* * * *
24941 TTACTGGGTCCGTTTCTATGCTGAAGGTGAGTATTTAGGATAGGTTCATTCCATCTATAATCCTT
65 TCACTGGGTCCGTTTCTATGCCGAAGGTGAGTATTTAGGATAGGTTCATCCCA-CTACAATCCTT
**
25006 TTTAAGTCTTTTAAGGGTATCGGGA
129 TTTAAGTCCATTAAGGGTATCGGGA
* * *
25031 ACTTCTAAGTCGAATGTATCCCTTAAGGGCATTTTCATAATTTTTCATAATCGAGTCCTAGGTTA
1 ACTTCTAAGTCGAAGGTATCCCCTAAGCGCATTTTCATAATTTTTCATAAT-GAGTCCTAGGTTA
* * *
25096 TCA-TCGGGTTCGCTTTC-ATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCA-TACCATCCT
65 TCACT-GGGTCCG-TTTCTATGCCGAAGGTGAGTATTTAGGATAGGTTCATCCCACTACAATCC-
* **
25158 TTTTTAAGTCCATTAAGGGTGTCGGTC
127 TTTTTAAGTCCATTAAGGGTATCGGGA
* * *
25185 ACTTCTAAGTTGAAGGTATCCCCTAAGCTCATTTTCGTAATTTT
1 ACTTCTAAGTCGAAGGTATCCCCTAAGCGCATTTTCATAATTTT
25229 AGAATCGAAT
Statistics
Matches: 410, Mismatches: 75, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
149 4 0.01
150 113 0.28
151 6 0.01
152 3 0.01
153 49 0.12
154 127 0.31
155 73 0.18
156 35 0.09
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (153 bp):
ACTTCTAAGTCGAAGGTATCCCCTAAGCGCATTTTCATAATTTTTCATAATGAGTCCTAGGTTAT
CACTGGGTCCGTTTCTATGCCGAAGGTGAGTATTTAGGATAGGTTCATCCCACTACAATCCTTTT
TAAGTCCATTAAGGGTATCGGGA
Found at i:26401 original size:150 final size:152
Alignment explanation
Indices: 26030--26636 Score: 495
Period size: 150 Copynumber: 4.0 Consensus size: 152
26020 TTCTAGAACC
* * * * * * *
26030 GAGTCCTAAGTTGTCA-TCGGGTC-CGCTTTATGCCGAGGGTGGGTAATTAGGATAGGTTTATTC
1 GAGTCCTAGGTTGTCACT-GGGTCACGTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCC
* ** * * * * *
26093 CATCTATAAT-CTTTTTAAGTCCTTTAAGTTTACCGGGATACGTT-TAAGTCGAAGGTATCCC-T
65 CATCTATAATCCTTTTTAAGTCCTTTAGGGGTATCAGG-CAC-TTCAAAGTCAAAGGTATCCCAT
* * *
26155 AGGGGCATTTTTATAATATTTTTAGAACT
128 AAGGGCATTTTCAT-A-A-TTTTATAA-T
* ** * * * *
26184 GAGTCTTAGGTTGTCACT-GGTCTGGTTTTATGCTGAAGGTGGGCATTTAGTATAAGCTCATCCC
1 GAGTCCTAGGTTGTCACTGGGTCACGTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCC
* *
26248 ATCTATAATCCTTTTTAAGTCCTTTAGGGGTATTAGGCA-TTGCAAAGTCAAAGGTATCTC-TAA
66 ATCTATAATCCTTTTTAAGTCCTTTAGGGGTATCAGGCACTT-CAAAGTCAAAGGTATCCCATAA
* **
26311 GGGGCTTTTTTGTAA-TTT-TAAT
130 -GGGCATTTTCATAATTTTATAAT
* *
26333 GAGTCCTAGGTTGTTACTGGGTC-CGTTTCTATGCTGAAGGTGAGTATTTAGGATAGGTTCATCC
1 GAGTCCTAGGTTGTCACTGGGTCACGTTT-TATGCTGAAGGTGGGTATTTAGGATAGGTTCATCC
* * * * * *
