Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2141224
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:1166 original size:20 final size:19
Alignment explanation
Indices: 1131--1197 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1121 CGAAACTTAA
1131 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
1150 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
1170 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
1189 ATCGCAACG
1 ATCGCAACG
1198 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1205 original size:14 final size:14
Alignment explanation
Indices: 1186--1242 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1176 ATGCGAAATG
1186 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1200 AAAATCGCAACG-C
1 AAAATCGCAACGAC
1213 GAATGAAATCGCAACGAC
1 --A--AAATCGCAACGAC
1231 AAAATCGCAACG
1 AAAATCGCAACG
1243 CGAAACACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.03
14 23 0.61
15 1 0.03
16 1 0.03
17 11 0.29
18 1 0.03
ACGTcount: A:0.47, C:0.26, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1225 original size:31 final size:32
Alignment explanation
Indices: 1170--1246 Score: 129
Period size: 31 Copynumber: 2.4 Consensus size: 32
1160 GGAAATGGCT
*
1170 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCG-AATGAAAATCGCAACGACAAA
1203 ATCGCAACGCGAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAATGAAAATCGCAACGACAAA
1234 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1247 ACACAAATCG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 29 0.67
32 4 0.09
33 10 0.23
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAATGAAAATCGCAACGACAAA
Found at i:1297 original size:14 final size:14
Alignment explanation
Indices: 1278--1333 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
1268 TCATTTCGCA
1278 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
1292 TTGCGATTTCATTTCG
1 TTGCGATTT--TGTCG
1308 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
1324 TTGCGATTTT
1 TTGCGATTTT
1334 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:1340 original size:33 final size:33
Alignment explanation
Indices: 1259--1349 Score: 175
Period size: 32 Copynumber: 2.8 Consensus size: 33
1249 ACAAATCGCA
1259 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1292 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1324 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1350 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 32 0.56
33 25 0.44
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1385 original size:20 final size:20
Alignment explanation
Indices: 1334--1377 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1324 TTGCGATTTT
*
1334 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
1353 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
1373 CATTT
1 CATTT
1378 TCGTGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:1890 original size:18 final size:18
Alignment explanation
Indices: 1864--1908 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1854 GTCGATCAGA
*
1864 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1882 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1900 TGATGGCTC
1 TGATGGCTC
1909 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:3031 original size:19 final size:20
Alignment explanation
Indices: 2999--3040 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
2989 AATAGTTTCT
2999 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
3019 GAAAATG-AAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
3038 GAA
1 GAA
3041 TTCGACTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:3342 original size:21 final size:21
Alignment explanation
Indices: 3316--3358 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3306 GATGGAGATA
3316 GACGGATTTCGCCGGAGATGG
1 GACGGATTTCGCCGGAGATGG
*
3337 GACGGATTTCGTCGGAGATGG
1 GACGGATTTCGCCGGAGATGG
3358 G
1 G
3359 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.44, T:0.21
Consensus pattern (21 bp):
GACGGATTTCGCCGGAGATGG
Found at i:3637 original size:20 final size:20
Alignment explanation
Indices: 3523--3637 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
3513 CGCTTTGAAA
3523 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCATT
* *
3544 ATCGCGTTGCGAAAGTCATT
1 ATCGCATTGCGATAGTCATT
* * * *
3564 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCATT
* * ** *
3584 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCATT
*
3605 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCATT
3625 ATCGCATTGCGAT
1 ATCGCATTGCGAT
3638 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCATT
Found at i:3655 original size:21 final size:21
Alignment explanation
Indices: 3626--3718 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
3616 ATAGTCAGTA
3626 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
3647 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
3667 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
3688 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
3708 TCGCATTGCGA
1 TCGCATTGCGA
3719 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:3656 original size:41 final size:41
Alignment explanation
Indices: 3565--3699 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
3555 AAAGTCATTA
* * * ** *
3565 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
3605 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
3647 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
3688 TCGCGTTGCGAT
1 TCGCGTTGCGAT
3700 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:3700 original size:41 final size:41
Alignment explanation
Indices: 3626--3718 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
3616 ATAGTCAGTA
3626 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
3667 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
3708 TCGCATTGCGA
1 TCGCATTGCGA
3719 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:4420 original size:19 final size:20
Alignment explanation
Indices: 4396--4550 Score: 90
Period size: 20 Copynumber: 7.8 Consensus size: 20
4386 AAATGACCAA
*
4396 CAAATTCGCAACGCGATCT-
1 CAAATTCGCAACGCGATGTC
4415 CAAATTCGCAACGCGAAT-TC
1 CAAATTCGCAACGCG-ATGTC
* * *
4435 CAATTTCGCAAC-CCAGTTTC
1 CAAATTCGCAACGCGA-TGTC
* * * *
4455 CAATTTCGCAACGCAAATATG
1 CAAATTCGCAACGC-GATGTC
* ** *
4476 TAAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGA-TGTC
4496 CAAATTCGCAACGCGATAGT-
1 CAAATTCGCAACGCGAT-GTC
*
4516 CAAATTCGC-ACGCGAAAGT-
1 CAAATTCGCAACGCG-ATGTC
4535 CAAATTCGCAACGCGA
1 CAAATTCGCAACGCGA
4551 ATTTGTAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.01
19 36 0.33
20 55 0.51
21 15 0.14
22 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (20 bp):
CAAATTCGCAACGCGATGTC
Found at i:4507 original size:41 final size:39
Alignment explanation
Indices: 4451--4564 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 39
4441 CGCAACCCAG
* * *
4451 TTTCCAATTTCGCAACGCAAATATGTAAATCGCATTGCGAT
1 TTTCCAAATTCGCAACGC-AATATGTAAATCGCA-CGCGAA
*
4492 TTTCCAAATTCGCAACGCGATA-GTCAAATTCGCACGCGAA
1 TTTCCAAATTCGCAACGCAATATGT-AAA-TCGCACGCGAA
** *
4532 AGT-CAAATTCGCAACGCGAATTTGTAAATCGCA
1 TTTCCAAATTCGCAACGC-AATATGTAAATCGCA
4565 ACATAGAAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
39 21 0.34
40 16 0.26
41 24 0.39
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (39 bp):
TTTCCAAATTCGCAACGCAATATGTAAATCGCACGCGAA
Found at i:4519 original size:20 final size:20
Alignment explanation
Indices: 4496--4599 Score: 108
Period size: 20 Copynumber: 5.2 Consensus size: 20
4486 TGCGATTTTC
*
4496 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
4516 CAAATTCGC-ACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
4535 CAAATTCGCAACGCGAATTTGT
1 CAAATTCGCAACGCGAA--AGT
**
4557 -AAA-TCGCAAC-ATAGAAGT
1 CAAATTCGCAACGCGA-AAGT
*
4575 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
4595 CAAAT
1 CAAAT
4600 GTTTTTACGC
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.03
19 22 0.32
20 39 0.57
21 4 0.06
22 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:4752 original size:22 final size:22
Alignment explanation
Indices: 4727--4777 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
4717 CTACGGCGAC
*
4727 ATCCGTCCCCATCTCCGATGAA
1 ATCCGTCCCCATCTCCGACGAA
*
4749 ATCCGTCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
4771 ATCCGTC
1 ATCCGTC
4778 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:6697 original size:21 final size:21
Alignment explanation
Indices: 6673--6720 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
6663 GTTAGGGGAA
*
6673 TTACGTCATGAGGTCGGTGCT
1 TTACGTCATGAGGTCGGTACT
*
6694 TTACGTCATGAGGTTGGTACT
1 TTACGTCATGAGGTCGGTACT
6715 TTACGT
1 TTACGT
6721 GAAGATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (21 bp):
TTACGTCATGAGGTCGGTACT
Found at i:7208 original size:21 final size:21
Alignment explanation
Indices: 7135--7210 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
7125 CCTATAATCA
*
7135 TTCAAGAGGCGCCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
*
7156 TTCAAGAGGCCCCT-ATCATC-
1 TTCAAGAGGCCCCTCCT-ATCG
* * * *
7176 ATCAAAAAGCCCCTCCTACCG
1 TTCAAGAGGCCCCTCCTATCG
7197 TTCAAGAGGCCCCT
1 TTCAAGAGGCCCCT
7211 ATCATCGTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
20 14 0.33
21 28 0.67
ACGTcount: A:0.25, C:0.37, G:0.17, T:0.21
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:7219 original size:21 final size:21
Alignment explanation
Indices: 7125--7219 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
7115 GTCCGATGCA
* * *
7125 CCTATAATCATTCAAGAGGCG
1 CCTATCATCGTTCAAGAGGCC
*
7146 CCT-CCTATCGTTCAAGAGGCC
1 CCTATC-ATCGTTCAAGAGGCC
* * *
7167 CCTATCATC-ATCAAAAAGCC
1 CCTATCATCGTTCAAGAGGCC
* *
7187 CCT-CCTACCGTTCAAGAGGCC
1 CCTATC-ATCGTTCAAGAGGCC
7208 CCTATCATCGTT
1 CCTATCATCGTT
7220 TAAGTGGTCC
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
19 1 0.02
20 13 0.24
21 38 0.70
22 2 0.04
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (21 bp):
CCTATCATCGTTCAAGAGGCC
Found at i:8654 original size:14 final size:14
Alignment explanation
Indices: 8635--8674 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8625 TTTTGATTAA
8635 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
8649 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
8663 TTGATTTGTAAA
1 TTGATTTGTAAA
8675 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:8801 original size:20 final size:20
Alignment explanation
Indices: 8776--8813 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8766 GTTGAAGGTA
8776 CAAATTCACAACACGAAAGT
1 CAAATTCACAACACGAAAGT
* *
8796 CAAATTCGCAACGCGAAA
1 CAAATTCACAACACGAAA
8814 TAAGGGTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.13
Consensus pattern (20 bp):
CAAATTCACAACACGAAAGT
Found at i:9082 original size:39 final size:39
Alignment explanation
Indices: 9028--9110 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
9018 CAAGTTGTAG
*
9028 ATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTGA
1 ATTTTAATTTCCTTTTGCTTGACACCATATGAGATTTGA
* * *
9067 ATTTTAATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTAATTTCCTTTTGCTTGACACCATATGAGATTTGA
9106 ATTTT
1 ATTTT
9111 GATGAGCATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (39 bp):
ATTTTAATTTCCTTTTGCTTGACACCATATGAGATTTGA
Found at i:9439 original size:18 final size:18
Alignment explanation
Indices: 9416--9452 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9406 CGAAATTTAT
9416 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
9434 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
9452 A
1 A
9453 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:9873 original size:25 final size:25
Alignment explanation
Indices: 9839--9888 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
9829 ATTATTTTTC
*
9839 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
9864 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
9889 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:10089 original size:34 final size:34
Alignment explanation
Indices: 10046--10124 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
10036 TTTCGTGTTT
* *
10046 CGAATTTGACTATCGCAACGCTTATTTCACGTTG
1 CGAATTTGACTACCGCAACGCTTATTTCACATTG
* *
10080 CGAATTTGACTACCGTAACGCTTATTTCGCATTG
1 CGAATTTGACTACCGCAACGCTTATTTCACATTG
10114 CGAATTTGACT
1 CGAATTTGACT
10125 TTCGTGTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (34 bp):
CGAATTTGACTACCGCAACGCTTATTTCACATTG
Found at i:10425 original size:18 final size:18
Alignment explanation
Indices: 10402--10437 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10392 AAGCCGGTTG
*
10402 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
10420 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
10438 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:13604 original size:27 final size:27
Alignment explanation
Indices: 13566--13626 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
13556 TGAAGATGCA
*
13566 ATGAGTTTCGATTTAGGGATTTAGGTT
1 ATGAGTTGCGATTTAGGGATTTAGGTT
13593 ATGAGTTGCGATTTAGGGATTTAGGTT
1 ATGAGTTGCGATTTAGGGATTTAGGTT
13620 AT-AGTTG
1 ATGAGTTG
13627 ATGCTGCTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.23, C:0.03, G:0.31, T:0.43
Consensus pattern (27 bp):
ATGAGTTGCGATTTAGGGATTTAGGTT
Found at i:13714 original size:20 final size:19
Alignment explanation
Indices: 13652--13715 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
13642 TATATACAAA
* *
13652 AAATTTGTGTTGCGAAACT
1 AAATTCGTGTTGCGAAATT
* *
13671 AAA-ACCTGTTGCGAAATT
1 AAATTCGTGTTGCGAAATT
*
13689 AAATTCGTGTTGCGAATTT
1 AAATTCGTGTTGCGAAATT
13708 GAAATTCG
1 -AAATTCG
13716 CGATTTGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 14 0.39
19 15 0.42
20 7 0.19
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (19 bp):
AAATTCGTGTTGCGAAATT
Found at i:21261 original size:17 final size:17
Alignment explanation
Indices: 21235--21267 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
21225 TTATATTTTT
21235 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
21253 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
21268 TATATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:21269 original size:17 final size:18
Alignment explanation
Indices: 21227--21269 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
21217 ATTTTATATT
*
21227 ATATTTTTAATTTATTTA
1 ATATTTTAAATTTATTTA
21245 AGTA-TTTAAATTT-TTTA
1 A-TATTTTAAATTTATTTA
21262 ATATTTTA
1 ATATTTTA
21270 TATAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 9 0.41
19 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATATTTTAAATTTATTTA
Found at i:36933 original size:3 final size:3
Alignment explanation
Indices: 36921--36975 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
36911 GCTTGTTTTC
36921 TAT T-T TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36967 TAT TAT TAT
1 TAT TAT TAT
36976 AGCCTAAACG
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37522 original size:22 final size:20
Alignment explanation
Indices: 37497--37542 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
37487 AGAAAAATAT
37497 TTTTGAAAATATTAAGATATAA
1 TTTTG-AAATATTAAG-TATAA
* *
37519 TTTTGGAATATTAAGTATTA
1 TTTTGAAATATTAAGTATAA
37539 TTTT
1 TTTT
37543 AATGAGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTTGAAATATTAAGTATAA
Found at i:37529 original size:21 final size:20
Alignment explanation
Indices: 37504--37542 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
37494 TATTTTTGAA
37504 AATATTAAGATATAATTTTGG
1 AATATTAAG-TATAATTTTGG
*
37525 AATATTAAGTATTATTTT
1 AATATTAAGTATAATTTT
37543 AATGAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
AATATTAAGTATAATTTTGG
Found at i:39298 original size:28 final size:28
Alignment explanation
Indices: 39267--39320 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
39257 GACACTCTAC
*
39267 TATCCATGAACAAGTGGAGACACTTCGT
1 TATCCAAGAACAAGTGGAGACACTTCGT
** *
39295 TATCCAAGAATGAGTGGAGATACTTC
1 TATCCAAGAACAAGTGGAGACACTTC
39321 ATTGTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (28 bp):
TATCCAAGAACAAGTGGAGACACTTCGT
Found at i:40550 original size:19 final size:20
Alignment explanation
Indices: 40526--40566 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
40516 TGTGGTTAAG
**
40526 TTGACTTTTTATG-CAATTC
1 TTGACTTTGAATGCCAATTC
40545 TTGACTTTGAATGCCAATTC
1 TTGACTTTGAATGCCAATTC
40565 TT
1 TT
40567 TGTATGTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (20 bp):
TTGACTTTGAATGCCAATTC
Found at i:41301 original size:42 final size:40
Alignment explanation
Indices: 41249--41330 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 40
41239 TTGGTGTGTA
41249 TTGCATGATGAATGTTTATTTTTAATTTCTTCCACTTGGTAC
1 TTGCATGATGAATGTTTA-TTTTAATTT-TTCCACTTGGTAC
*
41291 TTGCATGATGAATGTTTATTTTAATTTTTTCACTTGGTAC
1 TTGCATGATGAATGTTTATTTTAATTTTTCCACTTGGTAC
41331 ACATGATTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 12 0.31
41 9 0.23
42 18 0.46
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (40 bp):
TTGCATGATGAATGTTTATTTTAATTTTTCCACTTGGTAC
Found at i:54567 original size:19 final size:19
Alignment explanation
Indices: 54543--54579 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
54533 ATGATCAACA
*
54543 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