26397 CATCTATAATCCTTTTTAAGTCTTTTAAGGGTATCGGGCACTTCTAAGTCGAATGTATCCCATAA
65 CATCTATAATCCTTTTTAAGTCCTTTAGGGGTATCAGGCACTTCAAAGTCAAAGGTATCCCATAA
26462 GGGCATTTTCATAATTTTTCATAAT
130 GGGCATTTTCATAA-TTTT-ATAAT
* * * * *
26487 CGAGTCCTAGGTTATCATCAGGTTCAC-TTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATC
1 -GAGTCCTAGGTTGTCA-CTGGGTCACGTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATC
* ** * **
26551 CTATCTACCATCCTTTTTTAAG-CCTTTTAGGGGTATC-GGTCACTTCTAAGTTGAAGGTATCCC
64 CCATCTATAATCC-TTTTTAAGTCC-TTTAGGGGTATCAGG-CACTTCAAAGTCAAAGGTATCCC
* * *
26614 CTAAGGTCATTTTCGTAATTTTA
126 ATAAGGGCATTTTCATAATTTTA
26637 GAATCGAATC
Statistics
Matches: 370, Mismatches: 63, Indels: 40
0.78 0.13 0.08
Matches are distributed among these distances:
149 21 0.06
150 97 0.26
151 8 0.02
152 5 0.01
153 5 0.01
154 76 0.21
155 94 0.25
156 63 0.17
157 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (152 bp):
GAGTCCTAGGTTGTCACTGGGTCACGTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATCCC
ATCTATAATCCTTTTTAAGTCCTTTAGGGGTATCAGGCACTTCAAAGTCAAAGGTATCCCATAAG
GGCATTTTCATAATTTTATAAT
Found at i:26565 original size:155 final size:153
Alignment explanation
Indices: 25977--26652 Score: 572
Period size: 155 Copynumber: 4.4 Consensus size: 153
25967 GGCGCCGAGT
* * * ** * * *
25977 ACTTCTATGTCGAAGGTATCCCCTATGAGTTTTTTCATAATTCTTCTAGAACCGAGTCCTAAGTT
1 ACTTCTAAGTCGAAGGTAT-CCCTAAGGGCATTTTCATAATTTTTC-AGAATCGAGTCCTAGGTT
* * * * * *
26042 GTCATCGGGTCCGC-TTTATGCCGAGGGTGGGTAATTAGGATAGGTTTATTCCATCTATAAT-CT
64 GTCA-CTGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCT
** * *
26105 TTTTAAGTCCTTTAAGTTTACCGGGAT
128 TTTTAAGTCCTTTAAGGGTATCGGG-C
* * * *
26132 ACGTT-TAAGTCGAAGGTATCCCTAGGGGCATTTTTATAATATTTTTAGAA-CTGAGTCTTAGGT
1 AC-TTCTAAGTCGAAGGTATCCCTAAGGGCATTTTCATAAT-TTTTCAGAATC-GAGTCCTAGGT
* * * * * *
26195 TGTCACTGG-TCTGGTTTTATGCTGAAGGTGGGCATTTAGTATAAGCTCATCCCATCTATAATCC
63 TGTCACTGGTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCC
* **
26259 TTTTTAAGTCCTTTAGGGGTATTAGGC
127 TTTTTAAGTCCTTTAAGGGTATCGGGC
* * * * **
26286 A-TTGCAAAGTCAAAGGTATCTCTAAGGGGCTTTTTTGTAA-TTTT---AAT-GAGTCCTAGGTT
1 ACTT-CTAAGTCGAAGGTATCCCTAA-GGGCATTTTCATAATTTTTCAGAATCGAGTCCTAGGTT
* * * *
26345 GTTACTGGGTC-CGTTTCTATGCTGAAGGTGAGTATTTAGGATAGGTTCATCCCATCTATAATCC
64 GTCACTGGTTCGC-TTT-TATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCC
*
26409 TTTTTAAGTCTTTTAAGGGTATCGGGC
127 TTTTTAAGTCCTTTAAGGGTATCGGGC
* * *
26436 ACTTCTAAGTCGAATGTATCCCATAAGGGCATTTTCATAATTTTTCATAATCGAGTCCTAGGTTA
1 ACTTCTAAGTCGAAGGTATCCC-TAAGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAGGTTG
* * * * **
26501 TCATCAGGTTCACTTTTATGCCGAAGGTGGGTATCTAGGATAGGTTCATCCTATCTACCATCCTT
65 TCA-CTGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCC-T
* *
26566 TTTTAAG-CCTTTTAGGGGTATCGGTC
128 TTTTAAGTCC-TTTAAGGGTATCGGGC
* * * * *
26592 ACTTCTAAGTTGAAGGTATCCCCTAAGGTCATTTTCGTAA-TTTT-AGAATCGAATCTTAGGT
1 ACTTCTAAGTCGAAGGTAT-CCCTAAGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAGGT
26653 CATCACTCTT
Statistics
Matches: 422, Mismatches: 74, Indels: 51
0.77 0.14 0.09
Matches are distributed among these distances:
149 21 0.05
150 95 0.23
151 9 0.02
152 3 0.01
153 9 0.02
154 106 0.25
155 111 0.26
156 64 0.15
157 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (153 bp):
ACTTCTAAGTCGAAGGTATCCCTAAGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAGGTTGT
CACTGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTT
TAAGTCCTTTAAGGGTATCGGGC
Found at i:27659 original size:155 final size:155
Alignment explanation
Indices: 27427--27990 Score: 542
Period size: 155 Copynumber: 3.7 Consensus size: 155
27417 ATAATTCTTC
* * * *
27427 TAGAACCGAGTCTTAAGTTGTCATCGGGTTCGCTTTATGCCGAGGGTGGGTATTTAGGATAGGTT
1 TAGAACCGAGTCCTAGGTTGTCATCGGGTTCGTTTTATGCCGAAGGTGGGTATTTAGGATAGGTT
* * **
27492 TATTCCATCTATAAT-CTTTTTAAGTCCTTTAAGTTTACCGGGATACGTT-TAAGTCGAAGGTAT
66 CATCCCATCTATAATCCTTTTTAAGTCCTTTAAGGGTACCGGGATAC-TTCTAAGTCGAAGGTAT
27555 CCCTAGGGGCATTTTTGTAATATTTT
130 CCCTAGGGGCATTTTTGTAATATTTT
* * * * * **
27581 TAGAACCGAGTCTTAGGTTGTCATTGGGTCTTGTTTTATGCTGAAGGTGGGCATTTAGGATAGCC
1 TAGAACCGAGTCCTAGGTTGTCATCGGGT-TCGTTTTATGCCGAAGGTGGGTATTTAGGATAGGT
* * * *
27646 TCATCCCATCTATAATCCTTTTTAAGTCCTTTAGGGGTACCAGGCAT--TTCAAAGTCAAAGGTA
65 TCATCCCATCTATAATCCTTTTTAAGTCCTTTAAGGGTACC-GGGATACTTCTAAGTCGAAGGTA
* * **
27709 TCTCTAAGAGGTTTTTTTGT-A-A-TTT
129 TCCCT-AGGGGCATTTTTGTAATATTTT
* * * * * *
27734 T--AA-TGAGTCCTAGGTTGTTA-CTAGGTCCGTTTCTATGCTGAAGGTGAGTATTTAGGATAGG
1 TAGAACCGAGTCCTAGGTTGTCATC-GGGTTCGTTT-TATGCCGAAGGTGGGTATTTAGGATAGG
* * * * * *