54562 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
54580 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:54671 original size:21 final size:20
Alignment explanation
Indices: 54624--54671 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
54614 GATTTTGACC
* *
54624 ATCGCATTGCGATTTTCGAA
1 ATCGCATTACGATTTTAGAA
54644 ATCCGCATTACGATTTTAGATA
1 AT-CGCATTACGATTTTAGA-A
54666 ATCGCA
1 ATCGCA
54672 ATTCGAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
ATCGCATTACGATTTTAGAA
Found at i:54690 original size:20 final size:20
Alignment explanation
Indices: 54665--54717 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
54655 GATTTTAGAT
*
54665 AATCGCAATTCGAATATGTA
1 AATCGCAATGCGAATATGTA
54685 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
54705 AATCGCAACGCGA
1 AATCGCAATGCGA
54718 TAACACTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:54732 original size:21 final size:21
Alignment explanation
Indices: 54706--54760 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
54696 GAATATGTAA
*
54706 ATCGCAACGCGATAACACTTG
1 ATCGCAACGCGATAACACGTG
*
54727 ATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATAACACGTG
54748 ATCGCAACGCGAT
1 ATCGCAACGCGAT
54761 TCTGACTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGATAACACGTG
Found at i:54773 original size:20 final size:20
Alignment explanation
Indices: 54748--54792 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
54738 ATAATACGTG
*
54748 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
54768 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
54788 ATCGC
1 ATCGC
54793 GTTGCGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:54980 original size:22 final size:22
Alignment explanation
Indices: 54955--55034 Score: 90
Period size: 22 Copynumber: 3.6 Consensus size: 22
54945 TCACTCTCTA
*
54955 CGACGATATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
** *
54977 CGACGAAATCTATCCCCATTTC
1 CGACGAAATCCGTCCCCATCTC
*
54999 TGACGAAATCCGTCCCCATCT-
1 CGACGAAATCCGTCCCCATCTC
*
55020 CTAGCGAAATCCGTC
1 CGA-CGAAATCCGTC
55035 TATCTCCATC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.24
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:55543 original size:20 final size:20
Alignment explanation
Indices: 55433--55540 Score: 119
Period size: 20 Copynumber: 5.5 Consensus size: 20
55423 GCGATTATCT
**
55433 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAATCATTTTCG
* **
55452 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCATTTTCG
*
55472 CGTTGCGATAATCATTTTTG
1 CGTTGCGATAATCATTTTCG
55492 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCATTTTCG
* **
55512 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATAATCATTTTCG
*
55532 TGTTGCGAT
1 CGTTGCGAT
55541 TTTAAGTTTC
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
19 13 0.17
20 65 0.83
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAATCATTTTCG
Found at i:55550 original size:20 final size:20
Alignment explanation
Indices: 55507--55550 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
55497 CGATAATCAT
* *
55507 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
55527 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
55547 TTTC
1 TTTC
55551 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:57425 original size:31 final size:31
Alignment explanation
Indices: 57369--57430 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
57359 TTGTCTTTGT
*
57369 TTTGTCTTTTGGTTGAAGTTAGTAAATTCATA
1 TTTGTCTTTTGGTTG-ACTTAGTAAATTCATA
57401 TTTGTCTTTTGGATTG-CTTAGTAAATTCAT
1 TTTGTCTTTTGG-TTGACTTAGTAAATTCAT
57431 TCGGTAGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.52
Consensus pattern (31 bp):
TTTGTCTTTTGGTTGACTTAGTAAATTCATA
Found at i:57615 original size:20 final size:20
Alignment explanation
Indices: 57567--57669 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
57557 CAAAAATGAT
* *
57567 TATCGCAATGCAAATTTGAC
1 TATCGCAACGCGAATTTGAC
57587 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
57607 TATCGCAACG-GGA--T-A-
1 TATCGCAACGCGAATTTGAC
* ***
57622 -ATCGCAATGCGAAAACGAC
1 TATCGCAACGCGAATTTGAC
57641 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
57661 TATCGCAAC
1 TATCGCAAC
57670 AGGATAATCG
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
14 8 0.12
15 2 0.03
16 1 0.01
17 1 0.01
18 1 0.01
19 2 0.03
20 52 0.78
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:57631 original size:54 final size:54
Alignment explanation
Indices: 57568--57711 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
57558 AAAAATGATT
* *
57568 ATCGCAATGC-AAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAA-ATGACTATCGCAACGCGAATTTGACTATCGCAACAGGATA
*
57622 ATCGCAATGCGAAAACGACTATCGCAACGCGAATTTGACTATCGCAACAGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAGGATA
*
57676 ATCGCAATACGAAAATGACTATCGCAACGCGAATTT
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTT
57712 AGTTTCGTGT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
54 81 0.96
55 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAGGATA
Found at i:57708 original size:20 final size:20
Alignment explanation
Indices: 57549--57708 Score: 78
Period size: 20 Copynumber: 8.6 Consensus size: 20
57539 AGAAGAATAG
* * *
57549 TCGCAACACAAAAATGATTA
1 TCGCAACGCGAAAATGACTA
* *
57569 TCGCAATGC-AAATTTGACTA
1 TCGCAACGCGAAA-ATGACTA
**
57589 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
57609 TCGCAACG-G--GAT-A--A
1 TCGCAACGCGAAAATGACTA
* *
57623 TCGCAATGCGAAAACGACTA
1 TCGCAACGCGAAAATGACTA
**
57643 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
57663 TCGCAACAG-G---AT-A--A
1 TCGCAAC-GCGAAAATGACTA
**
57677 TCGCAATACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
57697 TCGCAACGCGAA
1 TCGCAACGCGAA
57709 TTTAGTTTCG
Statistics
Matches: 104, Mismatches: 20, Indels: 32
0.67 0.13 0.21
Matches are distributed among these distances:
14 16 0.15
15 1 0.01
16 2 0.02
17 5 0.05
18 2 0.02
19 4 0.04
20 71 0.68
21 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:57735 original size:19 final size:19
Alignment explanation
Indices: 57713--57749 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57703 CGCGAATTTA
*
57713 GTTTCGTGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
57732 GTTTCGCGTTGCTATTTT
1 GTTTCGCGTTGCGATTTT
57750 CTCGTTGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.05, C:0.14, G:0.27, T:0.54
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:57770 original size:33 final size:34
Alignment explanation
Indices: 57733--57813 Score: 110
Period size: 33 Copynumber: 2.4 Consensus size: 34
57723 GCGATTTTGG
* *
57733 TTTCGCGTTGCTATTTTCTCGTTGCGATAGTC-A
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCAA
* *
57766 TTTCGTGTTACGATTATCTCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCAA
*
57800 ATTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
57814 AATCAAATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 28 0.70
34 12 0.30
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (34 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATAGTCAA
Found at i:57850 original size:20 final size:20
Alignment explanation
Indices: 57785--57838 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
57775 ACGATTATCT
*
57785 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
57805 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
57825 CGTTGCGATAATCA
1 CGTTGCGATAATCA
57839 TTTTCGTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:58376 original size:21 final size:22
Alignment explanation
Indices: 58344--58449 Score: 94
Period size: 21 Copynumber: 5.0 Consensus size: 22
58334 GACTCACCTG
*
58344 TCATCATTCAAGAGGCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
*
58366 T-ATCGTTCAAGAGGCCCCT-A
1 TCATCGTTCAAGAGGCCCCTCC
** *
58386 TCATCCCTCAAGAGTCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
* * *
58408 -CACCATTCAAGAGGCCCCT-G
1 TCATCGTTCAAGAGGCCCCTCC
* *
58428 TCATCGTTGAAGAGGTCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
58450 CAACATTCTA
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
20 1 0.02
21 62 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.23
Consensus pattern (22 bp):
TCATCGTTCAAGAGGCCCCTCC
Found at i:58405 original size:42 final size:42
Alignment explanation
Indices: 58351--58462 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
58341 CTGTCATCAT
* * *
58351 TCAAGAGGCCCCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTATCATCCC
* * **
58393 TCAAGAGTCCCCTCCCACCATTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTATCATCCC
* * * *