27795 TTCATCCCATCTATAATCCTTTTTAAGTCTTTTAAGGGTATCAGG-CACTTCTGAGTCGAATGTA
64 TTCATCCCATCTATAATCCTTTTTAAGTCCTTTAAGGGTACCGGGATACTTCTAAGTCGAAGGTA
* *
27859 TCCCTTAAGGGCATTTTTATAAT-TTTT
129 TCCC-TAGGGGCATTTTTGTAATATTTT
* * * * * *
27886 CATAATCGAGTCCTAGGTTATCATCGGGTTCGCTTTTATGCCGAAGGTGGTTATTTATGATAGGT
1 TAGAACCGAGTCCTAGGTTGTCATCGGGTTCG-TTTTATGCCGAAGGTGGGTATTTAGGATAGGT
** *
27951 TCATCCCATCTACCATCCTTTTTTAAGTCCTTTAGGGGTA
65 TCATCCCATCTATAATCC-TTTTTAAGTCCTTTAAGGGTA
27991 TTGGTCACTT
Statistics
Matches: 329, Mismatches: 62, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
149 5 0.02
150 104 0.32
151 4 0.01
152 3 0.01
153 4 0.01
154 32 0.10
155 118 0.36
156 55 0.17
157 4 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (155 bp):
TAGAACCGAGTCCTAGGTTGTCATCGGGTTCGTTTTATGCCGAAGGTGGGTATTTAGGATAGGTT
CATCCCATCTATAATCCTTTTTAAGTCCTTTAAGGGTACCGGGATACTTCTAAGTCGAAGGTATC
CCTAGGGGCATTTTTGTAATATTTT
Found at i:27800 original size:150 final size:151
Alignment explanation
Indices: 27433--28062 Score: 468
Period size: 155 Copynumber: 4.1 Consensus size: 151
27423 CTTCTAGAAC
* * * * * * * * * *
27433 CGAGTCTTAAGTTGTCATCGGGTTCGCTTTATGCCGAGGGTGGGTATTTAGGATAGGTTTATTCC
1 CGAGTCCTAGGTTATCATCAGGTCCGTTTTATGCTGAAGGT-GGTATTTAGGATAGGTTCATCCC
* ** * * * *
27498 ATCTATAAT-CTTTTTAAGTCCTTTAAGTTTACCGGGATACGTT-TAAGTCGAAGGTATCCC-TA
65 ATCTATAATCCTTTTTAAGTCCTTTAGGGGTACCAGG-CAC-TTCAAAGTCAAAGGTATCCCTTA
* * * *
27560 GGGGCATTTTTGTAATATTTTTAGAAC
128 AGGGCA-TTTT-T-ATAATTTTATAAT
* * ** * * **
27587 CGAGTCTTAGGTTGTCATTGGGTCTTGTTTTATGCTGAAGGTGGGCATTTAGGATAGCCTCATCC
1 CGAGTCCTAGGTTATCATCAGGTC-CGTTTTATGCTGAAGGT-GGTATTTAGGATAGGTTCATCC
* *
27652 CATCTATAATCCTTTTTAAGTCCTTTAGGGGTACCAGGCATTTCAAAGTCAAAGGTATCTC-TAA
64 CATCTATAATCCTTTTTAAGTCCTTTAGGGGTACCAGGCACTTCAAAGTCAAAGGTATCCCTTAA
** *
27716 GAGGTTTTTTTGTAA-TTT-TAAT
129 G-GGCATTTTTATAATTTTATAAT
* *
27738 -GAGTCCTAGGTTGTTA-CTAGGTCCGTTTCTATGCTGAAGGTGAGTATTTAGGATAGGTTCATC
1 CGAGTCCTAGGTTATCATC-AGGTCCGTTT-TATGCTGAAGGTG-GTATTTAGGATAGGTTCATC
* * * ** * *
27801 CCATCTATAATCCTTTTTAAGTCTTTTAAGGGTATCAGGCACTTCTGAGTCGAATGTATCCCTTA
63 CCATCTATAATCCTTTTTAAGTCCTTTAGGGGTACCAGGCACTTCAAAGTCAAAGGTATCCCTTA
27866 AGGGCATTTTTATAATTTTTCATAAT
128 AGGGCATTTTTATAA-TTTT-ATAAT
* * * *
27892 CGAGTCCTAGGTTATCATCGGGTTCGCTTTTATGCCGAAGGTGGTTATTTATGATAGGTTCATCC
1 CGAGTCCTAGGTTATCATCAGGTCCG-TTTTATGCTGAAGGTGG-TATTTAGGATAGGTTCATCC
** ** * ** * *
27957 CATCTACCATCCTTTTTTAAGTCCTTTAGGGGTA-TTGGTCACTTCTAAGTTGAAGATATCCCCT
64 CATCTATAATCC-TTTTTAAGTCCTTTAGGGGTACCAGG-CACTTCAAAGTCAAAGGTATCCCTT
* ** *
28021 AAGGTCATTTTCGTAATTTTAGAAT
127 AAGGGCATTTTTATAATTTTATAAT
* * *
28046 CGAATCTTAGGTCATCA
1 CGAGTCCTAGGTTATCA
28063 CTCTTACACC
Statistics
Matches: 386, Mismatches: 72, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
149 5 0.01
150 110 0.28
151 6 0.02
152 6 0.02
153 2 0.01
154 47 0.12
155 129 0.33
156 81 0.21
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (151 bp):
CGAGTCCTAGGTTATCATCAGGTCCGTTTTATGCTGAAGGTGGTATTTAGGATAGGTTCATCCCA
TCTATAATCCTTTTTAAGTCCTTTAGGGGTACCAGGCACTTCAAAGTCAAAGGTATCCCTTAAGG
GCATTTTTATAATTTTATAAT
Found at i:29279 original size:150 final size:150
Alignment explanation
Indices: 28945--29289 Score: 381
Period size: 150 Copynumber: 2.3 Consensus size: 150
28935 GGATACGTTT
* * *
28945 AAGTCGAAGGTATCCCTAGGGGCATTTTTGTAATATTTTTAGAATCGAGTCTTAGGTTGTCATTG
1 AAGTCGAAGGTATCCCTAAGGGCATTTTTGT-A-A-TTTT--AATCGAGTCCTAGGTTGTCACTG
* * *
29010 GGTCTAGTTTTATGCTGAAGGTGGGCATTTAGGATAGGCTCATCCCATCTATAATCCTTTTTAAG
61 GGTCTAGTTTTATGCTGAAGGTGAGCATTTAGGATAAGCTCATCCCATCTATAATCATTTTTAAG
* *
29075 TCCTTTAGGGGTATCAGGCATTTCA
126 TCCTTTAGGAGTATCAGACATTTCA
* * * *
29100 AAGTCAAAGGTATCTCTAAGGGGCTTTTTTGTAATTTTAAT-GAGTCCTAGGTTGTTACTGGGTC
1 AAGTCGAAGGTATCCCTAA-GGGCATTTTTGTAATTTTAATCGAGTCCTAGGTTGTCACTGGGTC
* * * * * * *
29164 -CGTTTCTATGCTGAAGGTTAGTATTTTGGATAAGTTCATCCTATCTATAATCATTTTTAAGTCT
65 TAGTTT-TATGCTGAAGGTGAGCATTTAGGATAAGCTCATCCCATCTATAATCATTTTTAAGTCC
*
29228 TTTAGGAGTATCAGACACTTT-T
129 TTTAGGAGTATCAGACA-TTTCA
* * *
29250 ACGTTGAAGGTACTCCCTAAAGGCATTTTTGTAATTTTAA
1 AAGTCGAAGGTA-TCCCTAAGGGCATTTTTGTAATTTTAA
29290 AATCAAGTCT
Statistics
Matches: 160, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
149 4 0.03
150 111 0.69
151 12 0.08
153 4 0.03
154 1 0.01
155 17 0.11
156 11 0.07
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (150 bp):
AAGTCGAAGGTATCCCTAAGGGCATTTTTGTAATTTTAATCGAGTCCTAGGTTGTCACTGGGTCT
AGTTTTATGCTGAAGGTGAGCATTTAGGATAAGCTCATCCCATCTATAATCATTTTTAAGTCCTT
TAGGAGTATCAGACATTTCA
Found at i:32789 original size:58 final size:56
Alignment explanation
Indices: 32720--32863 Score: 141