58435 TGAAGAGGTCCCTCCCAACATTCTAGAG
1 TCAAGAGGCCCCTCCCACCATTCAAGAG
58463 TCCGATTCAC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTATCATCCC
Found at i:59907 original size:36 final size:30
Alignment explanation
Indices: 59828--59892 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
59818 TAAGAGTTGT
59828 TTTGTTTAATTGATGTGTAAATAATTCTTA
1 TTTGTTTAATTGATGTGTAAATAATTCTTA
59858 TTTGTTTAATTGATGTGTAAATAATTCTTA
1 TTTGTTTAATTGATGTGTAAATAATTCTTA
59888 TTTGT
1 TTTGT
59893 GCTTGTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
TTTGTTTAATTGATGTGTAAATAATTCTTA
Found at i:60067 original size:20 final size:20
Alignment explanation
Indices: 60042--60246 Score: 173
Period size: 20 Copynumber: 10.8 Consensus size: 20
60032 GCGATTTTCT
*
60042 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
60062 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
*
60076 CGTTGCGGTAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
60096 CGTTGCGATAGTTAAATTTG
1 CGTTGCGATAGTCAAATTCG
* *
60116 CGTTGTGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
**
60136 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
** *
60156 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
* *
60176 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
60190 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
60210 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
60230 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
60247 AAATGTGTAA
Statistics
Matches: 150, Mismatches: 23, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
14 19 0.13
15 1 0.01
16 2 0.01
18 2 0.01
19 2 0.01
20 124 0.83
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:60161 original size:94 final size:94
Alignment explanation
Indices: 60042--60246 Score: 229
Period size: 94 Copynumber: 2.2 Consensus size: 94
60032 GCGATTTTCT
* *
60042 CGTTGCGATAGTCAAATTCCCGTTGCGATTA-TC-TCGTTGCGGTAGTCAAAT-TCGCGTTGCGA
1 CGTTGCGATAGTCAAATTCCCGTTGCGA-TAGTCATCGTTGC-ATAG-CAAATATCCCGTTGCGA
** *
60104 TAGTT-AAATTTGCGTTGTGATAGTCATATTCG
63 TA-TTCAAATTCACGTTGCGATAGTCATATTCG
** * ** * * *
60136 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTTGCATTGCGATTATCCCGTTGCGATAT
1 CGTTGCGATAGTCAAATTCCCGTTGCGATAGTCATCGTTGCATAGCAAATATCCCGTTGCGATAT
60201 TCAAATTCACGTTGCGATAGTCATATTCG
66 TCAAATTCACGTTGCGATAGTCATATTCG
60230 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
60247 AAATGTGTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
93 7 0.08
94 80 0.87
95 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (94 bp):
CGTTGCGATAGTCAAATTCCCGTTGCGATAGTCATCGTTGCATAGCAAATATCCCGTTGCGATAT
TCAAATTCACGTTGCGATAGTCATATTCG
Found at i:60216 original size:34 final size:34
Alignment explanation
Indices: 60009--60246 Score: 143
Period size: 34 Copynumber: 6.5 Consensus size: 34
59999 TCATATTCGT
* * * * * *
60009 GTTGCGATAGTCTAATACACTTTGCGATTTTCTC
1 GTTGCGATAGTCAAATTCGCGTTGCGATTATCGC
* *
60043 GTTGCGATAGTCAAATTCCCGTTGCGATTATCTC
1 GTTGCGATAGTCAAATTCGCGTTGCGATTATCGC
* *
60077 GTTGCGGTAGTCAAATTCGCGTTGCGATAGTTAAATTTGC
1 GTTGCGATAGTCAAATTCGCGTTGCG--A-TT--A-TCGC
* *
60117 GTTGTGATAGTCATATTCGCGTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCAAATTCGCGTTGCGAT--T-A---TCGC
** * * *
60157 GTTGCGATAGTCATTTTTGCATTGCGATTATCCC
1 GTTGCGATAGTCAAATTCGCGTTGCGATTATCGC
* *
60191 GTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCGC
1 GTTGCGATAGTCAAATTCGCGTTGCG--A-T--TA-TCGC
60231 GTTGCGATAGTCAAAT
1 GTTGCGATAGTCAAAT
60247 AAATGTGTAA
Statistics
Matches: 161, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
34 76 0.47
36 2 0.01
37 5 0.03
38 3 0.02
39 4 0.02
40 71 0.44
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (34 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATTATCGC
Found at i:60444 original size:18 final size:18
Alignment explanation
Indices: 60421--60455 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60411 AAGCCGGTTG
*
60421 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
60439 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
60456 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:62669 original size:24 final size:24
Alignment explanation
Indices: 62635--62688 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
62625 CTGTTTCAAC
62635 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
62659 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
62683 ATCAAA
1 ATCAAA
62689 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:63538 original size:20 final size:20
Alignment explanation
Indices: 63510--63616 Score: 126
Period size: 20 Copynumber: 5.3 Consensus size: 20
63500 AATTTAGTGA
*
63510 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
63530 TGCGATAGTCAGAATCGTGT
1 TGCGATAGTCAGAATCGCGT
**
63550 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
*
63571 TGCGATAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
* *
63591 TACGATAGTTAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
63611 TGCGAT
1 TGCGAT
63617 CACGTATTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.03
20 54 0.75
21 14 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:63572 original size:21 final size:21
Alignment explanation
Indices: 63543--63658 Score: 105
Period size: 21 Copynumber: 5.6 Consensus size: 21
63533 GATAGTCAGA
*
63543 ATCGTGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
**
63564 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
* * **
63584 ATCTCGTTACGAT-A-GTTAGA
1 ATCGCGTTGCGATCACG-TATT
63604 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
* *
63625 ATCGTGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
63646 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
63659 TTACATATTC
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 29 0.37
21 47 0.59
22 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:63580 original size:41 final size:41
Alignment explanation
Indices: 63523--63658 Score: 154
Period size: 41 Copynumber: 3.3 Consensus size: 41
63513 GTTAGTCAGA
63523 ATCGCGTTGCGATAGTCAGAATCGTGTTGCGATCACGTATT
1 ATCGCGTTGCGATAGTCAGAATCGTGTTGCGATCACGTATT
* **
63564 ATCGCGTTGCGATAGTCAGAATC-TCGTTACGAT-A-GTTAGA
1 ATCGCGTTGCGATAGTCAGAATCGT-GTTGCGATCACG-TATT
** *
63604 ATCGCGTTGCGATCACGT-ATTATCGTGTTGCGATCACGTGTT
1 ATCGCGTTGCGAT-A-GTCAGAATCGTGTTGCGATCACGTATT
63646 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
63659 TTACATATTC
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
39 1 0.01
40 17 0.22
41 42 0.53
42 18 0.23
43 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGTGTTGCGATCACGTATT
Found at i:63583 original size:61 final size:61
Alignment explanation
Indices: 63510--63637 Score: 202
Period size: 61 Copynumber: 2.1 Consensus size: 61
63500 AATTTAGTGA
* * *
63510 TGCGTTAGTCAGAATCGCGTTGCGATAGTCAGAATCGTGTTGCGATCACGTATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTACGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
* * *
63571 TGCGATAGTCAGAATCTCGTTACGATAGTTAGAATCGCGTTGCGATCACGTATTATCGTGT
1 TGCGATAGTCAGAATCGCGTTACGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
63632 TGCGAT
1 TGCGAT
63638 CACGTGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (61 bp):
TGCGATAGTCAGAATCGCGTTACGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
Found at i:63675 original size:20 final size:20
Alignment explanation
Indices: 63647--63699 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
63637 TCACGTGTTA
*
63647 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
63667 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
63687 TTGCATTGCGATT
1 TCGCATTGCGATT
63700 ATCTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:64959 original size:31 final size:31
Alignment explanation
Indices: 64924--64986 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
64914 TTTATGCATC
*
64924 GATGCACATACCATGCATCGATGCACTCAGT
1 GATGCACATACCACGCATCGATGCACTCAGT
*
64955 GATGCCCATACCACGCATCGATGCACTCAGT
1 GATGCACATACCACGCATCGATGCACTCAGT
64986 G
1 G
64987 CATTTGATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (31 bp):
GATGCACATACCACGCATCGATGCACTCAGT
Found at i:68737 original size:292 final size:292
Alignment explanation
Indices: 68213--68797 Score: 1143
Period size: 292 Copynumber: 2.0 Consensus size: 292
68203 GAAAAGATGA
68213 CATCTTCATCAATCAAGCTAAGTACATCAAAGATATGCTCAAGAAGTTTGGACTATAAAATGGGA
1 CATCTTCATCAATCAAGCTAAGTACATCAAAGATATGCTCAAGAAGTTTGGACTATAAAATGGGA
*
68278 AACCTCATGACACTCCAATGAGCTCATCAACAAAGCTTGACATAGATGAATGAGGTAAATGTGTG
66 AACCTCATGACACTCCAATGAGCTCATCAACAAAGCTTGACATAGATGAAGGAGGTAAATGTGTG
68343 GATGTTAAATTATATAGGTCAATGATTGGTTCTTTACTTTATCTAACTGCAAGTAGATCAGACAT