Period size: 57 Copynumber: 2.5 Consensus size: 56
32710 GACTATTTTG
* * *
32720 TCATGCATTTTAGGGCCATTCTAGTTATTTTTCATGTTTTAAGGGCTTTTATGCGAT-T
1 TCATGCATTTTA-GGCCATT-TAGTTATTTTCCATG-TTTAAGGGCTATTATGCAATCT
** * *
32778 TCATGCATTTTAAGTTCATGTTTA-TCATTTTCCATGTTTAAGGTCTATTATGCAATCT
1 TCATGCATTTT-AGGCCA--TTTAGTTATTTTCCATGTTTAAGGGCTATTATGCAATCT
32836 T-ATGCATTTTAGGCCATTTCAGTTATTT
1 TCATGCATTTTAGGCCATTT-AGTTATTT
32864 CTTATGATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
54 3 0.04
55 1 0.01
56 9 0.13
57 26 0.37
58 26 0.37
59 3 0.04
60 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (56 bp):
TCATGCATTTTAGGCCATTTAGTTATTTTCCATGTTTAAGGGCTATTATGCAATCT
Found at i:33016 original size:58 final size:58
Alignment explanation
Indices: 32888--33027 Score: 151
Period size: 58 Copynumber: 2.4 Consensus size: 58
32878 ATTATTTTGT
* * * * *
32888 AATTTCATGCATTTTAGCA-CTATTTTAGTCATTTTCCATGAATTAGGGACCATTATGC
1 AATTTCATGCATTTTAGGATC-ATTTTAATCATTTCCCATGAATTAGGGACAATTACGC
* *
32946 AAATTCACGCATTTTAGGATCATTTTAATCATTTCCCAT-AATTTAGGG-CTAATTACGC
1 AATTTCATGCATTTTAGGATCATTTTAATCATTTCCCATGAA-TTAGGGAC-AATTACGC
* *
33004 TATTTCATGCATTTTAGGGTCATT
1 AATTTCATGCATTTTAGGATCATT
33028 CAGAAAATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
57 3 0.04
58 64 0.94
59 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (58 bp):
AATTTCATGCATTTTAGGATCATTTTAATCATTTCCCATGAATTAGGGACAATTACGC
Found at i:33460 original size:76 final size:76
Alignment explanation
Indices: 33352--33806 Score: 291
Period size: 76 Copynumber: 6.0 Consensus size: 76
33342 CTAAGTCTAT
* ** *
33352 TAAGGTCATGTGGGAACCTTTGTGTCTAAACATGTTCGTTAAGGTTATTTTGGTAATAGTACCTT
1 TAAGGTCATGTAGGAACCTTCATGTCAAAACATGTTCGTTAAGGTTATTTTGGTAATAGTACCTT
33417 AAAACTGAGAC
66 AAAACTGAGAC
* * *
33428 TAAGGTCATGTAGGAACCTTCATGTCAAAACAT-ATCTGTTAAGGTTATTTCGATAATAGTACCT
1 TAAGGTCATGTAGGAACCTTCATGTCAAAACATGTTC-GTTAAGGTTATTTTGGTAATAGTACCT
* *
33492 TAAAACCGAGTC
65 TAAAACTGAGAC
* * * * * * * * *
33504 TAAGCTCATGT-GGTAATCGTT-GTGTCAAAACATATCCATTAAGTTTATTTAGGTAAAAGTACC
1 TAAGGTCATGTAGG-AA-CCTTCATGTCAAAACATGTTCGTTAAGGTTATTTTGGTAATAGTACC
33567 TTAAAA-TCGAGTCCAC
64 TTAAAACT-GAG---AC
* * * * * * * *
33583 CAAGGTCATTTGGGAACCTTCATGTTAAAATATG-TCGTTAGGGTTATTTT-GTTATAATACCTT
1 TAAGGTCATGTAGGAACCTTCATGTCAAAACATGTTCGTTAAGGTTATTTTGGTAATAGTACCTT