131 GATGTTAAATTATATAGGTCAATGATTGGTTCTTTACTTTATCTAACTGCAAGTAGATCAGACAT
68408 TATGTTTAGTGTTTGCTTATGTGCTATATTTCAATCATGCCCTAAGGAATCACATATACTAGCTA
196 TATGTTTAGTGTTTGCTTATGTGCTATATTTCAATCATGCCCTAAGGAATCACATATACTAGCTA
68473 TTAAGAGAATCTTTAGATACCTTAAGGACACT
261 TTAAGAGAATCTTTAGATACCTTAAGGACACT
*
68505 CATCTTCATCAATCAAGCTAAGTACATCAAATATATGCTCAAGAAGTTTGGACTATAAAATGGGA
1 CATCTTCATCAATCAAGCTAAGTACATCAAAGATATGCTCAAGAAGTTTGGACTATAAAATGGGA
68570 AACCTCATGACACTCCAATGAGCTCATCAACAAAGCTTGACATAGATGAAGGAGGTAAATGTGTG
66 AACCTCATGACACTCCAATGAGCTCATCAACAAAGCTTGACATAGATGAAGGAGGTAAATGTGTG
68635 GATGTTAAATTATATAGGTCAATGATTGGTTCTTTACTTTATCTAACTGCAAGTAGATCAGACAT
131 GATGTTAAATTATATAGGTCAATGATTGGTTCTTTACTTTATCTAACTGCAAGTAGATCAGACAT
*
68700 TATGTTTAGTGTTTGCTTATGTGCTATATTTCAATCATGCCCTAAGGAATCACATTTACTAGCTA
196 TATGTTTAGTGTTTGCTTATGTGCTATATTTCAATCATGCCCTAAGGAATCACATATACTAGCTA
68765 TTAAGAGAATCTTTAGATACCTTAAGGACACT
261 TTAAGAGAATCTTTAGATACCTTAAGGACACT
68797 C
1 C
68798 CTAGTTTAGG
Statistics
Matches: 290, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
292 290 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (292 bp):
CATCTTCATCAATCAAGCTAAGTACATCAAAGATATGCTCAAGAAGTTTGGACTATAAAATGGGA
AACCTCATGACACTCCAATGAGCTCATCAACAAAGCTTGACATAGATGAAGGAGGTAAATGTGTG
GATGTTAAATTATATAGGTCAATGATTGGTTCTTTACTTTATCTAACTGCAAGTAGATCAGACAT
TATGTTTAGTGTTTGCTTATGTGCTATATTTCAATCATGCCCTAAGGAATCACATATACTAGCTA
TTAAGAGAATCTTTAGATACCTTAAGGACACT
Found at i:69582 original size:20 final size:21
Alignment explanation
Indices: 69557--69651 Score: 70
Period size: 23 Copynumber: 4.4 Consensus size: 21
69547 TTTTGCTTCA
69557 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
69577 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
* *
69599 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAAAG
* *
69620 TGCACCGATGCACGCCTTGAATA-
1 TGCATCGAT--ACACCTTGAA-AG
69643 TGCATCGAT
1 TGCATCGAT
69652 GCACAAGGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
20 11 0.19
21 17 0.29
22 13 0.22
23 18 0.31
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:69622 original size:21 final size:20
Alignment explanation
Indices: 69557--69628 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
69547 TTTTGCTTCA
69557 TGCATCGATACACCT-AACAG
1 TGCATCGATACACCTGAA-AG
* *
69577 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CC-TGAAAG
*
69599 TGCATCGATACACCATGAAGG
1 TGCATCGATACACC-TGAAAG
*
69620 TGCACCGAT
1 TGCATCGAT
69629 GCACGCCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.26
21 17 0.40
22 13 0.30
23 2 0.05
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (20 bp):
TGCATCGATACACCTGAAAG
Found at i:69648 original size:44 final size:42
Alignment explanation
Indices: 69556--69651 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 42
69546 TTTTTGCTTC
* *
69556 ATGCATCGATACACCTAACAGTGCATCGATGCATCCTTGAAT
1 ATGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAAT
* *
69598 GTGCATCGATACACCATGAA-GGTGCACCGATGCACGCCTTGAAT
1 ATGCATCGATACACC-T-AACAGTGCACCGATGCA-GCCTTGAAT
69642 ATGCATCGAT
1 ATGCATCGAT
69652 GCACAAGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 19 0.41
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
ATGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAAT
Found at i:69672 original size:43 final size:42
Alignment explanation
Indices: 69575--69674 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 42
69565 TACACCTAAC
* * * *
69575 AGTGCATCGATGCATCCTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCAGCCTTGAATATGCATCGATACACAAGGA
* * *
69617 AGGTGCACCGATGCACGCCTTGAATATGCATCGATGCACAAGGCC
1 A-GTGCATCGATGCA-GCCTTGAATATGCATCGATACACAAGG-A
69662 A-TGCATCGATGCA
1 AGTGCATCGATGCA
69675 TCCGTCGGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
42 1 0.02
43 23 0.49
44 22 0.47
45 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (42 bp):
AGTGCATCGATGCAGCCTTGAATATGCATCGATACACAAGGA
Found at i:71201 original size:21 final size:21
Alignment explanation
Indices: 71159--71202 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
71149 ACTCCGGGAG
* *
71159 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
71180 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
71201 CT
1 CT
71203 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:72334 original size:71 final size:71
Alignment explanation
Indices: 72257--72388 Score: 171
Period size: 71 Copynumber: 1.9 Consensus size: 71
72247 GCACCAATCC
72257 ATGCATCGATGCAC-CAT-G-AATTAAAATGAACATCAAATGCATTTTATGCATCGATACACTCA
1 ATGCATCGATGCACTC-TGGCAATTAAAA--AACATCAAATGCATTTTATGCATCGATACACTCA
72319 GTGCATTTG
63 GTGCATTTG
* ** * *
72328 ATGCATCGATGCACTCTGGCTATTTTAAAACATCGAATGCATTTTATGCATCGATGCACTC
1 ATGCATCGATGCACTCTGGCAATTAAAAAACATCAAATGCATTTTATGCATCGATACACTC
72389 TTAGTGCACC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
71 46 0.87
72 2 0.04
73 5 0.09
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (71 bp):
ATGCATCGATGCACTCTGGCAATTAAAAAACATCAAATGCATTTTATGCATCGATACACTCAGTG
CATTTG
Found at i:72352 original size:26 final size:26
Alignment explanation
Indices: 72294--72343 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
72284 GAACATCAAA
*
72294 TGCATTTTATGCATCGATACACTCAG
1 TGCATTTGATGCATCGATACACTCAG
*
72320 TGCATTTGATGCATCGATGCACTC
1 TGCATTTGATGCATCGATACACTC
72344 TGGCTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (26 bp):
TGCATTTGATGCATCGATACACTCAG
Found at i:75174 original size:23 final size:22
Alignment explanation
Indices: 75126--75175 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
75116 GAGAAGATAT
*
75126 AAAA-CATACCAAAAAGTAGAG
1 AAAATCATACCAAAAAGCAGAG
* *
75147 GAAATCATACCATAAAGACAGAG
1 AAAATCATACCAAAAAG-CAGAG
75170 AAAATC
1 AAAATC
75176 TTGCCATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.13
22 11 0.48
23 9 0.39
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAATCATACCAAAAAGCAGAG
Found at i:85367 original size:26 final size:27
Alignment explanation
Indices: 85330--85394 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
85320 ATTAGGGGAA
* *
85330 AGTCACAAGGTGATCCGAGG-AGGGGG
1 AGTCACATGGTGATCCGAGGAAGGAGG
* * *
85356 AGTCGCATGGTGATCTGGGGAAGGAGG
1 AGTCACATGGTGATCCGAGGAAGGAGG
85383 AGTCACATGGTG
1 AGTCACATGGTG
85395 TTCCATGCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.25, C:0.14, G:0.45, T:0.17
Consensus pattern (27 bp):
AGTCACATGGTGATCCGAGGAAGGAGG
Found at i:87764 original size:20 final size:20
Alignment explanation
Indices: 87670--88038 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
87660 GATTTTCCAT
* ** *
87670 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
87690 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
87710 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
87730 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
87750 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
87770 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
87790 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
87810 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
87830 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
87850 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
87870 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
87890 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
87910 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
87930 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
87950 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
87970 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
87990 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * * *
88010 AATCACAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
88030 AATCACAAC
1 AATCGCAAC
88039 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:88751 original size:24 final size:24
Alignment explanation
Indices: 88712--88758 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
88702 AAATTTGGTC
88712 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
88736 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
88759 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:88950 original size:12 final size:12
Alignment explanation
Indices: 88933--88957 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88923 ATATAATCCT
88933 GAAGAAGAAAAA
1 GAAGAAGAAAAA
88945 GAAGAAGAAAAA
1 GAAGAAGAAAAA
88957 G
1 G
88958 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:91284 original size:19 final size:19
Alignment explanation
Indices: 91262--91547 Score: 295
Period size: 19 Copynumber: 16.4 Consensus size: 19
91252 CGGAAAATAC
*
91262 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
91281 AATCCCAA--C---ATG-A
1 AATCGCAATGCGAAATGAA
91294 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
91314 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
91328 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
91347 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
91366 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
91380 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
91398 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
91417 AATCG-AA--CAGACAT---
1 AATCGCAATGC-GAAATGAA
*
91431 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
91450 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
91469 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
91488 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
91502 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
91521 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
91540 AATCGCAA
1 AATCGCAA
91548 CGAGATAATC
Statistics
Matches: 226, Mismatches: 11, Indels: 60
0.76 0.04 0.20
Matches are distributed among these distances:
13 8 0.04
14 36 0.16
15 5 0.02
16 15 0.07
17 15 0.07
18 22 0.10
19 116 0.51
20 9 0.04
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:91321 original size:52 final size:51
Alignment explanation
Indices: 91262--91569 Score: 242
Period size: 52 Copynumber: 5.9 Consensus size: 51
91252 CGGAAAATAC
91262 AATCGCAACGCGA-AAT-GAAAATCCCAACATGAAATCGCAATGCGGAAATGAA
1 AATCGCAACGCGAGAATCG-AAATCCCAA-ATGAAATCGCAATGC-GAAATGAA
* * * *
91314 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCCAAATG-AAATCGCAATGCGAAATGAA
* * * *
91366 AATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATCCCAAATGAAATCGCAATGCGAAATGAA
* * * * * *
91417 AATCG-AACAGAC-ATAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAAC-G-CGAGAATCGAAATCCCAAA-TGAAATCGCAATGCGAAATGAA
*
91469 AATCGCAATGCGA-AAT-GAAAATCGCAACGAAA-G-AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCG-AAATC-C--C-AAATGAAATCGCAATGCGAAATGAA
* *
91521 AATCGCAATGCGA-AAT-GAAAATCGCAACGA-GATAATCGCAATGCGAAAT
1 AATCGCAACGCGAGAATCG-AAATCCCAA--ATGA-AATCGCAATGCGAAAT
91570 TATAAACGCA
Statistics
Matches: 224, Mismatches: 15, Indels: 34
0.82 0.05 0.12
Matches are distributed among these distances:
48 2 0.01
49 1 0.00
50 6 0.03
51 49 0.22
52 139 0.62
53 23 0.10
54 1 0.00
55 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (51 bp):
AATCGCAACGCGAGAATCGAAATCCCAAATGAAATCGCAATGCGAAATGAA
Found at i:91491 original size:71 final size:71
Alignment explanation
Indices: 91262--91547 Score: 321
Period size: 71 Copynumber: 4.1 Consensus size: 71
91252 CGGAAAATAC
* * *
91262 AATCGCAACGCGAAATGAAAATCCCAAC--ATGAAATCGCAATGCGGAAATGAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG-AATCGCAATGC-GAAATGAAAATCGCAATGC
*
91323 G--A-GAG
64 GAAATGAA
*
91328 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAA
91388 TGCGAAATG-A
61 TGCGAAATGAA
* * * *
91398 AATCGCAATGCGAAATGAAAATCG-AACAGACATAATCGCAATGCGAAATTAAAATCGCAATACG
1 AATCGCAATGCGAAATGAAAATCGCAAC-GAAAGAATCGCAATGCGAAATGAAAATCGCAATGCG
91462 AAATGAA
65 AAATGAA
91469 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
91534 AATGAA
66 AATGAA
91540 AATCGCAA
1 AATCGCAA
91548 CGAGATAATC
Statistics
Matches: 187, Mismatches: 14, Indels: 33
0.80 0.06 0.14
Matches are distributed among these distances:
65 8 0.04
66 35 0.19
67 4 0.02
68 6 0.03
69 4 0.02
70 44 0.24
71 74 0.40
72 12 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
AATGAA
Found at i:91525 original size:33 final size:34
Alignment explanation
Indices: 91262--91547 Score: 270
Period size: 33 Copynumber: 8.2 Consensus size: 34
91252 CGGAAAATAC
* * *
91262 AATCGCAACGCGAAATGAAAATCCCAAC--ATGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGA
*
91294 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG-
1 AATCGCAATGC-GAAATGAAAATCGCAACGAAAGA
91328 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G-A
*
91366 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-GA
* *
91398 AATCGCAATGCGAAATGAAAATCG-AACAGACA-T
1 AATCGCAATGCGAAATGAAAATCGCAAC-GAAAGA
*
91431 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACGAAA-G-A
91469 AATCGCAATGCGAAATGAAAATCGCAACGAAAG-
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGA
91502 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G-A
91540 AATCGCAA
1 AATCGCAA
91548 CGAGATAATC
Statistics
Matches: 216, Mismatches: 13, Indels: 44
0.79 0.05 0.16
Matches are distributed among these distances:
32 19 0.09
33 101 0.47
34 15 0.07
35 18 0.08
36 15 0.07
37 8 0.04
38 40 0.19
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGA
Found at i:91685 original size:19 final size:19
Alignment explanation
Indices: 91576--91677 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
91566 AAATTATAAA
91576 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
91595 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
91615 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
91631 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
91648 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
91667 CGCATTGCGAT
1 CGCATTGCGAT
91678 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:91809 original size:14 final size:14
Alignment explanation
Indices: 91790--91826 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
91780 CATCAATTAC
91790 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
91804 ACAAATCATCTTTT
1 ACAAATCAACTTTT
91818 ACAAATCAA
1 ACAAATCAA
91827 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:91838 original size:12 final size:12
Alignment explanation
Indices: 91821--91893 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
91811 ATCTTTTACA
91821 AATCAATTAAAC
1 AATCAATTAAAC
*
91833 AATCAA--AAATTG
1 AATCAATTAAA--C
**
91845 AATCAACTTTTAC
1 AATCAA-TTAAAC
91858 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
91871 AATCAA-AAAAC
1 AATCAATTAAAC
91882 AATCAATTAAAC
1 AATCAATTAAAC
91894 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:91855 original size:38 final size:38
Alignment explanation
Indices: 91807--91879 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
91797 AACTTTTACA
*
91807 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
91845 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
91880 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:93772 original size:14 final size:14
Alignment explanation
Indices: 93753--93809 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
93743 GCGAAATGAA
*
93753 AATCGCAACGACAG
1 AATCGCAACGAAAG
93767 AATCGCAATACGAAATG
1 AATCGC-A-ACGAAA-G
93784 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
93800 AATCGCAACG
1 AATCGCAACG
93810 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
15 1 0.03
16 6 0.16
17 7 0.19
18 1 0.03
19 6 0.16
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:93781 original size:33 final size:33
Alignment explanation
Indices: 93734--93826 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
93724 GCGAAACCAA
*
93734 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
93767 AATCGCAATACGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
93800 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
93827 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:93831 original size:19 final size:19
Alignment explanation
Indices: 93697--93831 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
93687 TAGTTTACTT
* *
93697 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
93717 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
93736 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
93755 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
**
93769 TCGCAATACGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
93788 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
93802 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
93821 TCGCAATGCGA
1 TCGCAACGCGA
93832 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:93849 original size:19 final size:18
Alignment explanation
Indices: 93827--93955 Score: 94
Period size: 19 Copynumber: 7.3 Consensus size: 18
93817 AAAATCGCAA
93827 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
93846 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
* *
93860 TGCGATTTTCATTTCGCAT
1 TGCGATTTT-GTTTCGCGT
*
93879 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
93893 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
93912 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
93931 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
93951 TGCGA
1 TGCGA