*
33646 AAAACTGAGTC
66 AAAACTGAGAC
* * * * * * * *
33657 T-AGAGTCATGTGAGG-ACCTTCGTCTCAAAATATGTCTAG-TAGGGTCATTATGGTAAAAGTAC
1 TAAG-GTCATGT-AGGAACCTTCATGTCAAAACATGT-TCGTTAAGGTTATTTTGGTAATAGTAC
* *
33719 CTTAAAATTGAG-T
63 CTTAAAACTGAGAC
* * * * * ** * ** * * *
33732 TTAGAATCATGGAAGAACCTTCACGTTGAAATATGCCCATTAAGGTTATTTAGGTAATAATACCT
1 TAAG-GTCATGTAGGAACCTTCATGTCAAAACATGTTCGTTAAGGTTATTTTGGTAATAGTACCT
33797 TAAAACTGAG
65 TAAAACTGAG
33807 CATATGATCA
Statistics
Matches: 289, Mismatches: 71, Indels: 38
0.73 0.18 0.10
Matches are distributed among these distances:
73 2 0.01
74 23 0.08
75 19 0.07
76 187 0.65
77 21 0.07
78 15 0.05
79 20 0.07
80 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (76 bp):
TAAGGTCATGTAGGAACCTTCATGTCAAAACATGTTCGTTAAGGTTATTTTGGTAATAGTACCTT
AAAACTGAGAC
Found at i:33566 original size:152 final size:150
Alignment explanation
Indices: 33356--33726 Score: 365
Period size: 153 Copynumber: 2.4 Consensus size: 150
33346 GTCTATTAAG
* * * * * * *
33356 GTCATGTGGGAACCTTTGTGTCTAAACATGTTCGTTAAGGTTATTTTGGTAATAGTACCTTAAAA
1 GTCATGTGGGAACCGTTGTGTCAAAACATATCCATTAAGGTTATTTAGGTAAAAGTACCTTAAAA
*
33421 -CTGAG-ACTAAGGTCATGTAGGAACCTTCATGTCAAAACATATCTGTTAAGGTTATTTCGATAA
66 TC-GAGCACCAAGGTCATGTAGGAACCTTCATGTCAAAACATATC-GTTAAGGTTATTTCG-TAA
*
33484 TAGTACCTTAAAACCGAGTCTAA
128 TAATACCTTAAAACCGAGTCTAA
* * *
33507 GCTCATGTGGTAATCGTTGTGTCAAAACATATCCATTAAGTTTATTTAGGTAAAAGTACCTTAAA
1 G-TCATGTGGGAACCGTTGTGTCAAAACATATCCATTAAGGTTATTTAGGTAAAAGTACCTTAAA
* * * * * * * *
33572 ATCGAGTCCACCAAGGTCATTTGGGAACCTTCATGTTAAAATATGTCGTTAGGGTTATTTTGTTA
65 ATCGAG--CACCAAGGTCATGTAGGAACCTTCATGTCAAAACATATCGTTAAGGTTATTTCGTAA
*
33637 TAATACCTTAAAACTGAGTCTAGA
128 TAATACCTTAAAACCGAGTCTA-A
* * * * * * *
33661 GTCATGTGAGG-ACC-TTCGTCTCAAAATATGTCTAGTAGGGTCA-TTATGGTAAAAGTACCTTA
1 GTCATGTG-GGAACCGTT-GTGTCAAAACATATCCATTAAGGTTATTTA-GGTAAAAGTACCTTA
33723 AAAT
63 AAAT
33727 TGAGTTTAGA
Statistics
Matches: 180, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
151 1 0.01
152 62 0.34
153 69 0.38
154 16 0.09
155 32 0.18
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (150 bp):
GTCATGTGGGAACCGTTGTGTCAAAACATATCCATTAAGGTTATTTAGGTAAAAGTACCTTAAAA
TCGAGCACCAAGGTCATGTAGGAACCTTCATGTCAAAACATATCGTTAAGGTTATTTCGTAATAA
TACCTTAAAACCGAGTCTAA
Done.