93956 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
14 21 0.24
16 2 0.02
17 2 0.02
18 1 0.01
19 47 0.55
20 13 0.15
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:93875 original size:33 final size:33
Alignment explanation
Indices: 93827--93918 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
93817 AAAATCGCAA
**
93827 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTC-TGTCGT
*
93860 TGCGATTTTCATTTCGCATTGCGATTCTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
93893 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTCATTTCGCGTTGCGATT
93919 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.10, C:0.20, G:0.25, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
Found at i:94382 original size:92 final size:93
Alignment explanation
Indices: 93999--94470 Score: 930
Period size: 93 Copynumber: 5.1 Consensus size: 93
93989 TTGAATGGAT
93999 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
94064 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
94092 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
94157 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
94185 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
94250 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
94278 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
94342 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
94370 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAA-AATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
94434 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
94462 AAATTTACT
1 AAATTTACT
94471 AAGCAATCTA
Statistics
Matches: 378, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 136 0.36
93 242 0.64
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:96193 original size:14 final size:14
Alignment explanation
Indices: 96174--96263 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
96164 TTGAAATGAA
96174 AATCGCAACGAGAG
1 AATCGCAACGAGAG
96188 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
96205 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
96221 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
96240 AATCGCAACGAGAG
1 AATCGCAACGAGAG
96254 AATCGCAACG
1 AATCGCAACG
96264 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:96211 original size:33 final size:33
Alignment explanation
Indices: 96166--96280 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
96156 TCTTTTGGTT
96166 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
96199 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
96232 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
96265 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
96281 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:96212 original size:19 final size:18
Alignment explanation
Indices: 96173--96285 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
96163 GTTGAAATGA
96173 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
96188 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
96205 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
96221 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
96238 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
96254 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
96271 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
96286 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:96316 original size:14 final size:14
Alignment explanation
Indices: 96297--96351 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
96287 TTTGGTTTCG
96297 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
96311 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
96330 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
96344 CGTTGCGA
1 CGTTGCGA
96352 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:96514 original size:33 final size:33
Alignment explanation
Indices: 96472--96542 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
96462 AATACTAACT
*
96472 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
96505 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
96538 TGAAA
1 TGAAA
96543 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:96776 original size:22 final size:22
Alignment explanation
Indices: 96724--96778 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
96714 TGGTTGTGAG
**
96724 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
96746 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
96768 GGATTTCTTCG
1 GGATTTCTTCG
96779 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:96949 original size:20 final size:20
Alignment explanation
Indices: 96924--97117 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
96914 CTTTAAATAT
96924 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
96944 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
96966 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
96985 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
97005 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
97025 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
97045 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
97065 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
97085 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
97105 CGCGTTGCGATTT
1 CGCGTTGCGATTT
97118 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:97111 original size:60 final size:60
Alignment explanation
Indices: 96924--97117 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
96914 CTTTAAATAT
**
96924 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
96985 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
97045 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
97105 CGCGTTGCGATTT
1 CGCGTTGCGATTT
97118 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:97134 original size:21 final size:20
Alignment explanation
Indices: 97110--97186 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
97100 ATATTCGCGT
97110 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
97131 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
97151 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
97173 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
97187 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:97197 original size:20 final size:20
Alignment explanation
Indices: 97172--97223 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
97162 AAGAATCGCG
*
97172 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
97192 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
97212 TTGCGATTCTGG
1 TTGCGATTCTGG
97224 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:97481 original size:14 final size:15
Alignment explanation
Indices: 97462--97494 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
97452 TAATAATAAT
97462 AATTAAACATATT-A
1 AATTAAACATATTGA
97476 AATTAAACATATTGA
1 AATTAAACATATTGA
97491 AATT
1 AATT
97495 TAAAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (15 bp):
AATTAAACATATTGA
Found at i:98811 original size:3 final size:3
Alignment explanation
Indices: 98803--98851 Score: 71
Period size: 3 Copynumber: 15.7 Consensus size: 3
98793 GATCTGTTTG
*
98803 TAA TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA
98850 TA
1 TA
98852 CAAATAAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 36 0.86
4 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:98845 original size:35 final size:36
Alignment explanation
Indices: 98804--98889 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 36
98794 ATCTGTTTGT
** *
98804 AATAATAATAATATTAAT-AATAAAT-AATAATAATA
1 AATAATAATAATACAAATAAACAAATAAATAATAA-A
98839 AATAATAATAATACAAATAAACAAATAAATAATAAA
1 AATAATAATAATACAAATAAACAAATAAATAATAAA
*
98875 AA-AATAA-AAAACAAA
1 AATAATAATAATACAAA
98890 ATGAAATGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
34 7 0.16
35 21 0.47
36 9 0.20
37 8 0.18
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (36 bp):
AATAATAATAATACAAATAAACAAATAAATAATAAA
Found at i:98857 original size:19 final size:19
Alignment explanation
Indices: 98803--98881 Score: 83
Period size: 19 Copynumber: 4.2 Consensus size: 19
98793 GATCTGTTTG
* *
98803 TAAT-AATAATAATATTAA
1 TAATAAATAATAAAATAAA
98821 TAATAAATAATAATAATAAA
1 TAATAAATAATAA-AATAAA
98841 TAAT-AATAATACAAATAAA
1 TAATAAATAATA-AAATAAA
*
98860 CAAATAAATAATAAAA-AAA
1 -TAATAAATAATAAAATAAA
98879 TAA
1 TAA
98882 AAAACAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.12
19 24 0.46
20 15 0.29
21 7 0.13
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATAAATAATAAAATAAA
Found at i:98891 original size:27 final size:27
Alignment explanation
Indices: 98835--98889 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
98825 AAATAATAAT
* *
98835 AATAAATAATAATAATACAAATAAACA
1 AATAAATAATAAAAAAACAAATAAACA
*
98862 AATAAATAATAAAAAAATAAA-AAACA
1 AATAAATAATAAAAAAACAAATAAACA
98888 AA
1 AA
98890 ATGAAATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (27 bp):
AATAAATAATAAAAAAACAAATAAACA
Found at i:99384 original size:123 final size:123
Alignment explanation
Indices: 99250--99829 Score: 995
Period size: 123 Copynumber: 4.7 Consensus size: 123
99240 GAATTAAGGC
99250 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
99315 GAAC-TCCTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
66 GAACTTCC-TCTGGAAACGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
* * *
99373 AATGTTGAACAAGTTCTTCTCAATATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
99438 GAACTTCCTCTGGAAACGTTGATGTTGATCTATCTCCTTCTGTGATAAAGTCGAGCAA
66 GAACTTCCTCTGGAAACGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
* * *
99496 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTCTTCAGATGAGTTCTTTTAATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
99561 GAACTTCCTCTGGAAACGTTGATGTTGATGTATCTCCTTCTATGATAGAGTC-ACGCAA
66 GAACTTCCTCTGGAAACGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGA-GCAA
* *
99619 AAGGTTGAACAAGTTCTTCTCATTATGAACTTGTTCTTTCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
99684 GAACTTCCTCTGGAAACGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
66 GAACTTCCTCTGGAAACGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
99742 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
99807 GAACTCTAC-CTGGAAACGTTGAT
66 GAACT-TCCTCTGGAAACGTTGAT
99830 CCATCGAGTG
Statistics
Matches: 429, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
122 1 0.00
123 422 0.98
124 6 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTTCCTCTGGAAACGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCGAGCAA
Found at i:99654 original size:20 final size:20
Alignment explanation
Indices: 99631--99689 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
99621 GGTTGAACAA
99631 GTTCTTCTCATTATGAACTT
1 GTTCTTCTCATTATGAACTT
*
99651 GTTCTTTCTC-TTCA-G-A-TGA
1 GTTC-TTCTCATT-ATGAACT-T
99670 GTTCTTCTCATTATGAACTT
1 GTTCTTCTCATTATGAACTT
99690 CCTCTGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 8 0.27
21 7 0.23
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (20 bp):
GTTCTTCTCATTATGAACTT
Found at i:99908 original size:36 final size:36
Alignment explanation
Indices: 99868--100056 Score: 110
Period size: 36 Copynumber: 5.2 Consensus size: 36
99858 AGTGAAATTG
* * *
99868 TCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATATTGTTTCAAGAAAAACAA
* * * ** ***
99904 TCTCAAGTGAGATAAATTATTGTTTCGAGTGAAATTG
1 TCTCAAGCGAGACAAA-TATTGTTTCAAGAAAAACAA
* * * *
99941 TATCAAACGAGACAAATTTTGTTTAAAGAAAAACAA
1 TCTCAAGCGAGACAAATATTGTTTCAAGAAAAACAA
* * * ** **
99977 TCTCAAGTGAGATAAAT-TGATGTTTCGAGTGAAACTG
1 TCTCAAGCGAGACAAATAT--TGTTTCAAGAAAAACAA
** * *
100014 TCTCAAGCGAGACGCAGATTGTTTTAAGAAAAACAA
1 TCTCAAGCGAGACAAATATTGTTTCAAGAAAAACAA
100050 TCTCAAG
1 TCTCAAG
100057 TAAGATAAAT
Statistics
Matches: 105, Mismatches: 44, Indels: 8
0.67 0.28 0.05
Matches are distributed among these distances:
35 1 0.01
36 56 0.53
37 47 0.45
38 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TCTCAAGCGAGACAAATATTGTTTCAAGAAAAACAA
Found at i:99963 original size:73 final size:72
Alignment explanation
Indices: 99848--100068 Score: 325
Period size: 73 Copynumber: 3.0 Consensus size: 72
99838 TGATGGAAAC
* *
99848 TTATGTTTCTAGTGAAATTGTCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAATCTCAAGTG
1 TTATGTTTCGAGTGAAATTGTCTCAAGCGAGACGAATATTGTTTTAAGAAAAACAATCTCAAGTG
99913 AGATAAA
66 AGATAAA
* * * * *
99920 TTATTGTTTCGAGTGAAATTGTATCAAACGAGACAAATTTTGTTTAAAGAAAAACAATCTCAAGT
1 TTA-TGTTTCGAGTGAAATTGTCTCAAGCGAGACGAATATTGTTTTAAGAAAAACAATCTCAAGT
99985 GAGATAAA
65 GAGATAAA
* * *
99993 TTGATGTTTCGAGTGAAACTGTCTCAAGCGAGACGCAGATTGTTTTAAGAAAAACAATCTCAAGT
1 TT-ATGTTTCGAGTGAAATTGTCTCAAGCGAGACGAATATTGTTTTAAGAAAAACAATCTCAAGT
*
100058 AAGATAAA
65 GAGATAAA
100066 TTA
1 TTA
100069 CTATTTGAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
72 4 0.03
73 127 0.96
74 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (72 bp):
TTATGTTTCGAGTGAAATTGTCTCAAGCGAGACGAATATTGTTTTAAGAAAAACAATCTCAAGTG
AGATAAA
Found at i:100018 original size:37 final size:36
Alignment explanation
Indices: 99848--100025 Score: 115
Period size: 36 Copynumber: 4.9 Consensus size: 36
99838 TGATGGAAAC
* * **
99848 TTATGTTTCTAGTGAAATTGTCTCAAGCGAGACGAA
1 TTATGTTTCGAGTGAAACTGTCTCAAGCGAGATAAA
** ** ** *
99884 TCT-TGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
1 T-TATGTTTCGAGTGAAACTGTCTCAAGCGAGATAAA
* * * *
99920 TTATTGTTTCGAGTGAAATTGTATCAAACGAGACAAA
1 TTA-TGTTTCGAGTGAAACTGTCTCAAGCGAGATAAA
* ** ** ** *
99957 TTTTGTTTAAAGAAAAACAATCTCAAGTGAGATAAA
1 TTATGTTTCGAGTGAAACTGTCTCAAGCGAGATAAA
99993 TTGATGTTTCGAGTGAAACTGTCTCAAGCGAGA
1 TT-ATGTTTCGAGTGAAACTGTCTCAAGCGAGA
100026 CGCAGATTGT
Statistics
Matches: 97, Mismatches: 41, Indels: 7
0.67 0.28 0.05
Matches are distributed among these distances:
35 1 0.01
36 49 0.51
37 47 0.48
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TTATGTTTCGAGTGAAACTGTCTCAAGCGAGATAAA
Found at i:100858 original size:22 final size:22
Alignment explanation
Indices: 100805--100859 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
100795 TAAAGTTTTG
*
100805 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
100827 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
100849 ATCTTTGAAGA
1 ATCTTTGAAGA
100860 ATGTAGATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAGAGAGAATCTATC
Found at i:102456 original size:35 final size:35
Alignment explanation
Indices: 102394--102460 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
102384 TCTTGTTGAG
102394 ATGAGCTTCCAAGAATGCCCAAATATTCATATTGCT
1 ATGAGCTTCCAAGAATGCCCAAATATTC-TATTGCT
* *
102430 ATGAGCCTT-CAA-AATGCCCCATTATTCTATT
1 ATGAG-CTTCCAAGAATGCCCAAATATTCTATT
102461 TCTGGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.14
35 13 0.46
36 8 0.29
37 3 0.11
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (35 bp):
ATGAGCTTCCAAGAATGCCCAAATATTCTATTGCT
Found at i:106935 original size:43 final size:44
Alignment explanation
Indices: 106864--106947 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
106854 TGCATCAAAC
* * *
106864 AAAACTTTTACATGTAGGGGACAGCTTTCAGTCCTAACTTCAAT
1 AAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTCAAT
* * *
106908 AAAAC-TTTACATATAGGGTATAACTTTCCCTCCTAACTTC
1 AAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
106948 TCTAAAGCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 29 0.85
44 5 0.15
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (44 bp):
AAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTCAAT
Found at i:109023 original size:18 final size:18
Alignment explanation
Indices: 109000--109034 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
108990 CCCATTTCTT
109000 AATATTAA-AAAATAAATA
1 AATATTAATAAAA-AAATA
109018 AATATTAATAAAAAAAT
1 AATATTAATAAAAAAAT
109035 TCTCTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATTAATAAAAAAATA
Found at i:109412 original size:23 final size:24
Alignment explanation
Indices: 109385--109449 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
109375 AGAATAAAAT
*
109385 TAAATTAAAA-TATAACTA-AGTAA
1 TAAA-TAAAATTAAAACTATAGTAA
109408 TAAATAAAATTAAAACTATAGT-A
1 TAAATAAAATTAAAACTATAGTAA
109431 T---TAAAATATAAAACTATAG
1 TAAATAAAAT-TAAAACTATAG
109450 AACTTGTAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.16
21 11 0.29
22 5 0.13
23 13 0.34
24 3 0.08
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
TAAATAAAATTAAAACTATAGTAA
Found at i:110862 original size:25 final size:25
Alignment explanation
Indices: 110809--110859 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
110799 ACCTGTTTGT
110809 AATAATAATAATATAATAAAAAATA
1 AATAATAATAATATAATAAAAAATA
* *
110834 AATAATAATAATGTAA-AACAAATA
1 AATAATAATAATATAATAAAAAATA
110858 AA
1 AA
110860 ATACAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (25 bp):
AATAATAATAATATAATAAAAAATA
Found at i:112897 original size:20 final size:19
Alignment explanation
Indices: 112869--112908 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
112859 GTAAAATATA
112869 TTTTTTTAATAT-TTTTATG
1 TTTTTTTAAT-TGTTTTATG
112888 TTTTTCTTAATTGTTTTATG
1 TTTTT-TTAATTGTTTTATG
112908 T
1 T
112909 AATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTTTAATTGTTTTATG
Done.